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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for FAM153A |
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Phenotypic Information for FAM153A(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: FAM153A |
Familial Cancer Database: FAM153A |
* 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/ |
Metabolic Pathway Description | |
REACTOME_METABOLISM_OF_PROTEINS REACTOME_METABOLISM_OF_MRNA REACTOME_METABOLISM_OF_RNA |
Mutations for FAM153A |
* 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. |
Structural Variants in COSMIC: go to COSMIC mutation histogram |
There's no structural variation information in COSMIC data for this gene. |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows FAM153A 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 |
AW388086 | CTTN | 16 | 211 | 11 | 70274881 | 70275080 | FAM153A | 211 | 593 | 5 | 177138855 | 177139237 |
Other DBs for Structural Variants |
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Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
There's no copy number variation information in COSMIC data for this gene. |
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SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
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Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=12) | (# total SNVs=3) |
(# total SNVs=0) | (# total SNVs=0) |
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Top 10 SNVs Having the Most Samples in COSMIC data |
* 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 |
chr5:177161374-177161374 | p.? | 5 |
chr5:177163580-177163580 | p.F145L | 5 |
chr5:177161891-177161891 | p.G159G | 3 |
chr5:177163583-177163583 | p.E144K | 3 |
chr5:177164044-177164044 | p.T134M | 2 |
chr5:177159036-177159036 | p.H199Y | 2 |
chr5:177164037-177164047 | p.? | 1 |
chr5:177159075-177159075 | p.V186L | 1 |
chr5:177166114-177166114 | p.G111S | 1 |
chr5:177166115-177166115 | p.N110N | 1 |
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SNV Counts per Each Loci in TCGA data |
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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 |   |   |   |   | 2 |   |   | 2 | 1 |   |   | 1 | 1 |   | 1 | 1 |
# mutation |   | 1 |   | 3 |   |   |   |   | 2 |   |   | 2 | 1 |   |   | 1 | 1 |   | 1 | 1 |
nonsynonymous SNV |   | 1 |   | 3 |   |   |   |   | 1 |   |   | 2 | 1 |   |   | 1 | 1 |   | 1 | 1 |
synonymous SNV |   |   |   |   |   |   |   |   | 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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Top 10 SNVs Having the Most Samples in TCGA data |
* 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 |
chr5:177163583 | p.E144K | 2 |
chr5:177161894 | p.N158K | 1 |
chr5:177161904 | p.S155Y | 1 |
chr5:177161911 | p.E153K | 1 |
chr5:177163598 | p.P139T | 1 |
chr5:177164044 | p.T134M | 1 |
chr5:177171896 | p.A34V | 1 |
chr5:177156496 | p.R14W | 1 |
chr5:177171957 | p.G231E | 1 |
chr5:177158587 | p.P205Q | 1 |
Other DBs for Point Mutations |
Copy Number for FAM153A in TCGA |
* 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. |
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 FAM153A |
Gene Expression in Cancer Cell-lines (CCLE) |
* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
Differential Gene Expression in Primary Tumors (TCGA) |
* 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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CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
Co-Expressed gene's network Plot |
* 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 |
ANKRD26P1,ATP2B3,C2orf83,CKMT2,CXADRP2,FAM153A,FAM153B, FCER2,FCRL1,FCRL2,H2AFB1,H2BFWT,LCN15,LCN8, MAG,PCDH11X,PCDH11Y,SSX4,SSX6,TCL1A,TREX2 | ACSM3,ADD3,AMELX,C17orf102,LINC00261,C6orf58,CHST1, CLDN14,FAM153A,FAM153B,HIF1A,OR2H1,OR2J3,SLC5A11, SLCO1B1,STARD4,SV2C,SYCP1,TMEM132E,TRPC7,ZAR1L |
CCDC154,CDK3,ESX1,FAM153A,FAM153B,FAM153C,GCGR, GIPR,HOXA2,HSP90AB4P,KRT72,LOC146880,MAGEB4,MAPK7, NXNL2,OR10T2,PDZD3,PLIN5,RNF112,SNORA11E,TXK | C10orf120,LINC00469,CELA2B,CGB2,CGB5,COCH,COX7B2, CYP26C1,FAM153A,FAM153B,GJA10,MC2R,OPN1LW,PROP1, PROS1,SLC26A5,SNORA38B,TAS2R8,UCP3,WFDC6,ZNF334 |
Co-Expressed gene's Protein-protein interaction Network Plot |
* 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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Interacting Genes (from Pathway Commons) |
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Pharmacological Information for FAM153A |
There's no related Drug. |
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Cross referenced IDs for FAM153A |
* 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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