Harmonizome 3.0

From Allen Brain Atlas

mRNA expression profiles for 6 adult human brain tissue samples spanning ~300 brain structures

From Allen Brain Atlas

mRNA expression profiles for adult mouse brain tissues spanning ~2000 anatomically defined brain structures

From Allen Brain Atlas

mRNA expression profiles for human brain tissue samples spanning 27 time points and 26 brain structures

From Allen Brain Atlas

mRNA expression profiles for human brain tissue samples spanning 31 time points and 26 brain structures

From Allen Brain Atlas

mRNA expression profiles for 4 human prenatal brain tissue samples spanning 4 time points and ~300 brain structures

From BioGPS

mRNA expression profiles for human tissues and cell types

From BioGPS

mRNA expression profiles for mouse tissues and cell types

From ChIP-X Enrichment Analysis

Transcription factor binding site profiles from published ChIP-chip, ChIP-seq, and other transcription factor functional studies

From ChIP-X Enrichment Analysis

Target genes of transcription factors from published ChIP-chip, ChIP-seq, and other transcription factor binding site profiling studies

From COMPARTMENTS

Gene-cellular compartment co-occurrence scores from text-mining biomedical abstracts

From Database of Genotypes and Phenotypes

Gene-trait associations curated from genetic association studies

From DISEASES

Gene-disease co-occurrence scores from text-mining biomedical abstracts

From DrugBank

Sets of proteins targeted by drugs by manual literature curation

From Encyclopedia of DNA Elements

Transcription factor binding site profiles for cell lines

From Encyclopedia of DNA Elements

Target genes of transcription factors from transcription factor binding site profiles

From Gene Reference Into Function

Statements describing functions of genes distilled from biomedical publications

From Gene Expression Omnibus

mRNA expression profiles for cell lines or tissues following transcription factor perturbation (inhibition, activation, knockdown, knockout, over-expression, mutation)

From Genotype Tissue Expression

Gene expression profiles for tissues from GTEx by RNA-seq

From Genotype Tissue Expression

RNA-seq gene expression profiles for tissue samples from GTEx

From Human Protein Atlas

RNA-seq gene expression profiles for tissues from HPA

From Human Protein Atlas

Semiquantitative protein expression profiles for tissues

From Human Protein Atlas

RNA-seq gene expression profiles for tissue samples from HPA

From Human Proteome Map

Protein expression profiles for tissues and cell types

From Jaspar PWMs

Target genes of transcription factors predicted using known transcription factor binding site motifs

From LINCS KinomeScan

Kinase inhibitor targets from percent inhibition of kinases by small molecules measured using purified kinases

From MiRTarBase

Target genes of microRNAs from published experiments

From MotifMap

Target genes of transcription factors predicted using known transcription factor binding site motifs

From Phosphosite Textmining

Occurrence frequencies for biological terms in abstracts of publications describing phosphosites

From Proteomics Database

Protein expression profiles for tissues and cell types reprocessed from many proteomics datasets

From Roadmap Epigenomics

DNA methylation profiles for primary cell types and tissues

From Roadmap Epigenomics

mRNA expression profiles for primary cell types and tissues

From TargetScan

Target genes of microRNAs predicted by searching genes for sites matching conserved miRNA seed regions

From The Cancer Genome Atlas

mRNA expression profiles for tumor and normal tissue samples

From TISSUES

Protein tissue expression evidence scores by manual literature curation

From TISSUES

Protein tissue expression evidence scores by integrating experimental data

From TISSUES

Gene-tissue co-occurrence scores from text-mining biomedical abstracts

From TargetScan

Target genes of microRNAs predicted by searching genes for sites matching nonconserved miRNA seed regions

From knockTF

Gene expression profiles for cell lines or tissues following transcription factor perturbation (knockdown/knockout)

From Kinase Library

A phosphoproteomics atlas detailing phosphorylation of protein substrates by 303 serine/threonine kinases in the human kinome.

From Tabula Sapiens

Gene expression data from Tabula Sapiens scRNA-seq counts

From ChIP-X Enrichment Analysis

Target genes of transcription factors from published ChIP-chip, ChIP-seq, and other transcription factor binding site profiling studies

From Molecular Transducers of Physical Activity Consortium

RNA-seq gene expression profiles for rat tissue samples across 4 time points and 19 tissues

From Genotype Tissue Expression

Gene expression profiles for tissues from GTEx by RNA-seq

From Genotype Tissue Expression

Tissue-specific aging signatures createed from GTEx RNA-seq gene expression profiles

From The Human BioMolecular Atlas Program

Gene-cell type annotations from integrated reference scRNA-seq gene expression profiles

From CellMarker

Cell type markers across various tissues from human and mouse scRNA-seq

From Kinase Library

A phosphoproteomics atlas detailing phosphorylation of protein substrates by 93 canonical and non-canonical tyrosine kinases in the human kinome.

From DISEASES

Gene-disease co-occurrence scores from text-mining biomedical abstracts

From TISSUES

Protein tissue expression evidence scores by manual literature curation

From TISSUES

Protein tissue expression evidence scores by integrating experimental data

From TISSUES

Gene-tissue co-occurrence scores from text-mining biomedical abstracts

From COMPARTMENTS

Gene-cellular compartment co-occurrence scores from text-mining biomedical abstracts

From Tahoe Therapeutics

Single-cell expression data from drug perturbation across cell lines in over 95 million cells

From Jaspar PWMs

Target genes of human transcription factors predicted using known transcription factor binding site motifs

From Jaspar PWMs

Target genes of mouse transcription factors predicted using known transcription factor binding site motifs

From Allen Brain Atlas

mRNA expression profiles for dementia and traumatic brain injuries (TBI) from aging brain tissue

From Drug-Gene Interaction Database

Sets of proteins targeted by drugs by data aggregation

From Rummagene

Sets of genes regulated by transcription factors by mining supplemental materials

From Comparative Toxicogenomics Database

Chemical-gene interactions curated from literature

From Comparative Toxicogenomics Database

Disease-gene interactions from manually curated literature

From Genotype Tissue Expression

Significance values for all gene-SNP pairs testing likelihood that SNP affects gene expression

From Genotype Tissue Expression

Significance values for all gene-SNP pairs testing likelihood that SNP affects gene expression