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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for CHKB |
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Phenotypic Information for CHKB(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: CHKB |
Familial Cancer Database: CHKB |
* This gene is included in those cancer gene databases. |
Oncogene 1 | Significant driver gene in |
cf) number; DB name 1 Oncogene; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long, 2 Tumor Suppressor gene; https://bioinfo.uth.edu/TSGene/, 3 Cancer Gene Census; http://www.nature.com/nrc/journal/v4/n3/abs/nrc1299.html, 4 CancerGenes; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long, 5 Network of Cancer Gene; http://ncg.kcl.ac.uk/index.php, 1Therapeutic Vulnerabilities in Cancer; http://cbio.mskcc.org/cancergenomics/statius/ |
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KEGG_GLYCEROPHOSPHOLIPID_METABOLISM REACTOME_PHOSPHOLIPID_METABOLISM REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS |
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OMIM | |
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Disease | KEGG Disease: CHKB |
MedGen: CHKB (Human Medical Genetics with Condition) | |
ClinVar: CHKB | |
Phenotype | MGI: CHKB (International Mouse Phenotyping Consortium) |
PhenomicDB: CHKB |
Mutations for CHKB |
* Under tables are showing count per each tissue to give us broad intuition about tissue specific mutation patterns.You can go to the detailed page for each mutation database's web site. |
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There's no structural variation information in COSMIC data for this gene. |
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* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows CHKB related fusion information. |
ID | Head Gene | Tail Gene | Accession | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a |
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There's no copy number variation information in COSMIC data for this gene. |
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Stat. for Non-Synonymous SNVs (# total SNVs=30) | (# total SNVs=11) |
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(# total SNVs=0) | (# total SNVs=0) |
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* When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site,primary_histology,mutation(aa),pubmedID. |
GRCh37 position | Mutation(aa) | Unique sampleID count |
chr22:51017889-51017889 | p.Q360R | 3 |
chr22:51020239-51020239 | p.R129Q | 2 |
chr22:51021176-51021176 | p.G12V | 2 |
chr22:51019885-51019885 | p.T182I | 2 |
chr22:51018247-51018247 | p.R314C | 2 |
chr22:51017913-51017913 | p.F352S | 2 |
chr22:51017915-51017915 | p.F351F | 1 |
chr22:51020181-51020181 | p.I148I | 1 |
chr22:51018465-51018465 | p.T289A | 1 |
chr22:51020725-51020725 | p.E96K | 1 |
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Point Mutation/ Tissue ID | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 |
# sample | 3 | 2 | 1 | 3 |   |   | 1 |   | 1 | 1 |   | 2 | 1 | 2 | 1 |   | 4 | 5 |   | 7 |
# mutation | 3 | 2 | 1 | 3 |   |   | 1 |   | 1 | 1 |   | 3 | 1 | 2 | 1 |   | 6 | 5 |   | 7 |
nonsynonymous SNV | 2 | 1 | 1 | 2 |   |   |   |   | 1 |   |   | 2 |   |   |   |   | 5 | 5 |   | 6 |
synonymous SNV | 1 | 1 |   | 1 |   |   | 1 |   |   | 1 |   | 1 | 1 | 2 | 1 |   | 1 |   |   | 1 |
cf) Tissue ID; Tissue type (1; BLCA[Bladder Urothelial Carcinoma], 2; BRCA[Breast invasive carcinoma], 3; CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], 4; COAD[Colon adenocarcinoma], 5; GBM[Glioblastoma multiforme], 6; Glioma Low Grade, 7; HNSC[Head and Neck squamous cell carcinoma], 8; KICH[Kidney Chromophobe], 9; KIRC[Kidney renal clear cell carcinoma], 10; KIRP[Kidney renal papillary cell carcinoma], 11; LAML[Acute Myeloid Leukemia], 12; LUAD[Lung adenocarcinoma], 13; LUSC[Lung squamous cell carcinoma], 14; OV[Ovarian serous cystadenocarcinoma ], 15; PAAD[Pancreatic adenocarcinoma], 16; PRAD[Prostate adenocarcinoma], 17; SKCM[Skin Cutaneous Melanoma], 18:STAD[Stomach adenocarcinoma], 19:THCA[Thyroid carcinoma], 20:UCEC[Uterine Corpus Endometrial Carcinoma]) |
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* We represented just top 10 SNVs. When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site, primary_histology, mutation(aa), pubmedID. |
Genomic Position | Mutation(aa) | Unique sampleID count |
chr22:51018247 | p.R314C | 2 |
chr22:51018831 | p.G278G | 1 |
chr22:51020239 | p.A124S | 1 |
chr22:51018251 | p.S268I | 1 |
chr22:51018844 | p.E119Q | 1 |
chr22:51020255 | p.F265F | 1 |
chr22:51018465 | p.D114N | 1 |
chr22:51019077 | p.D242E | 1 |
chr22:51020270 | p.G112G | 1 |
chr22:51018474 | p.I358I | 1 |
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* Copy number data were extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered on Jan-05-2015. Function ProcessCNAData in TCGA-Assembler package was used to obtain gene-level copy number value which is calculated as the average copy number of the genomic region of a gene. |
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cf) Tissue ID[Tissue type]: BLCA[Bladder Urothelial Carcinoma], BRCA[Breast invasive carcinoma], CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], COAD[Colon adenocarcinoma], GBM[Glioblastoma multiforme], Glioma Low Grade, HNSC[Head and Neck squamous cell carcinoma], KICH[Kidney Chromophobe], KIRC[Kidney renal clear cell carcinoma], KIRP[Kidney renal papillary cell carcinoma], LAML[Acute Myeloid Leukemia], LUAD[Lung adenocarcinoma], LUSC[Lung squamous cell carcinoma], OV[Ovarian serous cystadenocarcinoma ], PAAD[Pancreatic adenocarcinoma], PRAD[Prostate adenocarcinoma], SKCM[Skin Cutaneous Melanoma], STAD[Stomach adenocarcinoma], THCA[Thyroid carcinoma], UCEC[Uterine Corpus Endometrial Carcinoma] |
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Gene Expression for CHKB |
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* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
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* Normalized gene expression data of RNASeqV2 was extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered at Jan-05-2015. Only eight cancer types have enough normal control samples for differential expression analysis. (t test, adjusted p<0.05 (using Benjamini-Hochberg FDR)) |
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* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
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* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown. Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene |
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ALG12,ARSA,SMDT1,CHKB,CRELD2,DENND6B,GPX1, HDAC10,LMF2,NCAPH2,ODF3B,PRR5,RPS19BP1,PPP6R2, SCO2,SELO,SIPA1,TBC1D22A,TOM1,TRABD,ZNF524 | AUP1,LAMTOR4,CHKB,CISD3,FAM195B,MTMR14,MTX1, PGLS,POLD4,PSMB4,RANGRF,RFNG,RNF181,TMEM219, TPRA1,TRAPPC2L,VPS28,WBP2,WDR45,ZFAND2B,ZFPL1 |
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ADSL,ARPC4,C11orf31,LAMTOR1,CHKB,ECI1,DGCR6L, GPX1,MPG,NCAPH2,PHF5A,RBX1,RHBDD3,RPS19BP1, SCO2,SNX17,TMEM179B,TMEM218,UFD1L,ZMAT5,ZNF410 | C15orf40,OSER1,C20orf196,CASP4,CHCHD5,CHKB,GEMIN7, IFT20,JTB,KLHDC2,MDP1,MED11,NPRL2,PIGH, PSMD9,RARS2,SDHAF1,SSNA1,TMEM106C,TRPT1,ZNHIT1 |
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* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown. Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene |
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Pharmacological Information for CHKB |
There's no related Drug. |
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Cross referenced IDs for CHKB |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
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