Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

Home

Search

Download

 Statistics

Help

About Us

Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

Gene Summary

Phenotypic Information (metabolism pathway, cancer, disease, phenome)

Mutations: SVs, CNVs, SNVs

Gene expression: GE, Protein, DEGE, CNV vs GE

Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG

Pharmacological Information: Drug-Gene Network

Cross referenced IDs

Gene Summary for MAN1A1
Basic gene info.Gene symbolMAN1A1
Gene namemannosidase, alpha, class 1A, member 1
SynonymsHUMM3|HUMM9|MAN9
CytomapUCSC genome browser: 6q22
Genomic locationchr6 :119499266-119670926
Type of geneprotein-coding
RefGenesNM_005907.3,
Ensembl idENSG00000111885
DescriptionMan9-mannosidasealpha-1,2-mannosidase IAman(9)-alpha-mannosidasemannosyl-oligosaccharide 1,2-alpha-mannosidase IAprocessing alpha-1,2-mannosidase IA
Modification date20141207
dbXrefs MIM : 604344
HGNC : HGNC
Ensembl : ENSG00000111885
HPRD : 05066
Vega : OTTHUMG00000015472
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_MAN1A1
BioGPS: 4121
Gene Expression Atlas: ENSG00000111885
The Human Protein Atlas: ENSG00000111885
PathwayNCI Pathway Interaction Database: MAN1A1
KEGG: MAN1A1
REACTOME: MAN1A1
ConsensusPathDB
Pathway Commons: MAN1A1
MetabolismMetaCyc: MAN1A1
HUMANCyc: MAN1A1
RegulationEnsembl's Regulation: ENSG00000111885
miRBase: chr6 :119,499,266-119,670,926
TargetScan: NM_005907
cisRED: ENSG00000111885
ContextiHOP: MAN1A1
cancer metabolism search in PubMed: MAN1A1
UCL Cancer Institute: MAN1A1
Assigned class in ccmGDBC

Top
Phenotypic Information for MAN1A1(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: MAN1A1
Familial Cancer Database: MAN1A1
* This gene is included in those cancer gene databases.

Oncogene 1

Tumor Suppressor gene 2

Cancer Gene Census 3

CancerGenes 4

Network of Cancer Gene 5

Significant driver gene in

Therapeutic Vulnerabilities in Cancer1

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/

check002.gifMetabolic Pathway Description
REACTOME_METABOLISM_OF_PROTEINS

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: MAN1A1
MedGen: MAN1A1 (Human Medical Genetics with Condition)
ClinVar: MAN1A1
PhenotypeMGI: MAN1A1 (International Mouse Phenotyping Consortium)
PhenomicDB: MAN1A1

Mutations for MAN1A1
* 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.

check002.gifStructural Variants in COSMIC: go to COSMIC mutation histogram

- Statistics for Tissue and Mutation typeTop
- For Inter-chromosomal Variations
* Inter-chromosomal variantions includes 'interchromosomal amplicon to amplicon', 'interchromosomal amplicon to non-amplified dna', 'interchromosomal insertion', 'Interchromosomal unknown type'.
- 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'.
SampleSymbol_aChr_aStart_aEnd_aSymbol_bChr_bStart_bEnd_b
breastMAN1A1chr6119558570119558663chr68275465582754768
NSMAN1A1chr6119558561119558561PID1chr2230045479230045479
NSMAN1A1chr6119558562119558562HFM1chr19185280891852808
ovaryMAN1A1chr6119505609119505629chr2127732135127732155
ovaryMAN1A1chr6119561062119561082CEP85Lchr6118851106118851126
ovaryMAN1A1chr6119653779119653799MAN1A1chr6119654439119654459
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)

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows MAN1A1 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
AA828041MAN1A143766119500279119500651MAN1A13694286119500228119500287
X74837TEK175092716065327161403MAN1A174732326119500317119670089

check002.gifOther DBs for Structural Variants
Structural Variants in Ensembl: go to Ensembl Structural variation
Structural Variants in dbVar: go to dbVar

Top
check002.gifCopy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample21      2 2 2 1 1
GAIN (# sample)21      2   1    
LOSS (# sample)          2 1 1 1
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
check002.gifSNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation

 : Non-synonymous mutation, : Synonymous mutation, Circle size denotes number of samples.
Maximum mutation count=4

Top
check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=53)
Stat. for Synonymous SNVs
(# total SNVs=6)
Stat. for Deletions
(# total SNVs=1)
Stat. for Insertions
(# total SNVs=0)
There's no inserted snv.

Top
check002.gifTop 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 positionMutation(aa)Unique sampleID count
chr6:119569512-119569512p.R302Q4
chr6:119510873-119510873p.G501E2
chr6:119623172-119623172p.E266G2
chr6:119509656-119509656p.R545W2
chr6:119510998-119510998p.I459I2
chr6:119511012-119511012p.G455R2
chr6:119510902-119510902p.E491E2
chr6:119501033-119501033p.L638P2
chr6:119510834-119510834p.R514Q2
chr6:119669822-119669822p.E137K2

Top
check002.gifSNV Counts per Each Loci in TCGA data

 : non-synonymous mutation, : synonymous mutation, Circle size denotes number of samples.
maximum mutation count=3

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample22 132 1 1  342 3122 11
# mutation22 132 1 1  342 3132 14
nonsynonymous SNV21 121   1  142 2121 12
synonymous SNV 1 11 1    2   111 2
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
check002.gifTop 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 PositionMutation(aa)Unique sampleID count
chr6:119509656p.R545W2
chr6:119510998p.G501E2
chr6:119511012p.L638P2
chr6:119501033p.S633S2
chr6:119501047p.R302Q2
chr6:119510873p.I459I2
chr6:119569512p.G455R2
chr6:119509608p.P546S1
chr6:119611922p.E445K1
chr6:119510891p.E259Q1

check002.gifOther DBs for Point Mutations
Point Mutation Table of Ensembl: go to Ensembl variation table
Mutation of cBioPortal: go to cBioPortal's Cross-cancer alteration summary

check002.gifCopy Number for MAN1A1 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 MAN1A1

check002.gifGene 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.

check002.gifDifferential 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
check002.gifCNV 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
check002.gifCo-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

LINC00589,CPEB4,ENPP1,FAM65C,FAM73A,MAP10,KRT40,
KRTAP1-3,KRTAP1-5,KRTAP3-2,KRTAP3-3,MAN1A1,MBOAT2,NPY6R,
PARP8,PDZRN3,PRLR,SIPA1L2,SPAG17,WDFY3,ZNRF3
ARHGAP21,CDKN2B,CELF2,CHRDL1,DSE,ECM2,EPB41L2,
EPS8,GNS,ITGB1,LAMC1,MAN1A1,NEK7,OSTM1,
PARVA,SEPT11,SESTD1,SH3D19,TACC1,VGLL3,ZEB2

ABCA1,ARSB,BMP2K,CD93,CPEB4,EPAS1,IL6ST,
KDR,LILRA1,LRRC8C,MAN1A1,N4BP2,PLEKHG1,PLXNC1,
SASH1,SECISBP2L,PEAK1,SLC30A4,TRAM2,UTRN,ZNF366
ABAT,BMF,NCMAP,EPB41L3,HADHA,HADHB,IL13RA1,
IPMK,KBTBD11,LAMP2,LPCAT3,MAN1A1,MARCH8,PBLD,
SCAMP5,SNX24,TMEM19,TNIK,TOR1AIP2,UBTD2,VPS35
check002.gifCo-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
check002.gifInteracting Genes (from Pathway Commons)

: Open all interacting genes' information including KEGG pathway for all interacting genes from DAVID

Top
Pharmacological Information for MAN1A1


There's no related Drug.
Top
Cross referenced IDs for MAN1A1
* 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 @
Site Policies | State of Texas