ToppGene Suite

A one-stop portal for gene list enrichment analysis and candidate gene prioritization
based on functional annotations and protein interactions network

GO Biological Process
Annotations:
15,037
Genes:
18,623
Updated Jan 29, 2019
GO Cellular Component
Annotations:
1,796
Genes:
19,061
Updated Jan 29, 2019
GO Molecular Function
Annotations:
4,918
Genes:
18,661
Updated Jan 29, 2019
Human Phenotype
Annotations:
8,400
Genes:
4,707
Mouse Phenotype
Annotations:
10,784
Genes:
10,355
Updated Jan 29, 2019
Pathways
Annotations:
3,912
BioSystems: BIOCYC
314
BioSystems: KEGG
406
BioSystems: Pathway Interaction Database
186
BioSystems: REACTOME
1,860
GenMAPP
67
MSigDB C2 BIOCARTA (v6.0)
273
PantherDB
152
Pathway Ontology
321
SMPDB
333
Genes:
12,450
Domains
Annotations:
21,899
Gene3D
861
InterPro
12,487
PROSITE
1,698
Pfam
5,698
ProDom
177
SMART
978
Genes:
18,735
Pubmed
Annotations:
844,805
Genes:
38,193
Updated Jan 29, 2019
Interactions
Annotations:
17,703
Genes:
17,703
Updated Jan 29, 2019
Cytoband
Annotations:
2,354
Genes:
34,661
TFBS
Annotations:
615
Genes:
9,770
miRNA
Annotations:
6,111
MSigDB
313
MicroRNA.org
2,200
PITA
677
TargetScan
322
miRTarbase
2,599
Genes:
72,241
Gene Families
Annotations:
940
Genes:
18,194
ToppCell Atlas
Annotations:
1,184
BrainMap
760
Lungmap
141
Lungmap CCHMC
103
MouseAtlas
72
MouseAtlasFACS
108
Genes:
14,373
Coexpression
Annotations:
12,022
GeneSigDB
3,515
MSigDB C2: CGP Curated Gene Sets (v6.0)
3,396
MSigDB C6: Oncogenic Signatures (v6.0)
189
MSigDB C7: Immunologic Signatures (v6.0)
4,872
MSigDB H: Hallmark Gene Sets (v6.0)
50
Genes:
23,137
Coexpression Atlas
Annotations:
8,567
Body Map
65
BrainMap
1,032
FaceBase_RNAseq
399
FaceBase_ST1
187
GSE76381_ESMoleculeCountsPMLog2
50
GSE76381_EmbryoMoleculeCountsPMLog2
106
GSE76381_iPSMoleculeCountsPMLog2
48
Gudmap Mouse MOE430.2
1,962
Gudmap Mouse ST 1.0
675
Gudmap RNAseq
180
Human Protein Atlas
37
Immgen.org, GSE15907
510
Lungmap CCHMC
103
Mouse Cell Atlas
41
PCBC
772
PCBC_AltAnalyze
181
StanfordMouse+HumanSingleCells
31
TCGA-Adrenal Cortex
16
TCGA-Adrenal Medulla
12
TCGA-B cell
20
TCGA-Bile Duct
17
TCGA-Bladder
33
TCGA-Blood and Bone Marrow
8
TCGA-Bone and Soft Tissue
58
TCGA-Brain
41
TCGA-Breast
87
TCGA-Cervix
48
TCGA-Colorectal
44
TCGA-Endometrium
24
TCGA-Esophagus
22
TCGA-Head and Neck
14
TCGA-Kidney
35
TCGA-Liver
14
TCGA-Lung
66
TCGA-Mesothelium
27
TCGA-Ovary
1
TCGA-Pancreas
23
TCGA-Peripheral Nervous System
10
TCGA-Prostate
17
TCGA-Skin
3
TCGA-Stomach
52
TCGA-Testes
41
TCGA-Thryoid
19
TCGA-Thymus
41
TCGA-Uterus
28
TCGA-Uvea
25
Tabula Muris Consortium
139
Genes:
21,826
Computational Gene Set
Annotations:
858
MSigDb: C4 - CGN: Cancer Gene Neighborhood (v6.0)
427
MSigDb: C4 - CM: Cancer Modules (v6.0)
431
Genes:
10,037
Drugs
Annotations:
77,163
Broad Institute CMAP Down
6,100
Broad Institute CMAP Up
6,100
CTD
12,454
Drug Bank
3,803
Stitch
48,706
Genes:
22,841
Disease
Annotations:
27,362
Clinical Variations
4,338
DisGeNET BeFree
6,857
DisGeNET Curated
13,074
GWAS
291
OMIM
2,802
Genes:
16,205
Master Gene Info File
Updated Jan 29, 2019
Build Information
ToppGene2019-Feb-11 20:39 / #7 / bb400efd359c0f08faa3b0d90b3bbd5a8b31df3c
Settings2018-Dec-17 21:32 / #3 / 328e53bf1eecab287d45c98a7262c85e1c7a117e
Visualization2019-Jan-16 21:42 / #1 / ac0dfc7ee8d9204193d592f1d8d372626eb9621a
Utilities2019-Feb-08 17:10 / #4 / 05afd0c7ec952bbcc4546516f8acb8022f84b32e
Session2019-01-16 21:41 / #1 / f193998539321fb9c76fdd36d75d77fae3f443ef
2019-Feb-11 20:39 / #7 / bb400efd359c0f08faa3b0d90b3bbd5a8b31df3c node-p4