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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 CSTA
check button Gene summary
Basic gene informationGene symbolCSTA
Gene namecystatin A (stefin A)
SynonymsAREI|STF1|STFA
CytomapUCSC genome browser: 3q21
Type of geneprotein-coding
RefGenesNM_005213.3,
Descriptioncystatin AScystatin-A
Modification date20141207
dbXrefs MIM : 184600
HGNC : HGNC
Ensembl : ENSG00000121552
HPRD : 01697
Vega : OTTHUMG00000159488
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CSTA
BioGPS: 1475
PathwayNCI Pathway Interaction Database: CSTA
KEGG: CSTA
REACTOME: CSTA
Pathway Commons: CSTA
ContextiHOP: CSTA
ligand binding site mutation search in PubMed: CSTA
UCL Cancer Institute: CSTA
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)EsophagusProstate
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)ESCAPRAD
Reference showing the relevant tissue of CSTA
Description by TissGene annotations
* 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
GO:0010466negative regulation of peptidase activity6203523
GO:0010951negative regulation of endopeptidase activity3488317
GO:0018149peptide cross-linking10908733
GO:0030216keratinocyte differentiation10908733
GO:0045861negative regulation of proteolysis3488317
GO:0010466negative regulation of peptidase activity6203523
GO:0010951negative regulation of endopeptidase activity3488317
GO:0018149peptide cross-linking10908733
GO:0030216keratinocyte differentiation10908733
GO:0045861negative regulation of proteolysis3488317


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TissGeneExp for CSTA

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
LUAD0.0313930431.391843043-1.360451.21E-118.35E-11
KIRP-1.69109909-3.7572084652.0661093751.18E-077.02E-07
KIRC-0.861486937-3.5739799932.7124930563.13E-285.12E-27
LUSC3.6961083241.4313789122.2647294121.59E-074.35E-07
BRCA-0.4250169080.863972566-1.2889894748.64E-123.67E-11
PRAD-0.8791743310.580898746-1.4600730771.77E-082.07E-07
HNSC5.2762940066.861540517-1.5852465120.007990.020405789


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TissGene-miRNA for CSTA

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 CSTA
TissGeneSNV for CSTA

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.G36ESKCM2
p.V69ILUAD1
p.K91NDLBC1
p.G75RGBM1
p.F70LREAD1
p.E15DSKCM1
p.R58QSKCM1
p.L27PSKCM1
p.G97VSARC1
p.M65TCOAD1
p.L38FLUAD1
p.D21NBLCA1


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TissGeneCNV for CSTA

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 CSTA

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
Chimerdb3.0ChiTaRsNABE840750EPC2-CSTAchr2:149528956chr3:122044130
Chimerdb3.0ChiTaRsNABE716971CSTA-EPC2chr3:122060458chr2:149528937
Chimerdb3.0ChiTaRsNAAW265472CSTA-CSTAchr3:122060376chr3:122044154
Chimerdb3.0ChiTaRsNABE840752MDGA2-CSTAchr14:47730706chr3:122044117
Chimerdb3.0ChiTaRsNABE840739MRPS35-CSTAchr12:27909002chr3:122060371
Chimerdb3.0TopHat-FusionPRADTCGA-G9-A9S4-01AFAM162A-CSTACDS-5'UTRchr3:122103145chr3:122044107
Chimerdb3.0TopHat-FusionPRADTCGA-G9-A9S4-01AFAM162A-CSTAOut-of-Framechr3:122103145chr3:122056393
Chimerdb3.0TopHat-FusionLUSCTCGA-92-8065-01ACSTA-CASRIn-Framechr3:122056494chr3:121994658
TCGAfusionPortalPRADAKIRCTCGA-BP-4774-01AINPP5A-CSTAIn-frameChr10:134563349Chr3:122056394


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TissGeneNet for CSTA

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)
CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (tumor)CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (normal)
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COAD (tumor)COAD (normal)
CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (tumor)CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (normal)
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HNSC (tumor)HNSC (normal)
CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (tumor)CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (normal)
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KICH (tumor)KICH (normal)
CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (tumor)CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (normal)
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KIRC (tumor)KIRC (normal)
CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (tumor)CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (normal)
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KIRP (tumor)KIRP (normal)
CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (tumor)CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (normal)
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LIHC (tumor)LIHC (normal)
CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (tumor)CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (normal)
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LUAD (tumor)LUAD (normal)
CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (tumor)CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (normal)
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LUSC (tumor)LUSC (normal)
CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (tumor)CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (normal)
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PRAD (tumor)PRAD (normal)
CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (tumor)CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (normal)
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STAD (tumor)STAD (normal)
CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (tumor)CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (normal)
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THCA (tumor)THCA (normal)
CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (tumor)CSTA, CUL2, UBC, PTN, KIAA0101, CUL4B, IVL, CTSL1, TCF3, CTSB, KRT1, RAD21, UCHL5, DSP, LOR, EVPL, USP53, TFAP2C, PI3, CTSH (normal)
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TissGeneProg for CSTA

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 CSTA
TissGeneDrug for CSTA

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 CSTA

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0376358Malignant neoplasm of prostate4BeFree
umls:C0600139Prostate carcinoma4BeFree
umls:C0027627Neoplasm Metastasis3BeFree,CTD_human,LHGDN
umls:C0033860Psoriasis3BeFree,GAD,LHGDN
umls:C0006142Malignant neoplasm of breast2BeFree
umls:C0011849Diabetes Mellitus2BeFree
umls:C0020757Ichthyoses2BeFree
umls:C0020758Congenital ichthyosis2BeFree
umls:C0178874Tumor Progression2BeFree
umls:C0242656Disease Progression2CTD_human
umls:C0678222Breast Carcinoma2BeFree
umls:C0001418Adenocarcinoma1BeFree
umls:C0004096Asthma1BeFree
umls:C0006118Brain Neoplasms1BeFree
umls:C0007131Non-Small Cell Lung Carcinoma1BeFree
umls:C0007137Squamous cell carcinoma1BeFree
umls:C0011615Dermatitis, Atopic1BeFree,LHGDN
umls:C0011847Diabetes1BeFree
umls:C0013595Eczema1BeFree
umls:C0017601Glaucoma1BeFree
umls:C0017636Glioblastoma1CTD_human
umls:C0024117Chronic Obstructive Airway Disease1BeFree
umls:C0025202melanoma1BeFree
umls:C0042344Varicose Ulcer1BeFree
umls:C0153676Secondary malignant neoplasm of lung1BeFree
umls:C0153690Secondary malignant neoplasm of bone1BeFree
umls:C0242379Malignant neoplasm of lung1BeFree
umls:C0279626Squamous cell carcinoma of esophagus1BeFree
umls:C0684249Carcinoma of lung1BeFree
umls:C0853879Invasive breast carcinoma1BeFree
umls:C1134719Invasive Ductal Breast Carcinoma1BeFree
umls:C1168401Squamous cell carcinoma of the head and neck1BeFree
umls:C1334015High Grade Intraepithelial Neoplasia1BeFree
umls:C1458155Mammary Neoplasms1LHGDN
umls:C2931822Nasopharyngeal carcinoma1BeFree,CTD_human
umls:C1842797Exfoliative Ichthyosis, Autosomal Recessive, Ichthyosis Bullosa of Siemens-like0CLINVAR,ORPHANET