|
Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for STX1A |
Basic gene info. | Gene symbol | STX1A |
Gene name | syntaxin 1A (brain) | |
Synonyms | HPC-1|P35-1|STX1|SYN1A | |
Cytomap | UCSC genome browser: 7q11.23 | |
Genomic location | chr7 :73113534-73134017 | |
Type of gene | protein-coding | |
RefGenes | NM_001165903.1, NM_004603.3, | |
Ensembl id | ENSG00000263024 | |
Description | neuron-specific antigen HPC-1syntaxin-1A | |
Modification date | 20141214 | |
dbXrefs | MIM : 186590 | |
HGNC : HGNC | ||
Ensembl : ENSG00000106089 | ||
HPRD : 01721 | ||
Vega : OTTHUMG00000137422 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_STX1A | |
BioGPS: 6804 | ||
Gene Expression Atlas: ENSG00000263024 | ||
The Human Protein Atlas: ENSG00000263024 | ||
Pathway | NCI Pathway Interaction Database: STX1A | |
KEGG: STX1A | ||
REACTOME: STX1A | ||
ConsensusPathDB | ||
Pathway Commons: STX1A | ||
Metabolism | MetaCyc: STX1A | |
HUMANCyc: STX1A | ||
Regulation | Ensembl's Regulation: ENSG00000263024 | |
miRBase: chr7 :73,113,534-73,134,017 | ||
TargetScan: NM_001165903 | ||
cisRED: ENSG00000263024 | ||
Context | iHOP: STX1A | |
cancer metabolism search in PubMed: STX1A | ||
UCL Cancer Institute: STX1A | ||
Assigned class in ccmGDB | C |
Top |
Phenotypic Information for STX1A(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: STX1A |
Familial Cancer Database: STX1A |
* 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 | |
REACTOME_INTEGRATION_OF_ENERGY_METABOLISM |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: STX1A |
MedGen: STX1A (Human Medical Genetics with Condition) | |
ClinVar: STX1A | |
Phenotype | MGI: STX1A (International Mouse Phenotyping Consortium) |
PhenomicDB: STX1A |
Mutations for STX1A |
* 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 STX1A 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 |
|
Top |
Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=18) | (# total SNVs=5) |
(# 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 |
chr7:73117299-73117299 | p.S185F | 2 |
chr7:73123453-73123453 | p.? | 2 |
chr7:73115084-73115084 | p.V255V | 1 |
chr7:73118581-73118581 | p.S121S | 1 |
chr7:73122972-73122972 | p.E52A | 1 |
chr7:73117195-73117195 | p.A220T | 1 |
chr7:73118587-73118587 | p.? | 1 |
chr7:73123005-73123005 | p.R41Q | 1 |
chr7:73117213-73117213 | p.D214N | 1 |
chr7:73118691-73118691 | p.R116W | 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 |   |   |   | 4 |   |   | 3 |   | 2 |   |   | 2 |   |   |   |   | 1 | 3 |   | 2 |
# mutation |   |   |   | 4 |   |   | 3 |   | 2 |   |   | 3 |   |   |   |   | 1 | 3 |   | 2 |
nonsynonymous SNV |   |   |   | 4 |   |   | 2 |   | 1 |   |   | 3 |   |   |   |   | 1 | 1 |   | 1 |
synonymous SNV |   |   |   |   |   |   | 1 |   | 1 |   |   |   |   |   |   |   |   | 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 |
chr7:73114762 | p.T71M,STX1A | 1 |
chr7:73118581 | p.N66H,STX1A | 1 |
chr7:73115164 | p.S281C | 1 |
chr7:73118706 | p.D25H,STX1A | 1 |
chr7:73117195 | p.M229L | 1 |
chr7:73118711 | p.A220T,STX1A | 1 |
chr7:73117213 | p.D214N,STX1A | 1 |
chr7:73118722 | p.H213H,STX1A | 1 |
chr7:73117214 | p.L212L,STX1A | 1 |
chr7:73119551 | p.E196D,STX1A | 1 |
Other DBs for Point Mutations |
Copy Number for STX1A 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 STX1A |
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. |
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 |
ACTL6B,AP3B2,BSN,CAMK2N2,CHRNB2,FAM57B,HCN2, KCNH6,LRRC16B,LRTM2,NRSN1,PSD,RUNDC3A,SCG3, STX1A,SYP,TMEM151A,TMEM198,UNC13A,VGF,XKR7 | ADCK4,ATAD3B,SYNE4,C9orf114,CCDC130,E4F1,FZR1, NOXA1,PDDC1,PRR22,QTRT1,RASSF7,SPIRE2,STX1A, SUV420H2,TMEM198,TSEN54,ZBTB48,ZFYVE27,ZNF446,ZNF653 | ||||
AP3B2,BSN,C1orf111,CHRNB2,CLVS1,INSM2,KRTAP27-1, MAPK8IP2,RAB3C,RGS7,RIMS2,RUNDC3A,SCN3B,SIM1, SRRM3,STX1A,TMEM198,UNC13A,UNC5A,VGF,XKR7 | BEND5,CNTN1,COPZ2,CRTAP,FAM178B,FBXO27,FGF13, IL11RA,MAGED2,NAT14,PELI3,PRDM8,RGN,RIMKLB, SLC39A13,STX1A,SYNGR1,TCEAL3,TNFSF12,TRNP1,TUBG2 |
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 |
Top |
Interacting Genes (from Pathway Commons) |
Top |
Pharmacological Information for STX1A |
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 |
DB00126 | syntaxin 1A (brain) | approved; nutraceutical | Vitamin C | ||
DB00130 | syntaxin 1A (brain) | approved; nutraceutical; investigational | L-Glutamine | ||
DB00149 | syntaxin 1A (brain) | approved; nutraceutical | L-Leucine | ||
DB00122 | syntaxin 1A (brain) | approved; nutraceutical | Choline | ||
DB00988 | syntaxin 1A (brain) | approved | Dopamine |
Top |
Cross referenced IDs for STX1A |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @ |