|
||||||||||||||||||||
| |
| Phenotypic Information (metabolism pathway, cancer, disease, phenome) |
| |
| |
| Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG |
| |
|
| Gene Summary for ASMT |
| Top |
| Phenotypic Information for ASMT(metabolism pathway, cancer, disease, phenome) |
 Cancer Description | |
| Cancer | CGAP: ASMT |
| Familial Cancer Database: ASMT | |
| * 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 | |
| KEGG_TRYPTOPHAN_METABOLISM | |
| Others | |
| OMIM | |
| Orphanet | |
| Disease | KEGG Disease: ASMT |
| MedGen: ASMT (Human Medical Genetics with Condition) | |
| ClinVar: ASMT | |
| Phenotype | MGI: ASMT (International Mouse Phenotyping Consortium) |
| PhenomicDB: ASMT | |
| Mutations for ASMT |
| * 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 ASMT 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 |
| Top |
| Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
| There's no copy number variation information in COSMIC data for this gene. |
| Top |
| SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
|
: Non-synonymous mutation, 
: Synonymous mutation, Circle size denotes number of samples. |
| Top |
| Somatic Mutation Counts per Tissue in COSMIC data |
| Stat. for Non-Synonymous SNVs (# total SNVs=23) | (# total SNVs=13) |
 |  |
(# total SNVs=0) | (# total SNVs=0) |
| 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 |
| chr23:1743296-1743296 | p.? | 2 |
| chr23:1755404-1755404 | p.D287D | 2 |
| chr23:1755428-1755428 | p.E295E | 2 |
| chr23:1748789-1748789 | p.T173T | 2 |
| chr23:1743171-1743171 | p.R85Q | 2 |
| chr23:1761789-1761789 | p.T335M | 2 |
| chr23:1761817-1761817 | p.H344Q | 1 |
| chr23:1748721-1748721 | p.G151C | 1 |
| chr23:1734120-1734120 | p.R10C | 1 |
| chr23:1742160-1742160 | p.I66I | 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 | 1 | 2 | 4 | 1 | 7 | 1 | 1 | 1 | 11 | 3 | 6 | ||||||||
| # mutation | 2 | 1 | 2 | 4 | 1 | 8 | 1 | 1 | 1 | 11 | 3 | 6 | ||||||||
| nonsynonymous SNV | 1 | 1 | 1 | 2 | 4 | 1 | 1 | 5 | 1 | 5 | ||||||||||
| synonymous SNV | 1 | 1 | 2 | 1 | 4 | 1 | 6 | 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]) |
| 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 |
| chrX:1748789 | p.T173T,ASMT | 2 |
| chrX:1755428 | p.E220D,ASMT | 2 |
| chrX:1748728 | p.G42R,ASMT | 1 |
| chrX:1755449 | p.G136G,ASMT | 1 |
| chrX:1742071 | p.L239P,ASMT | 1 |
| chrX:1743228 | p.G59R,ASMT | 1 |
| chrX:1748783 | p.V137I,ASMT | 1 |
| chrX:1761726 | p.L254L,ASMT | 1 |
| chrX:1742086 | p.L62L,ASMT | 1 |
| chrX:1743279 | p.P138P,ASMT | 1 |
| Other DBs for Point Mutations |
| Copy Number for ASMT 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 ASMT |
| 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. |
: Open all plots for all cancer types
 |
|
 |
|
| 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 |
: Open all plots for all cancer types
 |
| ||||
| ASMT,VWA9,BRICD5,CTBP1,DMAP1,DNASE1L2,DNMT3L, FLT3,HEXDC,LOC390595,NTN5,OAZ2,PCSK6,PLK5, RAB11A,SCNN1D,SH3GLB2,SPSB3,WASH7P,WDR72,ZSCAN1 | AFG3L1P,ASMT,DDX39B,CATSPER2,CDK5RAP3,CHST5,DNM1P35, DOC2A,LEAP2,NLRP9,ORAOV1,PBX4,POLR2J4,RAD9A, AGER___LINC00914___MOK,RCE1,SLC25A29,SLC7A9,SMPD4,TBC1D3C,ZMIZ2 | ||||
 |
| ||||
| ACSBG2,ASMT,HEXA-AS1,CLPSL1,CYP2A6,DMRTC1,FAM120C, FAM66C,FLJ36777,GCM1,GOLGA6L6,GOT1L1,KCNK18,LOC401588, LOC645752,LOC648691,PDYN,RGN,RSPH6A,UPB1,UPRT | AIM2,ASMT,BTK,IZUMO4,CD1C,DMRT1,GRAP, HLA-DOB,TESPA1,LAT2,LIMD2,LTF,MBD4,RAB33A, RASGRF1,SH2D1A,SIT1,TLR10,TMEM154,TMEM163,U2AF1L4 |
| 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 |
: Open all plots for all cancer types
| Top |
| Interacting Genes (from Pathway Commons) |
: Open all interacting genes' information including KEGG pathway for all interacting genes from DAVID
| Top |
| Pharmacological Information for ASMT |
| 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 |
| DB01065 | acetylserotonin O-methyltransferase | approved; nutraceutical | Melatonin |  |  |
| DB01356 | acetylserotonin O-methyltransferase | approved | Lithium |  |  |
| Top |
| Cross referenced IDs for ASMT |
| * We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
: Open all cross reference information
|
Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @ |