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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 CST1
check button Gene summary
Basic gene informationGene symbolCST1
Gene namecystatin SN
Synonyms-
CytomapUCSC genome browser: 20p11.21
Type of geneprotein-coding
RefGenesNM_001898.2,
Descriptioncystain-SA-Icystatin 1cystatin SA-Icystatin-1cystatin-SNcysteine proteinase inhibitor, type 2 familysalivary cystatin-SA-1
Modification date20141207
dbXrefs MIM : 123855
HGNC : HGNC
Ensembl : ENSG00000170373
HPRD : 00460
Vega : OTTHUMG00000032085
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CST1
BioGPS: 1469
PathwayNCI Pathway Interaction Database: CST1
KEGG: CST1
REACTOME: CST1
Pathway Commons: CST1
ContextiHOP: CST1
ligand binding site mutation search in PubMed: CST1
UCL Cancer Institute: CST1
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)BladderColonProstate
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)BLCACOADPRAD
Reference showing the relevant tissue of CST1
Description by TissGene annotationsCancer gene
* 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:0001580detection of chemical stimulus involved in sensory perception of bitter taste24248522
GO:0001580detection of chemical stimulus involved in sensory perception of bitter taste24248522


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TissGeneExp for CST1

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
LUSC1.662886505-3.5314115345.1942980391.40E-159.44E-15
THCA-2.715341445-4.8121787332.0968372882.47E-068.91E-06
LUAD1.505210981-4.1047528125.6099637933.92E-196.82E-18
COAD3.28957557-3.8791436617.1687192317.64E-153.80E-13
STAD4.450677252-3.4043133737.8549906258.26E-221.86E-18
BLCA1.388696825-3.8774347545.2661315792.15E-081.77E-06
BRCA1.657306474-4.3545224736.0118289473.29E-441.35E-42
HNSC0.981364389-1.2177170062.1990813950.01270.030206131
ESCA2.771963332-2.9494730325.7214363645.94E-050.002183895
LIHC-2.254670123-4.6409621232.3862925.80E-050.000212571


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TissGene-miRNA for CST1

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 CST1
TissGeneSNV for CST1

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.E124KSKCM1
p.A2VUCEC1
p.F120LLUSC1
p.Q113HHNSC1
p.E124KBRCA1
p.T95ISKCM1
p.D61HCESC1
p.D38EBRCA1
p.N36KHNSC1
p.D38NLUAD1
p.D41NSKCM1
p.D86NUCEC1
p.A37THNSC1
p.E121KSKCM1
p.R46CUCEC1
p.Y35SLUAD1
p.Q113HESCA1
p.X142YACC1
p.R69QHNSC1
p.R130TBLCA1
p.E42*LUAD1
p.D61HBLCA1
p.S141YLUSC1
p.Y64HUCEC1
p.D61YBLCA1
p.A16VSKCM1
p.P31SSKCM1
p.F84VSTAD1
p.G32SHNSC1
p.R69WREAD1


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TissGeneCNV for CST1

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 CST1

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
Chimerdb3.0ChiTaRsNABX648878CST1-BCLAF1chr20:23728288chr6:136579727
Chimerdb3.0ChiTaRsNAU37519CST1-ALDH3B2chr20:23728407chr11:67429637


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TissGeneNet for CST1

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)
CST1, SOD2 (tumor)CST1, SOD2 (normal)
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COAD (tumor)COAD (normal)
CST1, SOD2 (tumor)CST1, SOD2 (normal)
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HNSC (tumor)HNSC (normal)
CST1, SOD2 (tumor)CST1, SOD2 (normal)
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KICH (tumor)KICH (normal)
CST1, SOD2 (tumor)CST1, SOD2 (normal)
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KIRC (tumor)KIRC (normal)
CST1, SOD2 (tumor)CST1, SOD2 (normal)
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KIRP (tumor)KIRP (normal)
CST1, SOD2 (tumor)CST1, SOD2 (normal)
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LIHC (tumor)LIHC (normal)
CST1, SOD2 (tumor)CST1, SOD2 (normal)
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LUAD (tumor)LUAD (normal)
CST1, SOD2 (tumor)CST1, SOD2 (normal)
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LUSC (tumor)LUSC (normal)
CST1, SOD2 (tumor)CST1, SOD2 (normal)
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PRAD (tumor)PRAD (normal)
CST1, SOD2 (tumor)CST1, SOD2 (normal)
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STAD (tumor)STAD (normal)
CST1, SOD2 (tumor)CST1, SOD2 (normal)
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THCA (tumor)THCA (normal)
CST1, SOD2 (tumor)CST1, SOD2 (normal)
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TissGeneProg for CST1

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 CST1
TissGeneDrug for CST1

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 CST1

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0009402Colorectal Carcinoma2BeFree
umls:C0024623Malignant neoplasm of stomach2BeFree
umls:C0027627Neoplasm Metastasis2BeFree
umls:C0596263Carcinogenesis2BeFree
umls:C0699791Stomach Carcinoma2BeFree
umls:C0007102Malignant tumor of colon1BeFree
umls:C0007131Non-Small Cell Lung Carcinoma1BeFree
umls:C0009375Colonic Neoplasms1BeFree
umls:C0010709Cyst1BeFree
umls:C0011860Diabetes Mellitus, Non-Insulin-Dependent1GAD
umls:C0018621Hay fever1BeFree,CTD_human
umls:C0033578Prostatic Neoplasms1CTD_human
umls:C0038356Stomach Neoplasms1CTD_human
umls:C0085166Bacterial Vaginosis1BeFree
umls:C0221760brain cyst1BeFree
umls:C0235974Pancreatic carcinoma1BeFree
umls:C0346647Malignant neoplasm of pancreas1BeFree
umls:C0699790Colon Carcinoma1BeFree
umls:C1527249Colorectal Cancer1BeFree