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 SEC61G
Basic gene info.Gene symbolSEC61G
Gene nameSec61 gamma subunit
SynonymsSSS1
CytomapUCSC genome browser: 7p11.2
Genomic locationchr7 :54819939-54826939
Type of geneprotein-coding
RefGenesNM_001012456.1,
NM_014302.3,
Ensembl idENSG00000132432
Descriptionprotein transport protein SEC61 gamma subunitprotein transport protein Sec61 subunit gamma
Modification date20141207
dbXrefs MIM : 609215
HGNC : HGNC
Ensembl : ENSG00000132432
HPRD : 15318
Vega : OTTHUMG00000023430
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_SEC61G
BioGPS: 23480
Gene Expression Atlas: ENSG00000132432
The Human Protein Atlas: ENSG00000132432
PathwayNCI Pathway Interaction Database: SEC61G
KEGG: SEC61G
REACTOME: SEC61G
ConsensusPathDB
Pathway Commons: SEC61G
MetabolismMetaCyc: SEC61G
HUMANCyc: SEC61G
RegulationEnsembl's Regulation: ENSG00000132432
miRBase: chr7 :54,819,939-54,826,939
TargetScan: NM_001012456
cisRED: ENSG00000132432
ContextiHOP: SEC61G
cancer metabolism search in PubMed: SEC61G
UCL Cancer Institute: SEC61G
Assigned class in ccmGDBC

Top
Phenotypic Information for SEC61G(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: SEC61G
Familial Cancer Database: SEC61G
* 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: SEC61G
MedGen: SEC61G (Human Medical Genetics with Condition)
ClinVar: SEC61G
PhenotypeMGI: SEC61G (International Mouse Phenotyping Consortium)
PhenomicDB: SEC61G

Mutations for SEC61G
* 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
There's no structural variation information in COSMIC data for this gene.

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows SEC61G related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
W28426SEC61G6110475482347154823514ZNF446100489195899148258991868
BP384146CREM177103550065935500735SEC61G7650075481994654826908

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 # sample 2               
GAIN (# sample) 2               
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
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=2

Top
check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=10)
Stat. for Synonymous SNVs
(# total SNVs=1)
Stat. for Deletions
(# total SNVs=0)
Stat. for Insertions
(# total SNVs=0)
There's no deleted snv.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
chr7:54823553-54823553p.A39V2
chr7:54825203-54825203p.K27E1
chr7:54825211-54825211p.R24K1
chr7:54825215-54825215p.K23E1
chr7:54820109-54820109p.G68S1
chr7:54825289-54825289p.?1
chr7:54823470-54823470p.?1
chr7:54823477-54823477p.I64I1
chr7:54823478-54823478p.I64T1
chr7:54823496-54823496p.H58R1

Top
check002.gifSNV Counts per Each Loci in TCGA data

 : non-synonymous mutation, : synonymous mutation, Circle size denotes number of samples.
maximum mutation count=1

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample   1    1  22      3
# mutation   1    1  22      3
nonsynonymous SNV   1    1  12      3
synonymous SNV           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
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
chr7:54825215p.I64I,SEC61G1
chr7:54820109p.I64T,SEC61G1
chr7:54823477p.H58R,SEC61G1
chr7:54823478p.L56F,SEC61G1
chr7:54823496p.A41T,SEC61G1
chr7:54823501p.K27E,SEC61G1
chr7:54823548p.R24K,SEC61G1
chr7:54825203p.K23E,SEC61G1
chr7:54825211p.G68S,SEC61G1

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 SEC61G 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 SEC61G

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

CCT6A,CHCHD2,CNGB1,CNTNAP4,DEFB118,EGFR,FXYD5,
GBAS,COLGALT2,LANCL2,LSR,MET,MRPS17,NPPB,
PHKG1,PSPH,SCX,SEC61G,SUMF2,VOPP1,ZNF713
ACTR10,TMEM258,C4orf27,COX16,GTF2A2,KRT10,MGST2,
NOP10,NUDCD2,PIGF,PRR13,PSMA2,RBX1,RNASEH2B,
RPA3,RPS27L,SEC61G,TAF9,TOMM5,UBE2D2,ZBTB8OS

BUD31,MALSU1,CBX3,CHCHD2,COX17,GGCT,KDELR2,
LSM5,MRPL32,MRPS17,MRPS24,PPIA,PSMA2,PSMG3,
RAC1,RALA,RPA3,SEC61G,SHFM1,TOMM7,TRA2A
ACTR3,ANXA2,ANXA2P2,ATG4A,C20orf24,CAP1,ERP44,
GNAI3,NDUFB3,PPP2R2A,PSMD11,PSMD12,RAB11A,RAB1A,
RALB,SEC61G,SUGT1,TMED10,TSPAN8,TXNDC17,VPS26A
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 SEC61G


There's no related Drug.
Top
Cross referenced IDs for SEC61G
* 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