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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for GLB1 |
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Phenotypic Information for GLB1(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: GLB1 |
Familial Cancer Database: GLB1 |
* 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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KEGG_GALACTOSE_METABOLISM KEGG_SPHINGOLIPID_METABOLISM REACTOME_GLYCOSPHINGOLIPID_METABOLISM REACTOME_PHOSPHOLIPID_METABOLISM REACTOME_SPHINGOLIPID_METABOLISM REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS REACTOME_METABOLISM_OF_CARBOHYDRATES |
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OMIM | |
Orphanet | |
Disease | KEGG Disease: GLB1 |
MedGen: GLB1 (Human Medical Genetics with Condition) | |
ClinVar: GLB1 | |
Phenotype | MGI: GLB1 (International Mouse Phenotyping Consortium) |
PhenomicDB: GLB1 |
Mutations for GLB1 |
* 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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- Statistics for Tissue and Mutation type | Top |
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- 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'. |
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Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
ovary | GLB1 | chr3 | 33119150 | 33119170 | GLB1 | chr3 | 33119907 | 33119927 |
ovary | GLB1 | chr3 | 33119150 | 33119170 | GLB1 | chr3 | 33119911 | 33119931 |
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) |
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* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows GLB1 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 |
DA524376 | RPL28 | 1 | 366 | 19 | 55897300 | 55899416 | GLB1 | 366 | 510 | 3 | 33114063 | 33114206 | |
BF931760 | DST | 18 | 240 | 6 | 56323843 | 56324065 | GLB1 | 232 | 358 | 3 | 33093401 | 33095013 | |
XX000016 | GLB1 | 1 | 91 | 3 | 33055546 | 33055636 | CMTM7 | 88 | 209 | 3 | 32483330 | 32483451 | |
AU125113 | RBPJ | 38 | 278 | 4 | 26435119 | 26435359 | GLB1 | 278 | 794 | 3 | 33065743 | 33138610 |
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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) |
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Stat. for Non-Synonymous SNVs (# total SNVs=41) | (# total SNVs=12) |
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(# total SNVs=1) | (# 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 |
chr3:33138544-33138544 | p.L12L | 4 |
chr3:33114174-33114174 | p.Y36C | 3 |
chr3:33038745-33038745 | p.M609T | 2 |
chr3:33099680-33099680 | p.G212R | 2 |
chr3:33038747-33038747 | p.L608L | 2 |
chr3:33055752-33055752 | p.T510T | 2 |
chr3:33093386-33093386 | p.A301A | 2 |
chr3:33093430-33093430 | p.E287K | 2 |
chr3:33038660-33038660 | p.T637T | 2 |
chr3:33058209-33058209 | p.D491N | 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 | 3 | 2 |   | 11 |   |   | 3 |   | 4 |   |   |   | 1 | 1 |   |   | 8 | 6 |   | 7 |
# mutation | 3 | 2 |   | 10 |   |   | 3 |   | 4 |   |   |   | 1 | 1 |   |   | 9 | 6 |   | 7 |
nonsynonymous SNV | 2 | 2 |   | 8 |   |   | 2 |   | 4 |   |   |   |   | 1 |   |   | 6 | 4 |   | 6 |
synonymous SNV | 1 |   |   | 2 |   |   | 1 |   |   |   |   |   | 1 |   |   |   | 3 | 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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* 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 |
chr3:33038745 | p.M478T,GLB1 | 2 |
chr3:33093395 | p.W451C,GLB1 | 1 |
chr3:33038793 | p.F183F,GLB1 | 1 |
chr3:33110382 | p.E90E,GLB1 | 1 |
chr3:33058289 | p.N424D,GLB1 | 1 |
chr3:33093430 | p.F183V,GLB1 | 1 |
chr3:33038803 | p.A79T,GLB1 | 1 |
chr3:33110391 | p.C390Y,GLB1 | 1 |
chr3:33058329 | p.A167A,GLB1 | 1 |
chr3:33099607 | p.R59S,GLB1 | 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 GLB1 |
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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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ANO10,CNOT10,CRTAP,CTSA,GGCX,GLB1,HEXB, LAMP2,LGMN,MYD88,NGLY1,NOMO1,OXNAD1,OXSM, PDCD6IP,PLBD2,PSAP,SLC31A1,STT3B,TMPPE,ZDHHC3 | ACP2,ATG7,C1orf85,CYB561D2,GALNS,GBA,GLB1, GPR137B,GRN,HEXA,HM13,MYD88,NAGA,PDIA3P1, PI4K2A,PIGT,RPN2,SUSD1,TBXAS1,TMEM206,TTYH3 |
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ARSE,TCAIM,CAPN7,CASP6,CAT,CMC1,CMTM8, CRBN,GLB1,GPD1L,HSD17B4,NAALADL2,OGG1,PPARG, PRSS23,RPP14,SACM1L,SETMAR,SLC35F5,STT3B,TMED5 | CCNI2,CPT2,DCAF12,EIF2AK1,FUCA1,GLB1,GOLPH3L, IDH1,IL20RA,LDLRAP1,LIMK2,MFSD1,MTIF2,NGLY1, NIPAL1,NUDT16P1,SIAE,TBC1D14,TMEM87A,VAV3,WIPI1 |
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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 GLB1 |
There's no related Drug. |
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Cross referenced IDs for GLB1 |
* 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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