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Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

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TissGeneSummary

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TissGeneExp

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TissGene-miRNA

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TissGeneMut: TissGeneSNV, TissGeneCNV, and TissGeneFusions

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TissGeneNet

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TissGeneProg

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TissGeneClin: TissGeneDrug and TissGeneDisease

TissGeneSummary for TRIM29
check button Gene summary
Basic gene informationGene symbolTRIM29
Gene nametripartite motif containing 29
SynonymsATDC
CytomapUCSC genome browser: 11q23.3
Type of geneprotein-coding
RefGenesNM_012101.3,
NM_058193.1,
Descriptionataxia telangiectasia group D-associated proteinataxia-telangiectasia group D-associated proteintripartite motif protein TRIM29tripartite motif-containing 29tripartite motif-containing protein 29
Modification date20141207
dbXrefs MIM : 610658
HGNC : HGNC
Ensembl : ENSG00000137699
HPRD : 10280
Vega : OTTHUMG00000140377
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_TRIM29
BioGPS: 23650
PathwayNCI Pathway Interaction Database: TRIM29
KEGG: TRIM29
REACTOME: TRIM29
Pathway Commons: TRIM29
ContextiHOP: TRIM29
ligand binding site mutation search in PubMed: TRIM29
UCL Cancer Institute: TRIM29
Assigned class in TissGDB*C
Included tissue-specific gene expression resourcesTiGER,GTEx
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx)BladderCervixSkin
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)BLCACESCSKCM
Reference showing the relevant tissue of TRIM29
Description by TissGene annotationsFused withTSGene
* Class A consists of genes with literature evidence and is part of the cTissGenes. Class B consists of only cTissGenes without additional evidence. The remaining genes belong to Class C.

check button Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO IDGO termPubMed ID


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TissGeneExp for TRIM29

check button Gene expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
gene exp


check button Gene isoform expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA pan-cancer tcga_rsem_isoform_tpm, version 2016-09-01)
gene isoform exp


check button Gene expressions across normal tissues of GTEx data
(GTEx GTEx_Analysis_v6_RNA-seq_RNA-SeQCv1.1.8_gene_rpkm.gct)
- Here, we shows the matched tissue types only among our 28 cancer types.
normal gene exp


check button Different expressions across 14 cancer types with more than 10 samples between matched tumors and normals (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
DEG exp

- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05)
Cancer typeMean(exp) in tumorMean(exp) in matched normalLog2FCP-val.FDR
KICH-5.810745473-0.402785473-5.407961.67E-177.22E-16
THCA-0.516825744-3.3553850662.8385593229.38E-116.29E-10
BRCA0.7841961413.300158421-2.5159622811.33E-125.94E-12
KIRC-3.756531418-1.442623084-2.3139083331.12E-103.97E-10
COAD2.568438988-1.4562110124.024655.42E-153.13E-13
PRAD1.9035082193.849337065-1.9458288462.22E-071.87E-06
LIHC-4.798171473-3.213497473-1.5846743.17E-061.53E-05
LUSC5.2749309190.4455171934.8294137252.35E-311.36E-29
STAD2.847166152-0.0010119732.8481781250.002980.012717306


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TissGene-miRNA for TRIM29

check button Significantly anti-correlated miRNAs of TissGene across 28 cancer types
(Gene-miRNA relations from TargetScanHuman Relsease 7.1, Conserved_Site_Context_Scores.txt.zip, 06.01.2016)
(TCGA IlluminaHiSeq_miRNASeq, log2(RPM+1) data, version 2016-11-21)
(TCGA IlluminaHiSeq_RNASeqV2, log2(normalized_count+1) data, version 2016-08-16)
(Spearman’s Rank Correlation (p-value<0.05 and coefficient<-0.25))
Cancer typemiRNA idmiRNA accessionP-val.Coeff.# samples


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TissGeneMut for TRIM29
TissGeneSNV for TRIM29

check button nsSNV counts per each loci.
Different colors of circles represent different cancer types. Circle size denotes number of samples.
(TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25)

* Click on the image to enlarge it in a new window.
SNV lollipop
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check button Somatic nucleotide variants of TissGene across 28 cancer types
(X-axis: cancer type and Y-axis: % of mutated samples)
The numbers in parentheses are numbers of samples with mutation (nsSNVs).
(TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25)
SNV distribution

- nsSNVs sorted by frequency.
AAchangeCancer type# samples
p.D431YLUAD2
p.E64KSKCM2
p.S133LLIHC1
p.H198YLUAD1
p.G445VUCEC1
p.M427LLUAD1
p.R335QSKCM1
p.E403VLUAD1
p.R150QSTAD1
p.R77*STAD1
p.T566NLUAD1
p.H211YSKCM1
p.R422HSTAD1
p.R422HCOAD1
p.R150QSKCM1
p.D88HLUAD1
p.A68TSTAD1
p.R128HPRAD1
p.G57DSKCM1
p.L199PDLBC1
p.P465LSTAD1
p.P118HLUAD1
p.E401KSKCM1
p.L246FSKCM1
p.D351ELUAD1
p.P201LSKCM1
p.F302LBLCA1
p.D87ACOAD1
p.D157NGBM1
p.R449HSTAD1
p.T498ASTAD1
p.R136QSKCM1
p.S26NSTAD1
p.S388TOV1
p.R319WLGG1
p.A156TPRAD1
p.C420FLUSC1
p.S164FSKCM1
p.A156VSKCM1
p.A331VCOAD1
p.E284VLGG1
p.F249SLIHC1
p.S373FBRCA1
p.K355TLUAD1
p.K230NBLCA1
p.E147KSKCM1
p.E311KSKCM1
p.D174NSKCM1
p.S552NUCEC1
p.D39NSARC1
p.V424FLUAD1
p.G146RSTAD1
p.K124*SKCM1
p.A156VLUAD1
p.R364WSTAD1
p.V227MLIHC1
p.T566NUCEC1
p.P391LSKCM1
p.K102MLUAD1
p.V424IUCEC1
p.V374LLUAD1
p.R77XSTAD1
p.G24DSTAD1
p.K500NCOAD1
p.R482WSKCM1
p.L375FPRAD1
p.S540FSKCM1
p.T395ICOAD1
p.L127VUCEC1
p.A587SLUAD1
p.D287NSKCM1
p.S562FSKCM1
p.V343LDLBC1
p.T257ILUAD1
p.R77LLUAD1
p.E221DCHOL1
p.A331VLGG1
p.P201LPRAD1
p.S168PUCEC1
p.C236YCOAD1
p.K89NCESC1
p.T494ISKCM1
p.P390LSKCM1
p.A122DLUAD1
p.A206TSTAD1
p.R298HCOAD1
p.G11RGBM1
p.P557LSKCM1
p.V516FLUAD1
p.R77QSKCM1
p.F235CBRCA1
p.P391SSKCM1
p.Q558HREAD1
p.E196KUCEC1
p.S488LSKCM1
p.H255YSKCM1
p.K124XSKCM1
p.S23LBLCA1
p.K361RUCEC1
p.G581RACC1
p.R549QCOAD1


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TissGeneCNV for TRIM29

check button Copy number variations of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of CNV samples)
(TCGA Gistic2_CopyNumber_Gistic2_all_data_by_genes, Gistic2 copy number data, version 2016-08-16)
CNV


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TissGeneFusions for TRIM29

check button Fusion genes including TissGene
(ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01)
DatabaseSrcCancer typeSampleFusion geneORF5'-gene BP3'-gene BP
Chimerdb3.0ChiTaRsNABI055855TRIM29-SDC1chr11:119991324chr2:20403811
Chimerdb3.0ChiTaRsNABG993058PLEKHA5-TRIM29chr12:19410412chr11:119999118
Chimerdb3.0ChiTaRsNADB107228TRIM29-TRIM29chr11:120008821chr11:120008174
Chimerdb3.0ChiTaRsNABF842536TRIM29-TRIM29chr11:119996549chr11:119996568
Chimerdb3.0ChiTaRsNABG996534TRIM29-TRIM29chr11:119996519chr11:119996566
Chimerdb3.0ChiTaRsNABG992093TSPAN11-TRIM29chr12:31126522chr11:119988930
Chimerdb3.0FusionScanESCATCGA-L5-A8NW-01ATRIM29-RHCGIn-Framechr11:119998043chr15:90021205
TCGAfusionPortalPRADAOVTCGA-23-1030-01AUVRAG-TRIM29In-frameChr11:75572825Chr11:119983184


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TissGeneNet for TRIM29

check button Co-expressed gene networks based on protein-protein interaction data (CePIN)
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(PINA2 ppi data)
BRCA (tumor)BRCA (normal)
TRIM29, KAT5, DVL2, UBE2I, TRIM27, TRIM23, TRIM11, FXR2, AXIN1, CEP70, HDAC9, VIM, POLR2E, MYO15B, GPC4, EFCAB4B, MID2, GCC1, SHOX2, FBXL19, JAKMIP2 (tumor)TRIM29, MLH1, DVL2, PRKCA, GOLGA2, TRIM27, TRIM23, EGFR, MED7, SMAD9, HCLS1, HDAC9, TSGA10, SNAPC1, VIM, TAX1BP3, EFCAB4B, MID2, LZTS2, SHOX2, DMRT1 (normal)
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COAD (tumor)COAD (normal)
TRIM29, MLH1, IKBKG, DVL2, GOLGA2, POLR2D, GSK3B, UBE2I, TRIM27, SMAD9, PARP1, MAD1L1, TSGA10, SNAPC1, POLR2E, MYO15B, EFCAB4B, LZTS2, FBF1, JAKMIP2, DMRT1 (tumor)TRIM29, MLH1, DVL2, SP100, POLR2D, GSK3B, UBE2I, TRIM27, TRIM23, MED7, SMAD9, PARP1, GTF2E1, HCLS1, HDAC9, TSGA10, SNAPC1, TAX1BP3, GPC4, FBF1, FBXL19 (normal)
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HNSC (tumor)HNSC (normal)
TRIM29, MLH1, DVL2, SP100, GOLGA2, UBE2I, TRIM23, TRIM11, FXR2, AXIN1, SMAD9, HDAC9, VIM, TAX1BP3, GPC4, EFCAB4B, FBF1, PRICKLE3, SHOX2, FBXL19, JAKMIP2 (tumor)TRIM29, MLH1, DVL2, PRKCA, GOLGA2, POLR2D, GSK3B, TRIM27, EGFR, FXR2, CEP70, PARP1, VIM, TAX1BP3, GPC4, LZTS2, GCC1, PRICKLE3, SHOX2, FBXL19, DMRT1 (normal)
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KICH (tumor)KICH (normal)
TRIM29, SP100, POLR2D, UBE2I, EGFR, TRIM11, AXIN1, SMAD9, MAD1L1, TSGA10, HINT1, POLR2E, TAX1BP3, MYO15B, EFCAB4B, MID2, FBF1, GCC1, PRICKLE3, SHOX2, JAKMIP2 (tumor)TRIM29, MLH1, SP100, POLR2D, GSK3B, GATA1, AXIN1, MED7, SMAD9, CEP70, GTF2E1, HCLS1, HDAC9, TSGA10, HINT1, TAX1BP3, EFCAB4B, MID2, GCC1, JAKMIP2, DMRT1 (normal)
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KIRC (tumor)KIRC (normal)
TRIM29, MLH1, PRKCA, SP100, UBE2I, TRIM23, EGFR, MED7, SMAD9, CEP70, PARP1, MAD1L1, TSGA10, SNAPC1, POLR2E, TAX1BP3, MYO15B, EFCAB4B, MID2, FBF1, JAKMIP2 (tumor)TRIM29, KAT5, IKBKG, GOLGA2, UBE2I, TRIM27, TRIM23, TRIM11, AXIN1, PARP1, GTF2E1, MAD1L1, HCLS1, SNAPC1, TAX1BP3, MID2, LZTS2, FBF1, PRICKLE3, SHOX2, FBXL19 (normal)
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KIRP (tumor)KIRP (normal)
TRIM29, MLH1, IKBKG, DVL2, PRKCA, SP100, UBE2I, TRIM27, TRIM23, TRIM11, MED7, CEP70, MAD1L1, TSGA10, SNAPC1, TAX1BP3, MYO15B, FBF1, SHOX2, FBXL19, JAKMIP2 (tumor)TRIM29, MLH1, IKBKG, DVL2, PRKCA, SP100, TRIM27, TRIM23, TRIM11, GATA1, CEP70, PARP1, MAD1L1, HDAC9, HINT1, POLR2E, TAX1BP3, EFCAB4B, FBF1, GCC1, FBXL19 (normal)
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LIHC (tumor)LIHC (normal)
TRIM29, SP100, GOLGA2, POLR2D, EGFR, FXR2, AXIN1, MED7, SMAD9, CEP70, PARP1, MAD1L1, HDAC9, TSGA10, POLR2E, GPC4, MID2, FBF1, GCC1, FBXL19, DMRT1 (tumor)TRIM29, MLH1, IKBKG, SP100, UBE2I, TRIM11, FXR2, AXIN1, CEP70, HDAC9, SNAPC1, HINT1, TAX1BP3, GPC4, MID2, FBF1, GCC1, PRICKLE3, SHOX2, FBXL19, DMRT1 (normal)
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LUAD (tumor)LUAD (normal)
TRIM29, KAT5, GOLGA2, GSK3B, EGFR, TRIM11, FXR2, GATA1, MED7, HCLS1, HDAC9, TSGA10, SNAPC1, VIM, MYO15B, GPC4, EFCAB4B, FBF1, PRICKLE3, JAKMIP2, DMRT1 (tumor)TRIM29, DVL2, PRKCA, SP100, POLR2D, TRIM27, TRIM23, FXR2, GATA1, MED7, SMAD9, CEP70, PARP1, MAD1L1, HDAC9, TSGA10, VIM, TAX1BP3, MYO15B, GPC4, MID2 (normal)
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LUSC (tumor)LUSC (normal)
TRIM29, KAT5, IKBKG, GOLGA2, POLR2D, TRIM11, FXR2, AXIN1, CEP70, TSGA10, HINT1, POLR2E, MYO15B, GPC4, EFCAB4B, LZTS2, FBF1, PRICKLE3, SHOX2, FBXL19, DMRT1 (tumor)TRIM29, MLH1, GOLGA2, GSK3B, TRIM27, TRIM23, EGFR, TRIM11, MED7, SMAD9, TSGA10, SNAPC1, VIM, TAX1BP3, MYO15B, MID2, GCC1, PRICKLE3, SHOX2, FBXL19, DMRT1 (normal)
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PRAD (tumor)PRAD (normal)
TRIM29, KAT5, IKBKG, DVL2, SP100, POLR2D, GSK3B, EGFR, CEP70, GTF2E1, MAD1L1, HDAC9, TSGA10, MYO15B, GPC4, EFCAB4B, FBF1, GCC1, PRICKLE3, SHOX2, DMRT1 (tumor)TRIM29, DVL2, PRKCA, SP100, GOLGA2, GSK3B, TRIM27, EGFR, GATA1, AXIN1, GTF2E1, HCLS1, HDAC9, SNAPC1, VIM, TAX1BP3, GPC4, EFCAB4B, LZTS2, FBF1, JAKMIP2 (normal)
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STAD (tumor)STAD (normal)
TRIM29, MLH1, PRKCA, SP100, GOLGA2, EGFR, GATA1, MED7, SMAD9, HDAC9, TSGA10, VIM, TAX1BP3, MYO15B, GPC4, EFCAB4B, FBF1, PRICKLE3, SHOX2, FBXL19, JAKMIP2 (tumor)TRIM29, MLH1, DVL2, PRKCA, GOLGA2, POLR2D, GSK3B, EGFR, MED7, CEP70, PARP1, GTF2E1, HCLS1, HDAC9, TSGA10, VIM, TAX1BP3, FBF1, GCC1, PRICKLE3, JAKMIP2 (normal)
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THCA (tumor)THCA (normal)
TRIM29, IKBKG, DVL2, GSK3B, UBE2I, TRIM27, TRIM23, TRIM11, AXIN1, SMAD9, PARP1, GTF2E1, MAD1L1, HCLS1, HDAC9, POLR2E, TAX1BP3, GPC4, EFCAB4B, LZTS2, JAKMIP2 (tumor)TRIM29, MLH1, DVL2, PRKCA, SP100, POLR2D, UBE2I, EGFR, CEP70, PARP1, MAD1L1, TSGA10, HINT1, TAX1BP3, EFCAB4B, LZTS2, FBF1, SHOX2, FBXL19, JAKMIP2, DMRT1 (normal)
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TissGeneProg for TRIM29

check button Kaplan-Meier plots with logrank tests of overall survival (OS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image to enlarge it in a new window.
survival 1

check button Kaplan-Meier plots with logrank test of relapse free survival (RFS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 2

check button Forest plot of Cox proportional hazard ratio (HR) and 95% CI of overall survival (OS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 3

check button Forest plot of Cox proportional hazard ratio (HR) and 95% CI of relapse free survival (RFS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 4

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TissGeneClin for TRIM29
TissGeneDrug for TRIM29

check button Drug information targeting TissGene
(DrugBank Version 5.0.6, 2017-04-01)
DrugBank IDDrug nameDrug activityDrug typeDrug status


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TissGeneDisease for TRIM29

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0004135Ataxia Telangiectasia7BeFree
umls:C0006142Malignant neoplasm of breast3BeFree
umls:C0027627Neoplasm Metastasis3BeFree
umls:C0235974Pancreatic carcinoma3BeFree
umls:C0346647Malignant neoplasm of pancreas3BeFree
umls:C0678222Breast Carcinoma3BeFree
umls:C0007137Squamous cell carcinoma2BeFree
umls:C0007847Malignant tumor of cervix2BeFree
umls:C0302592Cervix carcinoma2BeFree
umls:C0376358Malignant neoplasm of prostate2BeFree
umls:C0596263Carcinogenesis2BeFree
umls:C0600139Prostate carcinoma2BeFree
umls:C0686619Secondary malignant neoplasm of lymph node2BeFree
umls:C1335302Pancreatic Ductal Adenocarcinoma2BeFree
umls:C1458155Mammary Neoplasms2BeFree
umls:C0033578Prostatic Neoplasms1LHGDN
umls:C0040336Tobacco Use Disorder1GAD
umls:C0152018Esophageal carcinoma1BeFree
umls:C0242379Malignant neoplasm of lung1BeFree
umls:C0280100Solid tumour1BeFree
umls:C0346957Disseminated Malignant Neoplasm1BeFree
umls:C0853879Invasive breast carcinoma1BeFree
umls:C1301034Pancreatic intraepithelial neoplasia1BeFree