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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 STC1
check button Gene summary
Basic gene informationGene symbolSTC1
Gene namestanniocalcin 1
SynonymsSTC
CytomapUCSC genome browser: 8p21-p11.2
Type of geneprotein-coding
RefGenesNM_003155.2,
Descriptionstanniocalcin-1
Modification date20141222
dbXrefs MIM : 601185
HGNC : HGNC
Ensembl : ENSG00000159167
HPRD : 03115
Vega : OTTHUMG00000097853
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_STC1
BioGPS: 6781
PathwayNCI Pathway Interaction Database: STC1
KEGG: STC1
REACTOME: STC1
Pathway Commons: STC1
ContextiHOP: STC1
ligand binding site mutation search in PubMed: STC1
UCL Cancer Institute: STC1
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)KidneyThyroid gland
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)KIRC,KIRP,KICHTHCA
Reference showing the relevant tissue of STC1
Description by TissGene annotationsRisk TissGene in OS
Cancer 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:0001886endothelial cell morphogenesis14500721
GO:0003421growth plate cartilage axis specification16377640
GO:0006874cellular calcium ion homeostasis12663264
GO:0010596negative regulation of endothelial cell migration14500721
GO:0030336negative regulation of cell migration17032941
GO:0035988chondrocyte proliferation16377640
GO:0044070regulation of anion transport16377640
GO:0051926negative regulation of calcium ion transport8700837
GO:0060348bone development16377640
GO:0086004regulation of cardiac muscle cell contraction12663264
GO:0090280positive regulation of calcium ion import17032941
GO:1903403negative regulation of renal phosphate excretion8700837
GO:0001886endothelial cell morphogenesis14500721
GO:0003421growth plate cartilage axis specification16377640
GO:0006874cellular calcium ion homeostasis12663264
GO:0010596negative regulation of endothelial cell migration14500721
GO:0030336negative regulation of cell migration17032941
GO:0035988chondrocyte proliferation16377640
GO:0044070regulation of anion transport16377640
GO:0051926negative regulation of calcium ion transport8700837
GO:0060348bone development16377640
GO:0086004regulation of cardiac muscle cell contraction12663264
GO:0090280positive regulation of calcium ion import17032941
GO:1903403negative regulation of renal phosphate excretion8700837


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TissGeneExp for STC1

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-0.5725024922.234981508-2.8074841.17E-108.89E-10
COAD-1.240631108-3.4075234152.1668923087.25E-096.70E-08
LIHC-1.207448492-2.7490604921.5416128.94E-086.34E-07
HNSC-0.253046492-1.9164255621.663379076.65E-063.99E-05
KIRP-1.7814246171.878109758-3.6595343751.02E-121.65E-11
BLCA-0.8033043870.728779823-1.5320842110.003640.02086433
STAD-0.048133992-1.0500558671.0019218750.0003870.002472622


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TissGene-miRNA for STC1

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
UCShsa-miR-30b-5pMIMAT00004200.03-0.2956


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TissGeneMut for STC1
TissGeneSNV for STC1

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.A81TUCEC2
p.R208QSKCM2
p.A100VUCEC1
p.K106NUCEC1
p.G55RREAD1
p.R241HUCEC1
p.P219LUCEC1
p.V103DLUSC1
p.V92ICESC1
p.H201PHNSC1
p.Q204KLUAD1
p.E169KSKCM1
p.G69ESKCM1
p.D234NSKCM1
p.E147DLUAD1
p.S95RPAAD1
p.M190ISKCM1
p.R44HSTAD1
p.D200GOV1
p.V164LLUSC1
p.E184KSKCM1
p.V164FLGG1
p.E61KSKCM1
p.A110TSARC1
p.R119MUCEC1
p.V103FLUSC1
p.G88VBLCA1
p.R140QSKCM1
p.E94DUCEC1
p.A100TUCEC1
p.Y160NSARC1
p.A36TKIRC1
p.Y79HUCEC1
p.S192IUCEC1
p.G102RSKCM1
p.V149ICOAD1
p.A144TLUAD1
p.E147*BLCA1
p.R241CGBM1
p.D68NSKCM1
p.R241HSTAD1


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TissGeneCNV for STC1

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 STC1

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
Chimerdb3.0ChiTaRsNABF854554PRRC2B-STC1chr9:134374250chr8:23702296


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TissGeneNet for STC1

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)


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TissGeneProg for STC1

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 STC1
TissGeneDrug for STC1

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 STC1

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0027627Neoplasm Metastasis6BeFree,LHGDN
umls:C0596263Carcinogenesis5BeFree
umls:C0678222Breast Carcinoma5BeFree
umls:C0006142Malignant neoplasm of breast4BeFree
umls:C0009402Colorectal Carcinoma4BeFree
umls:C1458155Mammary Neoplasms4BeFree,LHGDN
umls:C1527249Colorectal Cancer4BeFree
umls:C0003130Anoxia2GAD,LHGDN
umls:C0024623Malignant neoplasm of stomach2BeFree
umls:C0029925Ovarian Carcinoma2BeFree
umls:C0035304Retinal Degeneration2BeFree
umls:C0279626Squamous cell carcinoma of esophagus2BeFree
umls:C0699791Stomach Carcinoma2BeFree
umls:C1140680Malignant neoplasm of ovary2BeFree
umls:C2986536Bisphosphonate-associated osteonecrosis2BeFree
umls:C0002736Amyotrophic Lateral Sclerosis1GAD
umls:C0005911Body Weight Changes1GAD
umls:C0007095Carcinoid Tumor1BeFree
umls:C0007102Malignant tumor of colon1BeFree
umls:C0007103Malignant neoplasm of endometrium1BeFree
umls:C0007115Malignant neoplasm of thyroid1BeFree
umls:C0007131Non-Small Cell Lung Carcinoma1BeFree
umls:C0007786Brain Ischemia1BeFree
umls:C0007847Malignant tumor of cervix1BeFree
umls:C0008626Congenital chromosomal disease1BeFree
umls:C0009375Colonic Neoplasms1BeFree
umls:C0009404Colorectal Neoplasms1LHGDN
umls:C0009806Constipation1BeFree
umls:C0013336Dwarfism1LHGDN
umls:C0014852Esophageal Diseases1BeFree
umls:C0017185Gastrointestinal Neoplasms1BeFree
umls:C0017638Glioma1BeFree
umls:C0020437Hypercalcemia1BeFree
umls:C0021368Inflammation1LHGDN
umls:C0021670insulinoma1BeFree
umls:C0022658Kidney Diseases1GAD
umls:C0023418leukemia1BeFree,LHGDN
umls:C0023827liposarcoma1LHGDN
umls:C0024115Lung diseases1BeFree
umls:C0024437Macular degeneration1BeFree
umls:C0025160Megacolon1BeFree
umls:C0032962Pregnancy Complications1BeFree
umls:C0034069Pulmonary Fibrosis1BeFree
umls:C0035126Reperfusion Injury1RGD
umls:C0035334Retinitis Pigmentosa1BeFree
umls:C0035335Retinoblastoma1BeFree
umls:C0040136Thyroid Neoplasm1BeFree
umls:C0041956Ureteral obstruction1BeFree
umls:C0085138Choroid Plexus Neoplasms1BeFree
umls:C0242379Malignant neoplasm of lung1BeFree
umls:C0242383Age related macular degeneration1BeFree
umls:C0242596Neoplasm, Residual1BeFree,LHGDN
umls:C0271083Nonexudative age-related macular degeneration1BeFree
umls:C0279702Conventional (Clear Cell) Renal Cell Carcinoma1BeFree
umls:C0280324Laryngeal Squamous Cell Carcinoma1BeFree
umls:C0302592Cervix carcinoma1BeFree
umls:C0334299Carcinoid tumor no ICD-O subtype1BeFree
umls:C0376358Malignant neoplasm of prostate1BeFree
umls:C0431109Choroid Plexus Carcinoma1BeFree
umls:C0476089Endometrial Carcinoma1BeFree
umls:C0549473Thyroid carcinoma1BeFree
umls:C0555278Cerebral metastasis1BeFree
umls:C0595978Idiopathic megacolon1BeFree
umls:C0600139Prostate carcinoma1BeFree
umls:C0684249Carcinoma of lung1BeFree
umls:C0699790Colon Carcinoma1BeFree
umls:C1176475Ductal Carcinoma1BeFree
umls:C1519670Tumor Angiogenesis1BeFree
umls:C1800706Idiopathic Pulmonary Fibrosis1BeFree
umls:C1883486Uterine Corpus Cancer1BeFree
umls:C1997217Low grade glioma1BeFree
umls:C1998028Photoreceptor degeneration1BeFree
umls:C2239176Liver carcinoma1BeFree
umls:C2931822Nasopharyngeal carcinoma1BeFree