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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 CCL16
check button Gene summary
Basic gene informationGene symbolCCL16
Gene namechemokine (C-C motif) ligand 16
SynonymsCKb12|HCC-4|ILINCK|LCC-1|LEC|LMC|Mtn-1|NCC-4|NCC4|SCYA16|SCYL4
CytomapUCSC genome browser: 17q11.2
Type of geneprotein-coding
RefGenesNM_004590.2,
DescriptionC-C motif chemokine 16IL-10-inducible chemokinechemokine CC-4chemokine LECliver CC chemokine-1liver-expressed chemokinelymphocyte and monocyte chemoattractantmonotactin-1new CC chemokine 4small inducible cytokine subfamily A (Cys-Cys), member 16
Modification date20141207
dbXrefs MIM : 601394
HGNC : HGNC
Ensembl : ENSG00000275152
HPRD : 03233
Vega : OTTHUMG00000188402
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CCL16
BioGPS: 6360
PathwayNCI Pathway Interaction Database: CCL16
KEGG: CCL16
REACTOME: CCL16
Pathway Commons: CCL16
ContextiHOP: CCL16
ligand binding site mutation search in PubMed: CCL16
UCL Cancer Institute: CCL16
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)Liver
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)LIHC
Reference showing the relevant tissue of CCL16
Description by TissGene annotationsTissgsKTS
CNV gained TissGeneKTS
Fused withOncogene
* 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:0050918positive chemotaxis15001559
GO:0050918positive chemotaxis15001559


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TissGeneExp for CCL16

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
BRCA-1.7508848520.27941778-2.0303026321.71E-468.57E-45
KIRP-2.079968733-0.585862483-1.494106253.85E-148.38E-13
LUSC-2.11385415-0.515969836-1.5978843147.98E-154.78E-14
LIHC7.5064965178.981080517-1.4745840.002170.005483015
BLCA-1.956440115-0.671913799-1.2845263162.01E-050.000328694


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TissGene-miRNA for CCL16

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 CCL16
TissGeneSNV for CCL16

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.A64VSTAD1
p.T18ILAML1
p.I107NCOAD1
p.A57TREAD1
p.E43KLUAD1
p.T77NLUAD1
p.S19*SARC1
p.E43KLUSC1
p.P91LLGG1
p.M1IBLCA1
p.L39PESCA1
p.S9PESCA1
p.S19LREAD1
p.P114SUCEC1
p.L10FSKCM1
p.P79SSTAD1
p.S19LPAAD1
p.G53ESKCM1
p.N72HLIHC1
p.D82NLUAD1
p.R55ICOAD1
p.S23CHNSC1


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TissGeneCNV for CCL16

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 CCL16

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
TCGAfusionPortalPRADABRCATCGA-A2-A0T3-01AETV4-CCL16In-frameChr17:41610042Chr17:34305299


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TissGeneNet for CCL16

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)
CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (tumor)CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (normal)
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COAD (tumor)COAD (normal)
CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (tumor)CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (normal)
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HNSC (tumor)HNSC (normal)
CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (tumor)CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (normal)
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KICH (tumor)KICH (normal)
CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (tumor)CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (normal)
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KIRC (tumor)KIRC (normal)
CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (tumor)CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (normal)
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KIRP (tumor)KIRP (normal)
CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (tumor)CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (normal)
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LIHC (tumor)LIHC (normal)
CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (tumor)CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (normal)
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LUAD (tumor)LUAD (normal)
CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (tumor)CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (normal)
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LUSC (tumor)LUSC (normal)
CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (tumor)CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (normal)
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PRAD (tumor)PRAD (normal)
CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (tumor)CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (normal)
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STAD (tumor)STAD (normal)
CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (tumor)CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (normal)
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THCA (tumor)THCA (normal)
CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (tumor)CCL16, HNF4A, CCR1, CXCR5, CCR2, CCR8, CCR5, HRH4 (normal)
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TissGeneProg for CCL16

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 CCL16
TissGeneDrug for CCL16

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 CCL16

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0019158Hepatitis5BeFree,GAD
umls:C0019159Hepatitis A4BeFree
umls:C2239176Liver carcinoma4BeFree
umls:C0006142Malignant neoplasm of breast2BeFree
umls:C0023890Liver Cirrhosis2BeFree
umls:C0023895Liver diseases2BeFree
umls:C0678222Breast Carcinoma2BeFree
umls:C0001857AIDS related complex1BeFree
umls:C0004096Asthma1GAD
umls:C0006274Bronchiolitis, Viral1GAD
umls:C0011603Dermatitis1BeFree
umls:C0023290Leishmaniasis, Visceral1GAD
umls:C0023473Myeloid Leukemia, Chronic1BeFree
umls:C0023903Liver neoplasms1BeFree
umls:C0024232Lymphatic Metastasis1BeFree
umls:C0025202melanoma1BeFree
umls:C0033578Prostatic Neoplasms1BeFree
umls:C0035235Respiratory Syncytial Virus Infections1GAD
umls:C0235974Pancreatic carcinoma1BeFree
umls:C0302332Poisoning syndrome1BeFree
umls:C0346647Malignant neoplasm of pancreas1BeFree
umls:C0686619Secondary malignant neoplasm of lymph node1BeFree
umls:C1290884Inflammatory disorder1BeFree
umls:C1444680Posterior capsule opacification1BeFree
umls:C3241937Nonalcoholic Steatohepatitis1BeFree