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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for ALLC |
Basic gene info. | Gene symbol | ALLC |
Gene name | allantoicase | |
Synonyms | ALC | |
Cytomap | UCSC genome browser: 2q35 | |
Genomic location | chr2 :3705785-3750260 | |
Type of gene | protein-coding | |
RefGenes | NM_199232.1, NM_018436.3, | |
Ensembl id | ENSG00000151360 | |
Description | allantoate amidinohydrolaseprobable allantoicase | |
Modification date | 20141207 | |
dbXrefs | MIM : 612396 | |
HGNC : HGNC | ||
Ensembl : ENSG00000151360 | ||
HPRD : 10642 | ||
Vega : OTTHUMG00000151485 | ||
Protein | UniProt: Q8N6M5 go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_ALLC | |
BioGPS: 55821 | ||
Gene Expression Atlas: ENSG00000151360 | ||
The Human Protein Atlas: ENSG00000151360 | ||
Pathway | NCI Pathway Interaction Database: ALLC | |
KEGG: ALLC | ||
REACTOME: ALLC | ||
ConsensusPathDB | ||
Pathway Commons: ALLC | ||
Metabolism | MetaCyc: ALLC | |
HUMANCyc: ALLC | ||
Regulation | Ensembl's Regulation: ENSG00000151360 | |
miRBase: chr2 :3,705,785-3,750,260 | ||
TargetScan: NM_199232 | ||
cisRED: ENSG00000151360 | ||
Context | iHOP: ALLC | |
cancer metabolism search in PubMed: ALLC | ||
UCL Cancer Institute: ALLC | ||
Assigned class in ccmGDB | B - This gene belongs to cancer gene. |
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Phenotypic Information for ALLC(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: ALLC |
Familial Cancer Database: ALLC |
* 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 | |
KEGG_PURINE_METABOLISM |
Others | |
OMIM | 612396; gene. |
Orphanet | |
Disease | KEGG Disease: ALLC |
MedGen: ALLC (Human Medical Genetics with Condition) | |
ClinVar: ALLC | |
Phenotype | MGI: ALLC (International Mouse Phenotyping Consortium) |
PhenomicDB: ALLC |
Mutations for ALLC |
* 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 ALLC 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 |
Other DBs for Structural Variants |
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Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
Mutation type/ Tissue ID | brca | cns | cerv | endome | haematopo | kidn | Lintest | liver | lung | ns | ovary | pancre | prost | skin | stoma | thyro | urina | |||
Total # sample |   | 1 |   |   | 1 |   | 1 |   |   |   |   |   |   |   |   |   |   | |||
GAIN (# sample) |   | 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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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=54) | (# total SNVs=17) |
(# total SNVs=4) | (# 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 |
chr2:3749152-3749154 | p.E301delE | 5 |
chr2:3730543-3730543 | p.D130D | 3 |
chr2:3727481-3727481 | p.R65S | 3 |
chr2:3727534-3727534 | p.T83M | 3 |
chr2:3749160-3749160 | p.E303D | 3 |
chr2:3730547-3730547 | p.W132R | 2 |
chr2:3743393-3743393 | p.A200P | 2 |
chr2:3749960-3749960 | p.P328H | 2 |
chr2:3726107-3726107 | p.W45* | 2 |
chr2:3743399-3743399 | p.A202T | 2 |
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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 | 2 | 1 |   | 7 | 4 |   | 2 | 1 | 3 |   |   | 9 | 4 | 1 |   |   | 11 | 5 |   | 5 |
# mutation | 2 | 1 |   | 7 | 4 |   | 2 | 1 | 2 |   |   | 9 | 4 | 1 |   |   | 10 | 7 |   | 6 |
nonsynonymous SNV | 1 |   |   | 5 | 4 |   | 1 | 1 | 2 |   |   | 7 | 2 | 1 |   |   | 5 | 5 |   | 5 |
synonymous SNV | 1 | 1 |   | 2 |   |   | 1 |   |   |   |   | 2 | 2 |   |   |   | 5 | 2 |   | 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 |
chr2:3727534 | p.T83M | 3 |
chr2:3743399 | p.R176Q | 2 |
chr2:3730543 | p.A202T | 2 |
chr2:3730547 | p.V77M | 2 |
chr2:3727515 | p.P322S | 2 |
chr2:3743322 | p.E41K | 2 |
chr2:3726094 | p.D130D | 2 |
chr2:3749215 | p.W132R | 2 |
chr2:3743369 | p.D249N | 1 |
chr2:3726125 | p.V63F | 1 |
Other DBs for Point Mutations |
Copy Number for ALLC 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 ALLC |
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 |
ALDH3A1,ALLC,C12orf71,CCL1,COLEC11,FOXL2,GAGE12J, GAGE13,GAGE2B,GAGE8,GPX2,IQCF2,LOC285629,LOC348840, NKX2-4,OPALIN,RBMXL2,UGT1A5,VCX,VCX3A,VCX3B | ALLC,ALPI,GPR6,IFITM4P,IQCF6,ITIH1,KCNK7, KRTAP7-1,MC2R,MS4A10,OPRD1,OR1D2,PHYHIP,PMP2, PNCK,SFRP5,SNORA2B,TBPL2,TRIM49D2,TSG1,UMOD |
ALLC,AMBP,APOA2,ATP4A,C1orf64,CHRND,DCT, F2,FAM71E2,GYPB,HHATL,HIST1H4G,IGDCC3,KLK2, LCN12,MLANA,LINC00202-1,OC90,OR6C68,PLSCR5,SNAR-F | ALLC,ALOX5,ANKRD33,LINC00301,SHCBP1L,CLPSL2,SPATA31D1, GIPC3,GLYAT,LOC100287718,MAGEB4,MMP20,NKX1-2,OR52D1, S100G,SLC8A3,SPNS3,TAAR8,TRIM74,TSGA10IP,USP17L9P |
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 ALLC |
There's no related Drug. |
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Cross referenced IDs for ALLC |
* 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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