Gene Expression
- BioGPS – Mouse and human gene expression atlas
- CIRCA – Mouse circadian gene expression atlas
- Attie Lab Diabetes Database – Mouse diabetes and obesity gene expression atlas
- MGI – Mouse genome annotation
- VISION – Functional interpretation of single cell RNA-seq latent manifolds
- CITGeneDB – A comprehensive database of human and mouse genes enhancing or suppressing Cold-induced thermogenesis, validated by perturbation experiments in mice
- Tabula Muris – A compendium of single cell transcriptome data from the model organism Mus musculus, containing nearly 100,000 cells from 20 organs and tissues
- Tabula Sapiens – Tabula Sapiens is a benchmark, first-draft human cell atlas of nearly 500,000 cells from 24 organs of 15 normal human subjects.
- PrimerBank – Primer design for QPCR
- Cistrome – Predict transcription factors that regulate genes of interest.
- Cellxgene – Scalable single-cell visualization for biomedical research
- Genebridge – Gene-GO Correlation Across Expression Datasets
Proteomics
- The Human Protein Atlas
- GPCRdb – G-protein coupled receptor database
- OPABAT – Proteomics Database of Outbred Mouse Strains
Metabolomics
- Metabolomics Workbench
- LIPID MAPS – Lipidomics gateway
- Metaboanalyst – Analyzing pathways and enrichment in metabolites
- HMBD – Very detailed information on metabolites
- SMPDB – Integrates RNA-seq, lipidomics, and metabolomics data
- Atlas of Inflammation Resolution
- HMDB -Human Metabolome Database
Protocol
Mouse Phenotyping
- IMPC – An international effort by 19 research institutions to identify the function of every protein-coding gene in the mouse genome
- CalR – A web application for indirect calorimetry analysis (Alex Banks Lab)
CRISPR
- CRISPR gRNA Design Tool – gRNA design for KO
- Cas9-Activators with SAM – CRISPR activation system (Feng Zhang Lab)
Multi-Omics
yhtsenglab.org 