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1. Kruse AL, Bredell M, Grätz KW: Oral squamous cell carcinoma in non-smoking and non-drinking patients. Head Neck Oncol; 2010;2:24
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  • [Title] Oral squamous cell carcinoma in non-smoking and non-drinking patients.
  • INTRODUCTION: Of the many different factors associated with an increased risk for oral squamous cell carcinoma (SCC), tobacco and alcohol seem to be the most studied.
  • The most common tumor sites were mandibular alveolar ridge (22) and maxilla (18).
  • [MeSH-major] Carcinoma, Squamous Cell / epidemiology. Mouth Neoplasms / epidemiology


2. Kanomata N, Nakahara R, Oda T, Aoyagi Y, Ishii G, Yokose T, Hasebe T, Nagai K, Yokozaki H, Ochiai A: Expression and localization of mRNAs for matrix metalloproteinases and their inhibitors in mixed bronchioloalveolar carcinomas with invasive components. Mod Pathol; 2005 Jun;18(6):828-37
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  • [Title] Expression and localization of mRNAs for matrix metalloproteinases and their inhibitors in mixed bronchioloalveolar carcinomas with invasive components.
  • Matrix metalloproteinases (MMPs) are believed to play an essential role in cancer invasion, although detailed differences between noninvasive and invasive lung carcinomas are still unclear.
  • To elucidate the expression and activity patterns of MMPs in noninvasive and invasive carcinoma of the lung, we performed in situ hybridization and real-time reverse transcription-polymerase chain reaction to detect messenger RNAs (mRNAs) of MMPs and their tissue inhibitors (TIMPs).
  • A total of 14 surgically resected primary pulmonary adenocarcinomas were used for this study.
  • All the tumors were adenocarcinoma mixed bronchioloalveolar carcinomas according to the 1999 WHO classification.
  • MMP and TIMP2 mRNAs were detected by in situ hybridization in all samples, in both noninvasive and invasive carcinoma components.
  • Signals for MMP mRNAs were significantly higher in both noninvasive and invasive carcinomas than in tumor-free lung tissue.
  • However, the differences were small between noninvasive and invasive carcinomas, not only in the amount of mRNA but also in the activity of the MMPs.
  • In most carcinomas, stromal fibroblast-type cells tended to express levels of MMP and TIMP2 mRNAs that were higher than or at least similar to those expressed in epithelial cells.
  • Our data on mixed adenocarcinoma suggest that noninvasive carcinoma areas already express a molecular mechanism involving MMPs similar to that expressed by invasive carcinoma areas.
  • Stromal fibroblast-type cells seem to be the most important source of MMPs, from the earliest event of tumor invasion by pulmonary adenocarcinomas.
  • [MeSH-major] Adenocarcinoma, Bronchiolo-Alveolar / pathology. Lung Neoplasms / pathology. Matrix Metalloproteinases / genetics. RNA, Messenger / metabolism. Tissue Inhibitor of Metalloproteinases / genetics

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  • (PMID = 15696122.001).
  • [ISSN] 0893-3952
  • [Journal-full-title] Modern pathology : an official journal of the United States and Canadian Academy of Pathology, Inc
  • [ISO-abbreviation] Mod. Pathol.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Collagen Type IV; 0 / RNA, Messenger; 0 / Tissue Inhibitor of Metalloproteinases; EC 3.4.24.- / Matrix Metalloproteinases
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3. Chow KC: The pulmonary source of hepatocyte growth factor in non-small cell lung cancer. Am J Respir Cell Mol Biol; 2007 Jan;36(1):131-2; discussion 132
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  • [Title] The pulmonary source of hepatocyte growth factor in non-small cell lung cancer.
  • [MeSH-major] Carcinoma, Non-Small-Cell Lung / metabolism. Hepatocyte Growth Factor / biosynthesis. Lung / metabolism. Lung Neoplasms / metabolism
  • [MeSH-minor] Animals. Bronchoalveolar Lavage Fluid / chemistry. Epithelial Cells / metabolism. Humans. Macrophages, Alveolar / metabolism. Mice. Neutrophils / metabolism. Pseudomonas Infections / metabolism. Pseudomonas aeruginosa

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  • (PMID = 17167107.001).
  • [ISSN] 1044-1549
  • [Journal-full-title] American journal of respiratory cell and molecular biology
  • [ISO-abbreviation] Am. J. Respir. Cell Mol. Biol.
  • [Language] eng
  • [Publication-type] Letter
  • [Publication-country] United States
  • [Chemical-registry-number] 67256-21-7 / Hepatocyte Growth Factor
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4. Khan S, Ng ML, Tan YJ: Expression of the severe acute respiratory syndrome coronavirus 3a protein and the assembly of coronavirus-like particles in the baculovirus expression system. Methods Mol Biol; 2007;379:35-50
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  • The Bac-to-Bac Baculovirus expression system was used to generate a recombinant baculovirus capable of expressing the severe acute respiratory syndrome (SARS)-coronavirus (CoV) 3a protein.
  • Using the same expression system, two structural proteins, membrane (M) and envelope (E), were co-expressed to form SARS-CoV virus-like particles (VLPs) within an insect cell.
  • [MeSH-minor] Animals. Baculoviridae. Cell Line. Gene Expression. Humans. Spodoptera / cytology

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  • (PMID = 17502669.001).
  • [ISSN] 1064-3745
  • [Journal-full-title] Methods in molecular biology (Clifton, N.J.)
  • [ISO-abbreviation] Methods Mol. Biol.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't; Review
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / 3a protein, severe acute respiratory syndrome coronavirus; 0 / Recombinant Proteins; 0 / Viral Proteins
  • [Number-of-references] 38
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5. Bubeck SS, Cantwell AM, Dube PH: Delayed inflammatory response to primary pneumonic plague occurs in both outbred and inbred mice. Infect Immun; 2007 Feb;75(2):697-705
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  • Yersinia pestis is the causative agent of plague, a disease that can manifest as either bubonic or pneumonic plague.
  • An interesting feature of plague is that it is a rapidly progressive disease, suggesting that Y. pestis either evades and/or suppresses the innate immune response to infection.
  • A comparative analysis of the course of disease in these two strains of mice indicated that they are susceptible to intranasal Y. pestis CO92 infection and have similar 50% lethal doses and kinetics of infection with respect to colonization of the lung, liver, and spleen.
  • Significantly, in both strains of mice, robust neutrophil recruitment to the lungs was not observed until 48 h after infection, suggesting that there was a delay in inflammatory cell recruitment to the site of infection.
  • In addition, proinflammatory cytokines (interleukin-6 [IL-6], tumor necrosis factor alpha, gamma interferon, IL-12p70, monocyte chemoattractant protein 1) and chemokines (KC, MIP-2) in the bronchoalveolar lavage fluids were not readily detected until 48 h after infection, which coincided with the increase in polymorphonuclear leukocyte (PMN) recruitment to the lungs.
  • In comparison, CD1 mice with gram-negative pneumonia caused by Klebsiella pneumoniae exhibited strong inflammatory responses early in infection, with PMNs comprising the majority of the cells in the bronchoalveolar lavage fluid 24 h postinfection, indicating that PMN recruitment to the lungs could occur earlier in this infection than in Y. pestis infection.
  • [MeSH-major] Cytokines / metabolism. Lung / immunology. Neutrophil Infiltration. Neutrophils / immunology. Plague / immunology. Yersinia pestis / immunology
  • [MeSH-minor] Animals. Bronchoalveolar Lavage Fluid / cytology. Bronchoalveolar Lavage Fluid / immunology. Chemokines / metabolism. Disease Models, Animal. Female. Histocytochemistry. Klebsiella Infections / immunology. Klebsiella pneumoniae / immunology. Lethal Dose 50. Liver / microbiology. Mice. Mice, Inbred C57BL. Spleen / microbiology. Time Factors

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  • (PMID = 17101642.001).
  • [ISSN] 0019-9567
  • [Journal-full-title] Infection and immunity
  • [ISO-abbreviation] Infect. Immun.
  • [Language] eng
  • [Publication-type] Comparative Study; Journal Article
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Chemokines; 0 / Cytokines
  • [Other-IDs] NLM/ PMC1828510
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6. Slaney JM, Curtis MA: Mechanisms of evasion of complement by Porphyromonas gingivalis. Front Biosci; 2008 Jan 01;13:188-96
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  • Activation leads to deposition on the bacterial surface of C3b and its' inactivation products and phagocytosis of the opsonised bacteria by host cells.
  • Alternatively the entire complement pathway including terminal components C5b-9 may be activated on the cell surface which gives rise to generation and insertion of the membrane attack complex into the bacterial membrane and cell lysis.
  • Bacterial resistance to complement may be by enzyme digestion of complement components or by the generation or acquisition from the host of cell surface molecules which allow the organism to adopt host complement control proteins.
  • The proteases of Porphyromonas gingivalis breakdown C3 and C5 and prevent the deposition of C3b on the bacterial cell surface.
  • Instead, complement resistance in P. gingivalis is associated with the presence on the cell surface of an anionic branched mannan and appears independent of capsule serotype.
  • [MeSH-major] Cell Membrane / metabolism. Complement System Proteins / physiology. Polysaccharides / metabolism. Porphyromonas gingivalis / metabolism
  • [MeSH-minor] Bacterial Outer Membrane Proteins / metabolism. Complement Activation. Humans. Lipopolysaccharides / chemistry. Models, Biological. O Antigens / chemistry. Phagocytosis. Pseudomonas aeruginosa / metabolism

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  • (PMID = 17981537.001).
  • [ISSN] 1093-9946
  • [Journal-full-title] Frontiers in bioscience : a journal and virtual library
  • [ISO-abbreviation] Front. Biosci.
  • [Language] eng
  • [Grant] United Kingdom / Medical Research Council / / G0501478
  • [Publication-type] Journal Article; Review
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Bacterial Outer Membrane Proteins; 0 / Lipopolysaccharides; 0 / O Antigens; 0 / Polysaccharides; 9007-36-7 / Complement System Proteins
  • [Number-of-references] 66
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7. Kayton ML, Delgado R, Busam K, Cody HS 3rd, Athanasian EA, Coit D, La Quaglia MP: Experience with 31 sentinel lymph node biopsies for sarcomas and carcinomas in pediatric patients. Cancer; 2008 May 1;112(9):2052-9
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  • [Title] Experience with 31 sentinel lymph node biopsies for sarcomas and carcinomas in pediatric patients.
  • BACKGROUND: Few data exist regarding techniques, indications, and outcomes for sentinel lymph node biopsy in pediatric patients with sarcomas and carcinomas.
  • METHODS: A retrospective 10-year review was conducted, with Institutional Review Board waiver, of the pathology, lymphoscintigraphy, and clinical records for all pediatric patients selected to undergo sentinel lymph node biopsy at a major cancer center.
  • Positive sentinel lymph nodes occurred in 1 of 9 patients with rhabdomyosarcoma and in 2 of 5 patients with breast cancer, and in both of these diseases the sentinel lymph node results helped guide treatment decisions.
  • CONCLUSIONS: Sentinel lymph node biopsy for pediatric soft-tissue tumors can be performed safely, and the results can alter treatment decisions both for children with rhabdomyosarcoma and adolescents with breast cancer.
  • [MeSH-major] Carcinoma / pathology. Sarcoma / pathology. Sentinel Lymph Node Biopsy
  • [MeSH-minor] Adolescent. Adult. Breast Neoplasms / pathology. Child. Child, Preschool. Female. Humans. Lymphography. Male. Middle Aged. Retrospective Studies. Rhabdomyosarcoma / pathology. Sarcoma, Alveolar Soft Part / pathology. Sarcoma, Clear Cell / pathology

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  • (PMID = 18338809.001).
  • [ISSN] 0008-543X
  • [Journal-full-title] Cancer
  • [ISO-abbreviation] Cancer
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] United States
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8. Gundersen H, Grüner R, Specht K, Hugdahl K: The effects of alcohol intoxication on neuronal activation at different levels of cognitive load. Open Neuroimag J; 2008;2:65-72
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  • The aim of this study was to investigate how alcohol intoxication at two blood alcohol concentrations (BAC) affected neuronal activation during increasing levels of cognitive load.
  • Participants in the control group (N=13) were scanned after drinking a soft-drink at both scanning sessions, while participants in the alcohol group (N=12) were scanned once after drinking an alcoholic beverage resulting in a BAC of 0.02%, and once after drinking an alcoholic beverage resulting in a BAC of 0.08%.
  • A decrease in neuronal activation was seen in the dorsal anterior cingulate cortex (dACC) and in the cerebellum in the alcohol group at the BAC of 0.08% when the participants performed the most demanding task.
  • The results have revealed that the effect of alcohol intoxication on brain activity is dependent on BAC and of cognitive load.

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  • (PMID = 19018317.001).
  • [ISSN] 1874-4400
  • [Journal-full-title] The open neuroimaging journal
  • [ISO-abbreviation] Open Neuroimag J
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] Netherlands
  • [Other-IDs] NLM/ PMC2577939
  • [Keywords] NOTNLM ; Alcohol intoxication / brain function / cognitive load / different blood alcohol concentrations
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9. Rogatcheva MB, Chen K, Larkin DM, Meyers SN, Marron BM, He W, Schook LB, Beever JE: Piggy-BACing the human genome I: constructing a porcine BAC physical map through comparative genomics. Anim Biotechnol; 2008;19(1):28-42
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  • [Title] Piggy-BACing the human genome I: constructing a porcine BAC physical map through comparative genomics.
  • Availability of the human genome sequence and high similarity between humans and pigs at the molecular level provides an opportunity to use a comparative mapping approach to piggy-BAC the human genome.
  • In order to advance the pig genome sequencing initiative, sequence similarity between large-scale porcine BAC-end sequences (BESs) and human genome sequence was used to construct a comparatively-anchored porcine physical map that is a first step towards sequencing the pig genome.
  • A total of 50,300 porcine BAC clones were end-sequenced, yielding 76,906 BESs after trimming with an average read length of 538 bp.
  • To anchor the porcine BACs on the human genome, these BESs were subjected to BLAST analysis using the human draft sequence, revealing 31.5% significant hits (E < e(-5)).
  • The strategy of piggy-BACing the human genome described in this study demonstrates that through a directed, targeted comparative genomics approach construction of a high-resolution anchored physical map of the pig genome can be achieved.
  • This map supports the selection of BACs to construct a minimal tiling path for genome sequencing and targeted gap filling.
  • [MeSH-minor] Animals. Chromosome Mapping. Chromosomes, Artificial, Bacterial / genetics. DNA / genetics. DNA / isolation & purification. Genome. Genomic Library. Humans. Nucleic Acid Hybridization

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  • (PMID = 18228174.001).
  • [ISSN] 1532-2378
  • [Journal-full-title] Animal biotechnology
  • [ISO-abbreviation] Anim. Biotechnol.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, U.S. Gov't, Non-P.H.S.
  • [Publication-country] United States
  • [Chemical-registry-number] 9007-49-2 / DNA
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10. Douglas VC, Tong DC, Gillum LA, Zhao S, Brass LM, Dostal J, Johnston SC: Do the Brain Attack Coalition's criteria for stroke centers improve care for ischemic stroke? Neurology; 2005 Feb 8;64(3):422-7
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  • BACKGROUND: In 2000, the Brain Attack Coalition (BAC) recommended 11 major criteria for the establishment of primary stroke centers.
  • The BAC relied heavily on expert opinion because evidence supporting the criteria was sparse.
  • OBJECTIVE: To assess primary stroke center elements, based on the criteria proposed by the BAC, with a questionnaire at 34 academic medical centers.
  • CONCLUSIONS: Of the 11 stroke center elements recommended by the BAC, 7 were associated with increased tPA use.

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  • (PMID = 15699369.001).
  • [ISSN] 1526-632X
  • [Journal-full-title] Neurology
  • [ISO-abbreviation] Neurology
  • [Language] eng
  • [Grant] United States / NINDS NIH HHS / NS / NS02254
  • [Publication-type] Evaluation Studies; Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, P.H.S.
  • [Publication-country] United States
  • [Chemical-registry-number] EC 3.4.21.68 / Tissue Plasminogen Activator
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11. Nord H, Hartmann C, Andersson R, Menzel U, Pfeifer S, Piotrowski A, Bogdan A, Kloc W, Sandgren J, Olofsson T, Hesselager G, Blomquist E, Komorowski J, von Deimling A, Bruder CE, Dumanski JP, Díaz de Ståhl T: Characterization of novel and complex genomic aberrations in glioblastoma using a 32K BAC array. Neuro Oncol; 2009 Dec;11(6):803-18
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  • [Title] Characterization of novel and complex genomic aberrations in glioblastoma using a 32K BAC array.
  • Glioblastomas (GBs) are malignant CNS tumors often associated with devastating symptoms.
  • Patients with GB have a very poor prognosis, and despite treatment, most of them die within 12 months from diagnosis.
  • Several pathways, such as the RAS, tumor protein 53 (TP53), and phosphoinositide kinase 3 (PIK3) pathways, as well as the cell cycle control pathway, have been identified to be disrupted in this tumor.
  • In this study, we have applied a 32K clone-based genomic array, covering 99% of the current assembly of the human genome, to the detailed genetic profiling of a set of 78 GBs.
  • Complex patterns of aberrations, including high and narrow copy number amplicons, as well as a number of homozygously deleted loci, were identified.
  • Many of these genes are already linked to several forms of cancer; others represent new candidate genes that may serve as prognostic markers or even as therapeutic targets in the future.
  • The large individual variation observed between the samples demonstrates the underlying complexity of the disease and strengthens the demand for an individualized therapy based on the genetic profile of the patient.
  • [MeSH-major] Brain Neoplasms / genetics. Chromosome Aberrations. Chromosomes, Artificial, Bacterial. Gene Expression Profiling. Genes, Neoplasm. Glioblastoma / genetics


12. Ciesielski S, Cydzik-Kwiatkowska A, Pokoj T, Klimiuk E: Molecular detection and diversity of medium-chain-length polyhydroxyalkanoates-producing bacteria enriched from activated sludge. J Appl Microbiol; 2006 Jul;101(1):190-9
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  • AIMS: Knowledge of the species composition of complex bacterial communities is still very limited.
  • The results of a 16S rDNA sequence analysis revealed that three strains belonged to Pseudomonas species and the fourth one was characterized as Comamonas testosteroni.
  • The results of a comparative phylogenetic analysis revealed that mcl-PHA-synthesizing bacteria can be divided into Pseudomonas fluorescens and Pseudomonas aeruginosa groups.
  • [MeSH-major] Bacteria / genetics. DNA, Bacterial / analysis. Ecosystem. Genetic Variation. Water Microbiology

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  • (PMID = 16834606.001).
  • [ISSN] 1364-5072
  • [Journal-full-title] Journal of applied microbiology
  • [ISO-abbreviation] J. Appl. Microbiol.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 0 / DNA, Bacterial; EC 2.3.- / Acyltransferases; EC 2.3.1.- / poly(3-hydroxyalkanoic acid) synthase; Y4S76JWI15 / Methanol
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13. Mömke S, Drögemüller C, Distl O: A high-resolution radiation hybrid map of bovine chromosome 5q1.3-q2.5 compared with human chromosome 12q. Anim Genet; 2005 Jun;36(3):248-53
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  • In this study we present a comprehensive 3000-rad radiation hybrid map on bovine chromosome 5 (BTA5) of a region between 12.8 and 74.0 cM according to the linkage map, which contains a quantitative trait loci for ovulation rate.
  • We mapped 28 gene-associated sequence tagged site markers derived from sequences of bovine BAC clones and 10 microsatellite markers to the BTA5 region.

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  • (PMID = 15932408.001).
  • [ISSN] 0268-9146
  • [Journal-full-title] Animal genetics
  • [ISO-abbreviation] Anim. Genet.
  • [Language] eng
  • [Publication-type] Comparative Study; Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 0 / DNA Primers
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14. Lee KS, Higgins MJ, Patel BM, Larson JS, Rady MY: Paraneoplastic coma and acquired central alveolar hypoventilation as a manifestation of brainstem encephalitis in a patient with ANNA-1 antibody and small-cell lung cancer. Neurocrit Care; 2006;4(2):137-9
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  • [Title] Paraneoplastic coma and acquired central alveolar hypoventilation as a manifestation of brainstem encephalitis in a patient with ANNA-1 antibody and small-cell lung cancer.
  • RESULTS: We present an unusual case of fluctuating coma and rapid fulminant progression to acute respiratory failure from central alveolar hypoventilation caused by ANNA-1 paraneoplastic encephalomyelitis associated with small-cell lung carcinoma.
  • CONCLUSIONS: Paraneoplastic encephalomyelitis should be considered as a possible cause of coma and central alveolar hypoventilation.
  • [MeSH-major] Brain Stem / pathology. Carcinoma, Small Cell. Coma / complications. ELAV Proteins / immunology. Encephalomyelitis / complications. Encephalomyelitis / pathology. Paraneoplastic Syndromes. Sleep Apnea, Central / complications. Sleep Apnea, Central / diagnosis
  • [MeSH-minor] Aged. Antibodies, Neoplasm / immunology. Autoantibodies / immunology. Diagnosis, Differential. Fatal Outcome. Female. Humans. Lung Neoplasms / complications. Lung Neoplasms / immunology. Lung Neoplasms / pathology. Magnetic Resonance Imaging. Nerve Tissue Proteins / immunology. Neurons / immunology

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  • (PMID = 16627902.001).
  • [ISSN] 1541-6933
  • [Journal-full-title] Neurocritical care
  • [ISO-abbreviation] Neurocrit Care
  • [Language] eng
  • [Publication-type] Case Reports; Journal Article
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Antibodies, Neoplasm; 0 / Autoantibodies; 0 / ELAV Proteins; 0 / Nerve Tissue Proteins
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15. Xia Z, Watanabe S, Chen Q, Sato S, Harada K: A novel manual pooling system for preparing three-dimensional pools of a deep coverage soybean bacterial artificial chromosome library. Mol Ecol Resour; 2009 Mar;9(2):516-24
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  • [Title] A novel manual pooling system for preparing three-dimensional pools of a deep coverage soybean bacterial artificial chromosome library.
  • It is time-consuming and labourious to prepare three-dimensional pools for a deep coverage bacterial artificial chromosome (BAC) library of soybean (1.12 × 10(9)  bp) in the absence of robotic facility.
  • In the present study, we describe a novel manual pooling system for preparing three-dimensional pools of a soybean BAC library.
  • This simple technique enables a single researcher to construct three-dimensional pools for a deep-coverage (12 haploid genome equivalents) BAC library of soybean in less than 2 months without any robotic manipulation.
  • This efficient pooling system could be applied to any other BAC libraries without the need for robotic manipulation.

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  • [Copyright] © 2009 The Authors. Journal compilation © 2009 Blackwell Publishing Ltd.
  • (PMID = 21564681.001).
  • [ISSN] 1755-098X
  • [Journal-full-title] Molecular ecology resources
  • [ISO-abbreviation] Mol Ecol Resour
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] England
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16. Hien NT, Ushijima H: Frequency of prenatal care visits by ethnic minority mothers and association with infant birthweight in Bac Kan Province, Vietnam. Trop Doct; 2005 Apr;35(2):103-4
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  • [Title] Frequency of prenatal care visits by ethnic minority mothers and association with infant birthweight in Bac Kan Province, Vietnam.
  • The objective of this cross-sectional study was to evaluate the association between prenatal care visits and infant birthweight among ethnic minority mothers in the mountainous Bac Kan province.
  • The frequency of prenatal care visit are probably associated with a decreased risk of LBW among ethnic minority mothers in Bac Kan province.

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  • (PMID = 15970037.001).
  • [ISSN] 0049-4755
  • [Journal-full-title] Tropical doctor
  • [ISO-abbreviation] Trop Doct
  • [Language] eng
  • [Publication-type] Comparative Study; Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
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17. De Preter K, Menten B, De Brouwer S, Kumps C, Michels E, Van Roy N, Vandesompele J, Speleman F: Low-cost dedicated mini-arrays for high-throughput analysis of DNA copy-number alterations in neuroblastoma. Cancer Lett; 2008 Sep 28;269(1):111-6
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  • For this purpose, we have constructed a dedicated mini-array that is enriched for BAC/PAC clones in the prognostic important regions for neuroblastoma and that only covers a small area on the slide, allowing down-scaling of the labelling and hybridisation reagents and hence reducing the price.

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  • (PMID = 18555593.001).
  • [ISSN] 1872-7980
  • [Journal-full-title] Cancer letters
  • [ISO-abbreviation] Cancer Lett.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] Ireland
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18. McMillan D, Miethke P, Alsop AE, Rens W, O'Brien P, Trifonov V, Veyrunes F, Schatzkamer K, Kremitzki CL, Graves T, Warren W, Grützner F, Ferguson-Smith MA, Graves JA: Characterizing the chromosomes of the platypus (Ornithorhynchus anatinus). Chromosome Res; 2007;15(8):961-74
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  • Like the unique platypus itself, the platypus genome is extraordinary because of its complex sex chromosome system, and is controversial because of difficulties in identification of small autosomes and sex chromosomes.
  • We have established an agreed nomenclature and identified anchor BAC clones for each chromosome that will ensure unambiguous gene localizations.
  • [MeSH-minor] Animals. Cells, Cultured. Chromosome Banding. Chromosome Mapping. Chromosome Painting. Chromosomes, Artificial, Bacterial. Female. Fibroblasts. Genome. In Situ Hybridization, Fluorescence. Karyotyping. Male. Metaphase

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  • (PMID = 18185982.001).
  • [ISSN] 0967-3849
  • [Journal-full-title] Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology
  • [ISO-abbreviation] Chromosome Res.
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] Netherlands
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19. Kim Y, Kim HS, Cui ZY, Lee HS, Ahn JS, Park CK, Park K, Ahn MJ: Clinicopathological implications of EpCAM expression in adenocarcinoma of the lung. Anticancer Res; 2009 May;29(5):1817-22
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  • [Title] Clinicopathological implications of EpCAM expression in adenocarcinoma of the lung.
  • BACKGROUND: The frequency of epithelial cell adhesion molecule (EpCAM) expression was investigated in non-small cell lung cancer (NSCLC) cells and human tissues, and its clinicopathological significance in adenocarcinoma of the lung was evaluated.
  • MATERIALS AND METHODS: EpCAM expression was analysed by reverse transcription-polymerase chain reaction (RT-PCR) and flow cytometry in human NSCLC cells.
  • EpCAM protein expression was evaluated in 234 adenocarcinoma tissues using immunohistochemistry.
  • RESULTS: A high expression level of EpCAM was observed in human NSCLC cells by flow cytometry and RT-PCR.
  • EpCAM overexpression was detected in 120/234 (51.3%) surgically resected adenocarcinoma tissues.
  • EpCAM overexpression occurred significantly more frequently in adenocarcinoma than in bronchioloalveolar carcinoma (p=0.02).
  • CONCLUSION: These findings suggest EpCAM plays a role in the carcinogenesis of adenocarcinoma of the lung and might provide a promising molecule for targeted therapy in NSCLC.
  • [MeSH-major] Adenocarcinoma / metabolism. Antigens, Neoplasm / metabolism. Cell Adhesion Molecules / metabolism. Lung Neoplasms / metabolism
  • [MeSH-minor] Base Sequence. Cell Line, Tumor. DNA Primers. Flow Cytometry. Humans. Reverse Transcriptase Polymerase Chain Reaction

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  • (PMID = 19443410.001).
  • [ISSN] 0250-7005
  • [Journal-full-title] Anticancer research
  • [ISO-abbreviation] Anticancer Res.
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] Greece
  • [Chemical-registry-number] 0 / Antigens, Neoplasm; 0 / Cell Adhesion Molecules; 0 / DNA Primers; 0 / EPCAM protein, human
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20. Lantuejoul S, Raynaud C, Salameire D, Gazzeri S, Moro-Sibilot D, Soria JC, Brambilla C, Brambilla E: Telomere maintenance and DNA damage responses during lung carcinogenesis. Clin Cancer Res; 2010 Jun 1;16(11):2979-88
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  • [Title] Telomere maintenance and DNA damage responses during lung carcinogenesis.
  • As their inactivation in cancer increases genetic instability, our objective was to identify the chronology of telomere machinery critical events for malignant progression.
  • EXPERIMENTAL DESIGN: We have evaluated telomere length by fluorescence in situ hybridization and analyzed DDR proteins p-CHK2, p-ATM, and p-H2AX, and telomeric maintenance proteins TRF1 and TRF2 expression by immunohistochemistry in normal bronchial/bronchiolar epithelium, and in 109 bronchial preneoplastic lesions, in comparison with 32 squamous invasive carcinoma (SCC), and in 27 atypical alveolar hyperplasia (AAH) in comparison with 6 adenocarcinoma in situ (AIS; formerly bronchiolo-alveolar carcinoma) and 24 invasive adenocarcinoma (ADC).
  • RESULTS: Telomere length critically shortened at bronchial metaplasia stage to increase gradually from dysplasia to invasive SCC; in bronchiolo-alveolar lesions, telomere length decreased from normal to AIS and increased from stage I to II to stage III to IV ADC.
  • CONCLUSION: Telomere attrition occurs at the earliest stage of lung carcinogenesis as an initiating event, preceding TRF1 and TRF2 overexpression for telomere stabilization.
  • [MeSH-major] Adenocarcinoma / genetics. Adenocarcinoma, Bronchiolo-Alveolar / genetics. DNA Damage. Lung Neoplasms / genetics. Precancerous Conditions / genetics. Telomere / ultrastructure
  • [MeSH-minor] Ataxia Telangiectasia Mutated Proteins. Carcinoma, Squamous Cell / genetics. Cell Cycle Proteins / metabolism. Checkpoint Kinase 2. DNA-Binding Proteins / metabolism. Disease Progression. Histones / metabolism. Hyperplasia / pathology. Immunohistochemistry. Lung / metabolism. Lung / pathology. Protein-Serine-Threonine Kinases / metabolism. Telomeric Repeat Binding Protein 1 / metabolism. Telomeric Repeat Binding Protein 2 / metabolism. Tumor Suppressor Proteins / metabolism

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  • [Copyright] Copyright 2010 AACR.
  • (PMID = 20404006.001).
  • [ISSN] 1078-0432
  • [Journal-full-title] Clinical cancer research : an official journal of the American Association for Cancer Research
  • [ISO-abbreviation] Clin. Cancer Res.
  • [Language] eng
  • [Publication-type] Comparative Study; Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Cell Cycle Proteins; 0 / DNA-Binding Proteins; 0 / H2AFX protein, human; 0 / Histones; 0 / TERF2 protein, human; 0 / Telomeric Repeat Binding Protein 1; 0 / Telomeric Repeat Binding Protein 2; 0 / Tumor Suppressor Proteins; EC 2.7.1.11 / Checkpoint Kinase 2; EC 2.7.11.1 / ATM protein, human; EC 2.7.11.1 / Ataxia Telangiectasia Mutated Proteins; EC 2.7.11.1 / CHEK2 protein, human; EC 2.7.11.1 / Protein-Serine-Threonine Kinases
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21. Buffart TE, Carvalho B, Hopmans E, Brehm V, Kranenbarg EK, Schaaij-Visser TB, Eijk PP, van Grieken NC, Ylstra B, van de Velde CJ, Meijer GA: Gastric cancers in young and elderly patients show different genomic profiles. J Pathol; 2007 Jan;211(1):45-51
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  • Although most gastric cancers occur in elderly patients, a substantial number of cases of this common disease occur in young patients.
  • Gastric cancer is a heterogeneous disease at the genomic level and different patterns of DNA copy number alterations are associated with different clinical behaviour.
  • The aim of the present study was to explore differences in DNA copy number alterations in relation to age of onset of gastric cancer.
  • DNA isolated from 46 paraffin-embedded gastric cancer tissue samples from 17 patients less than 50 years of age [median 43 (21-49) years] and 29 patients greater than or equal to 70 years of age [median 75 (70-83) years] was analysed by genome-wide microarray comparative genomic hybridization (array CGH) using an array of 5000 BAC clones.
  • Gastric cancers of young and old patients belong to groups with different genomic profiles, which likely reflect different pathogenic mechanisms of the disease.
  • [MeSH-major] Carcinoma / genetics. Gene Expression Profiling. Genes, Neoplasm. Oligonucleotide Array Sequence Analysis. Stomach Neoplasms / genetics

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  • [Copyright] Copyright (c) 2006 Pathological Society of Great Britain and Ireland.
  • (PMID = 17117405.001).
  • [ISSN] 0022-3417
  • [Journal-full-title] The Journal of pathology
  • [ISO-abbreviation] J. Pathol.
  • [Language] eng
  • [Publication-type] Comparative Study; Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
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22. Stipcevic T, Piljac A, Piljac G: Enhanced healing of full-thickness burn wounds using di-rhamnolipid. Burns; 2006 Feb;32(1):24-34
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  • The aim of this study was to investigate the properties of di-rhamnolipid [alpha-L-rhamnopyranosyl-(1-2)-alpha-L-rhamnopyranosyl-3-hydroxydecanoyl-3-hydroxydecanoic acid, also referred to as di-rhamnolipid BAC-3] relating to the process of cutaneous wound healing.

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  • (PMID = 16380213.001).
  • [ISSN] 0305-4179
  • [Journal-full-title] Burns : journal of the International Society for Burn Injuries
  • [ISO-abbreviation] Burns
  • [Language] ENG
  • [Grant] United States / NIAMS NIH HHS / AR / A1 R43 AR44443-01A1; United States / NIAMS NIH HHS / AR / R43 AR044443-01A1
  • [Publication-type] Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
  • [Publication-country] Netherlands
  • [Chemical-registry-number] 0 / Glycolipids; 0 / Ointments; 0 / rhamnolipid
  • [Other-IDs] NLM/ NIHMS8983; NLM/ PMC1586221
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23. Goidts V, Szamalek JM, de Jong PJ, Cooper DN, Chuzhanova N, Hameister H, Kehrer-Sawatzki H: Independent intrachromosomal recombination events underlie the pericentric inversions of chimpanzee and gorilla chromosomes homologous to human chromosome 16. Genome Res; 2005 Sep;15(9):1232-42
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  • The p- and q-arm breakpoints of the inversions in PTR XVI and GGO XVI were found to occur at slightly different locations, consistent with their independent origin.
  • Further, FISH studies of the homologous chromosomal regions in macaque and orangutan revealed that the region represented by HSA BAC RP11-696P19, which spans the inversion breakpoint on HSA 16q11-12, was derived from the ancestral primate chromosome homologous to HSA 1.
  • [MeSH-minor] Animals. Base Sequence. Biological Evolution. Cell Line. Chromosome Breakage. Chromosomes, Artificial, Bacterial / genetics. DNA / genetics. Humans. In Situ Hybridization, Fluorescence. Models, Genetic. Molecular Sequence Data. Species Specificity

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  • (PMID = 16140991.001).
  • [ISSN] 1088-9051
  • [Journal-full-title] Genome research
  • [ISO-abbreviation] Genome Res.
  • [Language] eng
  • [Databank-accession-numbers] GENBANK/ AY822675/ AY822676/ AY822677
  • [Publication-type] Comparative Study; Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Chemical-registry-number] 9007-49-2 / DNA
  • [Other-IDs] NLM/ PMC1199537
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24. Braun RJ, Kinkl N, Zischka H, Ueffing M: 16-BAC/SDS-PAGE analysis of membrane proteins of yeast mitochondria purified by free flow electrophoresis. Methods Mol Biol; 2009;528:83-107
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  • [Title] 16-BAC/SDS-PAGE analysis of membrane proteins of yeast mitochondria purified by free flow electrophoresis.
  • Especially the inner membrane comprises a high content of proteins, for example, the protein complexes of the respiratory chain.
  • High-resolution separation and analysis of such membrane proteins, for example, by two-dimensional gel electrophoresis (2-DE), is hampered by their hydrophobicity and tendency for aggregation.
  • Here, we describe the separation of mitochondrial membrane proteins of Saccharomyces cerevisiae by 16-benzyldimethyl-n-hexadecylammonium chloride/sodium dodecyl sulfate polyacrylamide gel electrophoresis (16-BAC/SDS-PAGE).
  • This method enables the separation of membrane proteins owing to the solubilizing power of the ionic detergents 16-BAC and SDS, respectively.
  • Subsequently, membrane proteins from ZE-FFE-purified mitochondria were enriched by carbonate extraction and subjected to 16-BAC/SDS-PAGE.

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  • (PMID = 19153686.001).
  • [ISSN] 1064-3745
  • [Journal-full-title] Methods in molecular biology (Clifton, N.J.)
  • [ISO-abbreviation] Methods Mol. Biol.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Carbonates; 0 / Fatty Alcohols; 0 / Fluorescent Dyes; 0 / Membrane Proteins; 0 / Quaternary Ammonium Compounds; 0 / Saccharomyces cerevisiae Proteins; 368GB5141J / Sodium Dodecyl Sulfate; 45P3261C7T / sodium carbonate; 7UI0TKC3U5 / Ruthenium; 85474O1N9D / cetalkonium chloride
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25. Xiong Z, Kim JS, Pires JC: Integration of genetic, physical, and cytogenetic maps for Brassica rapa chromosome A7. Cytogenet Genome Res; 2010 Jul;129(1-3):190-8
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  • Bacterial artificial chromosome (BAC) contigs have been genetically mapped to the 10 linkage groups of Brassica rapa by BAC end sequences (BES).
  • To integrate the genetic, physical, and cytogenetic maps, fluorescence in situ hybridization (FISH) was used to anchor the assembly of BAC contigs onto Brassica chromosomes using representative BACs.
  • This BAC-FISH approach can be used to identify chromosome arms on separate mitotic metaphase chromosomes or to map multiple BACs to single long pachytene chromosomes.
  • As part of an international consortium that is sequencing the B. rapa genome, we integrated the linkage and physical maps with the B. rapa cytogenetic map for chromosome A7 by hybridizing BACs to mitotic chromosomes and along the length of pachytene chromosome spreads.
  • A total of 31 BACs that were putatively located on A7 were used as probes for FISH analyses; however, only 19 BACs mapped unambiguously to A7 while the remaining BACs either mapped to other chromosomes or hybridized to multiple locations.
  • We then created a multicolor FISH cocktail of 16 BAC probes to simultaneously hybridize the entire length of the A7 chromosome.
  • We successfully applied the 16 A7 BAC probe mix to B. rapa, B. oleracea, and domesticated and resynthesized genotypes of B. napus to demonstrate that this approach can facilitate studies of genome evolution by integrating the genetic, physical, and cytogenetic maps among closely related species of Brassica.
  • [MeSH-minor] Chromosome Mapping. Chromosomes, Artificial, Bacterial / genetics. Contig Mapping. Genetic Markers. In Situ Hybridization, Fluorescence. Physical Chromosome Mapping

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  • [Copyright] Copyright 2010 S. Karger AG, Basel.
  • (PMID = 20628251.001).
  • [ISSN] 1424-859X
  • [Journal-full-title] Cytogenetic and genome research
  • [ISO-abbreviation] Cytogenet. Genome Res.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, U.S. Gov't, Non-P.H.S.
  • [Publication-country] Switzerland
  • [Chemical-registry-number] 0 / Genetic Markers
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26. Kriegova E, Arakelyan A, Fillerova R, Zatloukal J, Mrazek F, Navratilova Z, Kolek V, du Bois RM, Petrek M: PSMB2 and RPL32 are suitable denominators to normalize gene expression profiles in bronchoalveolar cells. BMC Mol Biol; 2008;9:69
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  • [Title] PSMB2 and RPL32 are suitable denominators to normalize gene expression profiles in bronchoalveolar cells.
  • To date, no reference genes have been validated for expression studies of bronchoalveolar (BAL) cells.
  • The aims of this study were to identify gene(s) with stable mRNA expression in BAL cells irrespective of gender, smoking, BAL cellular composition, lung pathology, treatment; and to assess the influence of reference genes on target gene expression data.
  • RESULTS: The mRNA expression of ten housekeeping genes (ACTB, ARF1, CANX, G6PD, GAPDH, GPS1, GNB2L1, PSMB2, PSMD2, RPL32) was investigated by qRT-PCR in BAL cells from 71 subjects across a spectrum of lung diseases.
  • CONCLUSION: PSMB2 and RPL32 are, therefore, suitable reference genes to normalize qRT-PCR in BAL cells in sarcoidosis, and other interstitial lung disease.
  • [MeSH-minor] Adolescent. Adult. Animals. Case-Control Studies. Female. Humans. Lung Diseases / genetics. Male. Middle Aged. RNA, Messenger / analysis. Reference Standards. Reverse Transcriptase Polymerase Chain Reaction / standards. Smoking / genetics

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  • (PMID = 18671841.001).
  • [ISSN] 1471-2199
  • [Journal-full-title] BMC molecular biology
  • [ISO-abbreviation] BMC Mol. Biol.
  • [Language] eng
  • [Publication-type] Evaluation Studies; Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 0 / RNA, Messenger
  • [Other-IDs] NLM/ PMC2529339
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27. Kourbeti IS, Neonakis IK, Gitti Z, Spandidos DA: Isolation of Mycobacterium malmoense in the island of Crete, Greece. Indian J Med Microbiol; 2008 Jul-Sep;26(3):267-9
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  • Mycobacterium malmoense was isolated from a broncho-alveolar lavage sample of a 73-year-old cancer (small cell lung carcinoma) patient in Crete, representing the first reported case of this pathogen in Greece.
  • No signs of pulmonary infection were noted during the course of his disease.
  • We, therefore, propose that the index of suspicion for this pathogen should be raised particularly in patients with underlying immunodeficiency, cancer and chronic lung disease, irrespective of the geographic location.
  • [MeSH-major] Bronchoalveolar Lavage Fluid / microbiology. Mycobacterium / isolation & purification
  • [MeSH-minor] Aged. Carcinoma, Small Cell. Greece. Humans. Lung Neoplasms. Male

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  • (PMID = 18695331.001).
  • [ISSN] 0255-0857
  • [Journal-full-title] Indian journal of medical microbiology
  • [ISO-abbreviation] Indian J Med Microbiol
  • [Language] eng
  • [Publication-type] Case Reports; Journal Article
  • [Publication-country] India
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28. Zhang J, Liang ZY, Zeng X, Wu SF, Gao J, Liu TH: [Detection of epidermal growth factor receptor gene mutations in non-small cell lung cancers by real-time polymerase chain reaction using scorpion amplification refractory mutation system]. Zhonghua Bing Li Xue Za Zhi; 2008 May;37(5):294-9
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  • [Title] [Detection of epidermal growth factor receptor gene mutations in non-small cell lung cancers by real-time polymerase chain reaction using scorpion amplification refractory mutation system].
  • OBJECTIVE: To investigate mutations of EGFR gene in non-small cell lung cancers (NSCLC) using scorpions amplification refractory mutation system (Scorpions ARMS) is in comparing the detection sensitivity with that by PCR-direct sequencing method, and in addition to study the correlation between the mutations and the clinicopathological characteristics of the patients.
  • METHODS: Tumor cells were collected by microdissection from paraffin embedded tumor specimens and adjacent normal lung tissues of 82 NSCLC patients.
  • Mutations were more common in female, non-smoking patients with adenocarcinoma and bronchioloalveolar carcinoma histology.
  • [MeSH-major] Carcinoma, Non-Small-Cell Lung / genetics. Codon / genetics. Exons / genetics. Genes, erbB-1 / genetics. Lung Neoplasms / genetics. Receptor, Epidermal Growth Factor / genetics. Scorpion Venoms / chemistry
  • [MeSH-minor] Adenocarcinoma / genetics. Female. Gene Amplification. Humans. Mutation. Point Mutation. Polymerase Chain Reaction / methods. Sensitivity and Specificity. Sequence Deletion

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  • (PMID = 18956645.001).
  • [ISSN] 0529-5807
  • [Journal-full-title] Zhonghua bing li xue za zhi = Chinese journal of pathology
  • [ISO-abbreviation] Zhonghua Bing Li Xue Za Zhi
  • [Language] chi
  • [Publication-type] English Abstract; Journal Article
  • [Publication-country] China
  • [Chemical-registry-number] 0 / Codon; 0 / Scorpion Venoms; EC 2.7.10.1 / Receptor, Epidermal Growth Factor
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29. Shahin H, Gopinath SP, Robertson CS: Influence of alcohol on early Glasgow Coma Scale in head-injured patients. J Trauma; 2010 Nov;69(5):1176-81; discussion 1181
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  • The remaining 188 patients were further divided into an intoxicated group (blood alcohol concentration [BAC] ≥ 0.08%, n = 100 [53%]) and a nonintoxicated group (BAC <0.08%, n = 88 [47%]).
  • To assess whether these results were directly related to the BAC%, piecewise regression using a general linear model was used to assess the intercept and slope of alcohol on the changes of GCS with cutting point at BAC% = 0.08.
  • But in the intoxicated range, BAC% was significantly positively related to the changes of GCS.

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  • (PMID = 21068620.001).
  • [ISSN] 1529-8809
  • [Journal-full-title] The Journal of trauma
  • [ISO-abbreviation] J Trauma
  • [Language] ENG
  • [Grant] United States / NINDS NIH HHS / NS / P01 NS038660; United States / NINDS NIH HHS / NS / P01 NS038660-10S1; United States / NINDS NIH HHS / NS / P01-NS38660
  • [Publication-type] Comparative Study; Journal Article; Research Support, N.I.H., Extramural
  • [Publication-country] United States
  • [Other-IDs] NLM/ NIHMS366060; NLM/ PMC3485579
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30. Stuster J: Validation of the standardized field sobriety test battery at 0.08% blood alcohol concentration. Hum Factors; 2006;48(3):608-14
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  • [Source] The source of this record is MEDLINE®, a database of the U.S. National Library of Medicine.
  • OBJECTIVE: A field study was conducted to evaluate the accuracy of the Standardized Field Sobriety Test (SFST) battery to assist officers in making arrest decisions at blood alcohol concentrations (BACs) below 0.10%.
  • BACKGROUND: The SFST Battery was validated at 0.10% BAC in 1981, but since then many states have reduced statutory limits for driving while intoxicated to 0.08% BAC.
  • RESULTS: Overall, officers' decisions were correct in more than 91% of the cases at the 0.08% BAC level.
  • CONCLUSION: The results of this study provide evidence of the validity of the SFST Battery as an accurate and reliable decision aid for discriminating between BACs above and below 0.08%.
  • [MeSH-major] Alcoholic Intoxication / diagnosis. Automobile Driving. Police

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  • (PMID = 17063973.001).
  • [ISSN] 0018-7208
  • [Journal-full-title] Human factors
  • [ISO-abbreviation] Hum Factors
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, U.S. Gov't, Non-P.H.S.; Validation Studies
  • [Publication-country] United States
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31. Narendra H, Ray S: Numb chin syndrome as a manifestation of metastatic squamous cell carcinoma of esophagus. J Cancer Res Ther; 2009 Jan-Mar;5(1):49-51
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  • [Title] Numb chin syndrome as a manifestation of metastatic squamous cell carcinoma of esophagus.
  • Among the malignancies that cause NCS the most common are breast cancer, prostate cancer, and lymphoreticular malignancy.
  • In squamous cell carcinoma (SCC) of the esophagus, spread to the mandible is a rare and often late event.
  • An often overlooked clinical sign in mandibular metastases is hypoesthesia or paresthesia over the peripheral distribution of the inferior alveolar nerve/mental nerve; this sign has been referred to in the literature as NCS or numb lip syndrome or mental nerve neuropathy.
  • Rarely, this may be the first presentation of a disseminated malignancy.
  • The discovery of this symptom should alert the clinician to the possibility of disseminated disease.
  • [MeSH-major] Carcinoma, Squamous Cell / complications. Chin / innervation. Esophageal Neoplasms / complications. Hypesthesia / etiology


32. Hajirasouliha I, Hormozdiari F, Sahinalp SC, Birol I: Optimal pooling for genome re-sequencing with ultra-high-throughput short-read technologies. Bioinformatics; 2008 Jul 1;24(13):i32-40
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  • In this article, we focus on re-sequencing experiments using the Solexa technology, based on bacterial artificial chromosome (BAC) clones, and address an experimental design problem.
  • In these specific experiments, approximate coordinates of the BACs on a reference genome are known, and fine-scale differences between the BAC sequences and the reference are of interest.
  • The high-throughput characteristics of the sequencing technology makes it possible to multiplex BAC sequencing experiments by pooling BACs for a cost-effective operation.
  • However, the way BACs are pooled in such re-sequencing experiments has an effect on the downstream analysis of the generated data, mostly due to subsequences common to multiple BACs.
  • [MeSH-major] Algorithms. Chromosome Mapping / methods. Chromosomes, Artificial, Bacterial / genetics. Sequence Alignment / methods. Sequence Analysis, DNA / methods

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  • (PMID = 18586730.001).
  • [ISSN] 1367-4811
  • [Journal-full-title] Bioinformatics (Oxford, England)
  • [ISO-abbreviation] Bioinformatics
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] England
  • [Other-IDs] NLM/ PMC2718651
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33. Kramer ML: A new multiphasic buffer system for benzyldimethyl-n-hexadecylammonium chloride polyacrylamide gel electrophoresis of proteins providing efficient stacking. Electrophoresis; 2006 Feb;27(2):347-56
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  • Acidic PAGE systems using cationic detergents such as benzyldimethyl-n-hexadecylammonium chloride (16-BAC) or CTAB have proven useful for the detection of methoxy esters sensitive to alkaline pH, resolving basic proteins such as histones and membrane proteins.
  • Therefore, a new 16-BAC PAGE system based on the theory of moving boundary electrophoresis with properties comparable to the classical SDS-PAGE system was designed.
  • As a result a new multiphasic analytical 16-BAC PAGE system providing efficient stacking and significantly shorter running times is presented here.
  • Furthermore, the concentration of 16-BAC was optimized by determining its previously unknown CMC.

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  • (PMID = 16331586.001).
  • [ISSN] 0173-0835
  • [Journal-full-title] Electrophoresis
  • [ISO-abbreviation] Electrophoresis
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] Germany
  • [Chemical-registry-number] 0 / Buffers; 0 / Coloring Agents; 0 / Detergents; 0 / Fatty Alcohols; 0 / Proteins; 0 / Quaternary Ammonium Compounds; 0 / alpha-Synuclein; 85474O1N9D / cetalkonium chloride
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34. Gunn SR, Bolla AR, Barron LL, Gorre ME, Mohammed MS, Bahler DW, Mellink CH, van Oers MH, Keating MJ, Ferrajoli A, Coombes KR, Abruzzo LV, Robetorye RS: Array CGH analysis of chronic lymphocytic leukemia reveals frequent cryptic monoallelic and biallelic deletions of chromosome 22q11 that include the PRAME gene. Leuk Res; 2009 Sep;33(9):1276-81
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  • We used BAC array-based CGH to detect genomic imbalances in 187 CLL cases.
  • [MeSH-major] Alleles. Antigens, Neoplasm / genetics. Chromosome Deletion. Chromosomes, Human, Pair 22. Leukemia, Lymphocytic, Chronic, B-Cell / genetics. Nucleic Acid Hybridization

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  • (PMID = 19027161.001).
  • [ISSN] 1873-5835
  • [Journal-full-title] Leukemia research
  • [ISO-abbreviation] Leuk. Res.
  • [Language] eng
  • [Grant] United States / NCI NIH HHS / CA / P30 CA016672
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 0 / Antigens, Neoplasm; 0 / PRAME protein, human
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35. Lee P, de Bree R, Brokx HA, Leemans CR, Postmus PE, Sutedja TG: Primary lung cancer after treatment of head and neck cancer without lymph node metastasis: is there a role for autofluorescence bronchoscopy? Lung Cancer; 2008 Dec;62(3):309-15
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  • [Title] Primary lung cancer after treatment of head and neck cancer without lymph node metastasis: is there a role for autofluorescence bronchoscopy?
  • BACKGROUND: Head and neck cancer (HNC) is the 5th most common cancer worldwide.
  • OBJECTIVES: To determine if autofluorescence bronchoscopy (AF) played a role in the detection of second primary lung cancer (SPLC), and impact of SPLC on survival of patients with HNC and no cervical lymph node metastasis (N0).
  • METHODS: Patients with HNC(N0) referred for symptoms and/or radiology suspicious for lung cancer were assessed with AF.
  • Data on patient demographics, smoking, cancer characteristics, and outcome were prospectively collected.
  • Median age was 70 years, all were current or former smokers of 35 pack years, and 25 had chronic obstructive lung disease.
  • Forty-two SPLC were found; 12 (29%) affected the tracheobronchial tree and 30 (71%) involved the lung parenchyma.
  • Five radiographically occult lung cancers detected by AF were successfully treated with endobronchial therapy.
  • Lung cancer mortality was 24%.
  • Close surveillance with AF and CT for SPLC combined with aggressive treatment of early stage lung cancer might be a strategy to improve outcome.
  • [MeSH-major] Bronchoscopy. Carcinoma, Non-Small-Cell Lung / diagnosis. Head and Neck Neoplasms / pathology. Neoplasms, Second Primary / diagnosis
  • [MeSH-minor] Adenocarcinoma / diagnosis. Adenocarcinoma / drug therapy. Adenocarcinoma, Bronchiolo-Alveolar / diagnosis. Adenocarcinoma, Bronchiolo-Alveolar / drug therapy. Adult. Aged. Carcinoma, Large Cell / diagnosis. Carcinoma, Large Cell / drug therapy. Female. Fluorescence. Humans. Lung Neoplasms / diagnosis. Lung Neoplasms / drug therapy. Lymphatic Metastasis. Male. Middle Aged. Prognosis. Prospective Studies. Small Cell Lung Carcinoma / diagnosis. Small Cell Lung Carcinoma / drug therapy. Smoking. Survival Rate. Treatment Outcome


36. Perham N, Moore SC, Shepherd J, Cusens B: Identifying drunkenness in the night-time economy. Addiction; 2007 Mar;102(3):377-80
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  • AIMS: To assess the relationship between blood alcohol concentration (BAC) and indicators used in field sobriety tests putatively associated with intoxication.
  • Breath analysis was used to determine respondents' BAC.
  • FINDINGS: Combinations of slurred speech, staggering gait and glazed eyes significantly predicted levels of BAC with a staggering gait indicating highest levels of intoxication.
  • CONCLUSIONS: Subjective ratings of drunkenness by trained observers corresponded with BAC.
  • Transition BACs denoting observable behaviour change associated with intoxication have been identified.
  • [MeSH-major] Alcoholic Intoxication / diagnosis

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  • (PMID = 17298644.001).
  • [ISSN] 0965-2140
  • [Journal-full-title] Addiction (Abingdon, England)
  • [ISO-abbreviation] Addiction
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 0 / Biomarkers; 3K9958V90M / Ethanol
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37. Shi G, Wu X, Xiong F, Zhou Y, Liu Z, Deng J, Chen H: [A successive three-step 'Gap-repair' method to generate the mWAP-hLF hybrid gene locus]. Sheng Wu Gong Cheng Xue Bao; 2008 Sep;24(9):1538-44
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  • Then using 'Gap-repair 'method mediated by Red recombination system of lambda-prophage in Escherichia coli, in the first step, the 8 kb 3' flanking region of the mWAP gene was subcloned from the Bacterial artificial chromosome which harbors the mWAP gene locus(mWAP BAC) into the gap-repair vector; in the second step, the 29 kb hLF genomic sequence from the ATG code to the TAA code was subcloned from the hLF BAC; in the third step, the 12 kb 5' flanking region of the mWAP gene was subcloned from the mWAP BAC.

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  • (PMID = 19160834.001).
  • [ISSN] 1000-3061
  • [Journal-full-title] Sheng wu gong cheng xue bao = Chinese journal of biotechnology
  • [ISO-abbreviation] Sheng Wu Gong Cheng Xue Bao
  • [Language] chi
  • [Publication-type] English Abstract; Journal Article
  • [Publication-country] China
  • [Chemical-registry-number] 0 / Milk Proteins; 0 / whey acidic proteins; EC 3.4.21.- / Lactoferrin
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38. Andrieux J: [Array-CGH for routine diagnosis of cryptic chromosomal imbalances]. Pathol Biol (Paris); 2008 Sep;56(6):368-74
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  • [Title] [Array-CGH for routine diagnosis of cryptic chromosomal imbalances].
  • [Transliterated title] Puces à ADN (CGH-array) : application pour le diagnostic de déséquilibres cytogénétiques cryptiques.
  • BAC/PAC and oligonucleotides array-CGH have transformed the field of genetics and are useful for constitutional, hematological and solid tumors cytogenetics.
  • [MeSH-major] Chromosome Disorders / diagnosis. Molecular Diagnostic Techniques / methods. Nucleic Acid Hybridization / methods. Oligonucleotide Array Sequence Analysis
  • [MeSH-minor] Chromosomes, Artificial, Bacterial / genetics. Gene Dosage. Genetic Testing / methods. Humans. Karyotyping / methods. Molecular Weight. Oligonucleotide Probes

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  • (PMID = 18514435.001).
  • [ISSN] 0369-8114
  • [Journal-full-title] Pathologie-biologie
  • [ISO-abbreviation] Pathol. Biol.
  • [Language] fre
  • [Publication-type] English Abstract; Journal Article; Review
  • [Publication-country] France
  • [Chemical-registry-number] 0 / Oligonucleotide Probes
  • [Number-of-references] 82
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39. Bhatt S, Moradkhani K, Mrasek K, Puechberty J, Lefort G, Lespinasse J, Sarda P, Liehr T, Hamamah S, Pellestor F: Breakpoint characterization: a new approach for segregation analysis of paracentric inversion in human sperm. Mol Hum Reprod; 2007 Oct;13(10):751-6
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  • In order to improve the assessment of meiotic segregation in PAI, we present a new strategy based on the use of bacterial artificial chromosome (BAC) probes which allow a precise localization of chromosome breakpoints and the identification of all meiotic products in human sperm.

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  • (PMID = 17913851.001).
  • [ISSN] 1360-9947
  • [Journal-full-title] Molecular human reproduction
  • [ISO-abbreviation] Mol. Hum. Reprod.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
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40. Kato T, Daigo Y, Hayama S, Ishikawa N, Yamabuki T, Ito T, Miyamoto M, Kondo S, Nakamura Y: A novel human tRNA-dihydrouridine synthase involved in pulmonary carcinogenesis. Cancer Res; 2005 Jul 1;65(13):5638-46
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  • An increased level of dihydrouridine in tRNA(Phe) was found in human malignant tissues nearly three decades ago, but its biological significance in carcinogenesis has remained unclear.
  • Through analysis of genome-wide gene-expression profiles among non-small cell lung carcinomas (NSCLC), we identified overexpression of a novel human gene, termed hDUS2, encoding a protein that shared structural features with tRNA-dihydrouridine synthases (DUS).
  • Immunohistochemical analysis showed significant association between higher levels of hDUS2 in tumors and poorer prognosis of lung cancer patients.
  • Our data imply that up-regulation of hDUS2 is a relatively common feature of pulmonary carcinogenesis and that selective suppression of hDUS2 enzyme activity and/or inhibition of formation of the hDUS2-tRNA synthetase complex could be a promising therapeutic strategy for treatment of many lung cancers.
  • [MeSH-major] Lung Neoplasms / enzymology. Oxidoreductases / genetics. Oxidoreductases / metabolism
  • [MeSH-minor] Adenocarcinoma, Bronchiolo-Alveolar / enzymology. Adenocarcinoma, Bronchiolo-Alveolar / genetics. Amino Acid Sequence. Amino Acyl-tRNA Synthetases / metabolism. Carcinoma, Non-Small-Cell Lung / enzymology. Carcinoma, Non-Small-Cell Lung / genetics. Cell Line, Tumor. Humans. Immunohistochemistry. Molecular Sequence Data. Oligonucleotide Array Sequence Analysis. Prognosis. Transfection

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  • (PMID = 15994936.001).
  • [ISSN] 0008-5472
  • [Journal-full-title] Cancer research
  • [ISO-abbreviation] Cancer Res.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Chemical-registry-number] EC 1.- / Oxidoreductases; EC 1.3.- / tRNA-dihydrouridine synthase; EC 6.1.1.- / Amino Acyl-tRNA Synthetases; EC 6.1.1.- / glutamyl-prolyl-tRNA synthetase
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41. Pusztaszeri M, Orcurto MV, Schmidt S, Krueger T: Solitary nodular pure bronchioloalveolar carcinoma. Respiration; 2010;79(3):243-4
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  • [Title] Solitary nodular pure bronchioloalveolar carcinoma.
  • [MeSH-major] Adenocarcinoma, Bronchiolo-Alveolar / pathology. Lung / pathology. Lung Neoplasms / pathology

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  • (PMID = 19147987.001).
  • [ISSN] 1423-0356
  • [Journal-full-title] Respiration; international review of thoracic diseases
  • [ISO-abbreviation] Respiration
  • [Language] eng
  • [Publication-type] Case Reports; Journal Article
  • [Publication-country] Switzerland
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42. Calafat A, Juan M, Duch MA: Preventive interventions in nightlife: a review. Adicciones; 2009;21(4):387-413
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  • 'Classical' measures (taxation, reduced BAC limits, minimum legal purchasing age...) are also evidence-based and effective.

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  • (PMID = 20011993.001).
  • [ISSN] 0214-4840
  • [Journal-full-title] Adicciones
  • [ISO-abbreviation] Adicciones
  • [Language] eng; spa
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't; Review
  • [Publication-country] Spain
  • [Number-of-references] 103
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43. Yin BL, Guo L, Zhang DF, Terzaghi W, Wang XF, Liu TT, He H, Cheng ZK, Deng XW: Integration of cytological features with molecular and epigenetic properties of rice chromosome 4. Mol Plant; 2008 Sep;1(5):816-29
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  • Fluorescence in-situ hybridization (FISH) experiments using a set of bacterial artificial chromosome (BAC) clones from chromosome 4 placed all 18 clones in the region predicted by the model.
  • [MeSH-minor] Base Sequence. Chromosomes, Artificial, Bacterial / genetics. DNA Methylation / genetics. DNA Transposable Elements / genetics. Euchromatin / genetics. Genes, Plant. Genetic Loci / genetics. Heterochromatin / genetics. Histones / metabolism. In Situ Hybridization, Fluorescence. Oligonucleotide Array Sequence Analysis. Protein Processing, Post-Translational. RNA, Plant / metabolism. Transcription, Genetic

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  • (PMID = 19825584.001).
  • [ISSN] 1674-2052
  • [Journal-full-title] Molecular plant
  • [ISO-abbreviation] Mol Plant
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 0 / DNA Transposable Elements; 0 / Euchromatin; 0 / Heterochromatin; 0 / Histones; 0 / RNA, Plant
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44. Tang LF, Du LZ, Chen ZM, Zou CC: Levels of matrix metalloproteinase-9 and its inhibitor in bronchoalveolar lavage cells of asthmatic children. Fetal Pediatr Pathol; 2006 Jan-Feb;25(1):1-7
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  • [Title] Levels of matrix metalloproteinase-9 and its inhibitor in bronchoalveolar lavage cells of asthmatic children.
  • The levels of MMP-9 and TIMP-1 in bronchoalveolar lavage (BAL) cells of asthmatic children were measured immunocytochemically.
  • The percentages of eosinophils and mast cells in bronchoalveolar lavage fluid (BALF) of asthmatic children were increased.
  • Levels of MMP-9 and TIMP-1 in BAL cell of asthmatic children were increased significantly at about 30- and 35-fold relative to the controls, respectively.
  • [MeSH-minor] Bronchoalveolar Lavage. Case-Control Studies. Cell Count. Child, Preschool. Eosinophils / chemistry. Eosinophils / pathology. Extracellular Matrix / chemistry. Extracellular Matrix / pathology. Female. Humans. Immunohistochemistry. Infant. Male. Mast Cells / chemistry. Mast Cells / pathology

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  • (PMID = 16754484.001).
  • [ISSN] 1551-3815
  • [Journal-full-title] Fetal and pediatric pathology
  • [ISO-abbreviation] Fetal Pediatr Pathol
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Tissue Inhibitor of Metalloproteinase-1; EC 3.4.24.35 / Matrix Metalloproteinase 9
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45. Bayou N, M'rad R, Belhaj A, Daoud H, Ben Jemaa L, Zemni R, Briault S, Helayem MB, Chaabouni H: De novo balanced translocation t (7;16) (p22.1; p11.2) associated with autistic disorder. J Biomed Biotechnol; 2008;2008:231904
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  • [Title] De novo balanced translocation t (7;16) (p22.1; p11.2) associated with autistic disorder.
  • The high incidence of de novo chromosomal aberrations in a population of persons with autism suggests a causal relationship between certain chromosomal aberrations and the occurrence of isolated idiopathic autism.
  • We report on the clinical and cytogenetic findings in a male patient with autism, no physical abnormalities and a de novo balanced (7;16)(p22.1;p16.2) translocation.
  • FISH with specific RP11-BAC clones mapping near 7p22.1 and 16p11.2 was used to refine the location of the breakpoints.
  • [MeSH-major] Abnormalities, Multiple. Autistic Disorder / genetics. Chromosomes, Human, Pair 16 / ultrastructure. Chromosomes, Human, Pair 7 / ultrastructure. Translocation, Genetic
  • [MeSH-minor] Arachnoid Cysts. Child. Child Behavior Disorders. Chromosome Banding. Chromosome Disorders / genetics. Chromosome Disorders / pathology. Chromosome Disorders / physiopathology. Chromosomes, Artificial, Bacterial. Cisterna Magna / pathology. Humans. In Situ Hybridization, Fluorescence. Karyotyping. Male. Psychomotor Disorders

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  • (PMID = 18475318.001).
  • [ISSN] 1110-7251
  • [Journal-full-title] Journal of biomedicine & biotechnology
  • [ISO-abbreviation] J. Biomed. Biotechnol.
  • [Language] eng
  • [Publication-type] Case Reports; Journal Article
  • [Publication-country] United States
  • [Other-IDs] NLM/ PMC2373955
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46. Courtens W, Wuyts W, Scheers S, Van Luijk R, Reyniers E, Rooms L, Ceulemans B, Kooy F, Wauters J: A de novo subterminal trisomy 10p and monosomy 18q in a girl with MCA/MR: case report and review. Eur J Med Genet; 2006 Sep-Oct;49(5):402-13
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  • [Title] A de novo subterminal trisomy 10p and monosomy 18q in a girl with MCA/MR: case report and review.
  • We report on a 3-year-old girl with psychomotor retardation, cardiopathy, strabismus, umbilical hernia, and facial dysmorphism in whom a de novo unbalanced submicroscopic translocation (10p;18q) was found by MLPA (Multiplex Ligation dependent Probe Amplification) and FISH analyses.
  • Additional FISH studies with locus specific RP11 BAC probes and analyses with microsatellites revealed that the translocation resulted in a deletion estimated between 6 and 9 Mb on the maternal chromosome 18 and a subtelomeric 10p duplication of approximately 6.9 Mb.

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  • (PMID = 16488200.001).
  • [ISSN] 1769-7212
  • [Journal-full-title] European journal of medical genetics
  • [ISO-abbreviation] Eur J Med Genet
  • [Language] eng
  • [Publication-type] Case Reports; Journal Article; Review
  • [Publication-country] Netherlands
  • [Number-of-references] 34
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47. Augulyte L, Kliaugaite D, Racys V, Jankunaite D, Zaliauskiene A, Bergqvist PA, Andersson PL: Multivariate analysis of a biologically activated carbon (BAC) system and its efficiency for removing PAHs and aliphatic hydrocarbons from wastewater polluted with petroleum products. J Hazard Mater; 2009 Oct 15;170(1):103-10
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  • [Title] Multivariate analysis of a biologically activated carbon (BAC) system and its efficiency for removing PAHs and aliphatic hydrocarbons from wastewater polluted with petroleum products.
  • The efficiency of a biologically activated carbon system for treating wastewater polluted with petroleum products was examined and the effects of process parameters on its efficacy were evaluated.

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  • (PMID = 19482425.001).
  • [ISSN] 1873-3336
  • [Journal-full-title] Journal of hazardous materials
  • [ISO-abbreviation] J. Hazard. Mater.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] Netherlands
  • [Chemical-registry-number] 0 / Industrial Waste; 0 / Membranes, Artificial; 0 / Petroleum; 0 / Polycyclic Hydrocarbons, Aromatic; 0 / Water Pollutants, Chemical; 7440-44-0 / Carbon
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48. Grabner B, Blaas L, Musteanu M, Hoffmann T, Birbach A, Eferl R, Casanova E: A mouse tool for conditional mutagenesis in ovarian granulosa cells. Genesis; 2010 Oct 1;48(10):612-7
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  • We have expressed the tamoxifen inducible CreER(T)² fusion protein from a Bacterial Artificial Chromosome (BAC) containing the regulatory elements of the hydroxysteroid (17-beta) dehydrogenase 1 (Hsd17b1) gene.
  • [MeSH-minor] Alleles. Animals. Chromosomes, Artificial, Bacterial / genetics. Escherichia coli / genetics. Female. Genes, Reporter. Humans. In Situ Hybridization. Mice. Mice, Transgenic. RNA, Messenger / metabolism. Receptors, Estrogen / genetics. Recombinant Fusion Proteins / biosynthesis. Recombination, Genetic / drug effects. Tamoxifen / pharmacology


49. Datema E, Mueller LA, Buels R, Giovannoni JJ, Visser RG, Stiekema WJ, van Ham RC: Comparative BAC end sequence analysis of tomato and potato reveals overrepresentation of specific gene families in potato. BMC Plant Biol; 2008;8:34
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  • [Title] Comparative BAC end sequence analysis of tomato and potato reveals overrepresentation of specific gene families in potato.
  • This study presents a first genome-wide analysis of these two species, based on two large collections of BAC end sequences representing approximately 19% of the tomato genome and 10% of the potato genome.

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  • (PMID = 18405374.001).
  • [ISSN] 1471-2229
  • [Journal-full-title] BMC plant biology
  • [ISO-abbreviation] BMC Plant Biol.
  • [Language] eng
  • [Publication-type] Comparative Study; Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 0 / Plant Proteins
  • [Other-IDs] NLM/ PMC2324086
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50. Kiss AJ, Cheng CH: Molecular diversity and genomic organisation of the alpha, beta and gamma eye lens crystallins from the Antarctic toothfish Dissostichus mawsoni. Comp Biochem Physiol Part D Genomics Proteomics; 2008 Jun;3(2):155-71
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  • A preliminary Fingerprinted Contig analysis of clones containing crystallin genes screened from a toothfish BAC library indicated alpha crystallin genes occurred in a single genomic region of ~266 kbp, beta crystallin genes in ~273 kbp, while the gamma crystallin gene family occurred in two separate regions of ~180 and ~296 kbp.

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  • (PMID = 20483216.001).
  • [ISSN] 1878-0407
  • [Journal-full-title] Comparative biochemistry and physiology. Part D, Genomics & proteomics
  • [ISO-abbreviation] Comp. Biochem. Physiol. Part D Genomics Proteomics
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] Netherlands
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51. Bentivegna A, Milani D, Gervasini C, Castronovo P, Mottadelli F, Manzini S, Colapietro P, Giordano L, Atzeri F, Divizia MT, Uzielli ML, Neri G, Bedeschi MF, Faravelli F, Selicorni A, Larizza L: Rubinstein-Taybi Syndrome: spectrum of CREBBP mutations in Italian patients. BMC Med Genet; 2006;7:77
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  • BACKGROUND: Rubinstein-Taybi Syndrome (RSTS, MIM 180849) is a rare congenital disorder characterized by mental and growth retardation, broad and duplicated distal phalanges of thumbs and halluces, facial dysmorphisms and increased risk of tumors.
  • METHODS: Our study is based on the mutation analysis of CREBBP in 31 Italian RSTS patients using segregation analysis of intragenic microsatellites, BAC FISH and direct sequencing of PCR and RT-PCR fragments.
  • By direct sequencing a total of 14 de novo mutations were identified: 10 truncating (5 frameshift and 5 nonsense), one splice site, and three novel missense mutations.
  • Identification of the p.Asn1978Ser in the healthy mother of a patient also carrying a de novo frameshift mutation, questions the pathogenetic significance of the missense change reported as recurrent mutation.

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  • (PMID = 17052327.001).
  • [ISSN] 1471-2350
  • [Journal-full-title] BMC medical genetics
  • [ISO-abbreviation] BMC Med. Genet.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 0 / CREBBP protein, human; 0 / Nuclear Localization Signals; EC 2.3.1.48 / CREB-Binding Protein
  • [Other-IDs] NLM/ PMC1626071
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52. Borg K, Bocian E, Bernaciak J, Nowakowska B, Derwińska K, Obersztyn E, Szczałuba K, Smigiel R, Kostyk E, Mazurczak T: [Balanced chromosomal rearrangements resulting in intellectual disability. An analysis of 22 cases with application of CGH and FISH methods]. Med Wieku Rozwoj; 2009 Apr-Jun;13(2):81-93
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  • The abnormal phenotype might be the result of genomic imbalance or aberrant expression caused by direct breakage of a dosage sensitive gene.
  • Molecular karyotyping was performed in all patients using FISH with region-specific BAC clones, high resolution comparative genomic hybridization (HR-CGH) or array CGH (aCGH).
  • Three rearrangements had more complex structure than conventional methods demonstrated.

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  • (PMID = 19837989.001).
  • [Journal-full-title] Medycyna wieku rozwojowego
  • [ISO-abbreviation] Med Wieku Rozwoj
  • [Language] pol
  • [Publication-type] English Abstract; Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] Poland
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53. Monnot S, Giuliano F, Massol C, Fossoud C, Cossée M, Lambert JC, Karmous-Benailly H: Partial Xp11.23-p11.4 duplication with random X inactivation: clinical report and molecular cytogenetic characterization. Am J Med Genet A; 2008 May 15;146A(10):1325-9
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  • The karyotype completed by cytogenetic analysis with the Whole Chromosome Painting probe of chromosome X revealed a de novo partial duplication of the short arm of an X chromosome.
  • In order to further characterize the duplicated segment, we used a series of BAC probes extending from band Xp11.22 to Xp22.1.
  • BACs from Xp11.23 to Xp11.4 were duplicated.


54. Han HD, Zhou YW, He WJ, Wang DS: [Comparative study on the organic matter removal in polluted raw water by different techniques at integrated pilot plant]. Huan Jing Ke Xue; 2006 Nov;27(11):2251-4
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  • The waterworks that adopted the Grade II source raw water were suggested to use the conventional techniques and seasonal preozonation techniques, while the others were suggested to alternatively select GAC or BAC technique to meet the request of new water quality criterion.

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  • (PMID = 17326435.001).
  • [ISSN] 0250-3301
  • [Journal-full-title] Huan jing ke xue= Huanjing kexue
  • [ISO-abbreviation] Huan Jing Ke Xue
  • [Language] CHI
  • [Publication-type] Comparative Study; English Abstract; Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] China
  • [Chemical-registry-number] 0 / Organic Chemicals; 0 / Water Pollutants, Chemical; 16291-96-6 / Charcoal; 66H7ZZK23N / Ozone
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55. Frendewey D, Chernomorsky R, Esau L, Om J, Xue Y, Murphy AJ, Yancopoulos GD, Valenzuela DM: The loss-of-allele assay for ES cell screening and mouse genotyping. Methods Enzymol; 2010;476:295-307
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  • [Title] The loss-of-allele assay for ES cell screening and mouse genotyping.
  • Targeting vectors used to create directed mutations in mouse embryonic stem (ES) cells consist, in their simplest form, of a gene for drug selection flanked by mouse genomic sequences, the so-called homology arms that promote site-directed homologous recombination between the vector and the target gene.
  • The VelociGene method for the creation of targeted mutations in ES cells employs targeting vectors, called BACVecs, that are based on bacterial artificial chromosomes.
  • In a correctly targeted ES cell clone, the LOA assay detects one of the two native alleles (for genes not on the X or Y chromosome), the other allele being disrupted by the targeted modification.
  • We have designed qPCR LOA assays for deletions, insertions, point mutations, domain swaps, conditional, and humanized alleles and have used the insert assays to quantify the copy number of random insertion BAC transgenics.
  • Because of its quantitative precision, specificity, and compatibility with high throughput robotic operations, the LOA assay eliminates bottlenecks in ES cell screening and mouse genotyping and facilitates maximal speed and throughput for knockout mouse production.

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  • [Copyright] Copyright (c) 2010 Elsevier Inc. All rights reserved.
  • (PMID = 20691873.001).
  • [ISSN] 1557-7988
  • [Journal-full-title] Methods in enzymology
  • [ISO-abbreviation] Meth. Enzymol.
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] United States
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56. Nagano N, Nagano Y, Nakano R, Okamoto R, Inoue M: Genetic diversity of the C protein beta-antigen gene and its upstream regions within clonally related groups of type Ia and Ib group B streptococci. Microbiology; 2006 Mar;152(Pt 3):771-8
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  • [Title] Genetic diversity of the C protein beta-antigen gene and its upstream regions within clonally related groups of type Ia and Ib group B streptococci.
  • C protein beta antigen (Bac), a surface protein of group B streptococci (GBS), is known to concurrently bind the Fc portion of IgA and factor H (FH).
  • The authors' previous work has demonstrated that mRNA expression levels show diversity among clonally related strains containing genes (bac) encoding Bac, with high expression noted in invasive strains.
  • In this study, the bac gene and upstream regions containing putative promoters, three ORFs and an IS1381 insertion sequence were characterized.
  • Three invasive strains showed high bac expression levels and did not show any notable mutations except one strain producing Bac that was able to bind FH but not IgA.
  • A deletion of 51 amino acid residues, including part of the Bac IgA-binding region, was identified and hypothesized to contribute to the loss of the IgA-binding ability of this strain.
  • A vaginal strain that showed somewhat higher bac expression levels and produced Bac lacking immunoreactivity contained an 11 bp deletion, which generated a premature termination codon, in the region preceding the IgA-binding region.
  • In another vaginal strain that did not express bac, disruption of the upstream ORFs of the sensor histidine kinase and DNA-binding response regulator, due to frameshift mutations, was noted although it is not known whether these proteins directly affect bac expression levels.
  • An IS1381 insertion into the promoter region was found in another vaginal strain that showed low expression levels and produced Bac with a significantly larger proline-rich repeat region.
  • These results demonstrate considerable genetic diversity of the bac and upstream regions of invasive and noninvasive GBS, which may contribute to the variability of bac expression levels among those strains.
  • [MeSH-major] Antigens, Bacterial / genetics. Antigens, Surface / genetics. Bacterial Proteins / genetics. Genetic Variation. Streptococcus agalactiae / classification. Streptococcus agalactiae / genetics

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  • (PMID = 16514156.001).
  • [ISSN] 1350-0872
  • [Journal-full-title] Microbiology (Reading, England)
  • [ISO-abbreviation] Microbiology (Reading, Engl.)
  • [Language] eng
  • [Databank-accession-numbers] GENBANK/ AB121739/ AB221536/ X58470/ X59771
  • [Publication-type] Journal Article
  • [Publication-country] England
  • [Chemical-registry-number] 0 / Antigens, Bacterial; 0 / Antigens, Surface; 0 / Bacterial Proteins; 0 / Immunoglobulin A; 80295-65-4 / Complement Factor H
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57. Ronen A, Chassidim HS, Gershon P, Parmet Y, Rabinovich A, Bar-Hamburger R, Cassuto Y, Shinar D: The effect of alcohol, THC and their combination on perceived effects, willingness to drive and performance of driving and non-driving tasks. Accid Anal Prev; 2010 Nov;42(6):1855-65
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  • 1) to investigate the effect of alcohol (BAC=0.05%), THC (13 mg) and their combination on driving and non-driving tasks.

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  • [Copyright] 2010 Elsevier Ltd. All rights reserved.
  • (PMID = 20728636.001).
  • [ISSN] 1879-2057
  • [Journal-full-title] Accident; analysis and prevention
  • [ISO-abbreviation] Accid Anal Prev
  • [Language] eng
  • [Publication-type] Controlled Clinical Trial; Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 3K9958V90M / Ethanol; 7J8897W37S / Dronabinol
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58. Massion PP, Zou Y, Chen H, Jiang A, Coulson P, Amos CI, Wu X, Wistuba I, Wei Q, Shyr Y, Spitz MR: Smoking-related genomic signatures in non-small cell lung cancer. Am J Respir Crit Care Med; 2008 Dec 1;178(11):1164-72
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  • [Title] Smoking-related genomic signatures in non-small cell lung cancer.
  • RATIONALE: Tobacco smoking is responsible for 85% of all lung cancers.
  • To further our understanding of the molecular pathogenesis of lung cancer, we determined whether smoking history leads to the emergence of specific genomic alterations found in non-small cell lung cancer (NSCLC).
  • Tissue sections were microdissected, and DNA was extracted, purified, and labeled by random priming before hybridization onto bacterial artificial chromosome (BAC) arrays.
  • Lung tumors arising from current-smokers had the greatest number of copy number alterations.
  • The genomic regions most significantly associated with smoking were located within 60 regions and were functionally associated with genes controlling the M phase of the cell cycle, the segregation of chromosomes, and the methylation of DNA.
  • CONCLUSIONS: These findings indicate that smoking history leaves a specific genomic signature in the DNA of lung tumors and suggest that these alterations may reflect new molecular pathways to cancer development.

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  • (PMID = 18776155.001).
  • [ISSN] 1535-4970
  • [Journal-full-title] American journal of respiratory and critical care medicine
  • [ISO-abbreviation] Am. J. Respir. Crit. Care Med.
  • [Language] ENG
  • [Grant] United States / NCI NIH HHS / CA / CA55769; United States / NCI NIH HHS / CA / CA102353; United States / NCI NIH HHS / CA / CA90949; United States / NCI NIH HHS / CA / CA70907; United States / NCI NIH HHS / CA / P50 CA070907
  • [Publication-type] Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Other-IDs] NLM/ PMC2720147
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59. Cuzon VC, Yeh PW, Yanagawa Y, Obata K, Yeh HH: Ethanol consumption during early pregnancy alters the disposition of tangentially migrating GABAergic interneurons in the fetal cortex. J Neurosci; 2008 Feb 20;28(8):1854-64
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  • This ethanol-induced effect was evident in vivo at embryonic day 14.5 (E14.5) in GAD67 knock-in and BAC-Lhx6 embryos, as well as in vitro in isotypic telencephalic slice cocultures obtained from E14.5 embryos exposed to ethanol in utero.
  • Analysis of heterotypic cocultures indicated that both cell-intrinsic and -extrinsic factors contribute to the aberrant migratory profile of MGE-derived cells.
  • [MeSH-major] Cell Movement / drug effects. Cerebral Cortex / drug effects. Cerebral Cortex / embryology. Ethanol / administration & dosage. Interneurons / drug effects. gamma-Aminobutyric Acid / physiology

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  • (PMID = 18287502.001).
  • [ISSN] 1529-2401
  • [Journal-full-title] The Journal of neuroscience : the official journal of the Society for Neuroscience
  • [ISO-abbreviation] J. Neurosci.
  • [Language] eng
  • [Grant] United States / NIAAA NIH HHS / AA / F31 AA014698; United States / NIMH NIH HHS / MH / R01 MH069826
  • [Publication-type] Comparative Study; Journal Article; Research Support, N.I.H., Extramural
  • [Publication-country] United States
  • [Chemical-registry-number] 3K9958V90M / Ethanol; 56-12-2 / gamma-Aminobutyric Acid
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60. Sone S, Matsumoto T, Honda T, Tsushima K, Takayama F, Hanaoka T, Kondo R, Haniuda M: HRCT features of small peripheral lung carcinomas detected in a low-dose CT screening program. Acad Radiol; 2010 Jan;17(1):75-83
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  • [Title] HRCT features of small peripheral lung carcinomas detected in a low-dose CT screening program.
  • RATIONALE AND OBJECTIVES: To define high-resolution computed tomography (HRCT) features of lung cancers detected by computed tomography (CT) screening according to histopathology and prognosis.
  • METHODS AND MATERIALS: Tumor size, CT value, morphology, and tumor volume doubling time (TVDT) were determined for 10 atypical adenomatous hyperplasias (AAH) and 50 lung cancers followed between 1996 and 1998 to 2007.
  • Focal bronchioloalveolar cell carcinomas (BAC) were denser (mean, -537 HU) than AAH and mostly less dense than -350 HU; all patients remain alive.
  • All 22 adenocarcinomas (ADC) were denser than -450 HU (mean, -186 HU); 6 were problematic and measured >-150HU and >10 mm or had >10 mm of central denser zone (CDZ) (partly solid tumors) or tumor size (solid tumor).
  • Two of four squamous cell carcinomas (SCC) measuring 15 and 10 mm, respectively, were problematic.
  • Two patients with small-cell lung carcinomas (SCLC) measuring 15 and 23 mm, respectively, remain alive.
  • AAH, BAC, ADC, and SCC lesions were in general polygonal in shape.
  • The mean TVDT for AAH, BAC, ADC, SCC, and SCLC was 1278, 557, 466, 212, and 103 days, respectively.
  • [MeSH-major] Body Burden. Lung Neoplasms / radiography. Mass Screening / methods. Radiographic Image Enhancement / methods. Radiography, Thoracic / methods. Tomography, X-Ray Computed / methods

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  • (PMID = 19879779.001).
  • [ISSN] 1878-4046
  • [Journal-full-title] Academic radiology
  • [ISO-abbreviation] Acad Radiol
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
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66. Van Keuren ML, Gavrilina GB, Filipiak WE, Zeidler MG, Saunders TL: Generating transgenic mice from bacterial artificial chromosomes: transgenesis efficiency, integration and expression outcomes. Transgenic Res; 2009 Oct;18(5):769-85
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  • [Title] Generating transgenic mice from bacterial artificial chromosomes: transgenesis efficiency, integration and expression outcomes.
  • Bacterial artificial chromosome (BAC) transgenes direct gene expression at physiological levels with the same developmental timing and expression patterns as endogenous genes in transgenic animal models.
  • We generated 707 transgenic founders from 86 BAC transgenes purified by three different methods.
  • Transgenesis efficiency was the same for all BAC DNA purification methods.
  • Polyamine microinjection buffer was essential for successful integration of intact BAC transgenes.
  • There was no correlation between BAC size and transgenic rate, birth rate, or transgenic efficiency.
  • Founders with complete BAC integrations were observed in all 47 BACs for which multiple markers were tested.
  • Additional founders with BAC fragment integrations were observed for 65% of these BACs.
  • Expression data was available for 79 BAC transgenes and expression was observed in transgenic founders from 63 BACs (80%).
  • Consistent and reproducible success in BAC transgenesis required the combination of careful DNA purification, the use of polyamine buffer, and sensitive genotyping assays.

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  • (PMID = 19396621.001).
  • [ISSN] 1573-9368
  • [Journal-full-title] Transgenic research
  • [ISO-abbreviation] Transgenic Res.
  • [Language] ENG
  • [Grant] United States / NCI NIH HHS / CA / P30 CA046592; United States / NCI NIH HHS / CA / CA046592-14; United States / NIDDK NIH HHS / DK / DK034933; United States / NIDDK NIH HHS / DK / P30 DK034933; United States / NIAMS NIH HHS / AR / AR048310; United States / NCI NIH HHS / CA / P30 CA046592-14; United States / NIAMS NIH HHS / AR / P30 AR048310; United States / NIA NIH HHS / AG / P30 AG013283; United States / NCI NIH HHS / CA / CA046592; United States / NIA NIH HHS / AG / AG013283
  • [Publication-type] Journal Article; Research Support, N.I.H., Extramural
  • [Publication-country] Netherlands
  • [Chemical-registry-number] 0 / DNA, Bacterial
  • [Other-IDs] NLM/ NIHMS243268; NLM/ PMC3016422
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67. Maeshima AM, Tochigi N, Tsuta K, Asamura H, Matsuno Y: Histological evaluation of the effect of smoking on peripheral small adenocarcinomas of the lung. J Thorac Oncol; 2008 Jul;3(7):698-703
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  • [Title] Histological evaluation of the effect of smoking on peripheral small adenocarcinomas of the lung.
  • INTRODUCTION: As there is little information on the histologic characteristics of adenocarcinoma in smokers, we histologically examined the effect of smoking on the carcinogenesis and progression of peripheral small lung adenocarcinomas.
  • METHODS: Two hundred thirty-six consecutive patients with peripheral adenocarcinoma of the lung 30 mm or less in diameter were studied.
  • Prognosis, histology, and location of the adenocarcinoma were compared among patients with a Brinkman index (B.I.) of 0, 1 to 500, and more than 500.
  • The rate of carcinogenesis in the upper region of the lung (S1-3) was 1.4 times as high that in the lower region (S4-10) in smokers, but almost equal in the two regions in nonsmokers.
  • Outcome tended to be worse in patients with a B.I. of more than 500 than in those with a B.I. of less than or equal to 500 for adenocarcinomas 30 mm or less in diameter (p = 0.0855), and was significantly worse for adenocarcinomas 20 mm or less in diameter (p = 0.0359).
  • Patients with a high B.I. tended to have invasive adenocarcinoma (IAC) without a bronchioloalveolar carcinoma (BAC) component (IAC - BAC) or IAC with a BAC component (IAC + BAC) rather than noninvasive adenocarcinoma.
  • For adenocarcinomas as a whole, B.I. was correlated with several pathologic prognostic factors, including pathologic stage, lymphatic permeation, vascular invasion, presence of a solid component, necrosis, and modified scar grade, particularly in the upper region.
  • Specifically, in IAC + BAC, B.I. was correlated with modified scar grade and the presence of a solid component.
  • In IAC - BAC, B.I. was correlated with the presence of a solid component and necrosis.
  • CONCLUSIONS: Small adenocarcinoma in smokers seems to occur frequently in the upper region of the lung, shows invasive features more frequently, and shows greater progression and dedifferentiation than that in nonsmokers.
  • Tobacco-smoking may have an effect on the carcinogenesis and multistep progression of peripheral lung adenocarcinoma 30 mm or less in diameter.
  • [MeSH-major] Adenocarcinoma / pathology. Lung Neoplasms / pathology. Smoking / adverse effects
  • [MeSH-minor] Adenocarcinoma, Bronchiolo-Alveolar / etiology. Adenocarcinoma, Bronchiolo-Alveolar / mortality. Adenocarcinoma, Bronchiolo-Alveolar / pathology. Adult. Aged. Aged, 80 and over. Female. Humans. Lung / pathology. Male. Middle Aged. Survival Rate

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  • (PMID = 18594313.001).
  • [ISSN] 1556-1380
  • [Journal-full-title] Journal of thoracic oncology : official publication of the International Association for the Study of Lung Cancer
  • [ISO-abbreviation] J Thorac Oncol
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
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68. Cadranel J, Wislez M, Gounant V, Lavolé A, Antoine M, Milleron B: [Therapeutic management of extensive bronchiolo-alveolar adenocarcinoma: chemotherapy or inhibitors of epidermal growth factor receptor tyrosine kinase?]. Rev Pneumol Clin; 2007 Jun;63(3):147-54
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  • [Title] [Therapeutic management of extensive bronchiolo-alveolar adenocarcinoma: chemotherapy or inhibitors of epidermal growth factor receptor tyrosine kinase?].
  • [Transliterated title] Prise en charge thérapeutique des adénocarcinomes de type bronchiolo-alvéolaires étendus: chimiothérapie ou inhibiteurs de la tyrosine kinase du récepteur de l'epidermal growth factor?
  • Although the 1999 WHO classification, revised in 2004 excludes stage IIIB-IV tumors from the definition of bronchioloalveolar carcinoma (BAC) because they are unresectable, the first international workshop (November 2004, New York) devoted to this tumor emphasized the continuum between the BAC as defined by the WHO and adenocarcinomas with a BAC-like component which presents similar epidemiological, biological, clinical, radiological, prognostic and therapeutic features.
  • These observations led to the suggestion to no include stage IIIB-IV ADC-BAC in studies designed for other non-small-cell lung cancers.
  • The purpose of this review was to analyze the results of prospective studies currently available concerning the treatment of stage IIIB-IV ADC-BAC.
  • These observations point out the importance of further studies examining the proper strategy and to search for new compounds for the treatment of extensive ADC-BAC.
  • [MeSH-major] Adenocarcinoma, Bronchiolo-Alveolar / drug therapy. Antineoplastic Agents / therapeutic use. Lung Neoplasms / drug therapy. Receptor, Epidermal Growth Factor / antagonists & inhibitors

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  • (PMID = 17675938.001).
  • [ISSN] 0761-8417
  • [Journal-full-title] Revue de pneumologie clinique
  • [ISO-abbreviation] Rev Pneumol Clin
  • [Language] fre
  • [Publication-type] English Abstract; Journal Article; Review
  • [Publication-country] France
  • [Chemical-registry-number] 0 / Antineoplastic Agents; 0 / Antineoplastic Agents, Phytogenic; 0 / Protein Kinase Inhibitors; 0 / Quinazolines; DA87705X9K / Erlotinib Hydrochloride; EC 2.7.10.1 / Receptor, Epidermal Growth Factor; P88XT4IS4D / Paclitaxel; S65743JHBS / gefitinib
  • [Number-of-references] 43
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69. Dhingra A, Folta KM: ASAP: amplification, sequencing & annotation of plastomes. BMC Genomics; 2005;6:176
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  • Traditionally, the first step in mining the valuable information within a chloroplast genome requires sequencing a chloroplast plasmid library or BAC clones.
  • These activities involve complicated preparatory procedures like chloroplast DNA isolation or identification of the appropriate BAC clones to be sequenced.

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  • (PMID = 16336644.001).
  • [ISSN] 1471-2164
  • [Journal-full-title] BMC genomics
  • [ISO-abbreviation] BMC Genomics
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.
  • [Publication-country] England
  • [Chemical-registry-number] 0 / DNA Primers; 0 / DNA, Chloroplast; 0 / DNA, Plant
  • [Other-IDs] NLM/ PMC1318494
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70. Tjia WM, Hu L, Zhang MY, Guan XY: Characterization of rearrangements involving 4q, 13q and 16q in hepatocellular carcinoma cell lines using region-specific multiplex-FISH probes. Cancer Lett; 2007 May 18;250(1):92-9
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  • [Title] Characterization of rearrangements involving 4q, 13q and 16q in hepatocellular carcinoma cell lines using region-specific multiplex-FISH probes.
  • Deletions in 4q, 13q and 16q were frequently detected in hepatocellular carcinoma (HCC) by comparative genomic hybridization (CGH) studies.
  • Using CGH combined with multiplex-color FISH (M-FISH) with chromosome region-specific probes (CRPs), chromosome structural aberrations in 4q, 13q and 16q in six HCC cell lines were studied.
  • FISH with BAC probes was used to further characterize translocation breakpoints and deletions.
  • A breakpoint at 16q22 was localized at a BAC clone (RP11-341K23) and another breakpoint at 4q28 was localized within a 620 kb-region.
  • A minimal deleted region at 13q21 was found between BAC clones RP11-240M20 and RP11-435P18.
  • This study demonstrated that the combination of CGH, M-FISH and BAC-FISH is a very useful tool to detect and characterize translocation breakpoint.
  • [MeSH-major] Carcinoma, Hepatocellular / genetics. Chromosome Aberrations. Chromosomes, Human, Pair 13. Chromosomes, Human, Pair 16. Chromosomes, Human, Pair 4. In Situ Hybridization, Fluorescence / methods. Liver Neoplasms / genetics
  • [MeSH-minor] Cell Line, Tumor. Humans. Translocation, Genetic

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  • (PMID = 17098359.001).
  • [ISSN] 0304-3835
  • [Journal-full-title] Cancer letters
  • [ISO-abbreviation] Cancer Lett.
  • [Language] eng
  • [Publication-type] Evaluation Studies; Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] Ireland
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71. Guo W, Cai C, Wang C, Zhao L, Wang L, Zhang T: A preliminary analysis of genome structure and composition in Gossypium hirsutum. BMC Genomics; 2008;9:314
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  • Here, we employed GeneTrek and BAC tagging information approaches to predict the general composition and structure of the allotetraploid cotton genome.
  • RESULTS: 142 BAC sequences from Gossypium hirsutum cv.
  • These BAC sequence analysis revealed that the tetraploid cotton genome contains over 70,000 candidate genes with duplicated gene copies in homoeologous A- and D-subgenome regions.
  • Twenty-one percent of the 142 BACs lacked genes.
  • BAC gene density ranged from 0 to 33.2 per 100 kb, whereas most gene islands contained only one gene with an average of 1.5 genes per island.
  • In addition, 166 polymorphic loci amplified with SSRs developed from 70 BAC clones were tagged on our backbone genetic map.
  • Hai7124, and diploid G. herbaceum var. africanum and G. raimondii, 37 BACs, 12 from the A- and 25 from the D-subgenome, were further anchored to their corresponding subgenome chromosomes.
  • After a large amount of genes sequence comparison from different subgenome BACs, the result showed that introns might have no contribution to different subgenome size in Gossypium.
  • [MeSH-major] Chromosomes, Artificial, Bacterial. Genome, Plant. Gossypium / genetics. Polyploidy. Sequence Analysis, DNA

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  • (PMID = 18590573.001).
  • [ISSN] 1471-2164
  • [Journal-full-title] BMC genomics
  • [ISO-abbreviation] BMC Genomics
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 0 / Genetic Markers; 0 / Retroelements
  • [Other-IDs] NLM/ PMC2481271
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72. Bugdayci G, Kaplan T, Sezer S, Turhan T, Koca Y, Kocer B, Yildirim E: Matrix metalloproteinase-9 in broncho-alveolar lavage fluid of patients with non-small cell lung cancer. Exp Oncol; 2006 Jun;28(2):169-71
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  • [Title] Matrix metalloproteinase-9 in broncho-alveolar lavage fluid of patients with non-small cell lung cancer.
  • AIM: To evaluate concentration of MMP-9 in blood plasma and broncho-alveolar lavage fluid (BALF) from patients with non-small cell lung cancer (NSCLC).
  • Correlation between MMP-9 level and gender, histological type of tumor and stage of disease was analyzed.
  • RESULTS: Levels of blood plasma MMP-9 were significantly higher in NSCLC patients (p < 0.0001) then in control group, and were especially high in patients with stage IV of disease (stage I vs stage IV - p < 0.005, stage II vs stage IV - p < 0.01, stage III vs stage IV - p < 0.01).
  • [MeSH-major] Bronchoalveolar Lavage Fluid / chemistry. Carcinoma, Non-Small-Cell Lung / diagnosis. Lung Neoplasms / diagnosis. Matrix Metalloproteinase 9 / analysis

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  • (PMID = 16837913.001).
  • [ISSN] 1812-9269
  • [Journal-full-title] Experimental oncology
  • [ISO-abbreviation] Exp. Oncol.
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] Ukraine
  • [Chemical-registry-number] EC 3.4.24.35 / Matrix Metalloproteinase 9
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73. Vorstman JA, Jalali GR, Rappaport EF, Hacker AM, Scott C, Emanuel BS: MLPA: a rapid, reliable, and sensitive method for detection and analysis of abnormalities of 22q. Hum Mutat; 2006 Aug;27(8):814-21
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  • All samples in the training set have been previously characterized by fluorescence in situ hybridization (FISH) with cosmid or BAC clones and/or cytogenetic studies.
  • Given that MLPA is likely to be used as an initial screening method, a higher sensitivity, at the cost of a lower specificity, was deemed more appropriate.

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  • (PMID = 16791841.001).
  • [ISSN] 1098-1004
  • [Journal-full-title] Human mutation
  • [ISO-abbreviation] Hum. Mutat.
  • [Language] ENG
  • [Grant] United States / NCI NIH HHS / CA / CA 39926; United States / NICHD NIH HHS / HD / HD26979; United States / NICHD NIH HHS / HD / P30 HD026979; United States / NCI NIH HHS / CA / R01 CA039926-18; United States / NCI NIH HHS / CA / CA039926-18; United States / NIDCD NIH HHS / DC / DC02027; United States / NCI NIH HHS / CA / R01 CA039926; United States / NIDCD NIH HHS / DC / P01 DC002027
  • [Publication-type] Evaluation Studies; Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Other-IDs] NLM/ NIHMS160121; NLM/ PMC2814414
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74. Park JH, Lee KS, Kim JH, Shim YM, Kim J, Choi YS, Yi CA: Malignant pure pulmonary ground-glass opacity nodules: prognostic implications. Korean J Radiol; 2009 Jan-Feb;10(1):12-20
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  • [Title] Malignant pure pulmonary ground-glass opacity nodules: prognostic implications.
  • OBJECTIVE: This study was designed to evaluate follow-up results in terms of patient prognosis for malignant pulmonary nodules depicted as pure ground-glass opacity (GGO) lesion observed at high-resolution CT (HRCT).
  • MATERIALS AND METHODS: Surgical removal for malignant GGO nodules was accomplished in 58 patients (26 men, 32 women; mean age, 57 years; age range, 29-78 years).
  • Differences in patient prognoses were compared for nodule number, size, surgical method, change in size before surgical removal, and histopathological diagnosis by use of Fisher's exact test and Pearson's chi-squared test.
  • RESULTS: Of the 58 patients, 40 patients (69%) were confirmed to have a bronchioloalveolar carcinoma (BAC) and 18 patients (31%) were confirmed to have an adenocarcinoma with a predominant BAC component.
  • Irrespective of nodule size, number, treatment method, change in size before surgical removal and histopathological diagnosis, neither local recurrence nor a metastasis occurred in any of these patients as determined at a follow-up period of 24 months (range; 12-65 months).
  • CONCLUSION: Prognoses in patients with pure GGO malignant pulmonary nodules are excellent, and not significantly different in terms of nodule number, size, surgical method, presence of size change before surgical removal and histopathological diagnosis.
  • [MeSH-major] Lung Neoplasms / radiography. Multiple Pulmonary Nodules / radiography. Solitary Pulmonary Nodule / radiography. Tomography, X-Ray Computed
  • [MeSH-minor] Adenocarcinoma / pathology. Adenocarcinoma / radiography. Adenocarcinoma / surgery. Adenocarcinoma, Bronchiolo-Alveolar / pathology. Adenocarcinoma, Bronchiolo-Alveolar / radiography. Adenocarcinoma, Bronchiolo-Alveolar / surgery. Adult. Female. Humans. Male. Middle Aged. Prognosis. Young Adult

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  • (PMID = 19182498.001).
  • [ISSN] 1229-6929
  • [Journal-full-title] Korean journal of radiology
  • [ISO-abbreviation] Korean J Radiol
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] Korea (South)
  • [Other-IDs] NLM/ PMC2647178
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75. Kim YT, Kim TY, Lee DS, Park SJ, Park JY, Seo SJ, Choi HS, Kang HJ, Hahn S, Kang CH, Sung SW, Kim JH: Molecular changes of epidermal growth factor receptor (EGFR) and KRAS and their impact on the clinical outcomes in surgically resected adenocarcinoma of the lung. Lung Cancer; 2008 Jan;59(1):111-8
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  • [Title] Molecular changes of epidermal growth factor receptor (EGFR) and KRAS and their impact on the clinical outcomes in surgically resected adenocarcinoma of the lung.
  • Recent studies have reported that clinical response to epidermal growth factor receptor (EGFR) inhibitors is associated with somatic changes of EGFR in the advanced stage of lung cancer.
  • However, there is no clear data demonstrating whether such molecular changes of EGFR per se can affect the clinical outcome of early stage cancer after surgical resection.
  • DNA mutations of EGFR and KRAS were investigated in 71 adenocarcinoma patients who received surgical resection.
  • EGFR mutation was more frequently found in cases with BAC features (13/22 (59.1%):13/49 (26.5%); p=0.008) and in non-smokers (19/41 (46.3%):7/30 (23.3%); p=0.047).
  • KRAS mutations (p=0.000), male gender (p=0.001), absence of BAC feature (p=0.003), advanced stage (p=0.039), and smoking history (p=0.030) were poor prognostic factors for overall survival, whereas EGFR mutation (p=0.184) and amplification (p=0.756) were not.
  • The presence of EGFR mutation was not a prognostic factor of the clinical outcome of early lung cancer after surgical resection.
  • This result provides an important message for the protocol design of future trials of EGFR inhibitors in early lung cancer.
  • DNA mutations of EGFR and KRAS were investigated in 71 adenocarcinoma patients who received surgical resection.
  • Whereas KRAS mutation was a poor prognostic factor, EGFR mutation was not, and its presence per se did not affect the clinical outcome of early lung cancer after surgical resection.
  • [MeSH-major] Adenocarcinoma / genetics. Genes, ras. Lung Neoplasms / genetics. Mutation. Receptor, Epidermal Growth Factor / genetics

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  • (PMID = 17904685.001).
  • [ISSN] 0169-5002
  • [Journal-full-title] Lung cancer (Amsterdam, Netherlands)
  • [ISO-abbreviation] Lung Cancer
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] Ireland
  • [Chemical-registry-number] EC 2.7.10.1 / Receptor, Epidermal Growth Factor
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76. Domi A, Moss B: Engineering of a vaccinia virus bacterial artificial chromosome in Escherichia coli by bacteriophage lambda-based recombination. Nat Methods; 2005 Feb;2(2):95-7
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  • [Title] Engineering of a vaccinia virus bacterial artificial chromosome in Escherichia coli by bacteriophage lambda-based recombination.
  • Here we describe how a bacterial artificial chromosome (BAC) containing the entire VAC genome can be engineered in Escherichia coli by homologous recombination using bacteriophage lambda-encoded enzymes.
  • [MeSH-major] Bacteriophage lambda / genetics. Chromosomes, Artificial, Bacterial / genetics. Escherichia coli / genetics. Escherichia coli / virology. Genetic Engineering / methods. Transfection / methods. Vaccinia / genetics
  • [MeSH-minor] Cloning, Molecular / methods. Genome, Bacterial. Genome, Viral. Recombination, Genetic / genetics. Transformation, Bacterial / genetics

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  • (PMID = 15782205.001).
  • [ISSN] 1548-7091
  • [Journal-full-title] Nature methods
  • [ISO-abbreviation] Nat. Methods
  • [Language] eng
  • [Publication-type] Evaluation Studies; Journal Article
  • [Publication-country] United States
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77. Serikawa T, Mashimo T, Takizawa A, Okajima R, Maedomari N, Kumafuji K, Tagami F, Neoda Y, Otsuki M, Nakanishi S, Yamasaki K, Voigt B, Kuramoto T: National BioResource Project-Rat and related activities. Exp Anim; 2009 Jul;58(4):333-41
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  • This review article introduces NBRP-Rat and highlights the phenome project, recombinant inbred strains, BAC clone libraries, and the ENU-mutant archive, named the Kyoto University Rat Mutant Archive (KURMA).

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  • (PMID = 19654430.001).
  • [ISSN] 1881-7122
  • [Journal-full-title] Experimental animals
  • [ISO-abbreviation] Exp. Anim.
  • [Language] ENG
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't; Review
  • [Publication-country] Japan
  • [Number-of-references] 29
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78. Pérez López ME, García Mata J, García Gómez J, Salgado Fernández M, Fírvida Pérez JL: [Prostate adenocarcinoma and synchcronous multiple myeloma: a case report]. Actas Urol Esp; 2007 Feb;31(2):157-9
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  • [Title] [Prostate adenocarcinoma and synchcronous multiple myeloma: a case report].
  • [Transliterated title] Adenocarcinoma prostático y mieloma múltiple sincrónicos: a propósito de un caso.
  • PURPOSE: To report a case of synchronous prostatic cancer with multiple myeloma as inusual neoplasm presentation.
  • To indicate the clinical data that they help to suspect the myeloma presence in the prostate bone metastatic disease.
  • CASE REPORT: Patient 63 years old diagnosed of prostatic carcinoma with bone metastasis and BAC good responsive, who have clinical deterioration, hypercalcemia and renal insufficiency.
  • [MeSH-major] Adenocarcinoma / diagnosis. Multiple Myeloma / diagnosis. Neoplasms, Multiple Primary / diagnosis. Prostatic Neoplasms / diagnosis

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  • (PMID = 17645096.001).
  • [ISSN] 0210-4806
  • [Journal-full-title] Actas urologicas españolas
  • [ISO-abbreviation] Actas Urol Esp
  • [Language] spa
  • [Publication-type] Case Reports; English Abstract; Journal Article
  • [Publication-country] Spain
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79. Laskin JJ, Sandler AB, Johnson DH: Redefining bronchioloalveolar carcinoma. Semin Oncol; 2005 Jun;32(3):329-35
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  • [Title] Redefining bronchioloalveolar carcinoma.
  • Bronchioloalveolar carcinoma (BAC) is a subtype of non-small cell lung cancer (NSCLC) with distinct clinical and pathologic features.
  • Although BAC appears to be on a pathologic continuum with adenocarcinoma, the most recent World Health Organization (WHO) classification system has set stringent criteria for the diagnosis.
  • Though malignant, these cancers tend to be peripheral and grow in a lepedic fashion along the alveolar septae without parenchymal invasion.
  • This clear distinction based on histopathology allows for a more definite separation of the natural history and behavior of BAC in clinical studies.
  • Recent clinical trials of molecular targeted anticancer therapies have led to a deeper understanding of the unique features of this cancer and suggest that BAC may require a different therapeutic paradigm from other NSCLCs.
  • [MeSH-major] Adenocarcinoma, Bronchiolo-Alveolar. Lung Neoplasms

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  • (PMID = 15988687.001).
  • [ISSN] 0093-7754
  • [Journal-full-title] Seminars in oncology
  • [ISO-abbreviation] Semin. Oncol.
  • [Language] eng
  • [Publication-type] Journal Article; Review
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Antineoplastic Agents
  • [Number-of-references] 49
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80. Fan ZC, Bird RC: Generation and characterization of an Npro-disrupted marker bovine viral diarrhea virus derived from a BAC cDNA. J Virol Methods; 2008 Aug;151(2):257-63
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  • [Title] Generation and characterization of an Npro-disrupted marker bovine viral diarrhea virus derived from a BAC cDNA.
  • In this study, an N(pro)-disrupted cDNA, pBSD1-N(pro)/eGFP2A, was constructed based on an infectious full-length BAC cDNA clone of NCP BVDV strain SD1, pBSD1.
  • In this clone, whole N(pro) gene except its first 57 nucleotides (nt) was in frame substituted with an eGFP2A sequence. eGFP2A was constructed by in frame fusing a foot-and-mouth disease virus 2A protease (FMDV 2A(pro)) to C-terminus of eGFP.
  • Intramolecular cleavage of FMDV 2A(pro) at its C-terminal glycine-proline dipeptide will release the viral nucleocapsid protein from the nascent viral polyprotein and the processed eGFP2A protein will then act as a marker protein.
  • The resulting BAC cDNA clone was propagated stably for at least 10 passages in E. coli strain XL1-blue as determined by sequencing the progeny plasmids.
  • [MeSH-minor] Animals. Bovine Virus Diarrhea-Mucosal Disease / epidemiology. Cattle. Cell Line. DNA Primers. DNA, Complementary. Genes, Reporter. Genetic Markers. Immunoblotting. Kidney. United States / epidemiology

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  • (PMID = 18555541.001).
  • [ISSN] 0166-0934
  • [Journal-full-title] Journal of virological methods
  • [ISO-abbreviation] J. Virol. Methods
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] Netherlands
  • [Chemical-registry-number] 0 / DNA Primers; 0 / DNA, Complementary; 0 / DNA, Viral; 0 / Genetic Markers; 0 / Npro protein, bovine viral diarrhea virus; 0 / Viral Proteins
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81. Sak SD, Koseoglu RD, Demirag F, Akbulut H, Gungor A: Alveolar adenoma of the lung. Immunohistochemical and flow cytometric characteristics of two new cases and a review of the literature. APMIS; 2007 Dec;115(12):1443-9
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  • [Title] Alveolar adenoma of the lung. Immunohistochemical and flow cytometric characteristics of two new cases and a review of the literature.
  • Alveolar adenoma is a rare and benign tumour of the lung that usually presents in asymptomatic patients as a coin lesion on chest radiography.
  • Alveolar adenoma has a characteristic multicystic histology and often resembles the normal lung parenchyma.
  • Immunohistochemical analysis may aid in the characterization of alveolar adenoma and discriminate this condition from other types of benign lesions of the lung.
  • An indolent clinical progression and absence of recurrence and metastasis after complete resection are the most important characteristics indicative of the benign nature of alveolar adenoma.
  • Few studies have been conducted at the molecular level, such as by flow cytometry, with the objective of characterizing the biological nature of alveolar adenoma.
  • Differential diagnoses include sclerosing hemangioma, papillary adenoma, lymphangioma, atypical adenomatous hyperplasia and bronchioloalveolar carcinoma.
  • [MeSH-minor] Biomarkers, Tumor / analysis. Cell Proliferation. Flow Cytometry. Humans. Immunohistochemistry. Lung Neoplasms / genetics. Lung Neoplasms / metabolism. Lung Neoplasms / pathology. Male. Middle Aged. Tumor Suppressor Protein p53 / biosynthesis

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  • (PMID = 18184418.001).
  • [ISSN] 0903-4641
  • [Journal-full-title] APMIS : acta pathologica, microbiologica, et immunologica Scandinavica
  • [ISO-abbreviation] APMIS
  • [Language] eng
  • [Publication-type] Case Reports; Journal Article
  • [Publication-country] Denmark
  • [Chemical-registry-number] 0 / Biomarkers, Tumor; 0 / Tumor Suppressor Protein p53
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82. Shvartsbeyn M, Edelman MJ: Pemetrexed-induced typhlitis in non-small cell lung cancer. J Thorac Oncol; 2008 Oct;3(10):1188-90
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  • [Title] Pemetrexed-induced typhlitis in non-small cell lung cancer.
  • Food and Drug Administration-approved as a second line, single-agent treatment of recurrent metastatic non-small cell lung cancer.
  • The diagnosis is supported by the findings of bowel wall thickening on computed tomographic imaging.
  • [MeSH-major] Antineoplastic Agents / adverse effects. Carcinoma, Non-Small-Cell Lung / drug therapy. Glutamates / adverse effects. Guanine / analogs & derivatives. Lung Neoplasms / drug therapy. Typhlitis / chemically induced
  • [MeSH-minor] Adenocarcinoma, Bronchiolo-Alveolar / complications. Adenocarcinoma, Bronchiolo-Alveolar / drug therapy. Adenocarcinoma, Bronchiolo-Alveolar / radiography. Adult. Female. Humans. Pemetrexed. Thymidylate Synthase / antagonists & inhibitors. Tomography, X-Ray Computed

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  • (PMID = 18827618.001).
  • [ISSN] 1556-1380
  • [Journal-full-title] Journal of thoracic oncology : official publication of the International Association for the Study of Lung Cancer
  • [ISO-abbreviation] J Thorac Oncol
  • [Language] eng
  • [Publication-type] Case Reports; Journal Article
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Antineoplastic Agents; 0 / Glutamates; 04Q9AIZ7NO / Pemetrexed; 5Z93L87A1R / Guanine; EC 2.1.1.45 / Thymidylate Synthase
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83. Minami Y, Matsuno Y, Iijima T, Morishita Y, Onizuka M, Sakakibara Y, Noguchi M: Prognostication of small-sized primary pulmonary adenocarcinomas by histopathological and karyometric analysis. Lung Cancer; 2005 Jun;48(3):339-48
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  • [Title] Prognostication of small-sized primary pulmonary adenocarcinomas by histopathological and karyometric analysis.
  • To reveal useful prognostic factors in cases of small-sized pulmonary adenocarcinoma, we conducted a histological and karyometric analysis of 116 small-sized pulmonary adenocarcinomas measuring less than 2 cm in maximum diameter and four specimens of atypical adenomatous hyperplasia (AAH).
  • The small-sized pulmonary adenocarcinomas were classified by using criteria described previously [Noguchi M, Morikawa A, Kawasaki M, et al.
  • Small adenocarcinoma of the lung.
  • Lung Cancer 1995:75;2844-52].
  • There were 99 tumors of replacement-type adenocarcinoma, comprising 11 type A, localized bronchioloalveolar adenocarcinoma (LBAC); 6 type B, LBAC with alveolar collapse; and 82 type C, LBAC with foci of fibroblastic proliferation.
  • The 17 remaining tumors were non-replacement-type adenocarcinomas.
  • Furthermore, in patients with type C adenocarcinomas, a small fibroblastic proliferation (F) to fibrosis area (f) ratio (F-f ratio) (<10%) of the tumor and a small maximum nuclear diameter (Max ND; <13.50 microm) of tumor cells were closely associated with an excellent prognosis.
  • Histological subtypes of type A and B adenocarcinomas, a small F-f ratio, and a small Max ND of type C adenocarcinomas were closely correlated with an excellent prognosis in small-sized adenocarcinoma.
  • [MeSH-major] Adenocarcinoma / genetics. Adenocarcinoma / pathology. Carcinoma, Non-Small-Cell Lung / genetics. Carcinoma, Non-Small-Cell Lung / pathology. Lung Neoplasms / genetics. Lung Neoplasms / pathology
  • [MeSH-minor] Adult. Aged. Aged, 80 and over. Cell Nucleus / ultrastructure. Cell Proliferation. Disease-Free Survival. Female. Fibroblasts. Humans. Karyotyping. Male. Middle Aged. Neoplasm Staging / methods. Prognosis. Survival Analysis

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  • (PMID = 15893002.001).
  • [ISSN] 0169-5002
  • [Journal-full-title] Lung cancer (Amsterdam, Netherlands)
  • [ISO-abbreviation] Lung Cancer
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] Ireland
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84. Oldenburg RA, Kroeze-Jansema KH, Houwing-Duistermaat JJ, Bayley JP, Dambrot C, van Asperen CJ, van den Ouweland AM, Bakker B, van Beers EH, Nederlof PM, Vasen H, Hoogerbrugge N, Cornelisse CJ, Meijers-Heijboer H, Devilee P: Genome-wide linkage scan in Dutch hereditary non-BRCA1/2 breast cancer families identifies 9q21-22 as a putative breast cancer susceptibility locus. Genes Chromosomes Cancer; 2008 Nov;47(11):947-56
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  • [Title] Genome-wide linkage scan in Dutch hereditary non-BRCA1/2 breast cancer families identifies 9q21-22 as a putative breast cancer susceptibility locus.
  • Breast cancer accounts for over 20% of all female cancers.
  • A positive family history remains one of the most important risk factors for the disease, with first-degree relatives of patients having a twofold elevated risk.
  • Known breast cancer susceptibility genes such as BRCA1 and BRCA2 explain only 20-25% of this risk, suggesting the existence of other breast cancer susceptibility genes.
  • Here, we report the results of a genome-wide linkage scan in 55 high-risk Dutch breast cancer families with no mutations in BRCA1 and BRCA2.
  • Twenty-two of these families were also part of a previous linkage study by the Breast Cancer Linkage Consortium.
  • With CGH analyses we observed preferential copy number loss at BAC RP11-276H19, containing D9S167 in familial tumors as compared to sporadic tumors (P < 0.001).
  • [MeSH-major] Breast Neoplasms / genetics. Chromosomes, Human, Pair 9 / genetics. Genetic Linkage. Genetic Predisposition to Disease. Genome, Human


85. Qiu SQ, Liu K, Jiang JX, Song X, Xu CG, Li XH, Zhang Q: Delimitation of the rice wide compatibility gene S5 ( n ) to a 40-kb DNA fragment. Theor Appl Genet; 2005 Oct;111(6):1080-6
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  • A physical map consisting of six overlapping BAC clones was formed, spanning a genomic region of 540-kb in length.
  • [MeSH-minor] Aspartic Acid Endopeptidases / genetics. Chromosomes, Artificial, Bacterial. Crosses, Genetic. Fertility / genetics. Fucosyltransferases / genetics. Heat-Shock Proteins / genetics. Molecular Chaperones / genetics. Polymorphism, Restriction Fragment Length. Sequence Analysis, DNA

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  • [ISSN] 0040-5752
  • [Journal-full-title] TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik
  • [ISO-abbreviation] Theor. Appl. Genet.
  • [Language] eng
  • [Publication-type] Comparative Study; Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] Germany
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86. Rajamohan F, Harris MS, Frisbie RK, Hoth LR, Geoghegan KF, Valentine JJ, Reyes AR, Landro JA, Qiu X, Kurumbail RG: Escherichia coli expression, purification and characterization of functional full-length recombinant alpha2beta2gamma3 heterotrimeric complex of human AMP-activated protein kinase. Protein Expr Purif; 2010 Oct;73(2):189-97
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  • [Title] Escherichia coli expression, purification and characterization of functional full-length recombinant alpha2beta2gamma3 heterotrimeric complex of human AMP-activated protein kinase.
  • The muscle-specific AMPK heterotrimeric complex (alpha2beta2gamma3) is involved in glucose and fat metabolism in skeletal muscle and therefore has emerged as an attractive target for drug development for diabetes and metabolic syndrome.
  • Here we describe the expression, purification and biochemical characterization of functional full-length AMPK alpha2beta2gamma3 heterotrimeric complex using an Escherichia coli expression system.
  • All three subunits of AMPK alpha2beta2gamma3 were transcribed as a single tricistronic transcript driven by the T7 RNA polymerase promoter, allowing spontaneous formation of the heterotrimeric complex in the bacterial cytosol.
  • The self-assembled trimeric complex was purified from the cell lysate by nickel-ion chromatography using the hexahistidine tag fused exclusively at the N-terminus of the alpha 2 domain.
  • The final yield of the recombinant AMPK alpha2beta2gamma3 complex was 1.1mg/L culture in shaker flasks.
  • The kinase activity of activated AMPK alpha2beta2gamma3 complex was significantly enhanced by AMP (an allosteric activator) but not by thienopyridone A-769662, a known small molecule activator of AMPK.
  • Mass spectrometric characterization of recombinant AMPK alpha2beta2gamma3 showed significant heterogeneity before and after activation that could potentially hamper crystallographic studies of this complex.

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  • [Copyright] Copyright 2010 Elsevier Inc. All rights reserved.
  • (PMID = 20451617.001).
  • [ISSN] 1096-0279
  • [Journal-full-title] Protein expression and purification
  • [ISO-abbreviation] Protein Expr. Purif.
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / A 769662; 0 / Cyclic AMP-Dependent Protein Kinase RIIbeta Subunit; 0 / Protein Subunits; 0 / Pyrones; 0 / Recombinant Proteins; 0 / Thiophenes; 415SHH325A / Adenosine Monophosphate; EC 2.7.11.1 / AMP-Activated Protein Kinases; EC 2.7.11.1 / Protein-Serine-Threonine Kinases; EC 2.7.11.17 / Calcium-Calmodulin-Dependent Protein Kinase Kinase
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87. Khandani AH, Whitney KD, Keller SM, Isasi CR, Donald Blaufox M: Sensitivity of FDG PET, GLUT1 expression and proliferative index in bronchioloalveolar lung cancer. Nucl Med Commun; 2007 Mar;28(3):173-7
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  • [Title] Sensitivity of FDG PET, GLUT1 expression and proliferative index in bronchioloalveolar lung cancer.
  • OBJECTIVE: To estimate the sensitivity of [F] fluorodeoxyglucose (FDG) positron emission tomography (PET) and to assess the expression of glucose transporter 1 (GLUT1) and proliferative index (PI) in bronchioloalveolar lung cancer (BAC).
  • METHODS: Twenty-four patients with resected BAC underwent preoperative PET between October 1996 and February 2003.
  • The surgical specimens were re-examined, and 18 patients who fulfilled the 1999 WHO definition for BAC were included in the study.
  • The pathology slides were stained with antibodies to GLUT1 and Proliferating cell nuclear antigen (PCNA) in order to determine GLUT1 expression and PI, respectively.
  • RESULTS: There were 13 cases of PET+ BAC (sensitivity, 72%; confidence interval, 52-93%); seven of them were GLUT1+ cases and six were GLUT1-.
  • The stromal cell PI was significantly higher in GLUT1+ BAC compared to GLUT- BAC (50.9+/-17.1 vs. 33.2+/-14.2, P=0.0286), and higher in PET+ BAC compared to PET- BAC (45.5+/-15.3 vs. 29.6+/-19.6, P=0.0854).
  • CONCLUSION: After applying the 1999 WHO criteria, the sensitivity of PET for detecting BAC is still relatively low.
  • Other glucose transporters such as GLUT3 likely play a role in FDG uptake in BAC.
  • GLUT1+ or PET+ BAC tumours have a higher stromal cell PI when compared to GLUT1- BAC or PET- BAC tumours, respectively.
  • [MeSH-major] Bronchial Neoplasms / diagnosis. Glucose Transporter Type 1 / biosynthesis. Lung Neoplasms / diagnosis
  • [MeSH-minor] Cell Proliferation. Cesium. Epithelial Cells / pathology. Fluorodeoxyglucose F18. Humans. Lung / pathology. Positron-Emission Tomography. Proliferating Cell Nuclear Antigen / biosynthesis. Proliferating Cell Nuclear Antigen / genetics. Radiopharmaceuticals. Stromal Cells / pathology. Tomography, X-Ray Computed


88. Yang Y, Gozen O, Vidensky S, Robinson MB, Rothstein JD: Epigenetic regulation of neuron-dependent induction of astroglial synaptic protein GLT1. Glia; 2010 Feb;58(3):277-86
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  • In this study, we established a procedure to selectively isolate a pure astrocyte population in vitro and in vivo from BAC GLT1 eGFP mice using an eGFP-based fluorescence-activated cell sorting approach.

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  • [Copyright] (c) 2009 Wiley-Liss, Inc.
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  • (PMID = 19672971.001).
  • [ISSN] 1098-1136
  • [Journal-full-title] Glia
  • [ISO-abbreviation] Glia
  • [Language] ENG
  • [Grant] United States / NINDS NIH HHS / NS / R01 NS036465; United States / NINDS NIH HHS / NS / R01 NS052179; United States / NINDS NIH HHS / NS / NS33958; United States / NINDS NIH HHS / NS / NS036465; United States / NINDS NIH HHS / NS / NS052179-05; United States / NINDS NIH HHS / NS / R01 NS033958-09; United States / NINDS NIH HHS / NS / R01 NS033958; United States / NINDS NIH HHS / NS / R01 NS052179-05; United States / NINDS NIH HHS / NS / NS033958-09
  • [Publication-type] Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Excitatory Amino Acid Transporter 2; 0 / Neurotoxins; 0 / Repressor Proteins; 3KX376GY7L / Glutamic Acid
  • [Other-IDs] NLM/ NIHMS136480; NLM/ PMC2794958
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89. Bonnet C, Grégoire MJ, Vibert M, Raffo E, Leheup B, Jonveaux P: Cryptic 7q21 and 9p23 deletions in a patient with apparently balanced de novo reciprocal translocation t(7;9)(q21;p23) associated with a dystonia-plus syndrome: paternal deletion of the epsilon-sarcoglycan (SGCE) gene. J Hum Genet; 2008;53(10):876-85
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  • [Title] Cryptic 7q21 and 9p23 deletions in a patient with apparently balanced de novo reciprocal translocation t(7;9)(q21;p23) associated with a dystonia-plus syndrome: paternal deletion of the epsilon-sarcoglycan (SGCE) gene.
  • Genetic investigations allowed the identification of an apparently balanced de novo reciprocal translocation, t(7;9)(q21;p23).
  • Breakpoint-region mapping using fluorescent in situ hybridization (FISH) analysis of bacterial artificial chromosome (BAC) clone probes identified microdeletions of 3.7 and 5.2 Mb within 7q21 and 9p23 breakpoint regions, respectively.
  • These results emphasize that the phenotypic abnormalities of apparently balanced de novo translocations can be due to cryptic deletions and that the precise mapping of these aneusomies may improve clinical management.

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  • (PMID = 18651096.001).
  • [ISSN] 1434-5161
  • [Journal-full-title] Journal of human genetics
  • [ISO-abbreviation] J. Hum. Genet.
  • [Language] eng
  • [Publication-type] Case Reports; Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] Japan
  • [Chemical-registry-number] 0 / SGCE protein, human; 0 / Sarcoglycans
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90. Rossi MR, Laduca J, Cowell JK, Srivastava BI, Matsui S: Genomic analysis of CD8+ NK/T cell line, 'SRIK-NKL', with array-based CGH (aCGH), SKY/FISH and molecular mapping. Leuk Res; 2008 Mar;32(3):455-63
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  • [Title] Genomic analysis of CD8+ NK/T cell line, 'SRIK-NKL', with array-based CGH (aCGH), SKY/FISH and molecular mapping.
  • We performed aCGH, SKY/FISH, molecular mapping and expression analyses on a permanent CD8+ NK/T cell line, 'SRIK-NKL' established from a lymphoma (ALL) patient, in attempt to define the fundamental genetic profile of its unique NK phenotypes. aCGH revealed hemizygous deletion of 6p containing genes responsible for hematopoietic functions.
  • The FISH analysis using a BAC which contains TRA@ and its flanking region further revealed a approximately 231kb deletion within 14q11 in the der(5) but not in the normal homologue of no. 14.
  • The RT-PCR analysis detected mRNA for TRA@ transcripts which were extending across, but not including, the deleted region.
  • In addition to rcpt(5;14), aCGH identified novel copy number abnormalities suggesting that the unique phenotype of the SRIK-NKL cell line is not solely due to the TRA@ rearrangement.

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  • (PMID = 17640729.001).
  • [ISSN] 0145-2126
  • [Journal-full-title] Leukemia research
  • [ISO-abbreviation] Leuk. Res.
  • [Language] ENG
  • [Grant] United States / NCI NIH HHS / CA / CA016056-31; United States / NCI NIH HHS / CA / P30 CA016056; United States / NCI NIH HHS / CA / CA 16056; United States / NCI NIH HHS / CA / P30 CA016056-31
  • [Publication-type] Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 0 / Antigens, CD8
  • [Other-IDs] NLM/ NIHMS42920; NLM/ PMC2855542
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96. Chaves LD, Harry DE, Reed KM: Genome-wide genetic diversity of 'Nici', the DNA source for the CHORI-260 turkey BAC library and candidate for whole genome sequencing. Anim Genet; 2009 Jun;40(3):348-52
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  • [Title] Genome-wide genetic diversity of 'Nici', the DNA source for the CHORI-260 turkey BAC library and candidate for whole genome sequencing.
  • Here we examined the source DNA [Nicholas inbred (Nici)] of the CHORI-260 turkey bacterial artificial chromosome (BAC) library through analysis of microsatellites and BAC sequences.
  • [MeSH-major] Chromosomes, Artificial, Bacterial / genetics. DNA / genetics. Turkeys / genetics

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  • (PMID = 19292710.001).
  • [ISSN] 1365-2052
  • [Journal-full-title] Animal genetics
  • [ISO-abbreviation] Anim. Genet.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 9007-49-2 / DNA
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97. Bierie B, Stover DG, Abel TW, Chytil A, Gorska AE, Aakre M, Forrester E, Yang L, Wagner KU, Moses HL: Transforming growth factor-beta regulates mammary carcinoma cell survival and interaction with the adjacent microenvironment. Cancer Res; 2008 Mar 15;68(6):1809-19
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  • [Title] Transforming growth factor-beta regulates mammary carcinoma cell survival and interaction with the adjacent microenvironment.
  • Using Cre/LoxP technology, with the whey acidic protein promoter driving transgenic expression of Cre recombinase (WAP-Cre), we have now ablated the type II TGF-beta receptor (T beta RII) expression specifically within mouse mammary alveolar progenitors.
  • Transgenic expression of the polyoma virus middle T antigen, under control of the mouse mammary tumor virus enhancer/promoter, was used to produce mammary tumors in the absence or presence of Cre (T beta RII((fl/fl);PY) and T beta RII((fl/fl);PY;WC), respectively).
  • The loss of TGF-beta signaling was significantly correlated with increased tumor size and enhanced carcinoma cell survival.
  • In addition, we observed significant differences in stromal fibrovascular abundance and composition accompanied by increased recruitment of F4/80(+) cell populations in T beta RII((fl/fl);PY;WC) mice when compared with T beta RII((fl/fl);PY) controls.
  • Notably, we also identified an enriched K5(+) dNp63(+) cell population in primary T beta RII((fl/fl);PY;WC) tumors and corresponding pulmonary metastases, suggesting that loss of TGF-beta signaling in this subset of carcinoma cells can contribute to metastasis.
  • Together, our current results indicate that loss of TGF-beta signaling in mammary alveolar progenitors may affect tumor initiation, progression, and metastasis through regulation of both intrinsic cell signaling and adjacent stromal-epithelial interactions in vivo.
  • [MeSH-minor] Animals. Bone Marrow Cells / metabolism. Bone Marrow Cells / pathology. Breast Cyst / metabolism. Breast Cyst / pathology. Cell Differentiation / physiology. Cell Survival / physiology. Disease Progression. Hyperplasia / metabolism. Hyperplasia / pathology. Lung Neoplasms / metabolism. Lung Neoplasms / secondary. Mice. Neoplastic Stem Cells / metabolism. Neoplastic Stem Cells / pathology. Precancerous Conditions / metabolism. Precancerous Conditions / pathology. Protein-Serine-Threonine Kinases / deficiency. Protein-Serine-Threonine Kinases / metabolism. Receptors, Transforming Growth Factor beta / deficiency. Receptors, Transforming Growth Factor beta / metabolism. Signal Transduction. Stromal Cells / metabolism. Stromal Cells / pathology

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  • (PMID = 18339861.001).
  • [ISSN] 1538-7445
  • [Journal-full-title] Cancer research
  • [ISO-abbreviation] Cancer Res.
  • [Language] eng
  • [Grant] United States / NCI NIH HHS / CA / CA085492-06; United States / NCI NIH HHS / CA / CA102162; United States / NCI NIH HHS / CA / CA126505
  • [Publication-type] Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Receptors, Transforming Growth Factor beta; 0 / Transforming Growth Factor beta; EC 2.7.11.1 / Protein-Serine-Threonine Kinases; EC 2.7.11.30 / transforming growth factor-beta type II receptor
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98. Ng HY, Lee LY, Ong SL, Tao G, Viawanath B, Kekre K, Lay W, Seah H: Treatment of RO brine-towards sustainable water reclamation practice. Water Sci Technol; 2008;58(4):931-6
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  • The proposed treatment consists of biological activated carbon (BAC) column followed by capacitive deionization (CDI) process for organic and inorganic removals, respectively.
  • Preliminary bench-scale study demonstrated about 20% TOC removal efficiency was achieved using BAC at 40 mins empty bed contact time (EBCT) while the CDI process was able to remove more than 90% conductivity reducing it from 2.19 mS/cm to only about 164 microS/cm.
  • More than 90% cations and anions in the BAC effluent were removed using CDI process.

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  • [Copyright] Copyright IWA Publishing 2008.
  • (PMID = 18776632.001).
  • [ISSN] 0273-1223
  • [Journal-full-title] Water science and technology : a journal of the International Association on Water Pollution Research
  • [ISO-abbreviation] Water Sci. Technol.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 0 / Inorganic Chemicals; 0 / Organic Chemicals; 0 / Water Pollutants, Chemical; 7440-44-0 / Carbon
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99. Sakao Y, Miyamoto H, Sakuraba M, Oh T, Shiomi K, Sonobe S, Izumi H: Prognostic significance of a histologic subtype in small adenocarcinoma of the lung: the impact of nonbronchioloalveolar carcinoma components. Ann Thorac Surg; 2007 Jan;83(1):209-14
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  • [Title] Prognostic significance of a histologic subtype in small adenocarcinoma of the lung: the impact of nonbronchioloalveolar carcinoma components.
  • BACKGROUND: We tried to clarify whether the histologic subtypes and the size of the solid component of an adenocarcinoma are more important predictive factors for invasiveness or prognosis than is total tumor size, even in lung adenocarcinomas that were 2 cm or smaller.
  • METHODS: Between 1996 and December 2005, after standard surgical treatment, 82 patients were diagnosed as having adenocarcinoma with a maximum diameter of 2 cm or less.
  • The clinicopathologic records of the patients were examined with regard to age, sex, nodal status, tumor size (largest diameter of the total tumor as well as the largest diameter without the bronchioloalveolar carcinoma [BAC] component [solid component]), serum carcinoembryonic antigen level, and histologic type.
  • Histologic subtype was classified into two groups: mixed BAC (mixed adenocarcinoma with BAC) and minimal or non-BAC (tumors with little or no BAC component).
  • However, diameter excluding the BAC component was a significant factor for invasiveness in mixed BAC type (p = 0.035), whereas total diameter was not significant (p = 0.28).
  • The 5-year survival rate was 94.4% (94.1% for pN0) for the mixed BAC type and 71.4% (78.7% for pN0) for the minimal or non-BAC type (p = 0.009; p = 0.04 for pN0 nodes).
  • CONCLUSIONS: Small adenocarcinomas can be classified into two categories.
  • The first category is a minimal or non-BAC adenocarcinoma that shows aggressive biological behavior.
  • The second category is a mixed BAC, which demonstrates less invasive or aggressive biological behavior than the minimal or non-BAC type, with the degree of invasiveness being associated with the size of the non-BAC component.
  • [MeSH-major] Adenocarcinoma / classification. Adenocarcinoma, Bronchiolo-Alveolar / classification. Lung Neoplasms / classification

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  • [CommentIn] Ann Thorac Surg. 2007 Jan;83(1):214-5 [17184665.001]
  • (PMID = 17184664.001).
  • [ISSN] 1552-6259
  • [Journal-full-title] The Annals of thoracic surgery
  • [ISO-abbreviation] Ann. Thorac. Surg.
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] Netherlands
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100. Lux R, Shi W: A novel bacterial signalling system with a combination of a Ser/Thr kinase cascade and a His/Asp two-component system. Mol Microbiol; 2005 Oct;58(2):345-8
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  • [Title] A novel bacterial signalling system with a combination of a Ser/Thr kinase cascade and a His/Asp two-component system.
  • Prokaryotes and eukaryotes have long been thought to use very different types of kinases (the His kinases of the 'bacterial' two-component systems versus the 'eukaryotic' Ser/Thr/Tyr kinases) to carry out signal transduction.
  • Pioneering work on bacterial protein serine threonine kinases (PSTKs) has been performed in Myxococcus xanthus, a soil bacterium with a complex life cycle that possesses orthologues of signalling-related kinases 'typical' of both the prokaryotic and the eukaryotic kingdoms.
  • In the work reported in this volume of Molecular Microbiology, Nariya and Inouye describe a PSTK cascade that modulates the biochemical activity of MrpC, a CRP-like transcriptional regulator for essential developmental signalling pathways in M. xanthus whose transcription is under the control of a two-component system.
  • This is the first report of both a functional PSTK cascade in bacteria and the use of both PSTK and two-component systems to control a single complex bacterial signalling event.
  • [MeSH-minor] Bacterial Proteins / genetics. Bacterial Proteins / metabolism. Gene Expression Regulation, Bacterial. Transcription Factors / genetics. Transcription Factors / metabolism

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  • [CommentOn] Mol Microbiol. 2005 Oct;58(2):367-79 [16194226.001]
  • (PMID = 16194223.001).
  • [ISSN] 0950-382X
  • [Journal-full-title] Molecular microbiology
  • [ISO-abbreviation] Mol. Microbiol.
  • [Language] eng
  • [Grant] United States / NIGMS NIH HHS / GM / GM54666
  • [Publication-type] Comment; Journal Article; Research Support, N.I.H., Extramural; Research Support, U.S. Gov't, P.H.S.
  • [Publication-country] England
  • [Chemical-registry-number] 0 / Bacterial Proteins; 0 / MrpC protein, Myxococcus xanthus; 0 / Transcription Factors; EC 2.7.- / Protein Kinases; EC 2.7.11.1 / Protein-Serine-Threonine Kinases; EC 2.7.2.4 / Aspartate Kinase; EC 2.7.3.- / protein-histidine kinase
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