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  1. Artikel ; Online: NCBI Epigenomics: what's new for 2013.

    Fingerman, Ian M / Zhang, Xuan / Ratzat, Walter / Husain, Nora / Cohen, Robert F / Schuler, Gregory D

    Nucleic acids research

    2012  Band 41, Heft Database issue, Seite(n) D221–5

    Abstract: The Epigenomics resource at the National Center for Biotechnology Information (NCBI) has been created to serve as a comprehensive public repository for whole-genome epigenetic data sets (www.ncbi.nlm.nih.gov/epigenomics). We have constructed this ... ...

    Abstract The Epigenomics resource at the National Center for Biotechnology Information (NCBI) has been created to serve as a comprehensive public repository for whole-genome epigenetic data sets (www.ncbi.nlm.nih.gov/epigenomics). We have constructed this resource by selecting the subset of epigenetics-specific data from the Gene Expression Omnibus (GEO) database and then subjecting them to further review and annotation. Associated data tracks can be viewed using popular genome browsers or downloaded for local analysis. We have performed extensive user testing throughout the development of this resource, and new features and improvements are continuously being implemented based on the results. We have made substantial usability improvements to user interfaces, enhanced functionality, made identification of data tracks of interest easier and created new tools for preliminary data analyses. Additionally, we have made efforts to enhance the integration between the Epigenomics resource and other NCBI databases, including the Gene database and PubMed. Data holdings have also increased dramatically since the initial publication describing the NCBI Epigenomics resource and currently consist of >3700 viewable and downloadable data tracks from 955 biological sources encompassing five well-studied species. This updated manuscript highlights these changes and improvements.
    Mesh-Begriff(e) Animals ; Databases, Genetic ; Epigenomics ; Humans ; Internet ; Mice
    Sprache Englisch
    Erscheinungsdatum 2012-11-27
    Erscheinungsland England
    Dokumenttyp Journal Article ; Research Support, N.I.H., Extramural ; Research Support, N.I.H., Intramural
    ZDB-ID 186809-3
    ISSN 1362-4962 ; 1362-4954 ; 0301-5610 ; 0305-1048
    ISSN (online) 1362-4962 ; 1362-4954
    ISSN 0301-5610 ; 0305-1048
    DOI 10.1093/nar/gks1171
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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  2. Artikel: NCBI Epigenomics: a new public resource for exploring epigenomic data sets

    Fingerman, Ian M / McDaniel, Lee / Zhang, Xuan / Ratzat, Walter / Hassan, Tarek / Jiang, Zhifang / Cohen, Robert F / Schuler, Gregory D

    Nucleic acids research. 2011 Jan., v. 39, no. suppl_1

    2011  

    Abstract: The Epigenomics database at the National Center for Biotechnology Information (NCBI) is a new resource that has been created to serve as a comprehensive public resource for whole-genome epigenetic data sets (www.ncbi.nlm.nih.gov/epigenomics). Epigenetics ...

    Abstract The Epigenomics database at the National Center for Biotechnology Information (NCBI) is a new resource that has been created to serve as a comprehensive public resource for whole-genome epigenetic data sets (www.ncbi.nlm.nih.gov/epigenomics). Epigenetics is the study of stable and heritable changes in gene expression that occur independently of the primary DNA sequence. Epigenetic mechanisms include post-translational modifications of histones, DNA methylation, chromatin conformation and non-coding RNAs. It has been observed that misregulation of epigenetic processes has been associated with human disease. We have constructed the new resource by selecting the subset of epigenetics-specific data from general-purpose archives, such as the Gene Expression Omnibus, and Sequence Read Archives, and then subjecting them to further review, annotation and reorganization. Raw data is processed and mapped to genomic coordinates to generate 'tracks' that are a visual representation of the data. These data tracks can be viewed using popular genome browsers or downloaded for local analysis. The Epigenomics resource also provides the user with a unique interface that allows for intuitive browsing and searching of data sets based on biological attributes. Currently, there are 69 studies, 337 samples and over 1100 data tracks from five well-studied species that are viewable and downloadable in Epigenomics.
    Schlagwörter DNA ; DNA methylation ; National Center for Biotechnology Information ; chromatin ; data collection ; databases ; epigenetics ; gene expression ; gene expression regulation ; genome ; histones ; human diseases ; information retrieval ; non-coding RNA ; nucleotide sequences ; post-translational modification ; user interface
    Sprache Englisch
    Erscheinungsverlauf 2011-01
    Umfang p. D908-D912.
    Dokumenttyp Artikel
    ZDB-ID 186809-3
    ISSN 0301-5610 ; 0305-1048
    ISSN 0301-5610 ; 0305-1048
    Datenquelle NAL Katalog (AGRICOLA)

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  3. Artikel ; Online: NCBI Epigenomics: a new public resource for exploring epigenomic data sets.

    Fingerman, Ian M / McDaniel, Lee / Zhang, Xuan / Ratzat, Walter / Hassan, Tarek / Jiang, Zhifang / Cohen, Robert F / Schuler, Gregory D

    Nucleic acids research

    2010  Band 39, Heft Database issue, Seite(n) D908–12

    Abstract: The Epigenomics database at the National Center for Biotechnology Information (NCBI) is a new resource that has been created to serve as a comprehensive public resource for whole-genome epigenetic data sets (www.ncbi.nlm.nih.gov/epigenomics). Epigenetics ...

    Abstract The Epigenomics database at the National Center for Biotechnology Information (NCBI) is a new resource that has been created to serve as a comprehensive public resource for whole-genome epigenetic data sets (www.ncbi.nlm.nih.gov/epigenomics). Epigenetics is the study of stable and heritable changes in gene expression that occur independently of the primary DNA sequence. Epigenetic mechanisms include post-translational modifications of histones, DNA methylation, chromatin conformation and non-coding RNAs. It has been observed that misregulation of epigenetic processes has been associated with human disease. We have constructed the new resource by selecting the subset of epigenetics-specific data from general-purpose archives, such as the Gene Expression Omnibus, and Sequence Read Archives, and then subjecting them to further review, annotation and reorganization. Raw data is processed and mapped to genomic coordinates to generate 'tracks' that are a visual representation of the data. These data tracks can be viewed using popular genome browsers or downloaded for local analysis. The Epigenomics resource also provides the user with a unique interface that allows for intuitive browsing and searching of data sets based on biological attributes. Currently, there are 69 studies, 337 samples and over 1100 data tracks from five well-studied species that are viewable and downloadable in Epigenomics.
    Mesh-Begriff(e) Chromatin/metabolism ; Databases, Genetic ; Epigenomics ; Humans ; Internet ; User-Computer Interface
    Chemische Substanzen Chromatin
    Sprache Englisch
    Erscheinungsdatum 2010-11-12
    Erscheinungsland England
    Dokumenttyp Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 186809-3
    ISSN 1362-4962 ; 1362-4954 ; 0301-5610 ; 0305-1048
    ISSN (online) 1362-4962 ; 1362-4954
    ISSN 0301-5610 ; 0305-1048
    DOI 10.1093/nar/gkq1146
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

    Zusatzmaterialien

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    Verfügbar in ZB MED Köln/Königswinter

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    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
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