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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for TUBB2B |
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Phenotypic Information for TUBB2B(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: TUBB2B |
Familial Cancer Database: TUBB2B |
* 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 | |
Orphanet | |
Disease | KEGG Disease: TUBB2B |
MedGen: TUBB2B (Human Medical Genetics with Condition) | |
ClinVar: TUBB2B | |
Phenotype | MGI: TUBB2B (International Mouse Phenotyping Consortium) |
PhenomicDB: TUBB2B |
Mutations for TUBB2B |
* 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 TUBB2B 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 |
AW498865 | NACA | 1 | 60 | 12 | 57112658 | 57112717 | TUBB2B | 61 | 352 | 6 | 3225938 | 3226861 | |
DA506064 | TUBB2B | 1 | 484 | 6 | 3225949 | 3227887 | DYRK2 | 484 | 572 | 12 | 68052307 | 68052395 |
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=16) | (# total SNVs=9) |
(# 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 |
chr6:3226446-3226446 | p.S75L | 3 |
chr6:3225015-3225015 | p.F436F | 3 |
chr6:3225000-3225000 | p.G441G | 2 |
chr6:3226486-3226486 | p.R62R | 2 |
chr6:3224993-3224993 | p.E444K | 1 |
chr6:3225694-3225694 | p.I210S | 1 |
chr6:3226475-3226475 | p.L65L | 1 |
chr6:3225711-3225711 | p.N204N | 1 |
chr6:3225005-3225005 | p.E440K | 1 |
chr6:3225760-3225760 | p.S188L | 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 |   | 8 |   |   |   |   | 2 |   |   | 2 |   |   |   | 1 |   | 3 | 1 | 5 |
# mutation |   | 1 |   | 6 |   |   |   |   | 2 |   |   | 2 |   |   |   | 1 |   | 3 | 1 | 5 |
nonsynonymous SNV |   | 1 |   | 3 |   |   |   |   | 2 |   |   | 2 |   |   |   | 1 |   | 1 | 1 | 2 |
synonymous SNV |   |   |   | 3 |   |   |   |   |   |   |   |   |   |   |   |   |   | 2 |   | 3 |
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 |
chr6:3225015 | p.F436F | 3 |
chr6:3225000 | p.G441G | 2 |
chr6:3226446 | p.S168N | 2 |
chr6:3225820 | p.S75L | 2 |
chr6:3225005 | p.N14S | 1 |
chr6:3226475 | p.C12G | 1 |
chr6:3226486 | p.E440K | 1 |
chr6:3225019 | p.E435G | 1 |
chr6:3226489 | p.T409T | 1 |
chr6:3225096 | p.S188L | 1 |
Other DBs for Point Mutations |
Copy Number for TUBB2B 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 TUBB2B |
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 |
ATE1,COLCA2,LINC01551,KHDC3L,CCKBR,DCAF8L1,HSPB2, MAMLD1,NPM3,NSMCE4A,PCBP4,PGPEP1L,PRDM9,RSPO4, TRIM51,TBC1D21,TUBB2A,TUBB2B,UNC93A,ZCCHC18,ZNF232 | ACTG2,CA11,CADM4,CNN1,CSRP1,FBXO2,IGFBP2, IL34,KRT14,KRT17,KRT5,PDLIM4,PLEKHA4,RAB34, SFN,TAGLN,TCEAL3,TGFB1I1,TUBB2B,VASP,ZYX | ||||
ASTN1,ATCAY,BSX,CLVS2,CNIH2,FERD3L,JPH4, KCNN1,LRRC4B,RGAG4,SLC17A7,SLC7A14,SYT4,SYT5, TAGLN3,TECRL,TMEM59L,TUBB2B,VWA5B2,ZCCHC12,ZDHHC22 | ACTA2,ACTG2,AOC3,CNN1,COL22A1,DACT3,DGKG, RBFOX3,ILDR2,KIF26B,MAPT,NPTXR,PCP4L1,PCYT1B, PDLIM7,PYGM,REEP2,TAGLN,TUBA1A,TUBB2B,ZFHX4 |
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 TUBB2B |
Cross-referenced pharmacological DB IDs from Uniprot |
DB Category | DB Name | DB's ID and Url link |
Drug-Gene Interaction Network |
* Gene Centered Interaction Network. |
* Drug Centered Interaction Network. |
DrugBank ID | Target Name | Drug Groups | Generic Name | Drug Centered Network | Drug Structure |
DB07574 | tubulin, beta 2B class IIb | experimental | 2-MERCAPTO-N-[1,2,3,10-TETRAMETHOXY-9-OXO-5,6,7,9-TETRAHYDRO-BENZO[A]HEPTALEN-7-YL]ACETAMIDE |
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Cross referenced IDs for TUBB2B |
* 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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