Public tools
Sets
A web-based tool to evaluate the significance of intersections among sets. Also produces Venn diagrams.
Useful sites
- Addgene – The non-profit plasmid repository.
- BioJupies – User-friendly, interactive analysis notebooks for RNA-seq data.
- Bits of DNA – Lior Pachter’s computational biology blog
- Cancerrxgene – Genomics of Drug Sensitivity in Cancer.
- cBioPortal – Visualization, analysis and download of large-scale cancer genomics data sets.
- ChIP-Enrich – Gene set enrichment testing.
- ChromHMM – Chromatin state discovery and characterization.
- Cistrome – integrative analysis pipelines for genome regulation.
- CistromeCancer – Predicted transcription factor targets and enhancer profiles in cancers.
- CiteAb – The Antibody Search Engine.
- DAVID – Database for Annotation, Visualization and Integrated Discovery.
- DeepBlue – Epigenomic Data Server.
- Enrichr – Interactive and collaborative gene list enrichment analysis tool.
- ExpressAnalyst – a unified platform for gene expression data analysis.
- IHEC – International Human Epigenome Consortium.
- LincsCloud – Catalog of gene-expression data collected from human cells treated with chemical compounds and genetic reagents.
- Morpheus – matrix visualization and analysis software for gene expression data.
- Pan-Cancer Atlas – From the TCGA consortium.
- Reactome Icon Library and Servier SMART – Icons and graphical elements.
- RNA-Seqlopedia – Everything about RNA-Seq.
- UALCAN – Cancer transcriptome web portal.