|
Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for PIGC |
Basic gene info. | Gene symbol | PIGC |
Gene name | phosphatidylinositol glycan anchor biosynthesis, class C | |
Synonyms | GPI2 | |
Cytomap | UCSC genome browser: 1q23-q25 | |
Genomic location | chr1 :172410596-172413230 | |
Type of gene | protein-coding | |
RefGenes | NM_002642.3, NM_153747.1, | |
Ensembl id | ENSG00000135845 | |
Description | PIG-Cphosphatidylinositol N-acetylglucosaminyltransferase subunit Cphosphatidylinositol-glycan biosynthesis class C proteinphosphatidylinositol-glycan biosynthesis, class C protein | |
Modification date | 20141207 | |
dbXrefs | MIM : 601730 | |
HGNC : HGNC | ||
Ensembl : ENSG00000135845 | ||
HPRD : 03433 | ||
Vega : OTTHUMG00000034751 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_PIGC | |
BioGPS: 5279 | ||
Gene Expression Atlas: ENSG00000135845 | ||
The Human Protein Atlas: ENSG00000135845 | ||
Pathway | NCI Pathway Interaction Database: PIGC | |
KEGG: PIGC | ||
REACTOME: PIGC | ||
ConsensusPathDB | ||
Pathway Commons: PIGC | ||
Metabolism | MetaCyc: PIGC | |
HUMANCyc: PIGC | ||
Regulation | Ensembl's Regulation: ENSG00000135845 | |
miRBase: chr1 :172,410,596-172,413,230 | ||
TargetScan: NM_002642 | ||
cisRED: ENSG00000135845 | ||
Context | iHOP: PIGC | |
cancer metabolism search in PubMed: PIGC | ||
UCL Cancer Institute: PIGC | ||
Assigned class in ccmGDB | C |
Top |
Phenotypic Information for PIGC(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: PIGC |
Familial Cancer Database: PIGC |
* 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/ |
Metabolic Pathway Description | |
REACTOME_METABOLISM_OF_PROTEINS |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: PIGC |
MedGen: PIGC (Human Medical Genetics with Condition) | |
ClinVar: PIGC | |
Phenotype | MGI: PIGC (International Mouse Phenotyping Consortium) |
PhenomicDB: PIGC |
Mutations for PIGC |
* 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 PIGC 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 |
AW581578 | PIGC | 9 | 124 | 1 | 172410948 | 172411063 | MTHFD1 | 107 | 304 | 14 | 64924985 | 64926633 | |
BI043619 | GGT7 | 27 | 285 | 20 | 33444053 | 33444310 | PIGC | 278 | 394 | 1 | 172411581 | 172411697 |
Other DBs for Structural Variants |
Top |
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 |   |   |   |   |   |   | |||
GAIN (# sample) |   |   |   |   |   |   |   |   |   |   | 1 |   |   |   |   |   |   | |||
LOSS (# sample) |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |
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) |
Top |
SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
|
Top |
Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=20) | (# total SNVs=5) |
(# total SNVs=1) | (# total SNVs=1) |
Top |
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 |
chr1:172410967-172410967 | p.P266S | 3 |
chr1:172411690-172411690 | p.P25S | 3 |
chr1:172411689-172411689 | p.P25H | 2 |
chr1:172411114-172411114 | p.Q217* | 2 |
chr1:172410951-172410951 | p.R271H | 2 |
chr1:172411180-172411180 | p.R195W | 1 |
chr1:172410971-172410987 | p.S262fs*9 | 1 |
chr1:172411186-172411186 | p.L193F | 1 |
chr1:172411009-172411009 | p.V252L | 1 |
chr1:172411227-172411227 | p.L179S | 1 |
Top |
SNV Counts per Each Loci in TCGA data |
|
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 |   |   | 3 |   |   | 2 |   | 1 |   |   | 2 |   |   |   |   | 3 | 4 |   | 2 |
# mutation | 2 |   |   | 2 |   |   | 2 |   | 1 |   |   | 2 |   |   |   |   | 3 | 4 |   | 2 |
nonsynonymous SNV | 1 |   |   | 1 |   |   | 1 |   | 1 |   |   | 1 |   |   |   |   | 3 | 2 |   | 2 |
synonymous SNV | 1 |   |   | 1 |   |   | 1 |   |   |   |   | 1 |   |   |   |   |   | 2 |   |   |
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]) |
Top |
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 |
chr1:172411689 | p.P25H,PIGC | 2 |
chr1:172411136 | p.L179S,PIGC | 1 |
chr1:172411146 | p.S143S,PIGC | 1 |
chr1:172411759 | p.A123V,PIGC | 1 |
chr1:172411180 | p.W72R,PIGC | 1 |
chr1:172411186 | p.Q60E,PIGC | 1 |
chr1:172411227 | p.E54K,PIGC | 1 |
chr1:172410895 | p.E290K,PIGC | 1 |
chr1:172411334 | p.R32Q,PIGC | 1 |
chr1:172410941 | p.L274L,PIGC | 1 |
Other DBs for Point Mutations |
Copy Number for PIGC 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] |
Top |
Gene Expression for PIGC |
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)) |
Top |
CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
Top |
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 |
ACBD6,METTL18,CACYBP,HAX1,KRTCAP2,MRPS14,PIGC, POGK,PRCC,PRDX6,RFWD2,SF3B4,SNAPIN,SSR2, STX6,TADA1,TIPRL,TMCO1,TSEN15,UBE2Q1,UFC1 | BTF3,METTL23,YAE1D1,CFAP36,COPZ1,DGUOK,EIF3M, HMGN2,CERS5,PIGC,RBM22,RPL15,RPL22,RPL34, RPL35A,RPS27A,RPS3A,RPS4X,SF3B14,SLC35D2,SSR2 |
METTL18,C1orf43,COX20,GGPS1,GORAB,H3F3A,HAX1, LYPLAL1,MRPS14,PIGC,RABIF,RBM34,RFWD2,SCNM1, SMYD2,SNAPIN,SRP9,TADA1,TSNAX,UFC1,VPS72 | KANSL2,COA5,TIMMDC1,CGRRF1,CRIPT,DNAJC19,DPY30, FIS1,GABARAPL2,GOLGA7,MRPL43,NSMCE2,OST4,PEX2, PFDN5,PIGC,RPL41,SCNM1,SUPT4H1,TM2D1,TMEM14C |
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 |
Top |
Interacting Genes (from Pathway Commons) |
Top |
Pharmacological Information for PIGC |
There's no related Drug. |
Top |
Cross referenced IDs for PIGC |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @ |