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[Title] let-7 microRNA expression is reduced in bronchioloalveolar carcinoma, a non-invasive carcinoma, and is not correlated with prognosis.

It has been proposed that reduced let-7 expression causes RAS expression and correlates with poor survival of lung cancer cases, but little is known about correlations with clinicopathologic features.

In this study, we examined 15 early bronchioloalveolar carcinomas (BACs), usually considered as adenocarcinomas in situ, as well as 26 well-differentiated and 25 less-differentiated invasive adenocarcinomas, to assess the association between tumor progression and let-7 expression levels.

Additionally, we investigated 47 invasive lung adenocarcinomas for EGFR and KRAS mutations and correlations with let-7 levels.

Relative to the corresponding normal lung tissue, reduced let-7 expression was observed in 13 of 15 BACs (87%) and totally in 52 of the 66 adenocarcinomas (79%), suggesting a link with early occurrence in carcinogenesis.

On classification of adenocarcinomas into two groups according to let-7 expression, no prognostic or genetic differences were observed.

Interestingly, some differences between histological subtypes were observed, such as lower let-7 expression levels in acinar adenocarcinomas and mucinous BACs.

[MeSH-major] Adenocarcinoma, Bronchiolo-Alveolar / genetics. Adenocarcinoma, Bronchiolo-Alveolar / pathology. Gene Expression Regulation, Neoplastic / genetics. MicroRNAs / genetics

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[CommentIn] Lung Cancer. 2008 May;60(2):307 [18395292.001]

(PMID = 17728006.001).

[ISSN] 0169-5002

[Journal-full-title] Lung cancer (Amsterdam, Netherlands)

[ISO-abbreviation] Lung Cancer

[Language] eng

[Publication-type] Journal Article

[Publication-country] Ireland

[Chemical-registry-number] 0 / MicroRNAs; 0 / mirnlet7 microRNA, human

   

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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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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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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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[Title] Cytomorphological correlates of epidermal growth factor receptor mutations in lung carcinoma.

The initial diagnosis of lung carcinoma is frequently made by fine-needle aspiration biopsy.

Novel therapeutic strategies of this disease include tyrosine kinase inhibitors (TKI), such as gefitinib (Iressa) or erlotinib (Tarceva), which target the kinase domain of epidermal growth factor receptor (EGFR).

Somatic mutations of this region have been shown to predict a therapeutic response of lung carcinomas to TKI.

EGFR mutations have been described in adenocarcinomas of the lung, especially the bronchioloalveolar subtype, which has both cytopathologic and histopathologic definitions.

We identified 37 fine-needle aspiration biopsy of lung masses on which molecular analysis for EGFR mutations was available.

Molecular analysis was performed on DNA isolated from formalin-fixed, paraffin-embedded, or frozen tissue from the corresponding core biopsies/cell blocks or resection specimens followed by PCR with primers for the tyrosine kinase region exons 18-24 and nucleotide sequence analysis by gel electrophoresis.

All cases were adenocarcinomas primary in the lung.

Some of the traditional cytomorphological features of bronchioloalveolar carcinoma, i.e., flat monolayers, intranuclear inclusions, and the absence of macronucleoli, statistically correlated with the presence of mutations within the tyrosine kinase region of EGFR.

[MeSH-major] Adenocarcinoma, Bronchiolo-Alveolar / genetics. Lung Neoplasms / genetics. Mutation. Receptor, Epidermal Growth Factor / genetics

[MeSH-minor] Aged. Biopsy, Fine-Needle. Cell Nucleolus / pathology. DNA Mutational Analysis. DNA, Neoplasm / analysis. Female. Humans. Intranuclear Inclusion Bodies / pathology. Male. Phenotype. Polymerase Chain Reaction. Predictive Value of Tests. Protein Kinase Inhibitors / therapeutic use. Single-Blind Method. src Homology Domains / genetics

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[Copyright] (c) 2007 Wiley-Liss, Inc.

(PMID = 17427221.001).

[ISSN] 8755-1039

[Journal-full-title] Diagnostic cytopathology

[ISO-abbreviation] Diagn. Cytopathol.

[Language] eng

[Publication-type] Journal Article

[Publication-country] United States

[Chemical-registry-number] 0 / DNA, Neoplasm; 0 / Protein Kinase Inhibitors; EC 2.7.10.1 / Receptor, Epidermal Growth Factor

   

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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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[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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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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[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

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(PMID = 19304958.001).

[ISSN] 1523-5866

[Journal-full-title] Neuro-oncology

[ISO-abbreviation] Neuro-oncology

[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] United States

[Chemical-registry-number] 0 / RNA, Messenger

[Other-IDs] NLM/ PMC2802400

   

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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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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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[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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[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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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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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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[Cites] Chromosoma. 1959;10(1):1-72 [13629774.001]

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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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[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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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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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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[Cites] Harefuah. 2002 Nov;141(11):973-8, 1009 [12476633.001]

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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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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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[Cites] Genome Res. 2001 Jul;11(7):1205-10 [11435402.001]

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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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[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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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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[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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[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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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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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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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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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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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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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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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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[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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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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[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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'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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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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[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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[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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[Cites] Autism. 2004 Jun;8(2):141-61 [15165431.001]

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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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[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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[Title] Tumor fluoro-2-deoxy-D-glucose avidity on positron emission tomographic scan predicts mortality in patients with early-stage pure and mixed bronchioloalveolar carcinoma.

OBJECTIVE: Bronchioloalveolar carcinoma is a clinically heterogeneous subtype of non-small cell lung carcinoma that frequently has low 2-[18F]fluoro-D-glucose (FDG) uptake on positron emission tomographic scanning.

We investigated whether tumor FDG avidity was associated with worse survival among patients with completely resected node-negative pure and mixed bronchioloalveolar carcinoma.

METHODS: We performed a cohort study of 36 patients who had completely resected pure and mixed bronchioloalveolar carcinoma between 1998 and 2004, who had no hilar or mediastinal lymph node metastases, and who had undergone a preoperative positron emission tomographic scan.

FDG avidity had a hazard ratio of death of 8.6 (95% confidence interval 1.4-244.7, P = .02) after adjusting for tumor size, the presence of multifocal bronchioloalveolar carcinoma, and the presence of histologically mixed bronchioloalveolar carcinoma.

CONCLUSIONS: Preoperative tumor FDG standardized uptake value of 2.5 or greater on positron emission tomography is a powerful predictor of long-term mortality in patients with lymph node-negative pure and mixed bronchioloalveolar carcinoma who undergo complete surgical resection.

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(PMID = 17059942.001).

[ISSN] 1097-685X

[Journal-full-title] The Journal of thoracic and cardiovascular surgery

[ISO-abbreviation] J. Thorac. Cardiovasc. Surg.

[Language] ENG

[Grant] United States / NCI NIH HHS / CA / CA093708-02; United States / NCI NIH HHS / CA / R01 CA093708; United States / NCRR NIH HHS / RR / M01 RR-00079; United States / NCI NIH HHS / CA / R01 CA093708-02

[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 / Radiopharmaceuticals; 0Z5B2CJX4D / Fluorodeoxyglucose F18

   

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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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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

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[Copyright] © 2010 Wiley-Liss, Inc.

(PMID = 20715176.001).

[ISSN] 1526-968X

[Journal-full-title] Genesis (New York, N.Y. : 2000)

[ISO-abbreviation] Genesis

[Language] eng

[Publication-type] Comparative Study; Journal Article; Research Support, Non-U.S. Gov't

[Publication-country] United States

[Chemical-registry-number] 0 / RNA, Messenger; 0 / Receptors, Estrogen; 0 / Recombinant Fusion Proteins; 094ZI81Y45 / Tamoxifen; EC 2.7.7.- / Cre recombinase; EC 2.7.7.- / Integrases

   

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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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[Cites] Genome Res. 2000 Jan;10(1):129-36 [10645957.001]

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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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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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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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[Cites] Eur J Hum Genet. 1999 Oct-Nov;7(7):748-56 [10573006.001]

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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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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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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.

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[Copyright] 2008 Wiley-Liss, Inc.

(PMID = 18412111.001).

[ISSN] 1552-4833

[Journal-full-title] American journal of medical genetics. Part A

[ISO-abbreviation] Am. J. Med. Genet. A

[Language] eng

[Publication-type] Case Reports; Journal Article

[Publication-country] United States

   

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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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[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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[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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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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[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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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