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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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[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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(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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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

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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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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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[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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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

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(PMID = 18566442.001).

[ISSN] 0022-1767

[Journal-full-title] Journal of immunology (Baltimore, Md. : 1950)

[ISO-abbreviation] J. Immunol.

[Language] eng

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

[Publication-country] United States

[Chemical-registry-number] 0 / Annexins; 0 / Antibodies; 0 / Autoantigens; 0 / DNA, Complementary; 0 / Receptors, Antigen, T-Cell, alpha-beta; 0 / Recombinant Proteins; EC 3.4.21.36 / Pancreatic Elastase

   

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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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[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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[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

SciCrunch. OMIA - Online Mendelian Inheritance in Animals: Data: Gene Expression .

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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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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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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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[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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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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[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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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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[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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[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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[Cites] Proc Natl Acad Sci U S A. 2000 Jul 5;97(14):7963-8 [10859354.001]

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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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[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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[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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[Cites] Gene. 2007 Oct 15;401(1-2):97-107 [17692477.001]

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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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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

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(PMID = 16982181.001).

[ISSN] 0954-6111

[Journal-full-title] Respiratory medicine

[ISO-abbreviation] Respir Med

[Language] eng

[Publication-type] Comparative Study; Journal Article

[Publication-country] England

[Chemical-registry-number] 0 / Chemical Warfare Agents; 7U1EE4V452 / Carbon Monoxide; T8KEC9FH9P / Mustard Gas

   

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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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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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[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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[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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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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[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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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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[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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[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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[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

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[Copyright] Copyright 2006 S. Karger AG, Basel.

(PMID = 17065789.001).

[ISSN] 1424-859X

[Journal-full-title] Cytogenetic and genome research

[ISO-abbreviation] Cytogenet. Genome Res.

[Language] eng

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

[Publication-country] Switzerland

[Chemical-registry-number] 0 / DNA, Neoplasm

   

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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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[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

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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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[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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[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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[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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[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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[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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(PMID = 18810532.001).

[ISSN] 1432-0991

[Journal-full-title] Current microbiology

[ISO-abbreviation] Curr. Microbiol.

[Language] eng

[Publication-type] Journal Article

[Publication-country] United States

   

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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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[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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[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

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(PMID = 18161663.001).

[ISSN] 0393-6155

[Journal-full-title] The International journal of biological markers

[ISO-abbreviation] Int. J. Biol. Markers

[Language] eng

[Publication-type] Journal Article

[Publication-country] United States

[Chemical-registry-number] 0 / Biomarkers, Tumor; 0 / Mucin-1; EC 2.7.10.1 / Receptor, Epidermal Growth Factor

   

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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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[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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[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