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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for EIF2B1 |
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Phenotypic Information for EIF2B1(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: EIF2B1 |
Familial Cancer Database: EIF2B1 |
* 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 |
Others | |
OMIM | 603896; phenotype. 606686; gene. |
Orphanet | 157713; Congenital or early infantile CACH syndrome. 157716; Late infantile CACH syndrome. 157719; Juvenile or adult CACH syndrome. 99853; Ovarioleukodystrophy. 99854; Cree leukoencephalopathy. |
Disease | KEGG Disease: EIF2B1 |
MedGen: EIF2B1 (Human Medical Genetics with Condition) | |
ClinVar: EIF2B1 | |
Phenotype | MGI: EIF2B1 (International Mouse Phenotyping Consortium) |
PhenomicDB: EIF2B1 |
Mutations for EIF2B1 |
* 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 |
- Statistics for Tissue and Mutation type | Top |
- For Inter-chromosomal Variations |
There's no inter-chromosomal structural variation. |
- 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'. |
Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
ovary | EIF2B1 | chr12 | 124112624 | 124112644 | TMEM132B | chr12 | 125980405 | 125980425 |
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) |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows EIF2B1 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 |
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=17) | (# total SNVs=4) |
(# total SNVs=1) | (# 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 |
chr12:124114935-124114935 | p.? | 3 |
chr12:124106442-124106442 | p.A260V | 2 |
chr12:124111688-124111688 | p.A129T | 2 |
chr12:124109419-124109419 | p.? | 2 |
chr12:124114820-124114820 | p.C89R | 2 |
chr12:124110995-124110995 | p.T176T | 1 |
chr12:124114943-124114943 | p.? | 1 |
chr12:124106443-124106443 | p.A260S | 1 |
chr12:124111624-124111624 | p.V150A | 1 |
chr12:124114945-124114945 | p.S84F | 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 | 2 |   | 2 | 2 |   | 1 |   | 2 |   |   | 1 | 2 | 1 |   |   | 4 | 5 |   |   |
# mutation | 1 | 2 |   | 3 | 2 |   | 1 |   | 3 |   |   | 1 | 2 | 1 |   |   | 4 | 4 |   |   |
nonsynonymous SNV |   | 2 |   | 2 | 1 |   |   |   | 3 |   |   | 1 | 2 |   |   |   | 1 | 3 |   |   |
synonymous SNV | 1 |   |   | 1 | 1 |   | 1 |   |   |   |   |   |   | 1 |   |   | 3 | 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 |
chr12:124106442 | p.A260V | 2 |
chr12:124106399 | p.A260S | 1 |
chr12:124111633 | p.E40D | 1 |
chr12:124116924 | p.L238L | 1 |
chr12:124106441 | p.T29M | 1 |
chr12:124111662 | p.R237W | 1 |
chr12:124116941 | p.T29S | 1 |
chr12:124111688 | p.F233L | 1 |
chr12:124118093 | p.R28P | 1 |
chr12:124106443 | p.A181T | 1 |
Other DBs for Point Mutations |
Copy Number for EIF2B1 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 EIF2B1 |
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 |
ANAPC5,ANAPC7,MAPKAPK5-AS1,C12orf65,C12orf73,DDX55,DENR, DHX37,DIABLO,EIF2B1,MAPKAPK5,NUP37,POP5,PSMD9, PWP1,RAN,RFC5,SETD8,SRSF9,TRIAP1,VPS29 | C14orf166,BRK1,C4orf27,CDC16,CKS1B,COMMD6,COX7A2L, EIF2B1,ESD,FBXO7,FRG1,HDDC2,MFF,PARL, PFDN4,RAC1,RBM34,RFWD2,SEC22A,TMEM14C,UBE2V1 |
ANAPC5,ANAPC7,CCT2,DDX55,DENR,DIABLO,EIF2B1, MAPKAPK5,MCTS1,METTL1,NOC4L,NABP2,OGFOD2,PA2G4, PRR13,PUS1,PWP1,RBM19,SNRPF,TMEM5,ZNF26 | DCTN3,DUSP12,DYRK4,EIF2B1,ERI3,FRG1,LYRM1, LYRM4,MFF,MRPS6,NSMCE4A,POLR2G,PPP1R8,PRKAG1, PWP1,THYN1,TMEM218,VPS72,WDR70,ZNF530,ZNHIT3 |
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 EIF2B1 |
There's no related Drug. |
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Cross referenced IDs for EIF2B1 |
* 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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