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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 ALS2CR12
check button Gene summary
Basic gene informationGene symbolALS2CR12
Gene nameamyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 12
Synonyms-
CytomapUCSC genome browser: 2q33.1
Type of geneprotein-coding
RefGenesNM_001127391.2,
NM_001289993.1,NM_139163.3,NR_110620.1,
Descriptionamyotrophic lateral sclerosis 2 chromosomal region candidate gene 12 protein
Modification date20141207
dbXrefs HGNC : HGNC
Ensembl : ENSG00000155749
HPRD : 12444
Vega : OTTHUMG00000132824
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ALS2CR12
BioGPS: 130540
PathwayNCI Pathway Interaction Database: ALS2CR12
KEGG: ALS2CR12
REACTOME: ALS2CR12
Pathway Commons: ALS2CR12
ContextiHOP: ALS2CR12
ligand binding site mutation search in PubMed: ALS2CR12
UCL Cancer Institute: ALS2CR12
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)Testis
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)TGCT
Reference showing the relevant tissue of ALS2CR12
Description by TissGene annotationsFused withOncogene
Fused withTSGene
* 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 ALS2CR12

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
LUSC-1.7528713450.593830616-2.3467019611.76E-117.13E-11
KICH-2.060157462-0.285649462-1.7745085.62E-082.70E-07
KIRC-2.112694629-0.59550574-1.5171888894.09E-172.44E-16
LUAD-1.6989033930.278932814-1.9778362073.50E-081.46E-07
BLCA-2.854049673-1.838923357-1.0151263160.0009830.007007026


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TissGene-miRNA for ALS2CR12

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 ALS2CR12
TissGeneSNV for ALS2CR12

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.
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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.E250KBLCA1
p.Q152*SKCM1
p.N92ISKCM1
p.R20WSTAD1
p.R222CBLCA1
p.H49YSKCM1
p.Q133HOV1
p.H402YBLCA1
p.M104VUCEC1
p.G420RHNSC1
p.K406NLGG1
p.A369DSARC1
p.E387*UCS1
p.E286QKIRP1
p.R20QTHCA1
p.Q133KSTAD1
p.T312IUCEC1
p.I395SGBM1
p.P14HCHOL1
p.R30CGBM1
p.N125SESCA1
p.R107KSKCM1
p.E308KBLCA1
p.Q70HESCA1
p.E413KSKCM1
p.R319KBLCA1
p.T124ISKCM1
p.D431YHNSC1
p.V90LCESC1
p.E247KHNSC1
p.S97YUCEC1
p.N82KLUAD1
p.E387XUCS1
p.R20QUCEC1
p.K260EKIRC1
p.E390KSKCM1
p.R20QPAAD1
p.R20WESCA1
p.C163FLUAD1
p.A241VCOAD1
p.G18RTHYM1
p.L296FBLCA1
p.R30CBLCA1
p.R120TBLCA1
p.R222CUCEC1


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TissGeneCNV for ALS2CR12

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 ALS2CR12

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
Chimerdb3.0ChiTaRsNABF735164ALS2CR12-LRPPRCchr2:202156324chr2:44115367
Chimerdb3.0FusionScanBRCATCGA-A8-A07U-01APPTC7-ALS2CR12Out-of-Framechr12:111020613chr2:202173973
TCGAfusionPortalPRADABRCATCGA-A8-A07U-01APPTC7-ALS2CR12Out-of-frameChr12:111020614Chr2:202173973
TCGAfusionPortalPRADABRCATCGA-AN-A0XU-01AORC2-ALS2CR12Out-of-frameChr2:201790559Chr2:202173973
TCGAfusionPortalPRADABRCATCGA-BH-A18T-01ACASP8-ALS2CR12In-frameChr2:202131514Chr2:202195556
TCGAfusionPortalPRADALUADTCGA-55-8302-01AFAM126B-ALS2CR125UTR-CDSChr2:201936333Chr2:202154508


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TissGeneNet for ALS2CR12

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)
ALS2CR12, SRC, PIK3R1, SULT2B1 (tumor)ALS2CR12, SRC, PIK3R1, SULT2B1 (normal)
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COAD (tumor)COAD (normal)
ALS2CR12, SRC, PIK3R1, SULT2B1 (tumor)ALS2CR12, SRC, PIK3R1, SULT2B1 (normal)
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HNSC (tumor)HNSC (normal)
ALS2CR12, SRC, PIK3R1, SULT2B1 (tumor)ALS2CR12, SRC, PIK3R1, SULT2B1 (normal)
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KICH (tumor)KICH (normal)
ALS2CR12, SRC, PIK3R1, SULT2B1 (tumor)ALS2CR12, SRC, PIK3R1, SULT2B1 (normal)
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KIRC (tumor)KIRC (normal)
ALS2CR12, SRC, PIK3R1, SULT2B1 (tumor)ALS2CR12, SRC, PIK3R1, SULT2B1 (normal)
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KIRP (tumor)KIRP (normal)
ALS2CR12, SRC, PIK3R1, SULT2B1 (tumor)ALS2CR12, SRC, PIK3R1, SULT2B1 (normal)
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LIHC (tumor)LIHC (normal)
ALS2CR12, SRC, PIK3R1, SULT2B1 (tumor)ALS2CR12, SRC, PIK3R1, SULT2B1 (normal)
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LUAD (tumor)LUAD (normal)
ALS2CR12, SRC, PIK3R1, SULT2B1 (tumor)ALS2CR12, SRC, PIK3R1, SULT2B1 (normal)
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LUSC (tumor)LUSC (normal)
ALS2CR12, SRC, PIK3R1, SULT2B1 (tumor)ALS2CR12, SRC, PIK3R1, SULT2B1 (normal)
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PRAD (tumor)PRAD (normal)
ALS2CR12, SRC, PIK3R1, SULT2B1 (tumor)ALS2CR12, SRC, PIK3R1, SULT2B1 (normal)
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STAD (tumor)STAD (normal)
ALS2CR12, SRC, PIK3R1, SULT2B1 (tumor)ALS2CR12, SRC, PIK3R1, SULT2B1 (normal)
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THCA (tumor)THCA (normal)
ALS2CR12, SRC, PIK3R1, SULT2B1 (tumor)ALS2CR12, SRC, PIK3R1, SULT2B1 (normal)
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TissGeneProg for ALS2CR12

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 ALS2CR12
TissGeneDrug for ALS2CR12

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 ALS2CR12

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0003873Rheumatoid Arthritis1GWASCAT
umls:C0005684Malignant neoplasm of urinary bladder1GAD
umls:C0006142Malignant neoplasm of breast1BeFree
umls:C0007117Basal cell carcinoma1GWASCAT
umls:C0007137Squamous cell carcinoma1GAD
umls:C0014859Esophageal Neoplasms1GAD
umls:C0025202melanoma1GAD,GWASCAT
umls:C0040336Tobacco Use Disorder1GAD
umls:C0279626Squamous cell carcinoma of esophagus1GWASCAT
umls:C0678222Breast Carcinoma1BeFree