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Start Over Descriptor "Interferome" Journal nucleic acids research
2 results on '"Interferome"'

1. INTERFEROME: the database of interferon regulated genes

Author

Paul J. Hertzog, Shamith A. Samarajiwa, Samuel C. Forster, Katie Auchettl, Samarajiwa, Shamith [0000-0003-1046-0601], and Apollo - University of Cambridge Repository

Subjects
Proteomics, Interferome, Biology, computer.software_genre, Annotation, Mice, Interferon, Databases, Genetic, Genetics, medicine, Animals, Humans, Promoter Regions, Genetic, Gene, Oligonucleotide Array Sequence Analysis, Regulation of gene expression, Database, Gene Expression Profiling, Articles, Gene expression profiling, Gene Expression Regulation, Expression data, Interferons, computer, medicine.drug
Abstract

INTERFEROME is an open access database of types I, II and III Interferon regulated genes (http://www.interferome.org) collected from analysing expression data sets of cells treated with IFNs. This database of interferon regulated genes integrates information from high-throughput experiments with annotation, ontology, orthologue sequences from 37 species, tissue expression patterns and gene regulatory information to enable a detailed investigation of the molecular mechanisms underlying IFN biology. INTERFEROME fulfils a need in infection, immunity, development and cancer research by providing computational tools to assist in identifying interferon signatures in gene lists generated by high-throughput expression technologies, and their potential molecular and biological consequences.

Published
2008

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

Author

Anitha Kannan, Ross Chapman, Marion Masse, Simon Xiaoming Yu, Irina Rusinova, Paul J. Hertzog, Helen E. Cumming, and Samuel C. Forster

Subjects
Interferome, Biology, computer.software_genre, Mice, Interferon, Databases, Genetic, Genetics, medicine, Animals, Humans, Gene, IRGs, Regulation of gene expression, Internet, Database, Molecular Sequence Annotation, Articles, Fold change, Metadata, Gene Expression Regulation, Interferons, Transcriptome, computer, medicine.drug
Abstract

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.

Published
2012

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