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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 CRNN
check button Gene summary
Basic gene informationGene symbolCRNN
Gene namecornulin
SynonymsC1orf10|DRC1|PDRC1|SEP53
CytomapUCSC genome browser: 1q21
Type of geneprotein-coding
RefGenesNM_016190.2,
Description53 kDa putative calcium-binding protein53 kDa squamous epithelial-induced stress protein58 kDa heat shock proteinsquamous epithelial heat shock protein 53tumor-related protein
Modification date20141207
dbXrefs MIM : 611312
HGNC : HGNC
Ensembl : ENSG00000143536
HPRD : 12720
Vega : OTTHUMG00000012383
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CRNN
BioGPS: 49860
PathwayNCI Pathway Interaction Database: CRNN
KEGG: CRNN
REACTOME: CRNN
Pathway Commons: CRNN
ContextiHOP: CRNN
ligand binding site mutation search in PubMed: CRNN
UCL Cancer Institute: CRNN
Assigned class in TissGDB*C
Included tissue-specific gene expression resourcesHPA,GTEx
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx)Esophagus
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)ESCA
Reference showing the relevant tissue of CRNN
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:0009408response to heat11606197
GO:0016337single organismal cell-cell adhesion2631556
GO:0009408response to heat11606197
GO:0016337single organismal cell-cell adhesion2631556


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TissGeneExp for CRNN

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
HNSC4.18151205511.77581206-7.59431.98E-126.65E-11
LUSC-0.245013207-1.5742249721.3292117650.002080.003691221


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TissGene-miRNA for CRNN

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 CRNN
TissGeneSNV for CRNN

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.Q153XSKCM3
p.Q153*SKCM3
p.G116RSKCM2
p.R479QSKCM2
p.E477*CESC1
p.Q249HKICH1
p.E197KCOAD1
p.A287TBLCA1
p.Q174HLUSC1
p.Q374KLUAD1
p.S391RPAAD1
p.Q83ELUAD1
p.E441KSKCM1
p.R138IUCEC1
p.E94DSTAD1
p.Q240RSTAD1
p.V390ESARC1
p.W442LLUAD1
p.G103RSKCM1
p.D445NHNSC1
p.S465YBRCA1
p.V282LSTAD1
p.S447XCOAD1
p.E56KOV1
p.D50NSARC1
p.G429ESKCM1
p.A162VUCEC1
p.Q6RUCS1
p.D456NSKCM1
p.E476KCESC1
p.R484KBLCA1
p.T379MSTAD1
p.D456HLIHC1
p.S230YHNSC1
p.E190KSKCM1
p.G237CGBM1
p.T232IPAAD1
p.Q3*BLCA1
p.E73GSKCM1
p.S186PLUAD1
p.G401ELUAD1
p.Q174*LUSC1
p.T21MCOAD1
p.A82SHNSC1
p.E122AUCEC1
p.A126VUCEC1
p.E190QHNSC1
p.A404SLUAD1
p.G272SKIRC1
p.I183MUCEC1
p.D62NSKCM1
p.S307NSTAD1
p.A260TLUSC1
p.S180GSKCM1
p.V399LCOAD1
p.R424HBRCA1
p.E115KSKCM1
p.G439VCOAD1
p.A19PLUAD1
p.E94DKIRC1
p.R138KSKCM1
p.T239NBRCA1
p.E416KBRCA1
p.Q280KOV1
p.Q385*SKCM1
p.A408ELUAD1
p.P400LGBM1
p.E133KSKCM1
p.E209KUCEC1
p.L36PKIRP1
p.G95ELUAD1
p.H368DLUAD1
p.R335KSKCM1
p.R424HLGG1
p.W442LCOAD1
p.D62VDLBC1
p.N7KESCA1
p.G369*LUSC1
p.S110LUCEC1
p.L453FUCEC1
p.Q374HDLBC1
p.R200KSKCM1
p.Q264ESARC1
p.Q468RCOAD1
p.R424CSTAD1
p.N459SUCEC1
p.G334DLUAD1
p.E394GLUAD1
p.G407ESKCM1
p.P400LPRAD1
p.G407WLUAD1
p.D43EESCA1
p.A126VGBM1
p.G334CLIHC1
p.G431RSKCM1
p.A371DPAAD1
p.A42VSKCM1
p.E13DLUAD1
p.G251ESKCM1
p.R149KSKCM1


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TissGeneCNV for CRNN

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 CRNN

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


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TissGeneNet for CRNN

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)
CRNN, SQSTM1, WHSC1L1 (tumor)CRNN, SQSTM1, WHSC1L1 (normal)
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COAD (tumor)COAD (normal)
CRNN, SQSTM1, WHSC1L1 (tumor)CRNN, SQSTM1, WHSC1L1 (normal)
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HNSC (tumor)HNSC (normal)
CRNN, SQSTM1, WHSC1L1 (tumor)CRNN, SQSTM1, WHSC1L1 (normal)
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KICH (tumor)KICH (normal)
CRNN, SQSTM1, WHSC1L1 (tumor)CRNN, SQSTM1, WHSC1L1 (normal)
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KIRC (tumor)KIRC (normal)
CRNN, SQSTM1, WHSC1L1 (tumor)CRNN, SQSTM1, WHSC1L1 (normal)
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KIRP (tumor)KIRP (normal)
CRNN, SQSTM1, WHSC1L1 (tumor)CRNN, SQSTM1, WHSC1L1 (normal)
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LIHC (tumor)LIHC (normal)
CRNN, SQSTM1, WHSC1L1 (tumor)CRNN, SQSTM1, WHSC1L1 (normal)
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LUAD (tumor)LUAD (normal)
CRNN, SQSTM1, WHSC1L1 (tumor)CRNN, SQSTM1, WHSC1L1 (normal)
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LUSC (tumor)LUSC (normal)
CRNN, SQSTM1, WHSC1L1 (tumor)CRNN, SQSTM1, WHSC1L1 (normal)
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PRAD (tumor)PRAD (normal)
CRNN, SQSTM1, WHSC1L1 (tumor)CRNN, SQSTM1, WHSC1L1 (normal)
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STAD (tumor)STAD (normal)
CRNN, SQSTM1, WHSC1L1 (tumor)CRNN, SQSTM1, WHSC1L1 (normal)
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THCA (tumor)THCA (normal)
CRNN, SQSTM1, WHSC1L1 (tumor)CRNN, SQSTM1, WHSC1L1 (normal)
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TissGeneProg for CRNN

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 CRNN
TissGeneDrug for CRNN

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 CRNN

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0279626Squamous cell carcinoma of esophagus5BeFree
umls:C0014859Esophageal Neoplasms3BeFree,GAD
umls:C0007137Squamous cell carcinoma2BeFree,GAD
umls:C0152018Esophageal carcinoma2BeFree
umls:C0546837Malignant neoplasm of esophagus2BeFree
umls:C0013595Eczema1BeFree
umls:C0017168Gastroesophageal reflux disease1BeFree
umls:C0022521Kartagener Syndrome1BeFree
umls:C0027627Neoplasm Metastasis1BeFree
umls:C0596263Carcinogenesis1BeFree
umls:C0686619Secondary malignant neoplasm of lymph node1BeFree
umls:C1832097EPIDERMAL DIFFERENTIATION COMPLEX1BeFree