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Interferome v2.0: an updated database of annotated interferon-regulated genes

Rusinova, Irina, Forster, Sam, Yu, Simon, Kannan, Anitha, Masse, Marion, Cumming, Helen, Chapman, Ross and Hertzog, Paul J 2013, Interferome v2.0: an updated database of annotated interferon-regulated genes, Nucleic acids research, vol. 41, no. D1, pp. D1040-D1046, doi: 10.1093/nar/gks1215.

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Title Interferome v2.0: an updated database of annotated interferon-regulated genes
Author(s) Rusinova, Irina
Forster, Sam
Yu, Simon
Kannan, Anitha
Masse, Marion
Cumming, Helen
Chapman, Ross
Hertzog, Paul J
Journal name Nucleic acids research
Volume number 41
Issue number D1
Start page D1040
End page D1046
Total pages 7
Publisher Oxford University Press
Place of publication Oxford, Eng.
Publication date 2013-01
ISSN 1362-4962
Keyword(s) databases, genetic
gene expression regulation
interferons
internet
molecular sequence annotation
transcriptome
Interferome v2.0
Summary Interferome v2.0 (http://interferome.its.monash.edu.au/interferome/) is an update of an earlier version of the Interferome DB published in the 2009 NAR database edition. Vastly improved computational infrastructure now enables more complex and faster queries, and supports more data sets from types I, II and III interferon (IFN)-treated cells, mice or humans. Quantitative, MIAME compliant data are collected, subjected to thorough, standardized, quantitative and statistical analyses and then significant changes in gene expression are uploaded. Comprehensive manual collection of metadata in v2.0 allows flexible, detailed search capacity including the parameters: range of -fold change, IFN type, concentration and time, and cell/tissue type. There is no limit to the number of genes that can be used to search the database in a single query. Secondary analysis such as gene ontology, regulatory factors, chromosomal location or tissue expression plots of IFN-regulated genes (IRGs) can be performed in Interferome v2.0, or data can be downloaded in convenient text formats compatible with common secondary analysis programs. Given the importance of IFN to innate immune responses in infectious, inflammatory diseases and cancer, this upgrade of the Interferome to version 2.0 will facilitate the identification of gene signatures of importance in the pathogenesis of these diseases.
Language eng
DOI 10.1093/nar/gks1215
Field of Research 05 Environmental Sciences
06 Biological Sciences
08 Information And Computing Sciences
Copyright notice ©2012, The Authors
Free to Read? Yes
Use Rights Creative Commons Attribution non-commercial licence
Persistent URL http://hdl.handle.net/10536/DRO/DU:30110064

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Every reasonable effort has been made to ensure that permission has been obtained for items included in DRO. If you believe that your rights have been infringed by this repository, please contact drosupport@deakin.edu.au.