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1. Mensah-Osman E, Labut E, Zavros Y, El-Zaatari M, Law DJ, Merchant JL: Regulated expression of the human gastrin gene in mice. Regul Pept; 2008 Nov 29;151(1-3):115-22
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  • Thus, we describe here the expression of the human gastrin gene using a bacterial artificial chromosome (BAC) in the antral and duodenal cells of gastrin null mice.
  • All 5 founder lines expressed the 253 kb human gastrin BAC. hGasBAC transgenic mice were bred onto a gastrin null background so that the levels of human gastrin peptide could be analyzed by immunohistochemistry and radioimmunoassay without detecting endogenous mouse gastrin.

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  • (PMID = 18456349.001).
  • [ISSN] 0167-0115
  • [Journal-full-title] Regulatory peptides
  • [ISO-abbreviation] Regul. Pept.
  • [Language] ENG
  • [Grant] United States / NIDDK NIH HHS / DK / P30 DK034933-219001; United States / NIDDK NIH HHS / DK / R01 DK045729; United States / NIDDK NIH HHS / DK / DK034933-219001; United States / NIDDK NIH HHS / DK / P30 DK034933; United States / NIDDK NIH HHS / DK / DK045729-14A1; United States / NIDDK NIH HHS / DK / R37 DK045729-14A1; United States / NIDDK NIH HHS / DK / R01-DK45729; United States / NIDDK NIH HHS / DK / R37 DK045729
  • [Publication-type] Journal Article; Research Support, N.I.H., Extramural
  • [Publication-country] Netherlands
  • [Chemical-registry-number] 0 / DNA Primers; 0 / Gastrins; 51110-01-1 / Somatostatin
  • [Other-IDs] NLM/ NIHMS82617; NLM/ PMC2617792
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2. Gorman-Lewis D, Elias PE, Fein JB: Adsorption of aqueous uranyl complexes onto Bacillus subtilis cells. Environ Sci Technol; 2005 Jul 1;39(13):4906-12
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  • [Title] Adsorption of aqueous uranyl complexes onto Bacillus subtilis cells.
  • In oxygenated, CO2-rich systems, negatively charged uranyl complexes dominate the aqueous uranium speciation, and it is commonly assumed that these complexes exhibit negligible adsorption onto negatively charged surfaces such as bacteria.
  • We measured the adsorption of 4.2 x 10(-6) M aqueous uranium onto Bacillus subtilis from pH 1.5 to 9 and with wet weight bacterial concentrations from 0.125 to 0.5 g/L.
  • We observed extensive uranium adsorption onto the bacterial surface under all conditions.
  • Thermodynamic modeling of the data suggests that uranylhydroxide, uranyl-carbonate, and calcium-uranylcarbonate species each can form stable surface complexes on the bacterial cell wall.

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  • Hazardous Substances Data Bank. Carbon dioxide .
  • Hazardous Substances Data Bank. URANIUM, ELEMENTAL .
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  • (PMID = 16053091.001).
  • [ISSN] 0013-936X
  • [Journal-full-title] Environmental science & technology
  • [ISO-abbreviation] Environ. Sci. Technol.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, U.S. Gov't, Non-P.H.S.
  • [Publication-country] United States
  • [Chemical-registry-number] 142M471B3J / Carbon Dioxide; 4OC371KSTK / Uranium; SY7Q814VUP / Calcium
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3. Norimatsu Y, Moriya T, Kobayashi TK, Sakurai T, Shimizu K, Tsukayama C, Ohno E: Immunohistochemical expression of PTEN and beta-catenin for endometrial intraepithelial neoplasia in Japanese women. Ann Diagn Pathol; 2007 Apr;11(2):103-8
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  • PTEN and beta-catenin are the most common genes for which genetic abnormalities are found in endometrioid adenocarcinoma (type I) and even in their precursors.
  • Currently, the World Health Organization (WHO) classifies endometrial hyperplasia as a premalignant disease.
  • A total of 117 cases that were initially diagnosed as endometrial hyperplasia according to WHO classification were reevaluated histopathologically by the EIN diagnosis category.
  • They were classified into 38 EIN and 32 benign architectural changes of unopposed estrogen (BAC), and 47 cases were excluded.
  • Glandular epithelium was positive for PTEN in all the cases of NPE (20/20), whereas 12.5% (4/32) of BAC and 34.2% (13/38) of EIN were PTEN-null (negative).
  • Instead, none of the BAC or NPE showed positive nuclear staining.
  • This combination was statistically significantly more frequently seen than BAC (4/32, 12.5%) (P < .001) and NPE (0/20, 0%) (P < .0001).
  • [MeSH-major] Carcinoma in Situ / metabolism. Endometrial Neoplasms / metabolism. PTEN Phosphohydrolase / metabolism. beta Catenin / metabolism
  • [MeSH-minor] Adult. Aged. Biomarkers, Tumor / metabolism. Cell Nucleus / metabolism. Cell Nucleus / pathology. Endometrium / metabolism. Female. Humans. Immunoenzyme Techniques. Japan. Middle Aged. Premenopause

  • NCI CPTC Antibody Characterization Program. NCI CPTC Antibody Characterization Program .
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  • (PMID = 17349568.001).
  • [ISSN] 1092-9134
  • [Journal-full-title] Annals of diagnostic pathology
  • [ISO-abbreviation] Ann Diagn Pathol
  • [Language] eng
  • [Publication-type] Comparative Study; Journal Article
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Biomarkers, Tumor; 0 / beta Catenin; EC 3.1.3.48 / PTEN protein, human; EC 3.1.3.67 / PTEN Phosphohydrolase
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4. Rios JJ, Perelygin AA, Long MT, Lear TL, Zharkikh AA, Brinton MA, Adelson DL: Characterization of the equine 2'-5' oligoadenylate synthetase 1 (OAS1) and ribonuclease L (RNASEL) innate immunity genes. BMC Genomics; 2007 Sep 07;8:313
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  • Mutations in either the OAS1 or RNASEL genes may also modulate the outcome of WNV-induced disease or other viral infections in horses.
  • Polymorphisms in the human OAS gene cluster have been previously utilized for case-control analysis of virus-induced disease in humans.
  • RESULTS: Genomic sequence for equine OAS1 was obtained from a contig assembly generated from a shotgun subclone library of CHORI-241 BAC 100I10.
  • The chromosomal location of the RNASEL gene was assigned by FISH to ECA5p17-p16 using two selected CHORI-241 BAC clones.

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  • (PMID = 17822564.001).
  • [ISSN] 1471-2164
  • [Journal-full-title] BMC genomics
  • [ISO-abbreviation] BMC Genomics
  • [Language] ENG
  • [Grant] United States / NCPDCID CDC HHS / CI / R01 CI000216; United States / NCPDCID CDC HHS / CI / CI000216
  • [Publication-type] Journal Article; Research Support, U.S. Gov't, P.H.S.
  • [Publication-country] England
  • [Chemical-registry-number] 0 / Codon, Terminator; EC 2.7.7.- / 2',5'-Oligoadenylate Synthetase; EC 3.1.- / Endoribonucleases
  • [Other-IDs] NLM/ PMC2048516
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5. Vlamakis H, Aguilar C, Losick R, Kolter R: Control of cell fate by the formation of an architecturally complex bacterial community. Genes Dev; 2008 Apr 1;22(7):945-53
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  • [Title] Control of cell fate by the formation of an architecturally complex bacterial community.
  • Bacteria form architecturally complex communities known as biofilms in which cells are held together by an extracellular matrix.
  • Biofilms harbor multiple cell types, and it has been proposed that within biofilms individual cells follow different developmental pathways, resulting in heterogeneous populations.
  • We show that motile, matrix-producing, and sporulating cells localize to distinct regions within the biofilm, and that the localization and percentage of each cell type is dynamic throughout development of the community.
  • We propose that sporulation is a culminating feature of biofilm formation, and that spore formation is coupled to the formation of an architecturally complex community of cells.

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  • (PMID = 18381896.001).
  • [ISSN] 0890-9369
  • [Journal-full-title] Genes & development
  • [ISO-abbreviation] Genes Dev.
  • [Language] ENG
  • [Grant] United States / NIGMS NIH HHS / GM / R01 GM018568; United States / NIGMS NIH HHS / GM / GM18568; United States / NIGMS NIH HHS / GM / R37 GM018568; United States / NIGMS NIH HHS / GM / GM58213; United States / NIGMS NIH HHS / GM / R01 GM058213
  • [Publication-type] Journal Article; Research Support, N.I.H., Extramural
  • [Publication-country] United States
  • [Other-IDs] NLM/ NIHMS49745; NLM/ PMC2279205
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6. Kurosu K, Takiguchi Y, Okada O, Yumoto N, Sakao S, Tada Y, Kasahara Y, Tanabe N, Tatsumi K, Weiden M, Rom WN, Kuriyama T: Identification of annexin 1 as a novel autoantigen in acute exacerbation of idiopathic pulmonary fibrosis. J Immunol; 2008 Jul 1;181(1):756-67
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  • Consistent with the hypothesis that pulmonary epithelial apoptosis is the key to the acute exacerbation of idiopathic pulmonary fibrosis (IPF), we conducted serological identification of Ags by recombinant expression cloning (SEREX) analysis using type II alveolar cell carcinoma (A549) cell lines to identify disease-related Abs.
  • Abs to annexin 1 were detected in 47 and 53% of the sera and bronchoalveolar lavage materials from patients with acute exacerbation of IPF.
  • Some identical TCR Vbeta genes were identified in sequential materials obtained at 1-3 mo in all 10 acute exacerbation IPF cases, suggesting that some infiltrating CD4-positive T cells sharing limited epitopes expand by Ag-driven stimulation during disease extension.
  • The CDR3 region of these identical TCR Vbeta genes showed high homology with the N-terminal portion of annexin 1, including in the HLA-DR ligand epitopes predicted by TEPITOPE analysis.
  • By Western blotting analysis and observation of the CD4-positive T cell responses in bronchoalveolar lavage samples, the N-terminal portion of annexin 1 was cleaved and found to induce marked proliferative responses of CD4-positive T cells in three patients.
  • Our study demonstrates that annexin 1 is an autoantigen that raises both Ab production and T cell response in patients with acute exacerbation of IPF, and that the N-terminal portion of annexin 1 plays some role in the pathogenesis of acute exacerbation in IPF patients.
  • [MeSH-minor] Acute Disease. Aged. Antibodies / immunology. Base Sequence. Bronchoalveolar Lavage Fluid / immunology. DNA, Complementary / genetics. Female. Gene Expression Regulation. Humans. Male. Middle Aged. Molecular Sequence Data. Pancreatic Elastase / metabolism. Receptors, Antigen, T-Cell, alpha-beta / genetics. Recombinant Proteins / immunology


7. Hayes DN, Monti S, Parmigiani G, Gilks CB, Naoki K, Bhattacharjee A, Socinski MA, Perou C, Meyerson M: Gene expression profiling reveals reproducible human lung adenocarcinoma subtypes in multiple independent patient cohorts. J Clin Oncol; 2006 Nov 1;24(31):5079-90
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  • [Title] Gene expression profiling reveals reproducible human lung adenocarcinoma subtypes in multiple independent patient cohorts.
  • PURPOSE: Published reports suggest that DNA microarrays identify clinically meaningful subtypes of lung adenocarcinomas not recognizable by other routine tests.
  • METHODS: Three independent cohorts of patients with lung cancer were evaluated using a variety of DNA microarray assays.
  • RESULTS: Cohorts of 31, 72, and 128 adenocarcinomas were generated for a total of 231 microarrays, each with 2,553 reliable genes.
  • Three adenocarcinoma subtypes were identified in each cohort.
  • These were named bronchioid, squamoid, and magnoid according to their respective correlations with gene expression patterns from histologically defined bronchioalveolar carcinoma, squamous cell carcinoma, and large-cell carcinoma.
  • Most notably, bronchioid tumors were correlated with improved survival in early-stage disease, whereas squamoid tumors were associated with better survival in advanced disease.
  • CONCLUSION: DNA microarray analysis of lung adenocarcinomas identified reproducible tumor subtypes which differ significantly in clinically important behaviors such as stage-specific survival.
  • [MeSH-major] Adenocarcinoma / classification. Gene Expression Profiling. Lung Neoplasms / classification

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  • (PMID = 17075127.001).
  • [ISSN] 1527-7755
  • [Journal-full-title] Journal of clinical oncology : official journal of the American Society of Clinical Oncology
  • [ISO-abbreviation] J. Clin. Oncol.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't; Review
  • [Publication-country] United States
  • [Number-of-references] 58
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8. Lichtenzveig J, Scheuring C, Dodge J, Abbo S, Zhang HB: Construction of BAC and BIBAC libraries and their applications for generation of SSR markers for genome analysis of chickpea, Cicer arietinum L. Theor Appl Genet; 2005 Feb;110(3):492-510
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  • [Title] Construction of BAC and BIBAC libraries and their applications for generation of SSR markers for genome analysis of chickpea, Cicer arietinum L.
  • Large-insert bacterial artificial chromosome (BAC) libraries, plant-transformation-competent binary BAC (BIBAC) libraries, and simple sequence repeat (SSR) markers are essential for many aspects of genomics research.
  • We constructed a BAC library and a BIBAC library from the nuclear DNA of chickpea, Cicer arietinum L., cv.
  • The BAC library has 14,976 clones, with an average insert size of 121 kb, and the BIBAC library consists of 23,040 clones, with an average insert size of 145 kb.
  • We screened the BAC library with eight synthetic SSR oligos, (GA)10, (GAA)7, (AT)10, (TAA)7, (TGA)7, (CA)10, (CAA)7, and (CCA)7.
  • Positive BACs were selected, subcloned, and sequenced for SSR marker development.
  • These results have demonstrated that BACs are an excellent source for SSR marker development in chickpea.
  • The BAC and BIBAC libraries and new SSR markers will provide valuable resources for chickpea genomics research and breeding (the libraries and their filters are available to the public at http://hbz.tamu.edu).
  • [MeSH-minor] Base Sequence. Chromosomes, Artificial, Bacterial. Cloning, Molecular. DNA Primers. Minisatellite Repeats / genetics. Molecular Sequence Data. Oligonucleotides. Sequence Analysis, DNA

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  • (PMID = 15712010.001).
  • [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
  • [Chemical-registry-number] 0 / DNA Primers; 0 / Genetic Markers; 0 / Oligonucleotides
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9. Künzle F, Gerber V, Van Der Haegen A, Wampfler B, Straub R, Marti E: IgE-bearing cells in bronchoalveolar lavage fluid and allergen-specific IgE levels in sera from RAO-affected horses. J Vet Med A Physiol Pathol Clin Med; 2007 Feb;54(1):40-7
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  • [Title] IgE-bearing cells in bronchoalveolar lavage fluid and allergen-specific IgE levels in sera from RAO-affected horses.
  • We hypothesized that the number of cells with receptor-bound IgE in bronchoalveolar lavage fluid (BALF) and IgE levels in serum would be higher in RAO-affected than in healthy horses living in the same environment.
  • Age had no significant effect on BALF cell ratios or on specific serum IgE levels.
  • [MeSH-major] Bronchoalveolar Lavage Fluid / immunology. Horse Diseases / immunology. Immunoglobulin E / analysis. Lung Diseases, Obstructive / veterinary. Mitosporic Fungi / immunology
  • [MeSH-minor] Allergens / immunology. Animals. Female. Horses. Lung Diseases, Fungal / immunology. Lung Diseases, Fungal / veterinary. Male. Mast Cells / immunology

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  • (PMID = 17359454.001).
  • [ISSN] 0931-184X
  • [Journal-full-title] Journal of veterinary medicine. A, Physiology, pathology, clinical medicine
  • [ISO-abbreviation] J Vet Med A Physiol Pathol Clin Med
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] Germany
  • [Chemical-registry-number] 0 / Allergens; 37341-29-0 / Immunoglobulin E
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10. Halder S, Murakami M, Verma SC, Kumar P, Yi F, Robertson ES: Early events associated with infection of Epstein-Barr virus infection of primary B-cells. PLoS One; 2009 Sep 28;4(9):e7214
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  • Epstein Barr virus (EBV) is closely associated with the development of a vast number of human cancers.
  • To develop a system for monitoring early cellular and viral events associated with EBV infection a self-recombining BAC containing 172-kb of the Epstein Barr virus genome BAC-EBV designated as MD1 BAC (Chen et al., 2005, J.Virology) was used to introduce an expression cassette of green fluorescent protein (GFP) by homologous recombination, and the resultant BAC clone, BAC-GFP-EBV was transfected into the HEK 293T epithelial cell line.
  • The resulting recombinant GFP EBV was induced to produce progeny virus by chemical inducer from the stable HEK 293T BAC GFP EBV cell line and the virus was used to immortalize human primary B-cell as monitored by green fluorescence and outgrowth of the primary B cells.
  • The infection, B-cell activation and cell proliferation due to GFP EBV was monitored by the expression of the B-cell surface antigens CD5, CD10, CD19, CD23, CD39, CD40 , CD44 and the intercellular proliferation marker Ki-67 using Flow cytometry.
  • This up-regulation of lytic gene expression prior to latent genes during early infection strongly suggests that EBV infects primary B-cell with an initial burst of lytic gene expression and the resulting progeny virus is competent for infecting new primary B-cells.
  • The newly infected primary B-cells can be further analyzed for investigating B cell activation due to EBV infection.

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  • (PMID = 19784370.001).
  • [ISSN] 1932-6203
  • [Journal-full-title] PloS one
  • [ISO-abbreviation] PLoS ONE
  • [Language] ENG
  • [Grant] United States / NCI NIH HHS / CA / 1R01CA137894-01; United States / NCI NIH HHS / CA / K99 CA126182-02; United States / NCI NIH HHS / CA / K99 CA126182; United States / NCI NIH HHS / CA / 5R01CA108461-05; United States / NCI NIH HHS / CA / CA126182-02; United States / NCI NIH HHS / CA / R01 CA108461; United States / NCI NIH HHS / CA / R01 CA137894
  • [Publication-type] Journal Article; Research Support, N.I.H., Extramural
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Antigens, Surface; 0 / DNA Primers; 147336-22-9 / Green Fluorescent Proteins
  • [Other-IDs] NLM/ PMC2746279
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11. Greulich-Bode KM, Wang M, Rhein AP, Weier JF, Weier HU: Validation of DNA probes for molecular cytogenetics by mapping onto immobilized circular DNA. Mol Cytogenet; 2008 Dec 23;1:28
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  • Large insert recombinant DNA clones such as bacterial artificial chromosome (BAC) or P1/PAC clones have established themselves in recent years as preferred starting material for probe preparations due to their low rates of chimerism and ease of use.
  • The method takes advantage of the fact that P1/PAC/BAC's can be isolated as circular DNA molecules, stretched out on glass slides and fine-mapped by multicolor hybridization with smaller probe molecules.
  • Two examples demonstrate the application of this technique: mapping of a gene-specific ~6 kb plasmid onto an unusually small, ~55 kb circular P1 molecule and the determination of the extent of overlap between P1 molecules homologous to the human NF-kappaB2 locus.

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  • (PMID = 19108707.001).
  • [ISSN] 1755-8166
  • [Journal-full-title] Molecular cytogenetics
  • [ISO-abbreviation] Mol Cytogenet
  • [Language] ENG
  • [Grant] United States / NCI NIH HHS / CA / CA123370-01A1; United States / NICHD NIH HHS / HD / R44 HD044313-01; United States / NICHD NIH HHS / HD / HD044313-01; United States / NCI NIH HHS / CA / R33 CA088258; United States / NCI NIH HHS / CA / R21 CA123370; United States / NCI NIH HHS / CA / CA088258-03; United States / NCI NIH HHS / CA / R33 CA088258-03; United States / NCI NIH HHS / CA / R21 CA123370-01A1; United States / NICHD NIH HHS / HD / R44 HD044313
  • [Publication-type] Journal Article
  • [Publication-country] England
  • [Other-IDs] NLM/ PMC2630919
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12. Lang M, Miyake T, Braasch I, Tinnemore D, Siegel N, Salzburger W, Amemiya CT, Meyer A: A BAC library of the East African haplochromine cichlid fish Astatotilapia burtoni. J Exp Zool B Mol Dev Evol; 2006 Jan 15;306(1):35-44
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  • [Title] A BAC library of the East African haplochromine cichlid fish Astatotilapia burtoni.
  • A BAC library was constructed from Astatotilapia burtoni, a haplochromine cichlid that is found in Lake Tanganyika, East Africa, and its surrounding rivers.
  • The BAC library described here is expected to be useful to the scientific community interested in cichlid genomics as an important resource to gain new insights into the rapid evolution of the great species diversity of haplochromine cichlid fishes.
  • [MeSH-major] Chromosomes, Artificial, Bacterial. Cichlids / genetics. Gene Library. Phylogeny

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  • [Copyright] (c) 2005 Wiley-Liss, Inc.
  • (PMID = 16254984.001).
  • [ISSN] 1552-5007
  • [Journal-full-title] Journal of experimental zoology. Part B, Molecular and developmental evolution
  • [ISO-abbreviation] J. Exp. Zool. B Mol. Dev. Evol.
  • [Language] eng
  • [Publication-type] Comparative Study; Journal Article; Research Support, N.I.H., Extramural; 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 / DNA Primers
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13. Yang TJ, Kim JS, Lim KB, Kwon SJ, Kim JA, Jin M, Park JY, Lim MH, Kim HI, Kim SH, Lim YP, Park BS: The Korea brassica genome project: a glimpse of the brassica genome based on comparative genome analysis with Arabidopsis. Comp Funct Genomics; 2005;6(3):138-46
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  • We have selected 48 seed BACs on chromosome 1 using EST genetic markers and FISH analyses.
  • Among them, 30 BAC clones have been sequenced and 18 are on the way.
  • Comparative genome analyses of the EST sequences and sequenced BAC clones from Brassica chromosome 1 revealed their homeologous partner regions on the Arabidopsis genome and a syntenic comparative map between Brassica chromosome 1 and Arabidopsis chromosomes.
  • In silico chromosome walking and clone validation have been successfully applied to extending sequence contigs based on the comparative map and BAC end sequences.
  • In-depth sequence analyses of five homeologous BAC clones and an Arabidopsis chromosomal region reveal overall co-linearity, with 82% sequence similarity.
  • In 2005 we intend to construct an integrated physical map, including sequence information from 500 BAC clones and integration of fingerprinting data and end sequence data of more than 100,000 BAC clones.

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  • (PMID = 18629219.001).
  • [ISSN] 1531-6912
  • [Journal-full-title] Comparative and functional genomics
  • [ISO-abbreviation] Comp. Funct. Genomics
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] Egypt
  • [Other-IDs] NLM/ PMC2447515
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14. Mack DG, Lanham AM, Palmer BE, Maier LA, Fontenot AP: CD27 expression on CD4+ T cells differentiates effector from regulatory T cell subsets in the lung. J Immunol; 2009 Jun 1;182(11):7317-24
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  • [Title] CD27 expression on CD4+ T cells differentiates effector from regulatory T cell subsets in the lung.
  • Beryllium exposure in the workplace can result in chronic beryllium disease, a granulomatous lung disorder characterized by CD4(+) T cell alveolitis and progressive lung fibrosis.
  • A large number of the CD4(+) T cells recruited to the lung in chronic beryllium disease recognize beryllium in an Ag-specific manner and express Th1-type cytokines following T cell activation.
  • Beryllium-responsive CD4(+) T cells in the bronchoalveolar lavage (BAL) express an effector memory T cell phenotype and recognize beryllium in a CD28-independent manner.
  • In addition, loss of CD27 on BAL CD4(+) T cells inversely correlates with markers of lung inflammation.
  • A small population of BAL CD4(+) T cells retains CD27 expression, and these CD4(+)CD27(+) T cells contain the FoxP3-expressing, naturally occurring regulatory T (T(reg)) cell subset.
  • Taken together, these findings suggest that CD27 is differentially expressed between effector T cells from the inflamed lung and can be used in conjunction with CD25 to isolate T(reg) cells and assess their functional capacity in an ongoing adaptive immune response in a target organ.

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  • (PMID = 19454729.001).
  • [ISSN] 1550-6606
  • [Journal-full-title] Journal of immunology (Baltimore, Md. : 1950)
  • [ISO-abbreviation] J. Immunol.
  • [Language] ENG
  • [Grant] United States / NIEHS NIH HHS / ES / P01 ES011810; United States / NIEHS NIH HHS / ES / ES011810; United States / NHLBI NIH HHS / HL / HL62410; United States / NHLBI NIH HHS / HL / K24 HL102245; United States / NIAID NIH HHS / AI / AI050864; United States / NIAID NIH HHS / AI / U19 AI050864; United States / NHLBI NIH HHS / HL / R01 HL062410; United States / NCRR NIH HHS / RR / M01 RR000051; United States / NCRR NIH HHS / RR / M01-RR00051; United States / NCRR NIH HHS / RR / M01 RR000051-46
  • [Publication-type] Journal Article; Research Support, N.I.H., Extramural
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Antigens, CD27; OW5102UV6N / Beryllium
  • [Other-IDs] NLM/ NIHMS273500; NLM/ PMC3061566
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15. Dekio I, Sakamoto M, Hayashi H, Amagai M, Suematsu M, Benno Y: Characterization of skin microbiota in patients with atopic dermatitis and in normal subjects using 16S rRNA gene-based comprehensive analysis. J Med Microbiol; 2007 Dec;56(Pt 12):1675-83
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  • A previous study using bacterial 16S rRNA gene-based clone libraries revealed that the microbiota in healthy human skin included uncultured micro-organisms, although the micro-organisms in skin exposed to disease conditions remain to be examined.
  • To compare the profiles of skin microbiota in 13 patients with atopic dermatitis (AD) and 10 healthy controls, terminal RFLP analysis of bacterial 16S rRNA genes was applied to 23 swab-scrubbed samples from facial skin.
  • This culture-independent analysis successfully revealed the complex bacterial members of the microbiota as peak patterns following capillary electrophoresis of terminal restriction fragments (T-RFs).
  • Each T-RF peak reflected a micro-organism, and the micro-organism to which each peak was assigned could be identified by computer simulation of T-RF length using the nucleotide sequence data of bacterial species residing in the skin.
  • Among 18 species detected in the study, Stenotrophomonas maltophilia was detected significantly more commonly in AD patients (5/13 for AD patients vs 0/10 for controls), whilst Dietzia maris was detected significantly more commonly in normal controls (8/10 for controls vs 2/13 for AD patients).
  • Although further studies should be undertaken to investigate the roles of these micro-organisms in AD, the microbiota were presumed to include hitherto uninvestigated bacterial species in the major population of patients with AD and of healthy controls.
  • [MeSH-minor] Adult. DNA, Bacterial / genetics. DNA, Bacterial / isolation & purification. Female. Humans. Male. Polymorphism, Restriction Fragment Length. RNA, Bacterial / analysis. RNA, Bacterial / genetics

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  • (PMID = 18033838.001).
  • [ISSN] 0022-2615
  • [Journal-full-title] Journal of medical microbiology
  • [ISO-abbreviation] J. Med. Microbiol.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 0 / DNA, Bacterial; 0 / RNA, Bacterial; 0 / RNA, Ribosomal, 16S
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16. Chen B, Tong Z, Ye Q, Nakamura S, Costabel U, Guzman J: Expression of tumour necrosis factor receptors by bronchoalveolar cells in hypersensitivity pneumonitis. Eur Respir J; 2005 Jun;25(6):1039-43
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  • [Title] Expression of tumour necrosis factor receptors by bronchoalveolar cells in hypersensitivity pneumonitis.
  • Tumour necrosis factor receptors (TNFR) and the Fas receptor (FasR) have been implicated in the pathogenesis of interstitial lung diseases.
  • The current authors examined the expression of TNFR-1, TNFR-2 and FasR by bronchoalveolar cells in hypersensitivity pneumonitis (HP).
  • Cell surface receptor expression on bronchoalveolar lavage cells was analysed by immunocytochemistry in 11 HP patients, 11 idiopathic pulmonary fibrosis (IPF) patients and 10 controls.
  • TNFR-1, TNFR-2 and FasR were expressed on a higher percentage of alveolar macrophages (AM) in HP compared with controls and IPF patients.
  • [MeSH-minor] Aged. Antigens, CD95 / metabolism. Bronchoalveolar Lavage Fluid / cytology. Female. Humans. Male. Middle Aged. Pulmonary Fibrosis / metabolism. Pulmonary Fibrosis / pathology. Receptors, Tumor Necrosis Factor, Type I / metabolism. Receptors, Tumor Necrosis Factor, Type II / metabolism

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  • (PMID = 15929959.001).
  • [ISSN] 0903-1936
  • [Journal-full-title] The European respiratory journal
  • [ISO-abbreviation] Eur. Respir. J.
  • [Language] eng
  • [Publication-type] Clinical Trial; Comparative Study; Controlled Clinical Trial; Journal Article
  • [Publication-country] Denmark
  • [Chemical-registry-number] 0 / Antigens, CD95; 0 / Receptors, Tumor Necrosis Factor; 0 / Receptors, Tumor Necrosis Factor, Type I; 0 / Receptors, Tumor Necrosis Factor, Type II
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17. Yu J, Müller H, Hehn S, Koschmieder S, Schönig K, Berdel WE, Serve H, Müller-Tidow C: Construction and application of an inducible system for homogenous expression levels in bulk cell lines. PLoS One; 2009;4(7):e6445
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  • [Title] Construction and application of an inducible system for homogenous expression levels in bulk cell lines.
  • Here, we describe a system fusing Tet (tetracycline)-inducible elements, BAC (bacterial artificial chromosome) and Gateway technology together to allow tight control of gene expression in BAC-transfected eukaryotic bulk cell cultures.
  • Recombinase cloning into the shuttle vector and the BAC facilitates vector construction.
  • An EGFP (enhanced green fluorescent protein) allows FACS (fluorescence activated cell sorting) and the BAC technology ensures tight control of gene expression that is independent of the integrating site.
  • Tested by luciferase assay and western blotting, in HTB56 lung cancer cells the final BAC E11-IGR-beta-catenin-ERalpha vector demonstrated sensitive inducibility by Tet or Dox (doxycycline) in a dose-dependent manner with low background, and the EGFP was an effective selection marker by FACS in bulk culture HTB56 and myeloblastic 32D cells.
  • This is a highly efficient tool for the rapid generation of stringently controlled Tet-inducible systems in cell lines.
  • [MeSH-minor] Blotting, Western. Cell Line. Chromosomes, Artificial, Bacterial. Flow Cytometry. Green Fluorescent Proteins / genetics

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  • (PMID = 19649290.001).
  • [ISSN] 1932-6203
  • [Journal-full-title] PloS one
  • [ISO-abbreviation] PLoS ONE
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / enhanced green fluorescent protein; 147336-22-9 / Green Fluorescent Proteins
  • [Other-IDs] NLM/ PMC2714175
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18. Tsutsui S, Ashizawa K, Minami K, Tagawa T, Nagayasu T, Hayashi T, Uetani M: Multiple focal pure ground-glass opacities on high-resolution CT images: Clinical significance in patients with lung cancer. AJR Am J Roentgenol; 2010 Aug;195(2):W131-8
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  • [Title] Multiple focal pure ground-glass opacities on high-resolution CT images: Clinical significance in patients with lung cancer.
  • OBJECTIVE: The purpose of this study was to evaluate the clinical significance of multiple focal pure ground-glass opacities (GGOs) on high-resolution CT images of patients with lung cancer.
  • MATERIALS AND METHODS: The cases of 23 patients with proven lung cancer and associated multiple focal pure GGOs on high-resolution CT images were retrospectively reviewed.
  • The number, size, distribution, and morphologic characteristics of focal pure GGOs were evaluated.
  • Lung cancer and focal pure GGOs were seen in the same lobe and/or in the other lobes.
  • Histologic findings were obtained for 15 lesions representing 74 focal pure GGOs that were surgically resected: 11 atypical adenomatous hyperplasia lesions, three bronchioloalveolar carcinomas, and one lesion of focal fibrosis.
  • CONCLUSION: The size of most focal pure GGOs associated with lung cancer did not change during the follow-up period.
  • Most of the small number of lesions histologically diagnosed were atypical adenomatous hyperplasia or bronchioloalveolar carcinoma.
  • [MeSH-major] Algorithms. Lung Neoplasms / radiography. Radiographic Image Enhancement / methods. Radiographic Image Interpretation, Computer-Assisted / methods. Tomography, X-Ray Computed / methods

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  • (PMID = 20651172.001).
  • [ISSN] 1546-3141
  • [Journal-full-title] AJR. American journal of roentgenology
  • [ISO-abbreviation] AJR Am J Roentgenol
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] United States
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19. Le Saux A, Houdebine LM, Jolivet G: Chromosome integration of BAC (bacterial artificial chromosome): evidence of multiple rearrangements. Transgenic Res; 2010 Oct;19(5):923-31
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  • [Title] Chromosome integration of BAC (bacterial artificial chromosome): evidence of multiple rearrangements.
  • The possibility of such complex rearrangements should be carefully considered when transgenic animals are produced with large genomic DNA fragments.
  • [MeSH-major] Chromosomes / ultrastructure. Chromosomes, Artificial, Bacterial / genetics. Mice, Transgenic / genetics. Recombination, Genetic

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  • (PMID = 20107893.001).
  • [ISSN] 1573-9368
  • [Journal-full-title] Transgenic research
  • [ISO-abbreviation] Transgenic Res.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] Netherlands
  • [Chemical-registry-number] 0 / DNA, Recombinant; 0 / Milk Proteins; 0 / whey acidic proteins
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20. Emad A, Emad Y: Increased in CD8 T lymphocytes in the BAL fluid of patients with sulfur mustard gas-induced pulmonary fibrosis. Respir Med; 2007 Apr;101(4):786-92
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  • OBJECTIVE: In an attempt to understand better the potential role of the T cell in the pathogenesis of pulmonary fibrosis (PF) due to sulfur mustard gas inhalation, this study was designed to analyze bronchoalveolar lavage (BAL) lymphocyte subsets and to determine the ratio of CD4 to CD8 lymphocytes in BAL fluid.
  • INTERVENTION: Chest roentgenograms, pulmonary function tests (PFTs), tests for carbon monoxide diffusing capacity of the lung (DLCO), high-resolution CT scans of the chest, BAL via fiberoptic bronchoscopy, analyses of BAL fluids for cellular and Flow-cytometric analysis of the phenotype of bronchoalveolar cells were performed in all cases.
  • A transbronchial lung biopsy was done in all patients following BAL.
  • Neutrophils (P<0.0001) and eosinophils (P=0.0006) were the predominant cell types in the BAL fluid of patients with PF.
  • [MeSH-major] Bronchoalveolar Lavage Fluid / immunology. CD8-Positive T-Lymphocytes / immunology. Chemical Warfare Agents / adverse effects. Mustard Gas / adverse effects. Pulmonary Fibrosis / chemically induced
  • [MeSH-minor] Adult. CD4-CD8 Ratio / methods. CD4-Positive T-Lymphocytes / immunology. Carbon Monoxide / physiology. Humans. Inhalation Exposure / adverse effects. Lung / physiopathology. Lung / radiography. Lymphocyte Count / methods. Tomography, X-Ray Computed / methods


21. Meng N, Zhang SQ, Zhou NL, Shen J: Biopolymer-modified graphite oxide nanocomposite films based on benzalkonium chloride-heparin intercalated in graphite oxide. Nanotechnology; 2010 May 7;21(18):185101
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  • The heparin-benzalkonium chloride (BAC-HEP) was intercalated into graphite oxide (GO) layers to form GO-BAC-HEP (modified graphite oxide).
  • Cell culture assay indicated that PDMS/GO-BCA-HEP nanocomposite films showed enhanced cell adhesion.
  • [MeSH-minor] Biopolymers / chemistry. Blood Coagulation / drug effects. Cell Proliferation / drug effects. Hemolysis. Humans. Leukocytes, Mononuclear / drug effects. Microscopy, Electron, Scanning. Microscopy, Electron, Transmission. P-Selectin / metabolism. Platelet Adhesiveness / drug effects. Spectroscopy, Fourier Transform Infrared. Thermogravimetry. X-Ray Diffraction

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  • (PMID = 20378948.001).
  • [ISSN] 1361-6528
  • [Journal-full-title] Nanotechnology
  • [ISO-abbreviation] Nanotechnology
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 0 / Anticoagulants; 0 / Benzalkonium Compounds; 0 / Biopolymers; 0 / Dimethylpolysiloxanes; 0 / Nylons; 0 / Oxides; 0 / P-Selectin; 0 / poly(dimethylsiloxane)-polyamide copolymer; 7782-42-5 / Graphite; 9005-49-6 / Heparin
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22. Lavi-Moshayoff V, Silver J, Naveh-Many T: Human PTH gene regulation in vivo using transgenic mice. Am J Physiol Renal Physiol; 2009 Sep;297(3):F713-9
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  • To study the regulation of the human PTH (hPTH) gene in vivo, we generated transgenic mice with the hPTH gene expressed in the mouse parathyroid using a bacterial artificial chromosome (BAC) containing the hPTH gene within its 144-kb chromosomal region.
  • The BAC construct maintains the native hPTH gene surrounding sequences and isolates it from positional effects.
  • [MeSH-minor] Age Factors. Aniline Compounds / pharmacology. Animals. Calcitriol / blood. Calcium / agonists. Calcium / blood. Chromosomes, Artificial, Bacterial. Fibroblast Growth Factors / metabolism. Glucuronidase / metabolism. Humans. Mice. Mice, Transgenic. RNA, Messenger / blood. Receptor, Fibroblast Growth Factor, Type 1 / metabolism. Receptor, Parathyroid Hormone, Type 1 / metabolism. Receptors, Calcium-Sensing / metabolism. Recombinant Proteins / metabolism. Tachyphylaxis

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  • (PMID = 19570881.001).
  • [ISSN] 1522-1466
  • [Journal-full-title] American journal of physiology. Renal physiology
  • [ISO-abbreviation] Am. J. Physiol. Renal Physiol.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Aniline Compounds; 0 / N-(2-chlorophenylpropyl)-1-(3-methoxyphenyl)ethylamine; 0 / Parathyroid Hormone; 0 / RNA, Messenger; 0 / Receptor, Parathyroid Hormone, Type 1; 0 / Receptors, Calcium-Sensing; 0 / Recombinant Proteins; 0 / fibroblast growth factor 23; 62031-54-3 / Fibroblast Growth Factors; EC 2.7.10.1 / Fgfr1 protein, mouse; EC 2.7.10.1 / Receptor, Fibroblast Growth Factor, Type 1; EC 3.2.1.31 / Glucuronidase; EC 3.2.1.31 / klotho protein; FXC9231JVH / Calcitriol; SY7Q814VUP / Calcium
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23. Noaín D, Avale ME, Wedemeyer C, Calvo D, Peper M, Rubinstein M: Identification of brain neurons expressing the dopamine D4 receptor gene using BAC transgenic mice. Eur J Neurosci; 2006 Nov;24(9):2429-38
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  • [Title] Identification of brain neurons expressing the dopamine D4 receptor gene using BAC transgenic mice.
  • The dopamine D4 receptor (D4R) has received considerable interest because of its higher affinity for atypical antipsychotics, the extremely polymorphic nature of the human gene and the genetic association with attention deficit and hyperactivity disorder (ADHD).
  • Here, we have explored an alternative genetic approach by studying bacterial artificial chromosome (BAC) transgenic mice that express enhanced green fluorescent protein (EGFP) under the transcriptional control of the mouse dopamine D4 receptor gene (Drd4).
  • Given the fine specificity of EGFP expression in BAC transgenic mice and the high sensitivity of the EGFP antibody used in this study, our results indicate that Drd4 expression in the adult mouse brain is limited to a more restricted number of areas than previously reported.
  • Its leading expression in the prefrontal cortex supports the importance of the D4R in complex behaviours depending on cortical dopamine (DA) transmission and its possible role in the etiopathophysiology of ADHD.
  • [MeSH-major] Brain / metabolism. Chromosomes, Artificial, Bacterial. Neurons / metabolism. Receptors, Dopamine D4 / metabolism

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  • (PMID = 17100831.001).
  • [ISSN] 0953-816X
  • [Journal-full-title] The European journal of neuroscience
  • [ISO-abbreviation] Eur. J. Neurosci.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] France
  • [Chemical-registry-number] 137750-34-6 / Receptors, Dopamine D4; 147336-22-9 / Green Fluorescent Proteins
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24. Ge Y, He G, Wang Z, Guo D, Qin R, Li R: GISH and BAC-FISH study of apomictic Beta M14. Sci China C Life Sci; 2007 Apr;50(2):242-50
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  • [Title] GISH and BAC-FISH study of apomictic Beta M14.
  • We analyzed BAC microarrays of B. corolliflora chromosome 9 by using fluorescence-specific mRNA of B. vulgaris and Beta M14.
  • BAC clones 16-M11 and 26-L15 were detected as fluorescence-specifics of BAC DNA of Beta M14.
  • Then both BAC clones 16-M11 and 26-L15 were in situ hybridized to M14 chromosomes.
  • The two hybridized BAC clones were located close to the telomere region of the long arm of a single chromosome 9, and showed hemizygosity.
  • The results of BAC microarrays showed that these developments of embryo and endosperm have conservative expression patterns, indicating that sexual reproduction and apomixis have an interrelated pathway with common regulatory components and that the induction of a modified sexual reproduction program may enable the manifestation of apomixis in Beta species.

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  • (PMID = 17447032.001).
  • [ISSN] 1006-9305
  • [Journal-full-title] Science in China. Series C, Life sciences
  • [ISO-abbreviation] Sci. China, C, Life Sci.
  • [Language] ENG
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] China
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25. Webster L, Russell M, Walsham P, Phillips LA, Packer G, Hussy I, Scurfield JA, Dalgarno EJ, Moffat CF: An assessment of persistent organic pollutants (POPs) in wild and rope grown blue mussels (Mytilius edulis) from Scottish coastal waters. J Environ Monit; 2009 Jun;11(6):1169-84
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  • Concentrations were compared to Background Assessment Concentrations (BAC; blue/green transition) and Environmental Assessment Concentrations (EACs; green/red transition).
  • The pristine sites were also below BACs for some PAHs and therefore would be classed as 'blue' for these PAHs.

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  • (PMID = 19513448.001).
  • [ISSN] 1464-0333
  • [Journal-full-title] Journal of environmental monitoring : JEM
  • [ISO-abbreviation] J Environ Monit
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] England
  • [Chemical-registry-number] 0 / Organic Chemicals; 0 / Polycyclic Hydrocarbons, Aromatic; 0 / Water Pollutants, Chemical; DFC2HB4I0K / Polychlorinated Biphenyls
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26. Wislez M, Antoine M, Baudrin L, Poulot V, Neuville A, Pradere M, Longchampt E, Isaac-Sibille S, Lebitasy MP, Cadranel J: Non-mucinous and mucinous subtypes of adenocarcinoma with bronchioloalveolar carcinoma features differ by biomarker expression and in the response to gefitinib. Lung Cancer; 2010 May;68(2):185-91
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  • [Title] Non-mucinous and mucinous subtypes of adenocarcinoma with bronchioloalveolar carcinoma features differ by biomarker expression and in the response to gefitinib.
  • There is no optimal established therapy for treating advanced or recurrent adenocarcinoma with bronchioloalveolar carcinoma features (ADC-BAC), and it remains unclear whether chemotherapy achieves therapeutic results comparable to those seen in the more common non-small lung carcinoma subtypes.
  • In order to improve the decisions made during the treatment of advanced ADC-BAC, we attempted to better characterize the mucinous and non-mucinous ADC-BAC subtypes.
  • Fifty pathological samples were obtained from 62 patients included in a multicenter prospective phase II trial (IFCT0401) conducted to evaluate gefitinib as a first-line therapy for non-resectable ADC-BAC.
  • We demonstrated that demographic data, clinical characteristics and stage at presentation (extrathoracic versus lung metastasis, as well as TNM staging) did not distinguish between the two subtypes.
  • In contrast, three biological markers (PAS staining, TTF-1 expression and EGFR genomic gain combined with mutation analysis) enabled us to independently segregate all but 2 of the 50 patients into the mucinous and non-mucinous ADC-BAC subtypes.
  • [MeSH-major] Adenocarcinoma, Bronchiolo-Alveolar / diagnosis. Adenocarcinoma, Mucinous / diagnosis. DNA-Binding Proteins / metabolism. Lung Neoplasms / diagnosis. Receptor, Epidermal Growth Factor / genetics
  • [MeSH-minor] Adult. Aged. Aged, 80 and over. Biomarkers, Tumor / analysis. Biomarkers, Tumor / genetics. Biomarkers, Tumor / metabolism. DNA Mutational Analysis. Disease Progression. Drug Resistance, Neoplasm. Female. Humans. Male. Middle Aged. Quinazolines / therapeutic use

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  • [Copyright] Copyright 2009 Elsevier Ireland Ltd. All rights reserved.
  • (PMID = 19581016.001).
  • [ISSN] 1872-8332
  • [Journal-full-title] Lung cancer (Amsterdam, Netherlands)
  • [ISO-abbreviation] Lung Cancer
  • [Language] eng
  • [Publication-type] Clinical Trial, Phase II; Comparative Study; Journal Article; Multicenter Study; Research Support, Non-U.S. Gov't
  • [Publication-country] Ireland
  • [Chemical-registry-number] 0 / Biomarkers, Tumor; 0 / DNA-Binding Proteins; 0 / Quinazolines; 0 / TTF1 protein, human; EC 2.7.10.1 / Receptor, Epidermal Growth Factor; S65743JHBS / gefitinib
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27. Murisier F, Guichard S, Beermann F: Distinct distal regulatory elements control tyrosinase expression in melanocytes and the retinal pigment epithelium. Dev Biol; 2007 Mar 15;303(2):838-47
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  • The tyrosinase promoter does not confer strong expression in pigment cells in vivo, while inclusion of a distal regulatory element at position -15 kb is necessary and sufficient to provide strong expression in melanocytes.
  • In this report, we show that a 186 kb BAC containing the tyrosinase gene provides transgene expression in both RPE and melanocytes indicating the presence of regulatory sequences required for expression in the RPE.
  • A deletion analysis of the BAC was performed demonstrating that a RPE-regulatory element resides between -17 and -75 kb.
  • In addition, deletion of this regulatory element within a tyrosinase::lacZ BAC provided evidence that this sequence is not only sufficient but also required for correct spatial and temporal expression in the RPE.
  • [MeSH-minor] Albinism, Oculocutaneous / enzymology. Albinism, Oculocutaneous / genetics. Animals. Base Sequence. Chromosomes, Artificial, Bacterial / genetics. DNA Primers / genetics. Enhancer Elements, Genetic. Gene Expression Regulation, Enzymologic. Genes, Regulator. Mice. Mice, Mutant Strains. Mice, Transgenic. Mutation. Phenotype

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  • (PMID = 17196956.001).
  • [ISSN] 0012-1606
  • [Journal-full-title] Developmental biology
  • [ISO-abbreviation] Dev. Biol.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / DNA Primers; EC 1.14.18.1 / Monophenol Monooxygenase
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28. Stanton RJ, Baluchova K, Dargan DJ, Cunningham C, Sheehy O, Seirafian S, McSharry BP, Neale ML, Davies JA, Tomasec P, Davison AJ, Wilkinson GW: Reconstruction of the complete human cytomegalovirus genome in a BAC reveals RL13 to be a potent inhibitor of replication. J Clin Invest; 2010 Sep;120(9):3191-208
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  • [Title] Reconstruction of the complete human cytomegalovirus genome in a BAC reveals RL13 to be a potent inhibitor of replication.
  • To generate a genetically intact source of HCMV, we cloned strain Merlin into a self-excising BAC.
  • The Merlin BAC clone had mutations in the RL13 gene and UL128 locus that were acquired during limited replication in vitro prior to cloning.
  • Characterization of viruses generated from repaired BACs revealed that RL13 efficiently repressed HCMV replication in multiple cell types; moreover, RL13 mutants rapidly and reproducibly emerged in transfectants.
  • [MeSH-major] Chromosomes, Artificial, Bacterial. Cytomegalovirus / genetics. Cytomegalovirus / metabolism. Genes, Viral. Virus Replication
  • [MeSH-minor] Cell Line. Fibroblasts / metabolism. Fibroblasts / virology. Genome, Viral. Mutation. Tropism / genetics. Virion / genetics. Virion / metabolism

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  • (PMID = 20679731.001).
  • [ISSN] 1558-8238
  • [Journal-full-title] The Journal of clinical investigation
  • [ISO-abbreviation] J. Clin. Invest.
  • [Language] eng
  • [Grant] United Kingdom / Medical Research Council / / G1000236; United Kingdom / Medical Research Council / / G0700142; United Kingdom / Medical Research Council / / G0801822; United Kingdom / Medical Research Council / / ; United Kingdom / Biotechnology and Biological Sciences Research Council / / ; United Kingdom / Medical Research Council / / G0900740; United Kingdom / Medical Research Council / / MC/ U130184136; United Kingdom / Wellcome Trust / /
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Other-IDs] NLM/ PMC2929729
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29. Li Y, Uhm T, Ren C, Wu C, Santos TS, Lee MK, Yan B, Santos F, Zhang A, Scheuring C, Sanchez A, Millena AC, Nguyen HT, Kou H, Liu D, Zhang HB: A plant-transformation-competent BIBAC/BAC-based map of rice for functional analysis and genetic engineering of its genomic sequence. Genome; 2007 Mar;50(3):278-88
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  • [Title] A plant-transformation-competent BIBAC/BAC-based map of rice for functional analysis and genetic engineering of its genomic sequence.
  • Here, we report a plant-transformation-competent, binary bacterial artificial chromosome (BIBAC) and bacterial artificial chromosome (BAC) based map of rice to facilitate these studies.
  • The map was constructed from 20 835 BIBAC and BAC clones, and consisted of 579 overlapping BIBAC/BAC contigs.
  • Comparative analysis between the genetic and physical maps of chromosome 8 showed that there are 3 "hot" and 2 "cold" spots of genetic recombination along the chromosomal arms in addition to the "cold spot" in the centromeric region, suggesting that the sequence component contents of a chromosome may affect its local genetic recombination frequencies.
  • Because of its plant transformability, the BIBAC/BAC map could provide a platform for functional analysis of the rice genome sequence and effective use of the sequencing results for gene and QTL cloning and molecular breeding.

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  • (PMID = 17502901.001).
  • [ISSN] 0831-2796
  • [Journal-full-title] Genome
  • [ISO-abbreviation] Genome
  • [Language] ENG
  • [Publication-type] Journal Article
  • [Publication-country] Canada
  • [Chemical-registry-number] 0 / DNA, Plant
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30. Jin C, Jin Y, Gisselsson D, Wennerberg J, Wah TS, Strömbäck B, Kwong YL, Mertens F: Molecular cytogenetic characterization of the 11q13 amplicon in head and neck squamous cell carcinoma. Cytogenet Genome Res; 2006;115(2):99-106
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  • [Title] Molecular cytogenetic characterization of the 11q13 amplicon in head and neck squamous cell carcinoma.
  • Amplification of 11q13 DNA sequences and overexpression of CCND1 are common findings in head and neck squamous cell carcinoma (HNSCC), identified in about 30% of the cases.
  • In order to study the structure of the amplicon in more detail and to learn more about the mechanisms involved in its initiation, prometaphase, metaphase, and anaphase fluorescence in situ hybridization (FISH) with 40 BAC clones spanning a 16-Mb region in chromosome bands 11q12.2 to 11q13.5 was performed in nine HNSCC cell lines with homogeneously staining regions.
  • FISH analysis showed that the size of the amplicon varied among the nine cell lines, the smallest being 2.12 Mb and the largest 8.97 Mb.
  • The smallest overlapping region of amplification was approximately 1.61 Mb, covering the region from BAC 729E14 to BAC 102B19.
  • The cell lines were also used to study the internal structure of the amplicon.
  • Various patterns of amplified DNA sequences within the amplicon were found among the nine cell lines.
  • Even within the same cell line, different amplicon structures could be found in different cell populations, indicating that the mechanisms involved in the development of the amplicons in HNSCC were more complex than previously assumed.
  • The frequent finding of inverted repeats within the amplicons, however, suggests that breakage-fusion-bridge cycles are important in the initiation, but the fact that such repeats constituted only small parts of the amplicons indicate that they are further rearranged during tumor progression.
  • [MeSH-major] Carcinoma, Squamous Cell / genetics. Chromosomes, Human, Pair 11 / genetics. DNA, Neoplasm / genetics. Gene Amplification. Head and Neck Neoplasms / genetics. In Situ Hybridization, Fluorescence
  • [MeSH-minor] Anaphase. Cell Line, Tumor / ultrastructure. Chromosome Banding. Chromosome Breakage. Chromosomes, Artificial, Bacterial. DNA Repair. Disease Progression. Female. Gene Expression Regulation, Neoplastic. Humans. Male. Metaphase. Repetitive Sequences, Nucleic Acid


31. Roca Vanaclocha Y, Narváez JA, Pozuelo C, Monés L: [Alveolar microlithiasis: an uncommon cause of the crazy paving pattern]. Radiologia; 2008 Jan-Feb;50(1):75-8
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  • [Title] [Alveolar microlithiasis: an uncommon cause of the crazy paving pattern].
  • [Transliterated title] Microlitiasis alveolar: presentación infrecuente del "patrón en empedrado"
  • Alveolar microlithiasis is an uncommon disease of unknown etiology characterized by the presence of multiple, predominantly subpleural, intra-alveolar microcalcifications.
  • This pattern is not specific for alveolar microlithiasis; it has also been reported in other entities, including alveolar proteinosis, lipoid pneumonia, and bronchial alveolar carcinoma.
  • [MeSH-major] Lithiasis / radiography. Lung Diseases / radiography. Pulmonary Alveoli / radiography

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  • (PMID = 18275793.001).
  • [ISSN] 0033-8338
  • [Journal-full-title] Radiología
  • [ISO-abbreviation] Radiologia
  • [Language] spa
  • [Publication-type] Case Reports; English Abstract; Journal Article
  • [Publication-country] Spain
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32. Schneider D, Pohl T, Walter J, Dörner K, Kohlstädt M, Berger A, Spehr V, Friedrich T: Assembly of the Escherichia coli NADH:ubiquinone oxidoreductase (complex I). Biochim Biophys Acta; 2008 Jul-Aug;1777(7-8):735-9
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  • [Title] Assembly of the Escherichia coli NADH:ubiquinone oxidoreductase (complex I).
  • The proton-pumping NADH:ubiquinone oxidoreductase is the first of the respiratory chain complexes in many bacteria and the mitochondria of most eukaryotes.
  • In general, the bacterial complex consists of 14 different subunits.
  • In addition to the homologues of these subunits, the mitochondrial complex contains approximately 31 additional proteins.
  • While it was shown that the mitochondrial complex is assembled from distinct intermediates, nothing is known about the assembly of the bacterial complex.
  • We used Escherichia coli mutants, in which the nuo-genes coding the subunits of complex I were individually disrupted by an insertion of a resistance cartridge to determine whether they are required for the assembly of a functional complex I.
  • No complex I-mediated enzyme activity was detectable in the mutant membranes and it was not possible to extract a structurally intact complex I from the mutant membranes.
  • However, the subunits and the cofactors of the soluble NADH dehydrogenase fragment of the complex were detected in the cytoplasm of some of the nuo-mutants.
  • [MeSH-major] Electron Transport Complex I / genetics. Escherichia coli / enzymology
  • [MeSH-minor] Centrifugation, Density Gradient. Cytoplasm / enzymology. Electron Spin Resonance Spectroscopy. Escherichia coli Proteins / chemistry. Escherichia coli Proteins / genetics. Escherichia coli Proteins / isolation & purification. Escherichia coli Proteins / metabolism. Genes, Bacterial. Kinetics. Mutation

  • BioCyc. gene/protein/disease-specific - nuoJ .
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  • (PMID = 18394423.001).
  • [ISSN] 0006-3002
  • [Journal-full-title] Biochimica et biophysica acta
  • [ISO-abbreviation] Biochim. Biophys. Acta
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't; Review
  • [Publication-country] Netherlands
  • [Chemical-registry-number] 0 / Escherichia coli Proteins; EC 1.6.5.3 / Electron Transport Complex I
  • [Number-of-references] 44
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33. 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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34. Shan X, Ray DA, Bunge JA, Peterson DG: A bacterial artificial chromosome library for the Australian saltwater crocodile (Crocodylus porosus) and its utilization in gene isolation and genome characterization. BMC Genomics; 2009;10 Suppl 2:S9
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  • [Title] A bacterial artificial chromosome library for the Australian saltwater crocodile (Crocodylus porosus) and its utilization in gene isolation and genome characterization.
  • To facilitate comparative genomics within Crocodylia and between crocodilians and other archosaurs, we have constructed a bacterial artificial chromosome (BAC) library for the Australian saltwater crocodile, Crocodylus porosus.
  • This is the first BAC library for a crocodile and only the second BAC resource for a crocodilian.
  • RESULTS: The C. porosus BAC library consists of 101,760 individually archived clones stored in 384-well microtiter plates.
  • To demonstrate the utility of the library in gene isolation, we probed the C. porosus macroarrays with an overgo designed from a C-mos (oocyte maturation factor) partial cDNA.
  • A BAC containing C-mos was identified and the C-mos locus was sequenced.
  • CONCLUSION: We have demonstrated the utility of the Crocodylus porosus BAC library as a tool in genomics research.
  • The BAC library should expedite complete genome sequencing of C. porosus and facilitate detailed analysis of genome evolution within Crocodylia and between crocodilians and diverse amniote lineages including birds, mammals, and other non-avian reptiles.
  • [MeSH-minor] Animals. Chromosomes, Artificial, Bacterial / genetics. Genes, mos. Male. Retroelements. Sequence Analysis, DNA

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  • (PMID = 19607660.001).
  • [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 / Retroelements
  • [Other-IDs] NLM/ PMC2966330
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35. Idbaih A, Marie Y, Lucchesi C, Pierron G, Manié E, Raynal V, Mosseri V, Hoang-Xuan K, Kujas M, Brito I, Mokhtari K, Sanson M, Barillot E, Aurias A, Delattre JY, Delattre O: BAC array CGH distinguishes mutually exclusive alterations that define clinicogenetic subtypes of gliomas. Int J Cancer; 2008 Apr 15;122(8):1778-86
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  • [Title] BAC array CGH distinguishes mutually exclusive alterations that define clinicogenetic subtypes of gliomas.
  • To assess the relationship between genetic abnormalities and clinicopathological characteristics, we have performed a genetic and clinical analysis of a series of gliomas.
  • A total of 112 gliomas were analyzed by comparative genomic hybridization on a BAC array with a 1 megabase resolution.
  • Finally, our results highlight the potential of a whole-genome analysis as an additional diagnostic in cases of unclear conventional genetic findings.
  • [MeSH-minor] Adult. Aged. Astrocytoma / genetics. Astrocytoma / pathology. Chromosomes, Artificial, Bacterial. Chromosomes, Human, Pair 1. Chromosomes, Human, Pair 10. Chromosomes, Human, Pair 19. Chromosomes, Human, Pair 7. Chromosomes, Human, Pair 9. Disease-Free Survival. Female. Humans. Loss of Heterozygosity. Male. Middle Aged. Multivariate Analysis. Nucleic Acid Hybridization. Oligodendroglioma / genetics. Oligodendroglioma / pathology. Oligonucleotides. Predictive Value of Tests. Prognosis. Proportional Hazards Models. Survival Analysis. World Health Organization

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  • (PMID = 18076069.001).
  • [ISSN] 1097-0215
  • [Journal-full-title] International journal of cancer
  • [ISO-abbreviation] Int. J. Cancer
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Oligonucleotides; EC 2.7.10.1 / Receptor, Epidermal Growth Factor
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36. Zgheib MH, Buchbinder SS, Abi Rafeh N, Elya M, Raia C, Ahern K, Smith MC, Costantino T, Flory MJ, Lafferty JC, Castellanos MR: Breast arterial calcifications on mammograms do not predict coronary heart disease at coronary angiography. Radiology; 2010 Feb;254(2):367-73
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  • [Title] Breast arterial calcifications on mammograms do not predict coronary heart disease at coronary angiography.
  • PURPOSE: To examine, in women who underwent cardiac catheterization, whether breast arterial calcifications (BACs) seen at screening mammography correlate with coronary heart disease (CHD) seen at coronary angiography.
  • Presence of BAC was noted and correlated with presence of CHD and presence of cardiac risk factors.
  • Thirty-seven (36%) women in the CHD+ group versus 20 (29%) in the CHD-group (P = .40) had BAC.
  • The mean age of the patients with BAC, 72 years +/- 9.8, was significantly older than the mean age of the patients without BAC, 60.4 years +/- 11.1 (P < .001).
  • No correlation existed, despite the fact that BAC was associated with some cardiac risk factors.
  • CONCLUSION: The authors did not observe a correlation between BAC and coronary angiography-detected CHD, even when CHD severity was considered.
  • On the basis of these results, caution should be exercised when using screening mammography-detected BAC to identify patients with CHD.
  • [MeSH-major] Breast / blood supply. Coronary Angiography. Coronary Disease / radiography. Mammography

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  • [Copyright] (c) RSNA, 2010.
  • (PMID = 20093509.001).
  • [ISSN] 1527-1315
  • [Journal-full-title] Radiology
  • [ISO-abbreviation] Radiology
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
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37. Sabia C, de Niederhäusern S, Guerrieri E, Bondi M, Anacarso I, Iseppi R, Messi P: Interference of Lactobacillus plantarum strains in the in vitro conjugative transfer of R-plasmids. Curr Microbiol; 2009 Feb;58(2):101-5
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  • [Title] Interference of Lactobacillus plantarum strains in the in vitro conjugative transfer of R-plasmids.
  • For this purpose different matings were performed adding to the donor and recipient cells L. plantarum 35d bac+ and L. plantarum 396/1 bac- as agents of interference.

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38. Miller AD, Bergholz U, Ziegler M, Stocking C: Identification of the myelin protein plasmolipin as the cell entry receptor for Mus caroli endogenous retrovirus. J Virol; 2008 Jul;82(14):6862-8
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  • [Title] Identification of the myelin protein plasmolipin as the cell entry receptor for Mus caroli endogenous retrovirus.
  • McERV could infect some cell types from humans, dogs, and rats, but not all, and did not infect any mouse cell line tested.
  • We determined the chromosomal location of the receptor gene in the human genome by phenotypic screening of the G3 human-hamster radiation hybrid cell line panel and confirmed the localization by assaying for receptor activity conferred by bacterial artificial chromosome (BAC) clones spanning the region.
  • We next localized the gene more precisely in one positive BAC by assaying for receptor activity following BAC digestion with several restriction enzymes that cleaved different sets of genes, and we confirmed that the final candidate gene, plasmolipin (PLLP; TM4SF11), is the novel receptor by showing that the expression of the human PLLP cDNA renders hamster and mouse cells susceptible to McERV infection.
  • PLLP functions as a voltage-dependent potassium ion channel and is expressed primarily in kidney and brain, helping to explain the limited range of cell types that McERV can infect.
  • Interestingly, mouse PLLP also functioned well as a receptor for McERV but was simply not expressed in the mouse cell types that we originally tested.

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  • (PMID = 18463156.001).
  • [ISSN] 1098-5514
  • [Journal-full-title] Journal of virology
  • [ISO-abbreviation] J. Virol.
  • [Language] ENG
  • [Grant] United States / NCI NIH HHS / CA / P30 CA015704; United States / NIDDK NIH HHS / DK / P30 DK047754; United States / NCI NIH HHS / CA / CA15704; United States / NIDDK NIH HHS / DK / DK47754
  • [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 / Membrane Proteins; 0 / Myelin and Lymphocyte-Associated Proteolipid Proteins; 0 / Nerve Tissue Proteins; 0 / PLLP protein, human; 0 / Pllp protein, mouse; 0 / Proteolipids; 0 / Receptors, Virus; 147336-22-9 / Green Fluorescent Proteins
  • [Other-IDs] NLM/ PMC2446966
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39. Okada K, Tonaka N, Moriya Y, Norioka N, Sawamura Y, Matsumoto T, Nakanishi T, Takasaki-Yasuda T: Deletion of a 236 kb region around S 4-RNase in a stylar-part mutant S 4sm-haplotype of Japanese pear. Plant Mol Biol; 2008 Mar;66(4):389-400
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  • [Title] Deletion of a 236 kb region around S 4-RNase in a stylar-part mutant S 4sm-haplotype of Japanese pear.
  • To delineate the deletion breakpoint in the S(4)sm-haplotype, we constructed a bacterial artificial chromosome (BAC) library from an S (4)-homozygote, and assembled a BAC contig of 570 kb around the S (4)-RNase.
  • Genomic PCR of DNA from S (4)- and S(4)sm-homozygotes and the DNA sequence of the BAC contig allowed the identification of a deletion of 236 kb spanning from 48 kb upstream to 188 kb downstream of S (4)-RNase.

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  • (PMID = 18175198.001).
  • [ISSN] 0167-4412
  • [Journal-full-title] Plant molecular biology
  • [ISO-abbreviation] Plant Mol. Biol.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] Netherlands
  • [Chemical-registry-number] 0 / Plant Proteins; EC 3.1.- / Endoribonucleases; EC 3.1.26.- / 2-5A-dependent ribonuclease
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40. Bearz A, Talamini R, Vaccher E, Spina M, Simonelli C, Steffan A, Berretta M, Chimienti E, Tirelli U: MUC-1 (CA 15-3 antigen) as a highly reliable predictor of response to EGFR inhibitors in patients with bronchioloalveolar carcinoma: an experience on 26 patients. Int J Biol Markers; 2007 Oct-Dec;22(4):307-11
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  • [Title] MUC-1 (CA 15-3 antigen) as a highly reliable predictor of response to EGFR inhibitors in patients with bronchioloalveolar carcinoma: an experience on 26 patients.
  • BACKGROUND: Bronchioloalveolar carcinoma (BAC) is a histological subtype of non-small cell lung cancer (NSCLC), particularly of adenocarcinoma.
  • Given its multifocality and the poor activity of chemotherapy, there is no established treatment for BAC, although promising results have been achieved with inhibitors of the epidermal growth factor receptor (EGFR).
  • No tumor marker has been validated in the diagnosis and follow-up of lung cancer, in particular to predict the outcome of treatment with EGFR inhibitors.
  • PURPOSE: As CA 15-3 antigen serum levels are reported to be pathologically abnormal in adenocarcinoma of the lung, we chose this tumor marker to monitor treatment with EGFR inhibitors of patients affected by adenocarcinoma with BAC features or pure BAC.
  • PATIENTS AND METHODS: We collected data from 26 consecutive Caucasian patients with BAC, mostly women and never smokers, who received EGFR inhibitors.
  • CONCLUSION: Our data suggest that CA 15-3 levels might be a predictive factor for the response to EGFR inhibitors in patients with BAC.
  • [MeSH-major] Adenocarcinoma, Bronchiolo-Alveolar / drug therapy. Adenocarcinoma, Bronchiolo-Alveolar / metabolism. Biomarkers, Tumor. Carcinoma, Non-Small-Cell Lung / metabolism. Gene Expression Regulation, Neoplastic. Lung Neoplasms / metabolism. Mucin-1 / biosynthesis. Mucin-1 / physiology. Receptor, Epidermal Growth Factor / antagonists & inhibitors
  • [MeSH-minor] Adult. Aged. Aged, 80 and over. Female. Genetic Predisposition to Disease. Humans. Male. Middle Aged


41. Yi CD, Gong ZY, Liang GH, Wang FH, Tang SZ, Gu MH: [Isolation and characterization of the centromeric BAC clones from different genomes in genus Oryza]. Yi Chuan; 2007 Jul;29(7):851-8
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  • [Title] [Isolation and characterization of the centromeric BAC clones from different genomes in genus Oryza].
  • In this research, we constructed five BAC libraries for diploid wild rice with different genomes.
  • Together with the technique of colony blot hybridization and fluorescence in situ hybridization (FISH), centromere-related BAC clones were screened and characterized from different genomes.

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  • (PMID = 17646152.001).
  • [ISSN] 0253-9772
  • [Journal-full-title] Yi chuan = Hereditas
  • [ISO-abbreviation] Yi Chuan
  • [Language] CHI
  • [Publication-type] English Abstract; Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] China
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42. Zhang Z, Huang Y, Zhu H: A highly efficient protocol of generating and analyzing VZV ORF deletion mutants based on a newly developed luciferase VZV BAC system. J Virol Methods; 2008 Mar;148(1-2):197-204
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  • [Title] A highly efficient protocol of generating and analyzing VZV ORF deletion mutants based on a newly developed luciferase VZV BAC system.
  • Recently, the full-length VZV (P-Oka strain) genome was cloned as a VZV bacteria artificial chromosome (BAC) and additionally a firefly luciferase cassette was inserted to generate a novel luciferase VZV BAC.
  • In this study, a highly efficient protocol has been developed exploiting the new luciferase VZV BAC system to rapidly isolate and characterize VZV ORF deletion mutants by growth curve analysis in cell culture.
  • [MeSH-minor] Cell Line. Chromosomes, Artificial, Bacterial. Genes, Reporter. Humans. Luciferases, Firefly / biosynthesis. Luciferases, Firefly / genetics. Viral Plaque Assay

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  • (PMID = 18215429.001).
  • [ISSN] 0166-0934
  • [Journal-full-title] Journal of virological methods
  • [ISO-abbreviation] J. Virol. Methods
  • [Language] eng
  • [Grant] United States / NIAID NIH HHS / AI / R01 AI055381-04; United States / NIAID NIH HHS / AI / R01 AI055381; United States / NIAID NIH HHS / AI / AI050709-01; United States / NIAID NIH HHS / AI / R01 AI050709-05; United States / NIAID NIH HHS / AI / R01 AI050709
  • [Publication-type] Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
  • [Publication-country] Netherlands
  • [Chemical-registry-number] EC 1.13.12.7 / Luciferases, Firefly
  • [Other-IDs] NLM/ NIHMS42696; NLM/ PMC2291443
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43. Warming S, Costantino N, Court DL, Jenkins NA, Copeland NG: Simple and highly efficient BAC recombineering using galK selection. Nucleic Acids Res; 2005;33(4):e36
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  • [Title] Simple and highly efficient BAC recombineering using galK selection.
  • Here, we describe the construction of three new recombineering strains (SW102, SW105 and SW106) that allow bacterial artificial chromosomes (BACs) to be modified using galK positive/negative selection.
  • We also show how galK selection can be used to rapidly introduce point mutations, deletions and loxP sites into BAC DNA and thus facilitate functional studies of SNP and/or disease-causing point mutations, the identification of long-range regulatory elements and the construction of conditional targeting vectors.
  • [MeSH-major] Chromosomes, Artificial, Bacterial. Escherichia coli / genetics. Escherichia coli Proteins / genetics. Galactokinase / genetics. Genetic Engineering. Recombination, Genetic

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  • (PMID = 15731329.001).
  • [ISSN] 1362-4962
  • [Journal-full-title] Nucleic acids research
  • [ISO-abbreviation] Nucleic Acids Res.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, U.S. Gov't, P.H.S.
  • [Publication-country] England
  • [Chemical-registry-number] 0 / Escherichia coli Proteins; EC 2.7.1.6 / Galactokinase; X2RN3Q8DNE / Galactose
  • [Other-IDs] NLM/ PMC549575
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44. Lou JC, Chang TW, Huang CE: Effective removal of disinfection by-products and assimilable organic carbon: an advanced water treatment system. J Hazard Mater; 2009 Dec 30;172(2-3):1365-71
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  • In this investigation, the AOC was reduced effectively by ozonation and biological activated carbon (BAC) processes.

  • Hazardous Substances Data Bank. CARBON .
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  • (PMID = 19744776.001).
  • [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 / Acetates; 0 / Disinfectants; 0 / Trihalomethanes; 0 / Water Pollutants, Chemical; 5GD84Y125G / chloroacetic acid; 68-10-0 / bromoacetate; 7440-44-0 / Carbon
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45. Wang T, Huang W, Chen F: Baclofen, a GABAB receptor agonist, inhibits human hepatocellular carcinoma cell growth in vitro and in vivo. Life Sci; 2008 Feb 27;82(9-10):536-41
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  • [Title] Baclofen, a GABAB receptor agonist, inhibits human hepatocellular carcinoma cell growth in vitro and in vivo.
  • Gamma aminobutyric acid (GABA) has been reported to affect cancer development, but the activation of its type B receptor (GABABR) has shown contradictory effects on the progress of human carcinoma.
  • In this study, we investigated the antitumor effect of the GABABR agonist baclofen (Bac) on growth of human hepatocellular carcinoma (HCC) in vitro and in vivo.
  • We found Bac induced G(0)/G(1) phase arrest which was associated with down-regulation of intracellular cAMP level, and up-regulation of p21(WAF1) protein expression as well as its phosphorylation level.
  • Moreover, systemic administration of Bac significantly suppressed Bel-7402 xenograft tumor growth.
  • Our data support the inhibitory effect of GABABR activation on HCC development, which would raise the possibility to develop Bac as a therapeutic drug for the treatment of HCC.
  • [MeSH-major] Baclofen / pharmacology. Carcinoma, Hepatocellular / prevention & control. Cell Proliferation / drug effects. GABA-B Receptor Agonists. Liver Neoplasms, Experimental / prevention & control
  • [MeSH-minor] Animals. Cell Cycle / drug effects. Cell Line, Tumor. Cyclic AMP / metabolism. Cyclin-Dependent Kinase Inhibitor p21 / metabolism. GABA Agonists / pharmacology. Humans. Male. Mice. Mice, Inbred BALB C. Mice, Nude. RNA, Messenger / genetics. RNA, Messenger / metabolism. Radioimmunoassay. Receptors, GABA-B / genetics. Receptors, GABA-B / metabolism. Reverse Transcriptase Polymerase Chain Reaction. Time Factors. Xenograft Model Antitumor Assays

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  • (PMID = 18222491.001).
  • [ISSN] 0024-3205
  • [Journal-full-title] Life sciences
  • [ISO-abbreviation] Life Sci.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 0 / CDKN1A protein, human; 0 / Cyclin-Dependent Kinase Inhibitor p21; 0 / GABA Agonists; 0 / GABA-B Receptor Agonists; 0 / RNA, Messenger; 0 / Receptors, GABA-B; E0399OZS9N / Cyclic AMP; H789N3FKE8 / Baclofen
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46. Groheux D, Hindié E, Trédaniel J, Giraudet AL, Vaylet F, Berenger N, Moretti JL: [PET-CT for evaluation of the solitary pulmonary nodule: an update]. Rev Mal Respir; 2009 Dec;26(10):1041-55
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  • False negative results are mainly due to certain histological types with low metabolic activity (such as bronchiolo-alveolar carcinoma and typical carcinoid), or small size (nodules less than 8 mm).
  • [MeSH-major] Positron-Emission Tomography. Solitary Pulmonary Nodule / diagnosis. Tomography, X-Ray Computed

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  • (PMID = 20032840.001).
  • [ISSN] 1776-2588
  • [Journal-full-title] Revue des maladies respiratoires
  • [ISO-abbreviation] Rev Mal Respir
  • [Language] fre
  • [Publication-type] English Abstract; Journal Article; Review
  • [Publication-country] France
  • [Number-of-references] 69
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47. Värnik A, Kõlves K, Väli M, Tooding LM, Wasserman D: Do alcohol restrictions reduce suicide mortality? Addiction; 2007 Feb;102(2):251-6
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  • AIM: Blood alcohol concentration (BAC) at the time of suicide was examined in relation to the marked falls in suicide rates and per capita alcohol consumption in Estonia during the major Soviet anti-alcohol campaign from 1 June 1985.
  • Cases were divided by gender and BAC level (0.5-1.49, 1.5-2.49 and > 2.5 per thousand).
  • During the intervention, BAC-positive, i.e. alcohol-positive, suicides decreased by 39.2% for males and 41.4% for females, with the largest fall occurring at the BAC 2.5 per thousand + level for both sexes.
  • Changes in BAC-negative suicides were modest.
  • CONCLUSIONS: Investigation on an individual level showed that alcohol consumption was a common precursor to suicide and that rigorous alcohol restrictions were accompanied particularly by a decrease in BAC-positive suicide mortality among both sexes.

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  • (PMID = 17222279.001).
  • [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
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48. Miyauchi T, Mori M, Ito K: Quantitative determination of benzalkonium chloride in treated wood by solid-phase extraction followed by liquid chromatography with ultraviolet detection. J Chromatogr A; 2005 Nov 18;1095(1-2):74-80
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  • Ammoniacal copper quat (ACQ) compound wood preservative is comprised of copper and quaternary ammonium compounds with benzalkonium chloride (BAC) as the active ingredient.
  • Solid-phase extraction (SPE) followed by liquid chromatography with ultraviolet detection (LC-UV) was developed for quantitative determination of BAC in treated wood.
  • BAC used in the present study was composed of 66% C12, 33% C14 and less than 1% C16.
  • BAC was added to each wood species (500 mg) then extracted with HCl-ethanol (20 ml) and quantitatively determined with LC-UV (262 nm).
  • Wood extractives from the heartwood of each species, except western hemlock, interfered with quantitative determination of BAC, but SPE with an Oasis MCX cartridge was effective in preventing this.
  • Using the present methods, BAC homologue peaks were clearly confirmed without interference.

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  • (PMID = 16275285.001).
  • [ISSN] 0021-9673
  • [Journal-full-title] Journal of chromatography. A
  • [ISO-abbreviation] J Chromatogr A
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] Netherlands
  • [Chemical-registry-number] 0 / Benzalkonium Compounds
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49. Hong CP, Kwon SJ, Kim JS, Yang TJ, Park BS, Lim YP: Progress in understanding and sequencing the genome of Brassica rapa. Int J Plant Genomics; 2008;2008:582837
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  • Triplicated genomic segments of B. rapa are collinear to those of A. thaliana with InDels.
  • The genome triplication has led to an approximately 1.7-fold increase in the B. rapa gene number compared to that of A. thaliana.
  • Repetitive DNA of B. rapa has also been extensively amplified and has diverged from that of A. thaliana.
  • Ten chromosomes of B. rapa are being allocated to BrGSP consortium participants, and each chromosome will be sequenced by a BAC-by-BAC approach.

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  • (PMID = 18288250.001).
  • [ISSN] 1687-5370
  • [Journal-full-title] International journal of plant genomics
  • [ISO-abbreviation] Int J Plant Genomics
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] Egypt
  • [Other-IDs] NLM/ PMC2233773
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50. Amarillo FI, Bass HW: A transgenomic cytogenetic sorghum (Sorghum propinquum) bacterial artificial chromosome fluorescence in situ hybridization map of maize (Zea mays L.) pachytene chromosome 9, evidence for regions of genome hyperexpansion. Genetics; 2007 Nov;177(3):1509-26
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  • [Title] A transgenomic cytogenetic sorghum (Sorghum propinquum) bacterial artificial chromosome fluorescence in situ hybridization map of maize (Zea mays L.) pachytene chromosome 9, evidence for regions of genome hyperexpansion.
  • A cytogenetic FISH map of maize pachytene-stage chromosome 9 was produced with 32 maize marker-selected sorghum BACs as probes.
  • Each locus was mapped by means of multicolor direct FISH with a fluorescently labeled probe mix containing a whole-chromosome paint, a single sorghum BAC clone, and the centromeric sequence, CentC.
  • The locations of the sorghum BAC-FISH signals were determined, and each new cytogenetic locus was assigned a centiMcClintock position on the short (9S) or long (9L) arm.
  • [MeSH-minor] Centromere / genetics. Chromosome Mapping. Chromosomes, Artificial, Bacterial / genetics. Chromosomes, Plant / genetics. Cytogenetics. Genetic Markers. Genome, Plant. In Situ Hybridization, Fluorescence. Meiosis / genetics. Plants, Genetically Modified. Polymorphism, Restriction Fragment Length

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  • (PMID = 17947405.001).
  • [ISSN] 0016-6731
  • [Journal-full-title] Genetics
  • [ISO-abbreviation] Genetics
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, U.S. Gov't, Non-P.H.S.
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Genetic Markers
  • [Other-IDs] NLM/ PMC2147981
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51. Bazzini AA, Asís R, González V, Bassi S, Conte M, Soria M, Fernie AR, Asurmendi S, Carrari F: miSolRNA: A tomato micro RNA relational database. BMC Plant Biol; 2010;10:240
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  • It permits i) to map miRNAs and their predicted target sites both on expressed (SGN-UNIGENES) and newly annotated sequences (BAC sequences released), ii) to co-locate any predicted miRNA-target interaction with metabolic QTL found in tomato fruits, iii) to retrieve expression data of target genes in tomato fruit along their developmental period and iv) to design further experiments for unresolved questions in complex trait biology based on the use of genetic materials that have been proven to be a useful tools for map-based cloning experiments in Solanaceae plant species.

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  • (PMID = 21059227.001).
  • [ISSN] 1471-2229
  • [Journal-full-title] BMC plant biology
  • [ISO-abbreviation] BMC Plant Biol.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 0 / MicroRNAs
  • [Other-IDs] NLM/ PMC3095322
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52. Kang WH, Hoang NH, Yang HB, Kwon JK, Jo SH, Seo JK, Kim KH, Choi D, Kang BC: Molecular mapping and characterization of a single dominant gene controlling CMV resistance in peppers (Capsicum annuum L.). Theor Appl Genet; 2010 May;120(8):1587-96
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  • [Title] Molecular mapping and characterization of a single dominant gene controlling CMV resistance in peppers (Capsicum annuum L.).
  • Analysis of the cellular localization of CMV using a CMV green fluorescent protein construct showed that in 'Bukang,' systemic movement of the virus from the epidermal cell layer to mesophyll cells is inhibited.
  • Three SNP markers were developed by comparative genetic mapping: one intron-based marker using a pepper homolog of Tm-1, and two SNP markers using tomato and pepper BAC sequences mapped near Cmr1.

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  • (PMID = 20180096.001).
  • [ISSN] 1432-2242
  • [Journal-full-title] TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik
  • [ISO-abbreviation] Theor. Appl. Genet.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
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  • [Chemical-registry-number] 0 / DNA, Plant
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53. Chochi Y, Kawauchi S, Nakao M, Furuya T, Hashimoto K, Oga A, Oka M, Sasaki K: A copy number gain of the 6p arm is linked with advanced hepatocellular carcinoma: an array-based comparative genomic hybridization study. J Pathol; 2009 Apr;217(5):677-84
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  • [Title] A copy number gain of the 6p arm is linked with advanced hepatocellular carcinoma: an array-based comparative genomic hybridization study.
  • In accordance with cancer progression, genomic aberrations accumulate in cancer cells in a stepwise fashion.
  • The purpose of this study is to elucidate the relationship between genomic alterations and clinical stages in hepatocellular carcinoma (HCC).
  • A technology of array-based CGH using DNA chips spotted with 1440 BAC clones was applied to 42 surgically removed HCCs to examine the DNA copy number aberrations.
  • [MeSH-major] Carcinoma, Hepatocellular / genetics. Chromosomes, Human, Pair 6 / genetics. Gene Dosage / genetics. Liver Neoplasms / genetics
  • [MeSH-minor] Adult. Aged. Algorithms. Chromosome Aberrations. Comparative Genomic Hybridization / methods. DNA, Neoplasm / genetics. Female. Genetic Predisposition to Disease. Humans. Male. Middle Aged. Neoplasm Staging

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  • (PMID = 19097070.001).
  • [ISSN] 1096-9896
  • [Journal-full-title] The Journal of pathology
  • [ISO-abbreviation] J. Pathol.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 0 / DNA, Neoplasm
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54. Howell EC, Kearsey MJ, Jones GH, King GJ, Armstrong SJ: A and C genome distinction and chromosome identification in brassica napus by sequential fluorescence in situ hybridization and genomic in situ hybridization. Genetics; 2008 Dec;180(4):1849-57
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  • Fluorescence in situ hybridization (FISH)-with 45S rDNA and a BAC that hybridizes to the pericentromeric heterochromatin of several chromosomes-followed by GISH allowed identification of six chromosomes and also three chromosome groups.
  • Using B. oleracea chromosome-specific BACs as FISH probes followed by GISH, the chromosomes involved were confirmed to be A7 and C6.

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  • (PMID = 18845839.001).
  • [ISSN] 0016-6731
  • [Journal-full-title] Genetics
  • [ISO-abbreviation] Genetics
  • [Language] ENG
  • [Grant] United Kingdom / Biotechnology and Biological Sciences Research Council / / G18621
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / DNA, Plant; 0 / DNA, Ribosomal
  • [Other-IDs] NLM/ PMC2600926
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55. López CE, Quesada-Ocampo LM, Bohórquez A, Duque MC, Vargas J, Tohme J, Verdier V: Mapping EST-derived SSRs and ESTs involved in resistance to bacterial blight in Manihot esculenta. Genome; 2007 Dec;50(12):1078-88
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  • [Title] Mapping EST-derived SSRs and ESTs involved in resistance to bacterial blight in Manihot esculenta.
  • Cassava bacterial blight, caused by Xanthomonas axonopodis pv. manihotis (Xam), is an important disease in Latin America and Africa resulting in significant losses.
  • In total, 10 defense-related genes and 2 bacterial artificial chromosomes (BACs) containing resistance gene candidates (RGCs) were mapped in 11 linkage groups.
  • The QTL in linkage group U explained 61.6% of the phenotypic variance and was associated with an RGC-containing BAC.

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  • (PMID = 18059536.001).
  • [ISSN] 0831-2796
  • [Journal-full-title] Genome
  • [ISO-abbreviation] Genome
  • [Language] ENG
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] Canada
  • [Chemical-registry-number] 0 / Biomarkers
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56. Kaplan DH, Li MO, Jenison MC, Shlomchik WD, Flavell RA, Shlomchik MJ: Autocrine/paracrine TGFbeta1 is required for the development of epidermal Langerhans cells. J Exp Med; 2007 Oct 29;204(11):2545-52
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  • To address these issues, we created mice transgenic for a bacterial artificial chromosome (BAC) containing the gene for human Langerin into which Cre recombinase had been inserted by homologous recombination (Langerin-Cre).

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  • (PMID = 17938236.001).
  • [ISSN] 1540-9538
  • [Journal-full-title] The Journal of experimental medicine
  • [ISO-abbreviation] J. Exp. Med.
  • [Language] ENG
  • [Grant] United States / NHLBI NIH HHS / HL / R01 HL066279; United States / NIAMS NIH HHS / AR / R01 AR044077; United States / NIAMS NIH HHS / AR / R01 AR44077; United States / NIAMS NIH HHS / AR / K08 AR651092; United States / NHLBI NIH HHS / HL / R01 HL66279
  • [Publication-type] Journal Article; Research Support, N.I.H., Extramural
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Antigens, CD; 0 / CD207 protein, human; 0 / Lectins, C-Type; 0 / Mannose-Binding Lectins; 0 / TGFB1 protein, human; 0 / Transforming Growth Factor beta1; EC 2.7.7.- / Cre recombinase; EC 2.7.7.- / Integrases
  • [Other-IDs] NLM/ PMC2118472
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57. Borg K, Stankiewicz P, Bocian E, Kruczek A, Obersztyn E, Lupski JR, Mazurczak T: Molecular analysis of a constitutional complex genome rearrangement with 11 breakpoints involving chromosomes 3, 11, 12, and 21 and a approximately 0.5-Mb submicroscopic deletion in a patient with mild mental retardation. Hum Genet; 2005 Nov;118(2):267-75
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  • [Title] Molecular analysis of a constitutional complex genome rearrangement with 11 breakpoints involving chromosomes 3, 11, 12, and 21 and a approximately 0.5-Mb submicroscopic deletion in a patient with mild mental retardation.
  • Complex chromosome rearrangements (CCRs) are extremely rare but often associated with mental retardation, congenital anomalies, or recurrent spontaneous abortions.
  • We report a de novo apparently balanced CCR involving chromosomes 3 and 12 and a two-way translocation between chromosomes 11 and 21 in a woman with mild intellectual disability, obesity, coarse facies, and apparent synophrys without other distinctive dysmorphia or congenital anomalies.
  • Molecular analysis of breakpoints using fluorescence in situ hybridization (FISH) with region-specific BAC clones revealed a more complex character for the CCR.
  • The rearrangement is a result of nine breaks and involves reciprocal translocation of terminal chromosome fragments 3p24.1-->pter and 12q23.1-->qter, insertion of four fragments of the long arm of chromosome 12: q14.1-->q21?
  • The deletion involves the chromosome region that has been previously associated with Cornelia de Lange syndrome (CdLS) in which a novel gene NAALADL2 has been mapped recently.

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  • [ErratumIn] Hum Genet. 2006 Jan;118(5):668
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  • (PMID = 16160854.001).
  • [ISSN] 0340-6717
  • [Journal-full-title] Human genetics
  • [ISO-abbreviation] Hum. Genet.
  • [Language] eng
  • [Grant] United States / NICHD NIH HHS / HD / HD24064; United States / NICHD NIH HHS / HD / P01 HD39420
  • [Publication-type] Case Reports; Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
  • [Publication-country] Germany
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58. Dohm JC, Lottaz C, Borodina T, Himmelbauer H: SHARCGS, a fast and highly accurate short-read assembly algorithm for de novo genomic sequencing. Genome Res; 2007 Nov;17(11):1697-706
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  • [Title] SHARCGS, a fast and highly accurate short-read assembly algorithm for de novo genomic sequencing.
  • In order to extend the fields of application to de novo sequencing, we developed the SHARCGS algorithm to assemble short-read (25-40-mer) data with high accuracy and speed.
  • The efficiency of SHARCGS was tested on BAC inserts from three eukaryotic species, on two yeast chromosomes, and on two bacterial genomes (Haemophilus influenzae, Escherichia coli).
  • We show that 30-mer-based BAC assemblies have N50 sizes >20 kbp for Drosophila and Arabidopsis and >4 kbp for human in simulations taking missing reads and wrong base calls into account.
  • Thus, SHARCGS is a suitable tool for fully exploiting novel sequencing technologies by assembling sequence contigs de novo with high confidence and by outperforming existing assembly algorithms in terms of speed and accuracy.
  • [MeSH-minor] Chromosomes, Artificial, Bacterial / chemistry. Contig Mapping. Humans. Sequence Analysis, DNA / methods

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  • (PMID = 17908823.001).
  • [ISSN] 1088-9051
  • [Journal-full-title] Genome research
  • [ISO-abbreviation] Genome Res.
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] United States
  • [Other-IDs] NLM/ PMC2045152
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59. Atallah E, Abrams J, Ayash L, Bentley G, Abidi M, Ratanatharathorn V, Uberti J: Long term follow-up of allogeneic stem cell transplantation in patients with myelodysplastic syndromes using busulfan, cytosine arabinoside, and cyclophosphamide. Am J Hematol; 2010 Aug;85(8):579-83
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  • [Title] Long term follow-up of allogeneic stem cell transplantation in patients with myelodysplastic syndromes using busulfan, cytosine arabinoside, and cyclophosphamide.
  • We report here the 10-year follow-up of 86 patients who underwent allogeneic stem cell transplantation (ASCT) for myelodysplastic syndrome (MDS).
  • All patients received the busulfan, cytosine arabinoside, and cyclophosphamide (BAC) preparative regimen which consisted of busulfan 16 mg/kg, cytosine arabinoside 8 g/m(2) IV, and cyclophosphamide 120 mg/kg IV.
  • Fifty-nine patients (69%) had de novo MDS; 26 (30%) had secondary MDS (treatment related), and one had a preceding aplastic anemia which progressed to MDS before transplant.
  • Younger age (P = 0.05), human leukocyte antigen (HLA) match (P = 0.002), good risk cytogenetics (P = 0.008), and having a related donor (P = 0.03) significantly improved overall and RFS in the multivariable analysis.
  • The long-term follow-up of patients receiving the BAC regimen with ASCT in this study indicated durable relapse-free and OS with acceptable toxicity in this group of patients with high-risk features.
  • [MeSH-major] Busulfan / therapeutic use. Cyclophosphamide / therapeutic use. Cytarabine / therapeutic use. Myeloablative Agonists / therapeutic use. Myelodysplastic Syndromes / surgery. Stem Cell Transplantation. Transplantation Conditioning
  • [MeSH-minor] Adolescent. Adult. Aged. Disease-Free Survival. Female. Follow-Up Studies. Graft vs Host Disease / mortality. Graft vs Host Disease / prevention & control. Humans. Immunosuppressive Agents / therapeutic use. Infection / mortality. Kaplan-Meier Estimate. Male. Middle Aged. Postoperative Complications / mortality. Recurrence. Retrospective Studies. Transplantation, Homologous. Treatment Outcome. Young Adult


60. Bossolini E, Krattinger SG, Keller B: Development of simple sequence repeat markers specific for the Lr34 resistance region of wheat using sequence information from rice and Aegilops tauschii. Theor Appl Genet; 2006 Oct;113(6):1049-62
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  • To derive new polymorphic markers, bacterial artificial chromosome (BAC) clones representing a total physical size of approximately 1 Mb and belonging to four contigs were isolated from Ae. tauschii by hybridization screening with wheat ESTs.
  • Several BAC clones were low-pass sequenced, resulting in a total of approximately 560 kb of sequence.
  • [MeSH-minor] Alleles. Chromosome Mapping. Chromosomes, Artificial, Bacterial. Expressed Sequence Tags. Genetic Markers. Genome, Plant. Immunity, Innate / genetics. Microsatellite Repeats. Nucleic Acid Hybridization. Oryza / genetics. Polymorphism, Genetic. Polyploidy. Sequence Analysis, DNA. Triticum / genetics

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  • (PMID = 16896711.001).
  • [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
  • [Chemical-registry-number] 0 / Genetic Markers
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61. Athanasiou A, Vanel D, El Mesbahi O, Theodore C, Fizazi K: Non-germ cell tumours arising in germ cell tumours (teratoma with malignant transformation) in men: CT and MR findings. Eur J Radiol; 2009 Feb;69(2):230-5
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  • [Title] Non-germ cell tumours arising in germ cell tumours (teratoma with malignant transformation) in men: CT and MR findings.
  • PURPOSE: To describe the imaging findings of germ cell tumours (GCT) containing non-germ cell malignant components (also designated teratoma with malignant transformation or TMT).
  • PATIENTS AND METHODS: The records of 14 male patients with GCT and a non-germ cell histological component TMT were retrospectively reviewed.
  • Sarcoma was identified in 10 out of 14 patients, with rhabdomyosarcoma ranking first (n=4), followed by osteosarcoma (n=2), fusiform cell sarcoma (n=1), undifferentiated sarcoma (n=1), neurosarcoma (n=1) and myxoid sarcoma (n=1).
  • Other histological types of malignant transformation included adenocarcinoma (n=3) and bronchoalveolar carcinoma (n=1).
  • RESULTS: Non-GCT malignant transformation was identified in the retroperitoneum (5), testis (3), mediastinum (3), peritoneum (2) and lungs (1).
  • The CT and MR imaging findings before treatment and after relapse were evaluated with emphasis on imaging features that could possibly imply the presence of malignant transformation (heterogeneously enhancing soft-tissue masses, ossified masses with calcified lymph nodes, diffuse epiploic thickening associated with ascites and peritoneal nodules, pulmonary alveolar infiltration with septal thickening).
  • [MeSH-major] Cell Transformation, Neoplastic / pathology. Magnetic Resonance Imaging. Teratoma / diagnosis. Tomography, X-Ray Computed


62. Hein I, Williamson S, Russell J, Powell W: Isolation of high molecular weight DNA suitable for BAC library construction from woody perennial soft-fruit species. Biotechniques; 2005 Jan;38(1):69-71
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  • [Title] Isolation of high molecular weight DNA suitable for BAC library construction from woody perennial soft-fruit species.
  • Extracted DNA was readily digested by restriction enzymes and, as shown for raspberry, suitable for bacterial artificial chromosome (BAC) library construction.
  • [MeSH-major] Chromosomes, Artificial, Bacterial / genetics. DNA, Plant / chemistry. DNA, Plant / isolation & purification. Gene Library. Plant Leaves / genetics. Rosales / genetics. Ultrafiltration / methods

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  • (PMID = 15679088.001).
  • [ISSN] 0736-6205
  • [Journal-full-title] BioTechniques
  • [ISO-abbreviation] BioTechniques
  • [Language] eng
  • [Publication-type] Evaluation Studies; Journal Article; Technical Report
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / DNA, Plant
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63. Rhoden CR, Ghelfi E, González-Flecha B: Pulmonary inflammation by ambient air particles is mediated by superoxide anion. Inhal Toxicol; 2008 Jan;20(1):11-5
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  • Lung inflammation is a key response to increased levels of particulate air pollution (PM); however, the cellular mechanisms leading to this response remain poorly understood.
  • Here we tested the possible role of a specific oxidant, superoxide anion, by using the membrane-permeable analog of superoxide dismutase, Mn(III) tetrakis(4-benzoic acid)porphyrin chloride (MnTBAP).
  • Recruitment of inflammatory cells into bronchoalveolar lavage was evaluated 4 h after instillation.
  • Rats exposed to UAP showed significant increases in the total cell number (8.9 +/- 0.6 x 10(6); sham: 5.1 +/- 0.6 x 10(6), p < .02), the numbers of polymorphonuclear leukocytes (26 +/- 4%; sham: 6 +/- 1%, p < .0001), protein levels (1.2 +/- 0.5 mg/ml, sham: 0.4 +/- 0.1 mg/ml, p < .001), and a trend of increase in myeloperoxidase levels (5 +/- 1; sham: 2 +/- 1 mU/ml) in bronchoalveolar lavage (BAL).
  • These data indicate that superoxide anion is a critical mediator of the inflammatory response elicited by PM deposition in the lung.

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  • (PMID = 18236216.001).
  • [ISSN] 1091-7691
  • [Journal-full-title] Inhalation toxicology
  • [ISO-abbreviation] Inhal Toxicol
  • [Language] eng
  • [Grant] United States / NIEHS NIH HHS / ES / R01 HL/ES68073
  • [Publication-type] Comparative Study; Journal Article; Research Support, N.I.H., Extramural
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Free Radicals; 0 / Particulate Matter; 11062-77-4 / Superoxides
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64. Bruckner L, Gigliotti F, Wright T, Harmsen A, Notter RH, Chess P, Wang Z, Finkelstein J: Pneumocystis carinii infection sensitizes lung to radiation-induced injury after syngeneic marrow transplantation: role of CD4+ T cells. Am J Physiol Lung Cell Mol Physiol; 2006 Jun;290(6):L1087-96
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  • [Title] Pneumocystis carinii infection sensitizes lung to radiation-induced injury after syngeneic marrow transplantation: role of CD4+ T cells.
  • A murine model of bone marrow transplant (BMT)-related lung injury was developed to study how infection sensitizes lung to the damaging effects of total body irradiation (TBI) at infectious and TBI doses that individually do not cause injury.
  • Mice infected with Pneumocystis carinii exhibited an asymptomatic, rapid, and transient influx of eosinophils and T cells in bronchoalveolar lavage fluid (BALF).
  • BALF from P. carinii/TBI mice contained a disproportionate initial influx of CD4(+) T cells (CD4(+):CD8(+) ratio of 2.7) that correlated with progressive lung injury (from 8 to 17 days post-BMT).
  • In vivo depletion of CD4(+) T cells in P. carinii/TBI mice abrogated pulmonary dysfunction and reduced TNF-alpha levels in BALF, whereas depletion of CD8(+) T cells did not affect lung compliance or TNF-alpha.
  • Lung injury was not attributable to direct P. carinii damage, since CD4-depleted P. carinii/TBI mice that exhibited no injury had higher average lung P. carinii burdens than either mice given P. carinii alone or undepleted P. carinii/TBI mice.
  • Together, these results indicate that P. carinii infection can sensitize the lung to subsequent TBI-mediated lung injury via a process dependent on non-alloreactive CD4(+) T cells.

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  • (PMID = 16399785.001).
  • [ISSN] 1040-0605
  • [Journal-full-title] American journal of physiology. Lung cellular and molecular physiology
  • [ISO-abbreviation] Am. J. Physiol. Lung Cell Mol. Physiol.
  • [Language] eng
  • [Grant] United States / NHLBI NIH HHS / HL / HL 71659; United States / NHLBI NIH HHS / HL / R01 HL 57176
  • [Publication-type] Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
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65. Huang XQ, Cloutier S: Molecular characterization and genomic organization of low molecular weight glutenin subunit genes at the Glu-3 loci in hexaploid wheat (Triticum aestivum L.). Theor Appl Genet; 2008 May;116(7):953-66
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  • Eighty-two positive BAC clones were identified to contain LMW-GS genes from the hexaploid wheat 'Glenlea' BAC library via filter hybridization and PCR validation.
  • Twelve unique LMW glutenin genes and seven pseudogenes were isolated from these positive BAC clones by primer-template mismatch PCR and subsequent primer walking using hemi-nested touchdown PCR.
  • These genes were sequenced and each consisted of a single-open reading frame (ORF) and untranslated 5' and 3' flanking regions.
  • On the basis of their N-terminal sequences, they were classified into nine groups.
  • Fingerprinting of the 82 BAC clones indicated 30 BAC clones assembled into eight contigs, while the remaining clones were singletons.
  • BAC end sequencing of the 82 clones revealed that long terminal repeat (LTR) retrotransposons were abundant in the Glu-3 regions.
  • Alignments of sequences indicated that the same type (starting with the same N-terminal sequence) LMW-GS genes were highly conserved in the homologous genomes between hexaploid wheat and its donors such as durum wheat and T. tauschii.
  • [MeSH-minor] Amino Acid Sequence. Chromosomes, Artificial, Bacterial. Gene Library. Molecular Sequence Data. Molecular Weight. Phylogeny. Polymerase Chain Reaction. Retroelements. Sequence Homology, Amino Acid

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  • [Cites] Theor Appl Genet. 2004 May;108(7):1409-19 [14727031.001]
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  • (PMID = 18305921.001).
  • [ISSN] 0040-5752
  • [Journal-full-title] TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik
  • [ISO-abbreviation] Theor. Appl. Genet.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] Germany
  • [Chemical-registry-number] 0 / Retroelements; 8002-80-0 / Glutens; FX065C7O71 / glutenin
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66. Mackay A, Tamber N, Fenwick K, Iravani M, Grigoriadis A, Dexter T, Lord CJ, Reis-Filho JS, Ashworth A: A high-resolution integrated analysis of genetic and expression profiles of breast cancer cell lines. Breast Cancer Res Treat; 2009 Dec;118(3):481-98
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  • [Title] A high-resolution integrated analysis of genetic and expression profiles of breast cancer cell lines.
  • Tumour cell lines derived from breast cancer patients constitute one of the cornerstones of breast cancer research.
  • To characterise breast cancer cell lines at the genetic level, we have developed a full tiling path bacterial artificial chromosome (BAC) array collection for comparative genomic hybridisation (aCGH).
  • This aCGH BAC collection covers 98% of the entire human genome at a resolution of 40-60 kbp.
  • We have used this platform alongside an in-house produced 17 K cDNA microarray set to characterise the genetic and transcriptomic profiles of 24 breast cancer cell lines, as well as cell types derived from non-diseased breast.
  • We demonstrate that breast cancer cell lines have genomic and transcriptomic features that recapitulate those of primary breast cancers and can be reliably subclassified into basal-like and luminal subgroups.
  • By overlaying aCGH and transcriptomic data, we have identified 753 genes whose expression correlate with copy number; this list comprised numerous oncogenes recurrently amplified and overexpressed in breast cancer (e.g., HER2, MYC, CCND1 and AURKA).
  • Finally, we demonstrate that although breast cancer cell lines have genomic features usually found in grade III breast cancers (i.e., gains of 1q, 8q and 20q), basal-like and luminal cell lines are characterised by distinct genomic aberrations.
  • [MeSH-major] Breast Neoplasms / genetics. Cell Line, Tumor / physiology. Gene Expression Profiling
  • [MeSH-minor] Chromosomes, Artificial, Bacterial. Cluster Analysis. Comparative Genomic Hybridization. Female. Gene Expression. Humans. Oligonucleotide Array Sequence Analysis


67. Satoh N, Kawashima T, Shoguchi E, Satou Y: Urochordate genomes. Genome Dyn; 2006;2:198-212
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  • The C. intestinalis genome is composed of approximately 160 Mbp, similar to other invertebrate genomes, and contains approximately 16,000 protein-coding genes that represent the basic set of chordate genes without the extensive gene duplications seen in vertebrates.
  • The C. intestinalis gene models are intensively annotated and supported by corresponding cDNAs.
  • With the aid of two-color fluorescent in situ hybridization of BAC clones, approximately 65% of the assembled genome information has been mapped onto the 14 pairs of C. intestinalis chromosomes.

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  • (PMID = 18753780.001).
  • [ISSN] 1660-9263
  • [Journal-full-title] Genome dynamics
  • [ISO-abbreviation] Genome Dyn
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't; Review
  • [Publication-country] Switzerland
  • [Number-of-references] 30
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68. Kim DW, Chae SH, Kang BR, Choi SH, Kim A, Woo S, Park HS: Comparative genomic analysis of the whale (Pseudorca crassidens) PRNP locus. Genome; 2008 Jun;51(6):452-64
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  • In this paper, we sequenced three novel BAC clones corresponding to a total length of 308 kb and spanning the PRNP, PRND, and RASSF2 loci, and conducted comparative genomic analysis to examine the genomic structure of the false killer whale PRNP locus.
  • Our results will provide novel insights into the genomic changes that have occurred during evolution of mammalian PRNP loci, and may also have implications for research into prion disease.

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  • [CommentIn] Genome. 2008 Dec;51(12):1062 [19088820.001]
  • (PMID = 18521124.001).
  • [ISSN] 0831-2796
  • [Journal-full-title] Genome
  • [ISO-abbreviation] Genome
  • [Language] ENG
  • [Publication-type] Comparative Study; Journal Article
  • [Publication-country] Canada
  • [Chemical-registry-number] 0 / Prions
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69. Zhang ZF, Ruivenkamp C, Staaf J, Zhu H, Barbaro M, Petillo D, Khoo SK, Borg A, Fan YS, Schoumans J: Detection of submicroscopic constitutional chromosome aberrations in clinical diagnostics: a validation of the practical performance of different array platforms. Eur J Hum Genet; 2008 Jul;16(7):786-92
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  • For several decades etiological diagnosis of patients with idiopathic mental retardation (MR) and multiple congenital anomalies (MCA) has relied on chromosome analysis by karyotyping.
  • Here, we investigated four high-density array platforms with a theoretical resolution < or =100 kb: 33K tiling path BAC array, 500K Affymetrix SNP array, 385K NimbleGen oligonucleotide array and 244K Agilent oligonucleotide array for their robustness and implementation in our diagnostic setting.
  • [MeSH-minor] Chromosomes, Artificial, Bacterial / genetics. Female. Genome, Human / genetics. Humans. Male. Reproducibility of Results

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  • (PMID = 18285835.001).
  • [ISSN] 1018-4813
  • [Journal-full-title] European journal of human genetics : EJHG
  • [ISO-abbreviation] Eur. J. Hum. Genet.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] England
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70. Somboonthum P, Yoshii H, Okamoto S, Koike M, Gomi Y, Uchiyama Y, Takahashi M, Yamanishi K, Mori Y: Generation of a recombinant Oka varicella vaccine expressing mumps virus hemagglutinin-neuraminidase protein as a polyvalent live vaccine. Vaccine; 2007 Dec 17;25(52):8741-55
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  • [Title] Generation of a recombinant Oka varicella vaccine expressing mumps virus hemagglutinin-neuraminidase protein as a polyvalent live vaccine.
  • We constructed a recombinant varicella-zoster virus (VZV) Oka vaccine strain (vOka) that contained the mumps virus (MuV) hemagglutinin-neuraminidase (HN) gene, inserted into the site of the ORF 13 gene by using the bacterial artificial chromosome (BAC) system in Escherichia coli.
  • Interestingly, the induced antibodies had a strong neutralizing activity against virus-cell infections of both MuV and VZV.
  • [MeSH-minor] Animals. Antibodies, Viral / blood. Cell Line. Cell Membrane / chemistry. Chromosomes, Artificial, Bacterial. Escherichia coli / genetics. Guinea Pigs. Humans. Male. Microscopy, Electron, Transmission. Microscopy, Immunoelectron. Neuraminidase / genetics. Neuraminidase / immunology. Neutralization Tests. Vaccines, Attenuated / genetics. Vaccines, Attenuated / immunology. Vaccines, Synthetic / genetics. Vaccines, Synthetic / immunology. Virion / chemistry

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  • (PMID = 18053621.001).
  • [ISSN] 0264-410X
  • [Journal-full-title] Vaccine
  • [ISO-abbreviation] Vaccine
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] Netherlands
  • [Chemical-registry-number] 0 / Antibodies, Viral; 0 / Chickenpox Vaccine; 0 / Hemagglutinins, Viral; 0 / Vaccines, Attenuated; 0 / Vaccines, Synthetic; EC 3.2.1.18 / Neuraminidase
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71. Tallini YN, Brekke JF, Shui B, Doran R, Hwang SM, Nakai J, Salama G, Segal SS, Kotlikoff MI: Propagated endothelial Ca2+ waves and arteriolar dilation in vivo: measurements in Cx40BAC GCaMP2 transgenic mice. Circ Res; 2007 Dec 7;101(12):1300-9
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  • To study endothelial cell (EC)- specific Ca(2+) signaling in vivo we engineered transgenic mice in which the Ca(2+) sensor GCaMP2 is placed under control of endogenous connexin40 (Cx40) transcription regulatory elements within a bacterial artificial chromosome (BAC), resulting in high sensor expression in arterial ECs, atrial myocytes, and cardiac Purkinje fibers.
  • High signal/noise Ca(2+) signals were obtained in Cx40(BAC)-GCaMP2 mice within the ventricular Purkinje cell network in vitro and in ECs of cremaster muscle arterioles in vivo.
  • At intermediate distances (300 to 600 microm), rapidly-conducted vasodilation occurred without changing EC Ca(2+), and additional dilation occurred after arrival of a Ca(2+) wave.
  • [MeSH-minor] Animals. Chromosomes, Artificial, Bacterial / genetics. Chromosomes, Artificial, Bacterial / physiology. Mice. Mice, Transgenic

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  • (PMID = 17932328.001).
  • [ISSN] 1524-4571
  • [Journal-full-title] Circulation research
  • [ISO-abbreviation] Circ. Res.
  • [Language] eng
  • [Grant] United States / NIDDK NIH HHS / DK / DK65992; United States / NHLBI NIH HHS / HL / F2HL76999; United States / NHLBI NIH HHS / HL / HL057929; United States / NHLBI NIH HHS / HL / HL41026; United States / NHLBI NIH HHS / HL / HL45239; United States / NHLBI NIH HHS / HL / HL56786; United States / NHLBI NIH HHS / HL / HL69097; United States / NHLBI NIH HHS / HL / HL70722
  • [Publication-type] Comparative Study; Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Connexins; 0 / Intracellular Calcium-Sensing Proteins; 0 / connexin 40; EC 2.7.11.17 / Calcium-Calmodulin-Dependent Protein Kinase Type 2
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72. Righini ChA, Soriano E, Morel N, Hitter A, Bolla M, Reyt E: [Combined induction chemotherapy and radiotherapy in case of undifferentiated carcinoma of nasopharynx tumours (UCNT)]. Rev Laryngol Otol Rhinol (Bord); 2006;127(4):223-8
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  • [Title] [Combined induction chemotherapy and radiotherapy in case of undifferentiated carcinoma of nasopharynx tumours (UCNT)].
  • [Transliterated title] Traitement par chimiothérapie d'induction et radiothérapie des cancers du cavum de type UCNT.
  • OBJECTIVE: The objectives of our study were to consider the morbidity and the effectiveness of combined induction chemotherapy and radiotherapy in the treatment of Undifferentiated Carcinoma of Nasopharynx Tumor (UCNT).
  • Two types of chemotherapy were administered: The BAC regime (Bleomycin, Adriamycin, Cisplatinum) and the FUCIFOL regime (Fluorouracil, Cispaltinum, Elvorin).
  • The BAC regime was the most effective.
  • The overall disease free survival rates at 3 years were respectively 78% and 69%.
  • [MeSH-major] Antineoplastic Agents / therapeutic use. Carcinoma / drug therapy. Carcinoma / radiotherapy. Nasopharyngeal Neoplasms / drug therapy. Nasopharyngeal Neoplasms / radiotherapy

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  • (PMID = 17315786.001).
  • [ISSN] 0035-1334
  • [Journal-full-title] Revue de laryngologie - otologie - rhinologie
  • [ISO-abbreviation] Rev Laryngol Otol Rhinol (Bord)
  • [Language] fre
  • [Publication-type] English Abstract; Journal Article
  • [Publication-country] France
  • [Chemical-registry-number] 0 / Antineoplastic Agents
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73. Fillmore MT, Marczinski CA, Bowman AM: Acute tolerance to alcohol effects on inhibitory and activational mechanisms of behavioral control. J Stud Alcohol; 2005 Sep;66(5):663-72
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  • OBJECTIVE: Acute alcohol tolerance refers to the observation of reduced impairment at a given blood alcohol concentration (BAC) on the descending versus ascending limb of the blood alcohol curve.
  • This study examined the expression of acute alcohol tolerance to impaired behavioral control in terms of changes in a drinker's ability to activate and inhibit behavioral responses as BAC ascended and declined following a dose.
  • The development of acute tolerance was measured by testing behavioral control twice: once during the ascending phase and again at comparable BACs during the descending phase of the blood alcohol curve.

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  • (PMID = 16331852.001).
  • [ISSN] 0096-882X
  • [Journal-full-title] Journal of studies on alcohol
  • [ISO-abbreviation] J. Stud. Alcohol
  • [Language] eng
  • [Grant] United States / NIAAA NIH HHS / AA / R01 AA12895
  • [Publication-type] Journal Article; Research Support, N.I.H., Extramural
  • [Publication-country] United States
  • [Chemical-registry-number] 3K9958V90M / Ethanol
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74. Varet J, Douglas SK, Gilmartin L, Medford AR, Bates DO, Harper SJ, Millar AB: VEGF in the lung: a role for novel isoforms. Am J Physiol Lung Cell Mol Physiol; 2010 Jun;298(6):L768-74
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  • [Title] VEGF in the lung: a role for novel isoforms.
  • Vascular endothelial cell growth factor (VEGF) is a potent mitogen and permogen that increases in the plasma and decreases in the alveolar space in respiratory diseases such as acute respiratory distress syndrome (ARDS).
  • This observation has led to controversy over the role of this potent molecule in lung physiology and disease.
  • We hypothesized that some of the VEGF previously detected in normal lung may be of the anti-angiogenic family (VEGF(xxx)b) with significant potential effects on VEGF bioactivity.
  • Expression of VEGF(xxx)b was also detected by immunoblotting in normal lung tissue, primary human alveolar type II (ATII) cells, and bronchoalveolar lavage (BAL) fluid in normal subjects and by ELISA in normal, "at risk," and ARDS subjects.
  • The effect of VEGF(165) and VEGF(165)b on both human primary endothelial cells and alveolar epithelial cell proliferation was assessed by [(3)H]thymidine uptake.
  • We found that VEGF(165)b was widely expressed in normal healthy lung tissue but is reduced in ARDS lung.
  • VEGF(121)b and VEGF(165)b were present in whole lung, BAL, and ATII lysate.
  • The proliferative effect of VEGF(165) on both human primary endothelial cells and human alveolar epithelial cells was significantly inhibited by VEGF(165)b (P < 0.01).
  • These data demonstrate that the novel VEGF(xxx)b family members are expressed in normal lung and are reduced in ARDS.
  • A specific functional effect on primary human endothelial and alveolar epithelial cells has also been shown.
  • These data suggest that the VEGF(xxx)b family may have a role in repair after lung injury.

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  • (PMID = 20228180.001).
  • [ISSN] 1522-1504
  • [Journal-full-title] American journal of physiology. Lung cellular and molecular physiology
  • [ISO-abbreviation] Am. J. Physiol. Lung Cell Mol. Physiol.
  • [Language] ENG
  • [Grant] United Kingdom / Wellcome Trust / / 074702; United Kingdom / British Heart Foundation / / BS/006/005
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Protein Isoforms; 0 / VEGFA protein, human; 0 / Vascular Endothelial Growth Factor A; 0 / Vascular Endothelial Growth Factors
  • [Other-IDs] NLM/ PMC2886605
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75. Wu Y, Zhou H, Xu Y, Li S: Enhanced expression of urocortin in lung tissues of rats with allergic asthma. Biochem Biophys Res Commun; 2006 Mar 10;341(2):532-40
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  • [Title] Enhanced expression of urocortin in lung tissues of rats with allergic asthma.
  • Bronchial asthma is defined as a chronic airway inflammatory disease characterized by sustained activation of many inflammatory cells including mast cells.
  • On the other hand, UCN can induce mast cell degranulation and generation of many proinflammatory factors.
  • The purpose of this study was to examine the expression profile of UCN in rat lung with allergic asthma.
  • In contrast, treatment with dexamethasone resulted in markedly ameliorated airway inflammation and alleviated airway inflammatory cell infiltration, coupled with a significantly decreased urocortin expression.
  • Regression analysis revealed a positive correlation between urocortin expression and the number of inflammatory cells in bronchoalveolar lavage fluid (P<0.01).
  • Glucocorticoid treatment markedly reduced the production of UCN in asthmatic lung tissues.
  • Peripherally produced UCN in lung may act as a possible local autocrine and paracrine immune-inflammatory mediator in inflammatory airway of allergic asthma rats.
  • [MeSH-major] Asthma / metabolism. Corticotropin-Releasing Hormone / biosynthesis. Corticotropin-Releasing Hormone / chemistry. Gene Expression Regulation. Hypersensitivity / metabolism. Lung / metabolism
  • [MeSH-minor] Actins / metabolism. Animals. Blotting, Western. Bronchi / pathology. Bronchoalveolar Lavage. Dexamethasone / pharmacology. Disease Models, Animal. Epithelium / metabolism. Glucocorticoids / metabolism. Immunohistochemistry. Inflammation. Male. Mast Cells / metabolism. Models, Statistical. Ovalbumin / metabolism. Peptides / chemistry. RNA, Messenger / metabolism. Rats. Rats, Sprague-Dawley. Reverse Transcriptase Polymerase Chain Reaction. Time Factors. Up-Regulation. Urocortins

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  • (PMID = 16427607.001).
  • [ISSN] 0006-291X
  • [Journal-full-title] Biochemical and biophysical research communications
  • [ISO-abbreviation] Biochem. Biophys. Res. Commun.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Actins; 0 / Glucocorticoids; 0 / Peptides; 0 / RNA, Messenger; 0 / Urocortins; 7S5I7G3JQL / Dexamethasone; 9006-59-1 / Ovalbumin; 9015-71-8 / Corticotropin-Releasing Hormone
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76. Politi K, Zakowski MF, Fan PD, Schonfeld EA, Pao W, Varmus HE: Lung adenocarcinomas induced in mice by mutant EGF receptors found in human lung cancers respond to a tyrosine kinase inhibitor or to down-regulation of the receptors. Genes Dev; 2006 Jun 1;20(11):1496-510
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  • [Title] Lung adenocarcinomas induced in mice by mutant EGF receptors found in human lung cancers respond to a tyrosine kinase inhibitor or to down-regulation of the receptors.
  • Somatic mutations in exons encoding the tyrosine kinase domain of the epidermal growth factor receptor (EGFR) gene are found in human lung adenocarcinomas and are associated with sensitivity to the tyrosine kinase inhibitors gefitinib and erlotinib.
  • To study further the role of these mutations in the initiation and maintenance of lung cancer, we have developed transgenic mice that express an exon 19 deletion mutant (EGFR(DeltaL747-S752)) or the L858R mutant (EGFR(L858R)) in type II pneumocytes under the control of doxycycline.
  • Expression of either EGFR mutant leads to the development of lung adenocarcinomas.
  • Two weeks after induction with doxycycline, mice that express the EGFR(L858R) allele show diffuse lung cancer highly reminiscent of human bronchioloalveolar carcinoma and later develop interspersed multifocal adenocarcinomas.
  • In contrast, mice expressing EGFR(DeltaL747-S752) develop multifocal tumors embedded in normal lung parenchyma with a longer latency.
  • These models may be useful for developing improved therapies for patients with lung cancers bearing EGFR mutations.


77. Wang C, Yang R, Yue D, Zhang Z: Expression of FAK and PTEN in bronchioloalveolar carcinoma and lung adenocarcinoma. Lung; 2009 Mar-Apr;187(2):104-9
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  • [Title] Expression of FAK and PTEN in bronchioloalveolar carcinoma and lung adenocarcinoma.
  • Bronchioloalveolar carcinoma (BAC) is classified as a subset of lung adenocarcinoma but has a distinct clinical presentation, tumor biology, response to therapy, and prognosis compared with other subtypes of lung adenocarcinoma.
  • This study was designed to investigate the clinicopathological differences between BAC and adenocarcinoma and the expression of focal adhesion kinase (FAK) and phosphatase and tensin homologue (PTEN) and their clinical significance in BAC and adenocarcinoma.
  • A retrospective analysis was performed on 77 patients with BAC and 172 patients with pure adenocarcinoma seen during the period from January 1998 to December 2000.
  • Clinicopathological characteristics and survival outcome were reviewed and compared between patients with BAC and adenocarcinoma.
  • Lymph node status, clinical symptoms, CT appearance and expression of FAK were different between BAC and adenocarcinoma.
  • The overall survival of BAC was better than that of adenocarcinoma.
  • In patients with FAK(-), the overall survival was not different between BAC and adenocarcinoma.
  • In patients with adenocarcinoma, the overall survival was better for FAK(-) compared with FAK(+).
  • Expression of PTEN had a prognostic significance in patients with BAC and adenocarcinoma.
  • BAC and adenocarcinoma have different clinicopathological presentations.
  • Expression of FAK has some effect on such differences and affects survival of lung adenocarcinoma.
  • Expression of PTEN can predict outcome of resected lung adenocarcinoma and BAC.
  • [MeSH-major] Adenocarcinoma / enzymology. Adenocarcinoma, Bronchiolo-Alveolar / enzymology. Biomarkers, Tumor / analysis. Focal Adhesion Kinase 1 / analysis. Lung Neoplasms / enzymology. PTEN Phosphohydrolase / analysis

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  • [CommentIn] Lung. 2009 May-Jun;187(3):207-8 [19408043.001]
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  • (PMID = 19242756.001).
  • [ISSN] 1432-1750
  • [Journal-full-title] Lung
  • [ISO-abbreviation] Lung
  • [Language] eng
  • [Publication-type] Comparative Study; Journal Article
  • [Publication-country] United States
  • [Chemical-registry-number] 0 / Biomarkers, Tumor; EC 2.7.10.2 / Focal Adhesion Kinase 1; EC 2.7.10.2 / PTK2 protein, human; EC 3.1.3.67 / PTEN Phosphohydrolase; EC 3.1.3.67 / PTEN protein, human
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78. Cui H, Wang Y, Shi X, Tong G, Lan D, He L, Qiu H, Liu C, Wang M: [Construction of Marek's disease virus serotype 814 strain as an infectious bacterial artificial chromosome]. Sheng Wu Gong Cheng Xue Bao; 2008 Apr;24(4):569-75
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  • [Title] [Construction of Marek's disease virus serotype 814 strain as an infectious bacterial artificial chromosome].
  • The aim of this study was to construct the complete genome of Marek's disease virus serotype 814 strain as an infectious bacterial artificial chromosome (BAC).
  • Using self-designed selection marker Eco-gpt (1.3 kb) and BAC vector pBeloBAC11 (7.5 kb), we constructed the transfer plasmid pUAB-gpt-BAC11.
  • Recombinant viral genomes were extracted and electroporated into E. coli, BAC clones were identified by restriction enzyme digestion and PCR analysis.
  • Finally, we obtained 38 BAC clones, DNA from various MDV-1 BACs was transfected into CEFs, and recombinant virus was reconstituted by transfection of MDV-BAC2 DNA.
  • We successfully cloned the complete genome of MDV-1814 strain as an infectious bacterial artificial chromosome.
  • In addition, it opens the possibility to generate novel MDV-1 vaccines based on the BACs.
  • [MeSH-major] Chickens / virology. Chromosomes, Artificial, Bacterial / genetics. Genetic Engineering / methods. Mardivirus / genetics. Viral Proteins / physiology

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  • (PMID = 18616164.001).
  • [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; Research Support, Non-U.S. Gov't
  • [Publication-country] China
  • [Chemical-registry-number] 0 / DNA, Recombinant; 0 / DNA, Viral; 0 / Viral Proteins
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79. Stuart LM, Boulais J, Charriere GM, Hennessy EJ, Brunet S, Jutras I, Goyette G, Rondeau C, Letarte S, Huang H, Ye P, Morales F, Kocks C, Bader JS, Desjardins M, Ezekowitz RA: A systems biology analysis of the Drosophila phagosome. Nature; 2007 Jan 4;445(7123):95-101
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  • During phagocytosis, particles are internalized into 'phagosomes', organelles from which immune processes such as microbial destruction and antigen presentation are initiated.
  • Here we present a systems biology analysis of phagosomes isolated from cells derived from the genetically tractable model organism Drosophila melanogaster and address the complex dynamic interactions between proteins within this organelle and their involvement in particle engulfment.
  • The contribution of each protein and complex to bacterial internalization was tested by RNA-mediated interference and identified known components of the phagocytic machinery.
  • In addition, the prediction and validation of regulators of phagocytosis such as the 'exocyst', a macromolecular complex required for exocytosis but not previously implicated in phagocytosis, validates this strategy.
  • In generating this 'systems-based model', we show the power of applying this approach to the study of complex cellular processes and organelles and expect that this detailed model of the phagosome will provide a new framework for studying host-pathogen interactions and innate immunity.

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  • (PMID = 17151602.001).
  • [ISSN] 1476-4687
  • [Journal-full-title] Nature
  • [ISO-abbreviation] Nature
  • [Language] eng
  • [Grant] United Kingdom / Wellcome Trust / /
  • [Publication-type] Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
  • [Publication-country] England
  • [Chemical-registry-number] 0 / Drosophila Proteins
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80. Rozema JJ, Coeckelbergh T, Van den Berg TJ, Trau R, Duchateau NC, Lemmens S, Tassignon MJ: Straylight before and after LASEK in myopia: changes in retinal straylight. Invest Ophthalmol Vis Sci; 2010 May;51(5):2800-4
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  • The difference with the average straylight increase with age, called base- and age-corrected (BAC) straylight, was also studied.
  • RESULTS: Before surgery, BAC straylight was found to be strongly elevated, with a value of 0.15 +/- 0.14 log units.
  • The reduction was significant (paired t-test, P << 0.01) and correlated with preoperative BAC straylight levels (r(2) = 0.332; P << 0.01).
  • Preoperative wear of soft contact lenses increased the BAC straylight by approximately 0.06 log units, with respect to the spectacles groups (P < 0.05, unpaired t-test), but after surgery, this difference was no longer found (P > 0.05).
  • CONCLUSIONS: Higher than normal preoperative BAC straylight was found to normalize after LASEK refractive surgery.
  • Wearing soft contact lenses causes an additional increase in preoperative BAC straylight that is eliminated after LASEK.

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  • (PMID = 20007829.001).
  • [ISSN] 1552-5783
  • [Journal-full-title] Investigative ophthalmology & visual science
  • [ISO-abbreviation] Invest. Ophthalmol. Vis. Sci.
  • [Language] eng
  • [Publication-type] Journal Article
  • [Publication-country] United States
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81. Tomita R, Murai J, Miura Y, Ishihara H, Liu S, Kubotera Y, Honda A, Hatta R, Kuroda T, Hamada H, Sakamoto M, Munemura I, Nunomura O, Ishikawa K, Genda Y, Kawasaki S, Suzuki K, Meksem K, Kobayashi K: Fine mapping and DNA fiber FISH analysis locates the tobamovirus resistance gene L3 of Capsicum chinense in a 400-kb region of R-like genes cluster embedded in highly repetitive sequences. Theor Appl Genet; 2008 Nov;117(7):1107-18
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  • [Title] Fine mapping and DNA fiber FISH analysis locates the tobamovirus resistance gene L3 of Capsicum chinense in a 400-kb region of R-like genes cluster embedded in highly repetitive sequences.
  • The tobamovirus resistance gene L(3) of Capsicum chinense was mapped using an intra-specific F2 population (2,016 individuals) of Capsicum annuum cultivars, into one of which had been introduced the C. chinense L(3) gene, and an inter-specific F2 population (3,391 individuals) between C. chinense and Capsicum frutescence.
  • Analysis of a BAC library with an AFLP marker closely linked to L(3)-resistance revealed the presence of homologs of the tomato disease resistance gene I2.
  • The L(3) gene was mapped between I2 homolog marker IH1-04 and BAC-end marker 189D23M, and located within a region encompassing two different BAC contigs consisting of four and one clones, respectively.
  • DNA fiber FISH results and Southern blotting of the BAC clones suggested that the L(3) locus-containing region is rich in highly repetitive sequences.
  • Southern blot analysis indicated that the two BAC contigs contain more than ten copies of the I2 homologs.
  • In contrast to the inter-specific F2 population, no recombinant progeny were identified to have a crossover point within two BAC contigs consisting of seven and two clones in the intra-specific F2 population.
  • [MeSH-minor] Amplified Fragment Length Polymorphism Analysis. Blotting, Southern. Chromosome Walking. Chromosomes, Artificial, Bacterial. Cloning, Molecular. Contig Mapping. Genetic Markers. Immunity, Innate / genetics. In Situ Hybridization, Fluorescence. Linkage Disequilibrium

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  • (PMID = 18663424.001).
  • [ISSN] 0040-5752
  • [Journal-full-title] TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik
  • [ISO-abbreviation] Theor. Appl. Genet.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] Germany
  • [Chemical-registry-number] 0 / DNA, Plant; 0 / Genetic Markers
  • [Other-IDs] NLM/ PMC2755798
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82. Kifayathullah LA, Arunachalam JP, Bodda C, Agbemenyah HY, Laccone FA, Mannan AU: MeCP2 mutant protein is expressed in astrocytes as well as in neurons and localizes in the nucleus. Cytogenet Genome Res; 2010;129(4):290-7
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  • RTT is a progressive neurodevelopmental disorder, which affects primarily girls during early childhood and it is one of the most common causes of mental retardation in females.
  • To evaluate the functional role of the R270X mutation, we generated a transgenic mouse model expressing MeCP2(270_EGFP) (human mutation equivalent) by BAC recombineering.
  • [MeSH-major] Astrocytes / metabolism. Cell Nucleus / metabolism. Methyl-CpG-Binding Protein 2 / metabolism. Mutation. Neurons / metabolism
  • [MeSH-minor] Active Transport, Cell Nucleus. Animals. Cells, Cultured. Mice. Mice, Transgenic

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  • [Copyright] Copyright (c) 2010 S. Karger AG, Basel.
  • (PMID = 20625242.001).
  • [ISSN] 1424-859X
  • [Journal-full-title] Cytogenetic and genome research
  • [ISO-abbreviation] Cytogenet. Genome Res.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] Switzerland
  • [Chemical-registry-number] 0 / Mecp2 protein, mouse; 0 / Methyl-CpG-Binding Protein 2
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83. Richter M, Schudel L, Tobler K, Matheis F, Vögtlin A, Vanderplasschen A, Costes B, Spiess B, Ackermann M: Clinical, virological, and immunological parameters associated with superinfection of latently with FeHV-1 infected cats. Vet Microbiol; 2009 Sep 18;138(3-4):205-16
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  • Infections with feline herpesvirus type 1 (FeHV-1) are frequently associated with recurrent ocular disease, which may occur even in vaccinated cats.
  • To begin addressing this complex question, we reconstituted a marker-tagged mutant FeHV-1 from a bacterial artificial chromosome (BAC) harboring the FeHV-1 genome.
  • Reactivation was accompanied by recrudescence of ocular disease signs.
  • [MeSH-minor] Animals. Antibodies, Viral / blood. Cats. Cell Line. Cyclophosphamide / pharmacology. Dexamethasone / pharmacology. Female. Immunosuppressive Agents / pharmacology. Male. Specific Pathogen-Free Organisms. Viral Proteins

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  • (PMID = 19359108.001).
  • [ISSN] 1873-2542
  • [Journal-full-title] Veterinary microbiology
  • [ISO-abbreviation] Vet. Microbiol.
  • [Language] eng
  • [Publication-type] Journal Article; Research Support, Non-U.S. Gov't
  • [Publication-country] Netherlands
  • [Chemical-registry-number] 0 / Antibodies, Viral; 0 / Immunosuppressive Agents; 0 / Viral Proteins; 7S5I7G3JQL / Dexamethasone; 8N3DW7272P / Cyclophosphamide
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84. Prazeres da Costa O, González J, Ruiz A: Cloning and sequencing of the breakpoint regions of inversion 5g fixed in Drosophila buzzatii. Chromosoma; 2009 Jun;118(3):349-60
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  • First, D. buzzatii BAC clones encompassing the breakpoints were identified and their ends sequenced.

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