INTERFEROME v2.0: an updated database of annotated interferon-regulated genes
Open accessAbstract
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.
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Interferon-stimulated genes comprise 59 of the 61 genes in the interferon response module.
“which comprise a striking 59 of the 61 genes in this module (71).”
From Transcriptome-wide isoform-level dysregulation in ASD, schizophrenia, and bipolar disorder (2018) · cites this paper as [71]
The interferon response module geneM32 contains critical components of the ISGF3 complex.
“The interferon response module (geneM32) contains critical components of the IFN-stimulated gene factor 3 (ISGF3) complex”
From Transcriptome-wide isoform-level dysregulation in ASD, schizophrenia, and bipolar disorder (2018) · cites this paper as [71]
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- Authors
- Rusinova, I., Forster, S., Yu, S., Kannan, A., Masse, M., Cumming, H., Chapman, R., & Hertzog, P. J.
- Affiliations
- Université Paris Descartes (FR)
- Corresponding author
- Hertzog, Paul J.
- ORCID
- Hertzog, Paul J.
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 2012-11-29
- Volume
- 41
- Issue
- D1
- Pages
- D1040-D1046
- ISSN
- 0305-1048 (ISSN-L)
- 1362-4962
- PMC
- PMC3531205
- OpenAlex
- W2166617377
- Cited by
- 878
- References
- 40
- Citations by year
- 2026: 45 · 2025: 65 · 2024: 76 · 2023: 65 · 2022: 76 · 2021: 122 · 2020: 97 · 2019: 81 · 2018: 63 · 2017: 64 · 2016: 42 · 2015: 42 · 2014: 30 · 2013: 10
- FWCI
- 11.43
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- Locations
- Nucleic Acids Research (publishedVersion, cc-by-nc)
- Europe PMC (PubMed Central) (publishedVersion, cc-by-nc)
- PubMed Central (publishedVersion, cc-by-nc)
- PubMed (publishedVersion)
- Own your potential (DEAKIN) (publishedVersion)
- Monash University Research Portal (Monash University) (submittedVersion, other-oa)
- Minerva Access (University of Melbourne) (submittedVersion, cc-by-nc)
- Funders
- Australian National Data Service
- State Government of Victoria
- Medical Research Council
- National Health and Medical Research Council
- Topics
- Life Sciences › Immunology and Microbiology › Immunology › interferon and immune responses
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Bioinformatics and Genomic Networks
- Health Sciences › Medicine › Oncology › Cytokine Signaling Pathways and Interactions
- Keywords
- interferon-regulated genes, type I interferon, interferon-gamma, interferon lambda, gene expression changes, interferon-treated cells, Gene Ontology, regulatory factors, chromosomal location, tissue expression, gene expression signatures, innate immunity
- MeSH terms
- Animals, Gene Expression Regulation, Humans, Interferons, Internet, Databases, Genetic, Mice, Molecular Sequence Annotation, Transcriptome
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