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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for ALG13 |
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Phenotypic Information for ALG13(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: ALG13 |
Familial Cancer Database: ALG13 |
* 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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REACTOME_METABOLISM_OF_PROTEINS |
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OMIM | |
Orphanet | |
Disease | KEGG Disease: ALG13 |
MedGen: ALG13 (Human Medical Genetics with Condition) | |
ClinVar: ALG13 | |
Phenotype | MGI: ALG13 (International Mouse Phenotyping Consortium) |
PhenomicDB: ALG13 |
Mutations for ALG13 |
* 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 ALG13 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 |
EB387269 | ALG13 | 7 | 399 | X | 110935031 | 110935423 | GSTM2 | 391 | 414 | 1 | 110220770 | 110220793 |
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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=38) | (# total SNVs=8) |
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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 |
chr23:111000949-111000949 | p.V358A | 2 |
chr23:111000950-111000950 | p.V358V | 2 |
chr23:110996020-110996020 | p.T301A | 2 |
chr23:110996043-110996043 | p.F308F | 1 |
chr23:111003074-111003074 | p.P409P | 1 |
chr23:110970869-110970869 | p.M107I | 1 |
chr23:110979954-110979954 | p.I249V | 1 |
chr23:111000835-111000835 | p.W320L | 1 |
chr23:111003080-111003080 | p.V411V | 1 |
chr23:110970887-110970887 | p.E113D | 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 | 1 | 5 |   | 21 | 1 |   | 4 |   | 4 |   | 1 | 13 | 8 |   |   |   | 8 | 3 | 2 | 29 |
# mutation | 1 | 5 |   | 20 | 1 |   | 4 |   | 4 |   | 1 | 13 | 8 |   |   |   | 8 | 3 | 2 | 27 |
nonsynonymous SNV | 1 | 5 |   | 11 |   |   | 2 |   | 4 |   | 1 | 12 | 8 |   |   |   | 6 | 3 | 1 | 20 |
synonymous SNV |   |   |   | 9 | 1 |   | 2 |   |   |   |   | 1 |   |   |   |   | 2 |   | 1 | 7 |
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 |
chrX:110987996 | p.P932P,ALG13 | 11 |
chrX:110988002 | p.P934P,ALG13 | 4 |
chrX:110987993 | p.P931P,ALG13 | 3 |
chrX:110951444 | p.T796A,ALG13 | 2 |
chrX:111000949 | p.A191A,ALG13 | 2 |
chrX:110996020 | p.V853E,ALG13 | 2 |
chrX:110952273 | p.C968Y,ALG13 | 1 |
chrX:110970894 | p.L16L,ALG13 | 1 |
chrX:111003141 | p.D161G,ALG13 | 1 |
chrX:110964891 | p.G331G,ALG13 | 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 ALG13 |
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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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ALG13,ANKRA2,ARMCX5,C16orf52,CHIC1,CLK4,DMTF1, FAM122B,KLHDC1,JPX,NKTR,GSAP,POLI,PRPF39, SREK1,TTC14,TTC8,XIST,ZMAT1,ZNF75D,ZNF83 | ALG13,ANGEL2,PCNXL4,FAM122B,G2E3,HECTD2,CEP44, PPIP5K2,RALGAPA1,SENP6,SENP7,SRSF10,TMEM168,TRIM33, UBA6,UBXN4,ZDHHC21,ZMYM6,ZNF655,ZNF800,ZRANB2 |
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ALG13,C1GALT1C1,FAM104B,MCTS1,MORF4L2,MSL3,CMC4, JPX,NKRF,NXT2,PDZD11,PGRMC1,PSMD10,RAP2C, RBMX2,RNF113A,SLC25A14,UBE2A,VBP1,VMA21,ZNF75D | ALG13,ANKRD49,ATG5,C1orf52,TRAPPC13,CCNC,CD58, CNIH1,COMMD8,LACTB2,LYPLA1,MDP1,MRPL32,MYNN, ORC4,PEX2,RPAIN,SELT,TM2D1,TMEM126B,TMEM14B |
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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 ALG13 |
There's no related Drug. |
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Cross referenced IDs for ALG13 |
* 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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