Name | Description | Date accessed | Ref |
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miRTarBase | Experimentally supported microRNA target interactions. | May 2016 (v6.1) | |
miRecords | Experimentally supported microRNA target interactions. | May 2016 (v5.0) | |
DIANA microT-CDS | Predicted microRNA target interactions. | May 2016 | |
ElMMo3 | Predicted microRNA target interactions. | May 2016 (v3) | |
MicroCosm | Predicted microRNA target interactions. | May 2016 (v5) | |
microRNA.org | Predicted microRNA target interactions. | May 2016 | |
miRDB | Predicted microRNA target interactions. | May 2016 (v5) | |
miRNAMap2 | Predicted microRNA target interactions. | May 2016 | |
PicTar2 | Predicted microRNA target interactions. | May 2016 (v2) | |
PITA | Predicted microRNA target interactions. | May 2016 (v6) | |
TargetScanMouse | Predicted microRNA target interactions. | May 2016 (v7.1) |
Name | Description | Date accessed | Ref |
---|---|---|---|
LncRNADisease | Experimentally supported lncRNA target interactions. | May 2016 | |
LncRNA2Target | Experimentally supported lncRNA target interactions. | May 2016 (v1.2) | |
LncReg | Experimentally supported lncRNA target interactions. | May 2016 |
Name | Description | Date accessed | Ref |
---|---|---|---|
piRBase | Experimentally supported piRNA target interactions. | May 2016 (v1.0) |
Name | Description | Date accessed | Ref |
---|---|---|---|
InnateDB | InnateDB contains mouse genes that play role in immunological processes mined from literature. This collection of genes, together with the SepticShock genes (see below), are the core of the mouse immunological gene set. All human genes were converted to mouse via NCBI Homologene. | May 2016 | |
SepticShock | Contains mouse genes that play role in immunological processes. The list includes genes with potential relevance to macrophage response to microbial stimulation. | May 2016 | |
ImmPort | The list of immunologically related genes in ImmPort is a collection of human genes, which was formed with the goal of retrieving all genes that have immune system-related functions. All human genes were converted to mouse via NCBI Homologene. | May 2016 | |
Immunome database | Immunology-related human genes were collected from research articles, textbooks and electronic information sources. The list contains genes that are directly involved in immunological processes. All human genes were converted to mouse via NCBI Homologene. | May 2016 |
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Immunogenetic Related Information Source | This gene list, of human immune genes (April 28, 2013), is derived from the IRIS online database of known defence genes (note that the IRIS database does not seem to be available anymore). All human genes were converted to mouse via NCBI Homologene. | May 2016 | |
MAPK/NFKB network | This human gene list was derived from in house curation of the p38, ERK, JNK signalling pathways (Raymond Lo and Fiona Roche) and the NFKB transcriptional regulatory module (Jenn Gardy). It contains 761 genes (April 28, 2013); members of the TNF-alpha and IFN-alpha signalling pathway derived from Transpath data were also included. All human genes were converted to mouse via NCBI Homologene. | May 2016 |
Name | Description | Date accessed | Ref |
---|---|---|---|
miRBase | General information about microRNA. | May 2016 (v21) | |
NCBI gene | General information about target genes. | Feb 2016 | |
Wikipathways | Wikipathways information for target genes. | Jun 2016 | |
KEGG: Kyoto Encyclopedia of Genes and Genomes | Pathway information for target genes. | Feb 2014 | |
REACTOME | REACTOME pathway information for target genes. | Jun 2016 | |
Gene Ontology | Biological processes and biological functions associated to target genes. | Feb 2016 | MSigDB | Information about human target gene differential expression in immunological experiments. The data is derived from multiple species and converted in MSigDB to human. All human genes were converted to mouse via NCBI Homologene. | Jan 2016 (v5.1) |
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Cell-type expression | Information on cell-types expressing miRNAs | 2016 | |
TFBS: Encode | ChIP-based TFBS. Mapped to mm10 as described in the manuscript. | 2016 | |
TFBS: htChIP | ChIP-based TFBSs. Mapped to mm10 as described in the manuscript. | 2016 |