|
Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for NEU3 |
Basic gene info. | Gene symbol | NEU3 |
Gene name | sialidase 3 (membrane sialidase) | |
Synonyms | SIAL3 | |
Cytomap | UCSC genome browser: 11q13.5 | |
Genomic location | chr11 :74699949-74718743 | |
Type of gene | protein-coding | |
RefGenes | NM_006656.5, | |
Ensembl id | ENSG00000162139 | |
Description | N-acetyl-alpha-neuraminidase 3ganglioside sialidasemembrane sialidaseneuraminidase 3sialidase-3 | |
Modification date | 20141207 | |
dbXrefs | MIM : 604617 | |
HGNC : HGNC | ||
HPRD : 05215 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_NEU3 | |
BioGPS: 10825 | ||
Gene Expression Atlas: ENSG00000162139 | ||
The Human Protein Atlas: ENSG00000162139 | ||
Pathway | NCI Pathway Interaction Database: NEU3 | |
KEGG: NEU3 | ||
REACTOME: NEU3 | ||
ConsensusPathDB | ||
Pathway Commons: NEU3 | ||
Metabolism | MetaCyc: NEU3 | |
HUMANCyc: NEU3 | ||
Regulation | Ensembl's Regulation: ENSG00000162139 | |
miRBase: chr11 :74,699,949-74,718,743 | ||
TargetScan: NM_006656 | ||
cisRED: ENSG00000162139 | ||
Context | iHOP: NEU3 | |
cancer metabolism search in PubMed: NEU3 | ||
UCL Cancer Institute: NEU3 | ||
Assigned class in ccmGDB | C |
Top |
Phenotypic Information for NEU3(metabolism pathway, cancer, disease, phenome) |
![]() | |
Cancer | CGAP: NEU3 |
Familial Cancer Database: NEU3 |
* 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/ |
![]() | |
KEGG_SPHINGOLIPID_METABOLISM REACTOME_GLYCOSPHINGOLIPID_METABOLISM REACTOME_PHOSPHOLIPID_METABOLISM REACTOME_SPHINGOLIPID_METABOLISM REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS |
![]() | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: NEU3 |
MedGen: NEU3 (Human Medical Genetics with Condition) | |
ClinVar: NEU3 | |
Phenotype | MGI: NEU3 (International Mouse Phenotyping Consortium) |
PhenomicDB: NEU3 |
Mutations for NEU3 |
* 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. |
![]() |
- Statistics for Tissue and Mutation type | Top |
![]() |
- 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'. |
![]() |
Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
ovary | NEU3 | chr11 | 74704795 | 74704815 | chr11 | 74748078 | 74748098 | |
ovary | NEU3 | chr11 | 74716243 | 74716263 | chr11 | 74731682 | 74731702 | |
upper_aerodigestive_tract | NEU3 | chr11 | 74718491 | 74718491 | chr11 | 79863723 | 79863723 |
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) |
![]() |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows NEU3 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 |
![]() |
Top |
![]() |
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) |
Top |
![]() |
|
![]() |
Top |
![]() |
Stat. for Non-Synonymous SNVs (# total SNVs=25) | (# total SNVs=11) |
![]() | ![]() |
(# total SNVs=0) | (# total SNVs=0) |
Top |
![]() |
* 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 |
chr11:74717303-74717303 | p.P384P | 2 |
chr11:74717417-74717417 | p.G422G | 2 |
chr11:74716624-74716624 | p.R158H | 2 |
chr11:74716515-74716515 | p.P122S | 2 |
chr11:74717222-74717222 | p.P357P | 1 |
chr11:74700122-74700122 | p.L6R | 1 |
chr11:74716538-74716538 | p.K129K | 1 |
chr11:74717517-74717517 | p.S456G | 1 |
chr11:74716749-74716749 | p.I200V | 1 |
chr11:74705593-74705593 | p.P45L | 1 |
Top |
![]() |
|
![]() |
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 |   |   |   |   | 2 |   |   | 6 | 1 | 2 |   |   | 5 | 5 |   | 4 |
# mutation |   |   |   | 2 |   |   |   |   | 2 |   |   | 7 | 1 | 2 |   |   | 6 | 4 |   | 6 |
nonsynonymous SNV |   |   |   | 2 |   |   |   |   | 1 |   |   | 4 | 1 | 1 |   |   | 3 | 4 |   | 3 |
synonymous SNV |   |   |   |   |   |   |   |   | 1 |   |   | 3 |   | 1 |   |   | 3 |   |   | 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]) |
Top |
![]() |
* 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 |
chr11:74716711 | p.K187M | 2 |
chr11:74705603 | p.G205W | 1 |
chr11:74716692 | p.F223F | 1 |
chr11:74717222 | p.R48R | 1 |
chr11:74705632 | p.L273I | 1 |
chr11:74716693 | p.R58Q | 1 |
chr11:74717250 | p.Q297H | 1 |
chr11:74705648 | p.L63L | 1 |
chr11:74717303 | p.A300V | 1 |
chr11:74705760 | p.V101I | 1 |
![]() |
![]() |
* 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 NEU3 |
![]() |
* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
![]() |
![]() |
* 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 |
![]() |
* This plots show the correlation between CNV and gene expression. |
![]() | |
![]() |
Top |
Gene-Gene Network Information |
![]() |
* 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 |
![]() | |
ACER3,AQP11,ARHGEF17,C11orf30,C2CD3,FAM168A,INTS4, INTS4P2,LOC150786,LOC653566,NEU3,PAK1,POLD3,PPME1, PRKRIR,RAB6A,RNF169,RSF1,SPCS2,UVRAG,XRRA1 | NOP9,CEP85,COL4A3,CPEB3,DENND2C,FAM160A1,FSD1L, GPR157,HIF1AN,LMO7,MED14,NEDD4,NEU3,PDLIM5, PHKA1,PTPN3,PYGO1,SIX4,USP28,ZBTB43,ZNF41 |
![]() | |
ANAPC1,ASXL2,FAM217B,CCNT1,NEU3,PARD3B,PDP2, POLR1A,PRKAR2A,RAD54L2,RAPGEF6,REST,RIF1,ROCK2, SHPRH,STRN,TGFBRAP1,TRIM44,UBXN7,ZC3HAV1L,ZNF619 | ANKAR,EDRF1,C11orf30,CEP97,CSPP1,CYB5RL,DHX33, DIS3L,DPY19L3,EDIL3,ELAC2,GPR63,IFT80,KIAA0141, MFHAS1,FAN1,NEU3,SETDB2,SHPRH,SPIN3,WRN |
![]() |
* 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 |
![]() |
Top |
Pharmacological Information for NEU3 |
There's no related Drug. |
Top |
Cross referenced IDs for NEU3 |
* 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 @ |