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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 DNAAF3
check button Gene summary
Basic gene informationGene symbolDNAAF3
Gene namedynein, axonemal, assembly factor 3
SynonymsC19orf51|CILD2|DAB1|PCD|PF22
CytomapUCSC genome browser: 19q13.4
Type of geneprotein-coding
RefGenesNM_001256714.1,
NM_001256715.1,NM_001256716.1,NM_178837.4,NM_001031802.1,
DescriptionUPF0470 protein C19orf51dynein assembly factor 3, axonemal
Modification date20141219
dbXrefs MIM : 614566
HGNC : HGNC
Ensembl : ENSG00000167646
HPRD : 14185
Vega : OTTHUMG00000128547
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_DNAAF3
BioGPS: 352909
PathwayNCI Pathway Interaction Database: DNAAF3
KEGG: DNAAF3
REACTOME: DNAAF3
Pathway Commons: DNAAF3
ContextiHOP: DNAAF3
ligand binding site mutation search in PubMed: DNAAF3
UCL Cancer Institute: DNAAF3
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 DNAAF3
Description by TissGene annotations
* 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 DNAAF3

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)


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)

- 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


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TissGene-miRNA for DNAAF3

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 DNAAF3
TissGeneSNV for DNAAF3

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.G245SKIRP3
p.P98HPAAD1
p.G567RSKCM1
p.S585LHNSC1
p.A479VSKCM1
p.P51THNSC1
p.F424LLUSC1
p.Y316HCOAD1
p.R321WCOAD1
p.G399RSKCM1
p.T108KLUAD1
p.A469ECHOL1
p.G245STHCA1
p.G245SLGG1
p.H294YCHOL1
p.G400RLUAD1
p.R299QBLCA1
p.E114KBLCA1
p.D359NREAD1
p.R446QCOAD1
p.E558ASTAD1
p.E551GSTAD1
p.A535VLUSC1
p.R36LPRAD1
p.P169LLIHC1
p.V485MTHYM1
p.V306IPAAD1
p.E360GPCPG1
p.A315DSKCM1
p.S29RTHYM1
p.Y451HLUAD1
p.M159RSKCM1
p.V336ASARC1
p.Q406XCOAD1
p.G55RUCEC1
p.T425ALUSC1
p.R76KSKCM1
p.E488VLUSC1
p.I18VTHCA1
p.A251VBLCA1
p.E516*BLCA1
p.E360GCOAD1
p.A492VUCEC1
p.E360GPRAD1
p.A547SLUAD1
p.D312NLUAD1
p.G559CLUSC1
p.S104FCESC1
p.G445CLUAD1
p.P8LSKCM1
p.E586DLIHC1
p.V533ICOAD1
p.A466TLUAD1
p.R299LBLCA1
p.Q379EHNSC1
p.A307VSKCM1
p.S54CCESC1
p.A512SLUAD1
p.S527XSKCM1
p.E586GLIHC1
p.P597SBLCA1
p.S527*SKCM1


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TissGeneCNV for DNAAF3

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 DNAAF3

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 DNAAF3

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 DNAAF3

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.

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.

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.

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.

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TissGeneClin for DNAAF3
TissGeneDrug for DNAAF3

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 DNAAF3

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0022521Kartagener Syndrome4BeFree,CLINVAR,CTD_human
umls:C0008780Ciliary Motility Disorders3BeFree
umls:C0002395Alzheimer's Disease2BeFree
umls:C0004352Autistic Disorder2BeFree
umls:C0027819Neuroblastoma2BeFree
umls:C0700095Central neuroblastoma2BeFree
umls:C0000768Congenital Abnormality1BeFree
umls:C0007103Malignant neoplasm of endometrium1BeFree
umls:C0009402Colorectal Carcinoma1BeFree
umls:C0020255Hydrocephalus1BeFree
umls:C0026764Multiple Myeloma1BeFree
umls:C0027627Neoplasm Metastasis1BeFree
umls:C0036341Schizophrenia1BeFree
umls:C0037221Situs Inversus1BeFree
umls:C0040038Thromboembolism1BeFree
umls:C0162534Prion Diseases1BeFree
umls:C0235974Pancreatic carcinoma1BeFree
umls:C0278619Extramedullary Plasmacytoma1BeFree
umls:C0346647Malignant neoplasm of pancreas1BeFree
umls:C0398625Protein C Deficiency1BeFree
umls:C0476089Endometrial Carcinoma1BeFree
umls:C0596263Carcinogenesis1BeFree
umls:C0699949airway disease1BeFree
umls:C1274290Neonatal purpura fulminans (homozygous protein C deficiency)1BeFree
umls:C1328504Hormone refractory prostate cancer1BeFree
umls:C1527249Colorectal Cancer1BeFree
umls:C1847554CILIARY DYSKINESIA, PRIMARY, 2 (disorder)1CLINVAR,MGD,UNIPROT
umls:C1883486Uterine Corpus Cancer1BeFree
umls:C2931859Acquired CJD1BeFree