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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 RBPJL
check button Gene summary
Basic gene informationGene symbolRBPJL
Gene namerecombination signal binding protein for immunoglobulin kappa J region-like
SynonymsRBPL|RBPSUHL|SUHL
CytomapUCSC genome browser: 20q13.12
Type of geneprotein-coding
RefGenesNM_001281448.1,
NM_001281449.1,NM_014276.3,
Descriptionrecombining binding protein suppressor of hairless-like proteintranscription factor RBP-L
Modification date20141207
dbXrefs MIM : 616104
HGNC : HGNC
Ensembl : ENSG00000124232
HPRD : 10187
Vega : OTTHUMG00000033055
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_RBPJL
BioGPS: 11317
PathwayNCI Pathway Interaction Database: RBPJL
KEGG: RBPJL
REACTOME: RBPJL
Pathway Commons: RBPJL
ContextiHOP: RBPJL
ligand binding site mutation search in PubMed: RBPJL
UCL Cancer Institute: RBPJL
Assigned class in TissGDB*A
Included tissue-specific gene expression resourcesHPA,TiGER,GTEx
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx)Pancreas
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)PAAD
Reference showing the relevant tissue of RBPJLThe human pancreas proteome defined by transcriptomics and antibody-based profiling. Danielsson A, Pontén F, Fagerberg L, Hallström BM, Schwenk JM, Uhlén M, Korsgren O, Lindskog C. PLoS One. 2014 Dec 29;9(12):e115421. doi: 10.1371/journal.pone.0115421. eCollection 2014 (pmid:25546435)
go to article
Description by TissGene annotationsTissgsKTS
CNV lost TissGeneKTS
* 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 RBPJL

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
STAD0.1993722481.208112873-1.0087406250.004470.017636895


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TissGene-miRNA for RBPJL

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 RBPJL
TissGeneSNV for RBPJL

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.R58CSTAD1
p.G260AESCA1
p.T249MBRCA1
p.S480RESCA1
p.R222LLUAD1
p.V278IBLCA1
p.L499MESCA1
p.M457IBLCA1
p.A341TSKCM1
p.T249KHNSC1
p.R222CUCEC1
p.S196WLUAD1
p.V269FESCA1
p.E149KSKCM1
p.R229CLIHC1
p.A153TSTAD1
p.R220LOV1
p.E347*HNSC1
p.H457NHNSC1
p.R70WHNSC1
p.E26DUCEC1
p.P381LCESC1
p.D34HBLCA1
p.H185NESCA1
p.R86WESCA1
p.R270CUCEC1
p.P483SSTAD1
p.V481ADLBC1
p.Q516*LGG1
p.V103MGBM1
p.H18QGBM1
p.T507MTHYM1
p.D302HBRCA1
p.S444RDLBC1
p.A376VSTAD1
p.T116MESCA1
p.R168WSTAD1
p.P92SUCEC1
p.R168WUCEC1
p.S389NCHOL1
p.H256YSTAD1
p.A411VACC1
p.K293EBLCA1
p.D235HHNSC1
p.C65RKIRC1
p.R222HUCEC1
p.S211PSKCM1
p.P92LUCEC1
p.R508CSTAD1
p.G125VKIRP1
p.L465FSKCM1
p.G151SBRCA1
p.R243XCOAD1
p.G363SLGG1
p.R70QDLBC1
p.D261NDLBC1
p.Q516KHNSC1
p.P15SSKCM1
p.R222CREAD1
p.E347KSKCM1
p.E505KSKCM1
p.G178SBLCA1
p.L451VBLCA1
p.V420MCESC1
p.C434*LUAD1
p.R465CUCEC1
p.G40CGBM1
p.R36LBRCA1
p.K75TSTAD1


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TissGeneCNV for RBPJL

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 RBPJL

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 RBPJL

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 RBPJL

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 RBPJL
TissGeneDrug for RBPJL

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 RBPJL

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource