Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

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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 ALG2
Basic gene info.Gene symbolALG2
Gene nameALG2, alpha-1,3/1,6-mannosyltransferase
SynonymsCDGIi|NET38|hALPG2
CytomapUCSC genome browser: 9q22.33
Genomic locationchr9 :101978706-101984246
Type of geneprotein-coding
RefGenesNM_033087.3,
NR_024532.1,NM_197973.2,
Ensembl idENSG00000119523
DescriptionGDP-Man:Man(1)GlcNAc(2)-PP-Dol alpha-1,3-mannosyltransferaseGDP-Man:Man(1)GlcNAc(2)-PP-dolichol mannosyltransferaseGDP-Man:Man(2)GlcNAc(2)-PP-Dol alpha-1,6-mannosyltransferasealpha-1,3-mannosyltransferase ALG2alpha-1,3/1,6-mannosyltransferase ALG2asp
Modification date20141222
dbXrefs MIM : 607905
HGNC : HGNC
HPRD : 09716
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ALG2
BioGPS: 85365
Gene Expression Atlas: ENSG00000119523
The Human Protein Atlas: ENSG00000119523
PathwayNCI Pathway Interaction Database: ALG2
KEGG: ALG2
REACTOME: ALG2
ConsensusPathDB
Pathway Commons: ALG2
MetabolismMetaCyc: ALG2
HUMANCyc: ALG2
RegulationEnsembl's Regulation: ENSG00000119523
miRBase: chr9 :101,978,706-101,984,246
TargetScan: NM_033087
cisRED: ENSG00000119523
ContextiHOP: ALG2
cancer metabolism search in PubMed: ALG2
UCL Cancer Institute: ALG2
Assigned class in ccmGDBC

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Phenotypic Information for ALG2(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: ALG2
Familial Cancer Database: ALG2
* 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: ALG2
MedGen: ALG2 (Human Medical Genetics with Condition)
ClinVar: ALG2
PhenotypeMGI: ALG2 (International Mouse Phenotyping Consortium)
PhenomicDB: ALG2

Mutations for ALG2
* 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
There's no inter-chromosomal structural variation.
- For Intra-chromosomal Variations
There's no intra-chromosomal structural variation.
SampleSymbol_aChr_aStart_aEnd_aSymbol_bChr_bStart_bEnd_b
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 ALG2 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
AI371982TNRC6C1276177610074676101021ALG22734949101980528101980749

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

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check002.gifCopy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr
There's no copy number variation information in COSMIC data for this gene.

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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=6

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=28)
Stat. for Synonymous SNVs
(# total SNVs=6)
Stat. for Deletions
(# total SNVs=0)
Stat. for Insertions
(# total SNVs=0)
There's no deleted snv.There's no inserted snv.

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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
chr9:101980889-101980889p.H193R4
chr9:101980890-101980890p.H193Y2
chr9:101980562-101980562p.S302Y2
chr9:101980847-101980847p.S207N1
chr9:101980334-101980334p.R378P1
chr9:101981082-101981082p.R129W1
chr9:101980593-101980593p.D292N1
chr9:101980873-101980873p.V198V1
chr9:101980340-101980340p.F376S1
chr9:101981091-101981091p.L126L1

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check002.gifSNV Counts per Each Loci in TCGA data

 : non-synonymous mutation, : synonymous mutation, Circle size denotes number of samples.
maximum mutation count=6

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample32 8  3 11 351 151 2
# mutation32 5  3 11 451 151 3
nonsynonymous SNV22 5  2 1  331  41 2
synonymous SNV1     1  1 12  11  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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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
chr9:101980889p.H193R4
chr9:101980890p.P366L2
chr9:101980370p.H193Y2
chr9:101980562p.S302Y2
chr9:101980615p.P380S1
chr9:101980325p.V212A1
chr9:101980621p.L199F1
chr9:101980896p.S346L1
chr9:101980329p.V198V1
chr9:101980675p.C339R1

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 ALG2 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]

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Gene Expression for ALG2

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))
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check002.gifCNV vs Gene Expression Plot
* This plots show the correlation between CNV and gene expression.

: Open all plots for all cancer types


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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

ALG2,C9orf156,FAM206A,DNAJB9,DNAJC25,ERP44,FAM120A,
FAM120AOS,HIATL1,ISCA1,MRPL50,NAA35,PSMD5,RAB14,
RAD23B,RNF103,RNF20,SEC61B,SPTLC1,STX17,ZNF189
ADO,ADSS,ALG2,SMIM15,CISD2,DAZAP2,HPRT1,
IQCK,LOC653566,MARCKS,MYCBP,NPTN,PERP,RAB14,
SERP1,TMCO1,TMEM14A,TMEM33,TMEM9B,TP53RK,YWHAQ

ALG2,ATP6V1G1,C9orf156,CAAP1,C9orf85,CHMP5,DNAJC25,
DOLK,ERP44,FXN,ISCA1,ISCA1P1,MRPL50,NANS,
POLE3,PSMD5,SEC61B,SERP1,SRPRB,SURF4,TEX10
ADPGK,ALG2,VWA9,DCBLD1,ERLIN1,FAM136A,KIAA0391,
MEST,MIOS,MRPS30,MRRF,PIGF,RFWD2,RINT1,
SERP1,SHQ1,SLC30A5,SLC30A9,TMED5,UTP18,XBP1
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

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check002.gifInteracting Genes (from Pathway Commons)

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

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Pharmacological Information for ALG2


There's no related Drug.
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Cross referenced IDs for ALG2
* 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



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