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* Search using an HGNC approved gene symbol. Use the HGNC symbol checker to look up approved gene symbols. |
Selected clusters must meet all of the following species criteria:
Ortholog:
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Up-regulated gene:
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Down-regulated gene:
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{{species[speciesCriterion.species].displayName}} |
Ortholog:
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Up-regulated gene:
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Down-regulated gene:
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Selected clusters must meet all of the following criteria:
Orthologs must be present in | at least species and at most species |
Up-regulated genes must be present in | at least species and at most species |
Down-regulated genes must be present in | at least species and at most species |
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This database groups genes together in orthologous clusters, based on ENSEMBL annotations. Clusters may contain genes from different species i.e. orthologs. In some cases a gene has expanded within the species of a genome producing paralogs, so a cluster may also contain multiple genes from the same species.
For some clusters there was no ENSEMBL-annotated ortholog in the genome of a given species. Some of these absent orthologs have been resolved through a BLAST approach, and others via in silico 'baiting' for reads matching the ortholog of a closely related species. These genes are prefixed with 'CVR-defined gene'.
Within an orthologous cluster, the effect of interferon varies: some genes are up-regulated, others down-regulated, still others are not differentially expressed.
All clusters matching the criteria provided will be output. Clusters will specify all the genes within the cluster, grouped by species. Some species may not posess an ortholog within the cluster; these species will be absent.
If a gene's differential expression value is significant, it will have a red (significantly upregulated) or blue (significantly downregulated) arrow in the 'Expression' column, otherwise this column is blank.
Tables of search results can be downloaded in either tab-delimited or CSV format using the 'Download' button.
Clusters {{firstClusterIndex}} to {{lastClusterIndex}} of {{orthoClusters.length}}
Orthologous cluster ID | Species | ENSEMBL ID | Gene | Expression | log2 Fold Change | FDR | |||
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{{resultRow.orthoClusterId}} | {{resultRow.species}} | {{resultRow.ensemblId}} | CVR-defined gene: {{resultRow.ensemblId}} | {{resultRow.geneName}} | {{resultRow.log2fc}} | {{resultRow.fdr}} |
Andrew E. Shaw, Joseph Hughes, Quan Gu, Abdelkader Behdenna, Joshua B. Singer, Tristan Dennis, Richard J. Orton, Mariana Varela, Robert J. Gifford, Sam J. Wilson and Massimo Palmarini
Published December 18, 2017 : https://doi.org/10.1371/journal.pbio.2004086