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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for TIMM9 |
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Phenotypic Information for TIMM9(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: TIMM9 |
Familial Cancer Database: TIMM9 |
* 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/ |
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REACTOME_METABOLISM_OF_PROTEINS |
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OMIM | |
Orphanet | |
Disease | KEGG Disease: TIMM9 |
MedGen: TIMM9 (Human Medical Genetics with Condition) | |
ClinVar: TIMM9 | |
Phenotype | MGI: TIMM9 (International Mouse Phenotyping Consortium) |
PhenomicDB: TIMM9 |
Mutations for TIMM9 |
* 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 | TIMM9 | chr14 | 58888196 | 58888216 | TIMM9 | chr14 | 58888265 | 58888285 |
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 TIMM9 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 |
BM722144 | CADM1 | 11 | 502 | 11 | 115302959 | 115303450 | TIMM9 | 503 | 543 | 14 | 58889951 | 58889991 |
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There's no copy number variation information in COSMIC data for this gene. |
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Stat. for Non-Synonymous SNVs (# total SNVs=7) | (# total SNVs=0) |
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(# total SNVs=0) | (# 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 |
chr14:58878625-58878625 | p.Q13Q | 2 |
chr14:58877620-58877620 | p.E26K | 1 |
chr14:58877625-58877625 | p.L24H | 1 |
chr14:58877637-58877637 | p.T20I | 1 |
chr14:58878635-58878635 | p.Q10R | 1 |
chr14:58875786-58875786 | p.A79E | 1 |
chr14:58878647-58878647 | p.P6Q | 1 |
chr14:58875825-58875825 | p.R66T | 1 |
chr14:58875845-58875845 | p.M59I | 1 |
chr14:58875846-58875846 | p.M59T | 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 |   |   |   | 1 |   |   | 1 |   | 2 |   |   |   |   | 1 |   |   | 1 | 1 |   |   |
# mutation |   |   |   | 1 |   |   | 1 |   | 2 |   |   |   |   | 1 |   |   | 1 | 1 |   |   |
nonsynonymous SNV |   |   |   | 1 |   |   | 1 |   | 2 |   |   |   |   | 1 |   |   | 1 |   |   |   |
synonymous SNV |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   | 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 |
chr14:58878647 | p.R66T | 1 |
chr14:58875825 | p.S49L | 1 |
chr14:58875876 | p.T47T | 1 |
chr14:58875881 | p.E45G | 1 |
chr14:58877562 | p.E26K | 1 |
chr14:58877620 | p.G19W | 1 |
chr14:58877641 | p.P6Q | 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 TIMM9 |
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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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ACTR10,APOPT1,SLIRP,C14orf166,C14orf2,CINP,COX16, COX7C,ERH,FKBP3,GLRX5,MNAT1,NDUFB1,NEDD8, PSMA3,PSMC1,RPL36AL,RPS13,RPS29,TIMM9,TRMT5 | BTF3,C18orf21,EIF2S3,EIF3E,EIF3M,PCBP2,PFDN4, POLR1D,RPL15,RPL22,RPL30,RPL32,RPL34,RPL35A, RPS13,RPS15A,RPS24,RPS29,RPS7,RSL24D1,TIMM9 |
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APEX1,ATP5S,DTD2,APOPT1,SLIRP,C14orf166,C14orf2, CCNB1IP1,CINP,COX16,ERH,FKBP3,HNRNPC,ISCA2, NEDD8,NGDN,PSMB5,PSMC6,RPS29,TIMM9,TRMT5 | ADSL,ASNSD1,BOD1,C11orf57,C12orf29,COMMD10,DNAJC19, DPH5,EEF1A1P9,HSCB,LYRM1,NMD3,RPL15,RPL24, RPL5,RPS3A,RPS8,RSL24D1,TIMM9,TMEM218,ZFAND1 |
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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 TIMM9 |
There's no related Drug. |
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Cross referenced IDs for TIMM9 |
* 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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