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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for KCNC2 |
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Phenotypic Information for KCNC2(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: KCNC2 |
Familial Cancer Database: KCNC2 |
* This gene is included in those cancer gene databases. |
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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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REACTOME_INTEGRATION_OF_ENERGY_METABOLISM |
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OMIM | 176256; gene. |
Orphanet | |
Disease | KEGG Disease: KCNC2 |
MedGen: KCNC2 (Human Medical Genetics with Condition) | |
ClinVar: KCNC2 | |
Phenotype | MGI: KCNC2 (International Mouse Phenotyping Consortium) |
PhenomicDB: KCNC2 |
Mutations for KCNC2 |
* 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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- Statistics for Tissue and Mutation type | Top |
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- For Inter-chromosomal Variations |
* Inter-chromosomal variantions includes 'interchromosomal amplicon to amplicon', 'interchromosomal amplicon to non-amplified dna', 'interchromosomal insertion', 'Interchromosomal unknown type'. |
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- For Intra-chromosomal Variations |
* Intra-chromosomal variantions includes 'intrachromosomal amplicon to amplicon', 'intrachromosomal amplicon to non-amplified dna', 'intrachromosomal deletion', 'intrachromosomal fold-back inversion', 'intrachromosomal inversion', 'intrachromosomal tandem duplication', 'Intrachromosomal unknown type', 'intrachromosomal with inverted orientation', 'intrachromosomal with non-inverted orientation'. |
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Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
ovary | KCNC2 | chr12 | 75475612 | 75475632 | KCNC2 | chr12 | 75475863 | 75475883 |
ovary | KCNC2 | chr12 | 75506706 | 75506726 | LINC00535 | chr8 | 94497976 | 94497996 |
ovary | KCNC2 | chr12 | 75577387 | 75577407 | KCNC2 | chr12 | 75577442 | 75577462 |
pancreas | KCNC2 | chr12 | 75485415 | 75485435 | TTC28 | chr22 | 29065425 | 29065445 |
cf) Tissue number; Tissue name (1;Breast, 2;Central_nervous_system, 3;Haematopoietic_and_lymphoid_tissue, 4;Large_intestine, 5;Liver, 6;Lung, 7;Ovary, 8;Pancreas, 9;Prostate, 10;Skin, 11;Soft_tissue, 12;Upper_aerodigestive_tract) |
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* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows KCNC2 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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Mutation type/ Tissue ID | brca | cns | cerv | endome | haematopo | kidn | Lintest | liver | lung | ns | ovary | pancre | prost | skin | stoma | thyro | urina | |||
Total # sample | 7 | 2 |   |   |   |   |   |   | 3 |   |   |   |   |   |   | 1 | 1 | |||
GAIN (# sample) | 6 | 2 |   |   |   |   |   |   | 3 |   |   |   |   |   |   | 1 | 1 | |||
LOSS (# sample) | 1 |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |
cf) Tissue ID; Tissue type (1; Breast, 2; Central_nervous_system, 3; Cervix, 4; Endometrium, 5; Haematopoietic_and_lymphoid_tissue, 6; Kidney, 7; Large_intestine, 8; Liver, 9; Lung, 10; NS, 11; Ovary, 12; Pancreas, 13; Prostate, 14; Skin, 15; Stomach, 16; Thyroid, 17; Urinary_tract) |
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Stat. for Non-Synonymous SNVs (# total SNVs=99) | (# total SNVs=31) |
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(# total SNVs=2) | (# total SNVs=1) |
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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 |
chr12:75444552-75444552 | p.N411N | 4 |
chr12:75444659-75444659 | p.R376* | 4 |
chr12:75444468-75444468 | p.G439G | 4 |
chr12:75444475-75444475 | p.T437I | 3 |
chr12:75601185-75601185 | p.E193D | 2 |
chr12:75442064-75442064 | p.P550L | 2 |
chr12:75441962-75441962 | p.T584M | 2 |
chr12:75601430-75601430 | p.A112S | 2 |
chr12:75444418-75444418 | p.L456Q | 2 |
chr12:75442073-75442073 | p.G547E | 2 |
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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 | 1 | 3 |   | 19 | 4 |   | 7 |   | 1 | 2 |   | 21 | 7 | 2 |   | 1 | 18 | 16 |   | 11 |
# mutation | 1 | 3 |   | 18 | 4 |   | 7 |   | 1 | 2 |   | 22 | 7 | 2 |   | 1 | 19 | 15 |   | 14 |
nonsynonymous SNV | 1 | 2 |   | 14 | 3 |   | 2 |   | 1 | 1 |   | 17 | 5 | 2 |   |   | 11 | 5 |   | 9 |
synonymous SNV |   | 1 |   | 4 | 1 |   | 5 |   |   | 1 |   | 5 | 2 |   |   | 1 | 8 | 10 |   | 5 |
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 |
chr12:75444552 | p.N411N,KCNC2 | 3 |
chr12:75601539 | p.L298F,KCNC2 | 2 |
chr12:75444891 | p.T283T,KCNC2 | 2 |
chr12:75601404 | p.G439G,KCNC2 | 2 |
chr12:75444936 | p.G427R,KCNC2 | 2 |
chr12:75444468 | p.T120T,KCNC2 | 2 |
chr12:75444506 | p.G75G,KCNC2 | 2 |
chr12:75436917 | p.E163K,KCNC2 | 1 |
chr12:75444382 | p.S543F,KCNC2 | 1 |
chr12:75444827 | p.A67V,KCNC2 | 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 KCNC2 |
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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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CCDC64,DCLK1,DNAJC12,FAM134B,GPC5,GPER1,GRAMD1A, KCNC2,KDM4B,LMX1B,MADD,MS4A8,MYT1,NLRP8, SLC8A2,SPO11,SYN1,SYP,THSD4,TRIM36,ZNF587 | A1CF,ANKFN1,SMCO3,C8B,FGL1,HABP2,HNF1A, HNF4G,IGFL2,KCNC2,MIA2,MMP16,NKAIN3,PROC, SERPINA4,SH3GL3,TMED6,TMEM130,TMEM59L,TTLL6,UGT2B15 |
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ACSS3,CAMKV,GRM4,KCNC1,KCNC2,KCNH6,KLRF1, LOC254559,MARCH11,OR6F1,PCA3,PRMT8,RNF113B,RPRML, RSPO4,SCG3,SLC22A1,SLC6A15,SNAP25,TRIM63,ZNF738 | FNDC9,CALY,CEND1,CHRNA3,CTNNA2,ELAVL4,GAP43, GNG3,KCNC2,LRRC4C,MAL,MYOT,OLFM3,PAQR6, PHOX2B,RTN1,SULT4A1,SYNGR3,TMEM59L,TSPAN11,UCHL1 |
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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 KCNC2 |
There's no related Drug. |
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Cross referenced IDs for KCNC2 |
* 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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