TissGeneSummary for ARL6 |
Gene summary |
Basic gene information | Gene symbol | ARL6 |
Gene name | ADP-ribosylation factor-like 6 | |
Synonyms | BBS3|RP55 | |
Cytomap | UCSC genome browser: 3q11.2 | |
Type of gene | protein-coding | |
RefGenes | NM_001278293.1, NM_032146.4,NM_177976.2,NR_103511.1, | |
Description | ADP-ribosylation factor-like protein 6Bardet-Biedl syndrome 3 protein | |
Modification date | 20141219 | |
dbXrefs | MIM : 608845 | |
HGNC : HGNC | ||
Ensembl : ENSG00000113966 | ||
HPRD : 10588 | ||
Vega : OTTHUMG00000159189 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_ARL6 | |
BioGPS: 84100 | ||
Pathway | NCI Pathway Interaction Database: ARL6 | |
KEGG: ARL6 | ||
REACTOME: ARL6 | ||
Pathway Commons: ARL6 | ||
Context | iHOP: ARL6 | |
ligand binding site mutation search in PubMed: ARL6 | ||
UCL Cancer Institute: ARL6 | ||
Assigned class in TissGDB* | C | |
Included tissue-specific gene expression resources | TiGER,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 ARL6 | ||
Description by TissGene annotations | Have significant anti-correlated miRNA TissgsLTS |
* 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. |
Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
GO ID | GO term | PubMed ID |
Top |
TissGeneExp for ARL6 |
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 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 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. |
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) |
- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05) |
Cancer type | Mean(exp) in tumor | Mean(exp) in matched normal | Log2FC | P-val. | FDR |
Top |
TissGene-miRNA for ARL6 |
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 type | miRNA id | miRNA accession | P-val. | Coeff. | # samples |
UCS | hsa-miR-143-3p | MIMAT0000435 | 0.03 | -0.29 | 56 |
UCS | hsa-miR-340-5p | MIMAT0004692 | 0.0076 | -0.36 | 56 |
Top |
TissGeneMut for ARL6 |
TissGeneSNV for ARL6 |
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. |
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) |
- nsSNVs sorted by frequency. |
AAchange | Cancer type | # samples |
p.S28N | COAD | 1 |
p.D110N | UCEC | 1 |
p.K14N | UCEC | 1 |
p.V143L | LUSC | 1 |
p.I159L | UCEC | 1 |
p.F127L | BRCA | 1 |
p.R135T | BLCA | 1 |
p.Y76C | LUSC | 1 |
p.D69G | PRAD | 1 |
p.N46Y | GBM | 1 |
p.R121H | GBM | 1 |
p.K142Q | COAD | 1 |
p.E172* | LUSC | 1 |
p.V138G | LUAD | 1 |
p.T31M | LGG | 1 |
p.G24R | SARC | 1 |
p.L13P | SKCM | 1 |
p.A89S | PRAD | 1 |
p.R122X | COAD | 1 |
p.S60* | UCEC | 1 |
p.P116S | SKCM | 1 |
p.D26G | LGG | 1 |
p.I118T | UCEC | 1 |
p.L63F | LGG | 1 |
Top |
TissGeneCNV for ARL6 |
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) |
Top |
TissGeneFusions for ARL6 |
Fusion genes including TissGene (ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01) |
Database | Src | Cancer type | Sample | Fusion gene | ORF | 5'-gene BP | 3'-gene BP |
Chimerdb3.0 | ChiTaRs | NA | BP218270 | ARL6-KIAA1324L | chr3:97483912 | chr7:86512088 | |
TCGAfusionPortal | PRADA | BRCA | TCGA-A2-A0YT-01A | AC110491.1-ARL6 | NA | Chr3:97583491 | Chr3:97503799 |
Top |
TissGeneNet for ARL6 |
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) |
Top |
TissGeneProg for ARL6 |
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. |
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. |
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. |
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. |
Top |
TissGeneClin for ARL6 |
TissGeneDrug for ARL6 |
Drug information targeting TissGene (DrugBank Version 5.0.6, 2017-04-01) |
DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
Top |
TissGeneDisease for ARL6 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0752166 | Bardet-Biedl Syndrome | 10 | BeFree,CLINVAR,CTD_human,LHGDN,ORPHANET |
umls:C0035309 | Retinal Diseases | 2 | BeFree,GAD |
umls:C1859564 | Bardet-Biedl syndrome 3 | 2 | CLINVAR,UNIPROT |
umls:C0021364 | Male infertility | 1 | GAD |
umls:C0028754 | Obesity | 1 | GAD |
umls:C0338656 | Impaired cognition | 1 | BeFree |
umls:C3150808 | RETINITIS PIGMENTOSA 55 | 1 | CLINVAR,CTD_human,UNIPROT |
umls:C0035334 | Retinitis Pigmentosa | 0 | ORPHANET |