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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 ATOH7
check button Gene summary
Basic gene informationGene symbolATOH7
Gene nameatonal homolog 7 (Drosophila)
SynonymsMath5|NCRNA|PHPVAR|RNANC|bHLHa13
CytomapUCSC genome browser: 10q21.3|10q21.3-q22.1
Type of geneprotein-coding
RefGenesNM_145178.3,
Descriptionclass A basic helix-loop-helix protein 13helix-loop-helix protein hATH-5protein atonal homolog 7
Modification date20141207
dbXrefs MIM : 609875
HGNC : HGNC
Ensembl : ENSG00000179774
HPRD : 09812
Vega : OTTHUMG00000018346
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ATOH7
BioGPS: 220202
PathwayNCI Pathway Interaction Database: ATOH7
KEGG: ATOH7
REACTOME: ATOH7
Pathway Commons: ATOH7
ContextiHOP: ATOH7
ligand binding site mutation search in PubMed: ATOH7
UCL Cancer Institute: ATOH7
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)BrainLiver
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)GBM,LGGLIHC
Reference showing the relevant tissue of ATOH7
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


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TissGeneExp for ATOH7

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-0.7347142770.769665723-1.504381.91E-089.74E-08
LUSC0.375688547-0.8337192971.2094078436.65E-081.91E-07
LIHC0.4103257231.642019723-1.2316942.18E-081.77E-07


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TissGene-miRNA for ATOH7

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 ATOH7
TissGeneSNV for ATOH7

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.E49KBLCA1
p.N57DDLBC1
p.E134KLUAD1
p.E134QUCEC1
p.S87IPAAD1
p.E114QSKCM1
p.P68TUCEC1
p.R52CESCA1


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TissGeneCNV for ATOH7

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 ATOH7

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 ATOH7

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 ATOH7

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 ATOH7
TissGeneDrug for ATOH7

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 ATOH7

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0017601Glaucoma3BeFree
umls:C0085648Synovial Cyst3BeFree
umls:C0152136Low Tension Glaucoma3BeFree
umls:C0339573Glaucoma, Primary Open Angle3BeFree
umls:C1258666Myxoid cyst3BeFree
umls:C0338502Hypoplasia of the optic nerve2BeFree
umls:C1969783Persistent Hyperplastic Primary Vitreous, Autosomal Recessive2UNIPROT
umls:C0009363Congenital ocular coloboma (disorder)1BeFree
umls:C0015397Disorder of eye1GAD
umls:C0017606Primary angle-closure glaucoma1BeFree
umls:C0035309Retinal Diseases1BeFree
umls:C0154094Carcinoma in situ of eye1GAD
umls:C0266568Persistent Hyperplastic Primary Vitreous1BeFree,ORPHANET
umls:C0339539Familial Exudative Vitreoretinopathy1BeFree
umls:C0456909Blind Vision1GAD
umls:C0595921Intraocular pressure disorder1BeFree
umls:C1857299RETINAL NONATTACHMENT, NONSYNDROMIC CONGENITAL1BeFree,CLINVAR
umls:C3151617CORNEAL OPACIFICATION WITH OTHER OCULAR ANOMALIES0ORPHANET