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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 MAL
check button Gene summary
Basic gene informationGene symbolMAL
Gene namemal, T-cell differentiation protein
Synonyms-
CytomapUCSC genome browser: 2q11.1
Type of geneprotein-coding
RefGenesNM_002371.3,
NM_022438.2,NM_022439.2,NM_022440.2,
DescriptionT-lymphocyte maturation-associated proteinmyelin and lymphocyte protein
Modification date20141207
dbXrefs MIM : 188860
HGNC : HGNC
Ensembl : ENSG00000172005
HPRD : 01789
Vega : OTTHUMG00000132011
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_MAL
BioGPS: 4118
PathwayNCI Pathway Interaction Database: MAL
KEGG: MAL
REACTOME: MAL
Pathway Commons: MAL
ContextiHOP: MAL
ligand binding site mutation search in PubMed: MAL
UCL Cancer Institute: MAL
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 MAL
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


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TissGeneExp for MAL

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-0.9519506861.593865001-2.5458156861.35E-136.89E-13
KIRC1.1903702296.448345229-5.2579752.79E-305.39E-29
HNSC-0.1357873936.552107955-6.6878953495.43E-154.21E-13
STAD-0.9180846323.925537243-4.8436218751.55E-073.83E-06
COAD-3.9038678050.065201426-3.9690692317.38E-153.76E-13
KIRP3.3193559936.643412243-3.324056256.64E-073.52E-06
LUAD-0.3366426061.433345325-1.7699879314.68E-123.42E-11
PRAD-2.445325497-0.124131266-2.3211942311.24E-141.43E-12
ESCA-2.4705681554.002050027-6.4726181829.04E-060.000913862


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TissGene-miRNA for MAL

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 MAL
TissGeneSNV for MAL

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.Y73CPCPG1
p.A143VCOAD1
p.I74VPCPG1
p.T112MCOAD1
p.R120MCOAD1
p.L147SSTAD1
p.G79VSTAD1
p.V140MLIHC1
p.S132FSARC1
p.A89THNSC1
p.W150*SKCM1
p.H121QLUAD1
p.S152FBLCA1
p.G34RPRAD1
p.V140MESCA1
p.W54LUCEC1
p.A95TPAAD1
p.A65GSTAD1
p.P47SHNSC1
p.S43TCOAD1


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TissGeneCNV for MAL

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 MAL

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
Chimerdb3.0ChiTaRsNAAW950587MAL-RGL1chr2:95719550chr1:183896740
Chimerdb3.0ChiTaRsNABF751667MAL-CSNK1Dchr2:95705948chr17:80218040
Chimerdb3.0FusionScanUCECTCGA-AX-A1C7-01AAACS-MALOut-of-Framechr12:125561157chr2:95713703
Chimerdb3.0TopHat-FusionHNSCTCGA-CV-7177-11AMAL-KRT4Out-of-Framechr2:95719136chr12:53205700


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TissGeneNet for MAL

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)
MAL, SRC, USP7, PIK3R1, BTK, MYD88 (tumor)MAL, SRC, USP7, PIK3R1, BTK, MYD88 (normal)
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COAD (tumor)COAD (normal)
MAL, SRC, USP7, PIK3R1, BTK, MYD88 (tumor)MAL, SRC, USP7, PIK3R1, BTK, MYD88 (normal)
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HNSC (tumor)HNSC (normal)
MAL, SRC, USP7, PIK3R1, BTK, MYD88 (tumor)MAL, SRC, USP7, PIK3R1, BTK, MYD88 (normal)
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KICH (tumor)KICH (normal)
MAL, SRC, USP7, PIK3R1, BTK, MYD88 (tumor)MAL, SRC, USP7, PIK3R1, BTK, MYD88 (normal)
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KIRC (tumor)KIRC (normal)
MAL, SRC, USP7, PIK3R1, BTK, MYD88 (tumor)MAL, SRC, USP7, PIK3R1, BTK, MYD88 (normal)
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KIRP (tumor)KIRP (normal)
MAL, SRC, USP7, PIK3R1, BTK, MYD88 (tumor)MAL, SRC, USP7, PIK3R1, BTK, MYD88 (normal)
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LIHC (tumor)LIHC (normal)
MAL, SRC, USP7, PIK3R1, BTK, MYD88 (tumor)MAL, SRC, USP7, PIK3R1, BTK, MYD88 (normal)
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LUAD (tumor)LUAD (normal)
MAL, SRC, USP7, PIK3R1, BTK, MYD88 (tumor)MAL, SRC, USP7, PIK3R1, BTK, MYD88 (normal)
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LUSC (tumor)LUSC (normal)
MAL, SRC, USP7, PIK3R1, BTK, MYD88 (tumor)MAL, SRC, USP7, PIK3R1, BTK, MYD88 (normal)
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PRAD (tumor)PRAD (normal)
MAL, SRC, USP7, PIK3R1, BTK, MYD88 (tumor)MAL, SRC, USP7, PIK3R1, BTK, MYD88 (normal)
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STAD (tumor)STAD (normal)
MAL, SRC, USP7, PIK3R1, BTK, MYD88 (tumor)MAL, SRC, USP7, PIK3R1, BTK, MYD88 (normal)
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THCA (tumor)THCA (normal)
MAL, SRC, USP7, PIK3R1, BTK, MYD88 (tumor)MAL, SRC, USP7, PIK3R1, BTK, MYD88 (normal)
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TissGeneProg for MAL

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 MAL
TissGeneDrug for MAL

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 MAL

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0019693HIV Infections6BeFree
umls:C0023462Acute Megakaryocytic Leukemias5BeFree
umls:C0596263Carcinogenesis5BeFree
umls:C0007847Malignant tumor of cervix4BeFree
umls:C1292754Mediastinal (Thymic) Large B-Cell Lymphoma4BeFree
umls:C0006142Malignant neoplasm of breast3BeFree
umls:C0007137Squamous cell carcinoma3BeFree,CTD_human,LHGDN
umls:C0023467Leukemia, Myelocytic, Acute3BeFree
umls:C0027627Neoplasm Metastasis3BeFree
umls:C0152018Esophageal carcinoma3BeFree
umls:C0206708Cervical Intraepithelial Neoplasia3BeFree
umls:C0302592Cervix carcinoma3BeFree
umls:C0678222Breast Carcinoma3BeFree
umls:C2239176Liver carcinoma3BeFree
umls:C0003873Rheumatoid Arthritis2GAD,LHGDN
umls:C0007867Cervix Diseases2BeFree
umls:C0013080Down Syndrome2BeFree
umls:C0014859Esophageal Neoplasms2BeFree
umls:C0023903Liver neoplasms2BeFree
umls:C0024530Malaria2BeFree
umls:C0024623Malignant neoplasm of stomach2BeFree
umls:C0349459Cervical intraepithelial neoplasia grade 22BeFree
umls:C0546837Malignant neoplasm of esophagus2BeFree
umls:C0677886Epithelial ovarian cancer2BeFree,GAD
umls:C0699791Stomach Carcinoma2BeFree
umls:C1168401Squamous cell carcinoma of the head and neck2BeFree
umls:C0001430Adenoma1LHGDN
umls:C0009404Colorectal Neoplasms1LHGDN
umls:C0018671Head and Neck Neoplasms1CTD_human
umls:C0018852Heavy Chain Disease1BeFree
umls:C0019829Hodgkin Disease1BeFree
umls:C0022548Keloid1BeFree
umls:C0023418leukemia1BeFree
umls:C0024121Lung Neoplasms1BeFree
umls:C0028754Obesity1BeFree
umls:C0029925Ovarian Carcinoma1BeFree
umls:C0033578Prostatic Neoplasms1LHGDN
umls:C0038356Stomach Neoplasms1LHGDN
umls:C0041107Trisomy1BeFree
umls:C0235974Pancreatic carcinoma1BeFree
umls:C0278996Cancer of Head and Neck1BeFree
umls:C0346647Malignant neoplasm of pancreas1BeFree
umls:C0598766Leukemogenesis1BeFree
umls:C0685938Malignant neoplasm of gastrointestinal tract1BeFree
umls:C0858320Plasmodium ovale infection1BeFree
umls:C1140680Malignant neoplasm of ovary1BeFree
umls:C1333064Classical Hodgkin's Lymphoma1BeFree
umls:C1458155Mammary Neoplasms1CTD_human,LHGDN