Cancer Cell Metabolism Gene Database

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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 EIF3I
Basic gene info.Gene symbolEIF3I
Gene nameeukaryotic translation initiation factor 3, subunit I
SynonymsEIF3S2|PRO2242|TRIP-1|TRIP1|eIF3-beta|eIF3-p36
CytomapUCSC genome browser: 1p34.1
Genomic locationchr1 :32687970-32697205
Type of geneprotein-coding
RefGenesNM_003757.2,
Ensembl idENSG00000084623
DescriptionTGF-beta receptor-interacting protein 1TGFbeta receptor-interacting protein 1eIF-3-betaeIF3 p36eukaryotic translation initiation factor 3 subunit 2eukaryotic translation initiation factor 3 subunit Ieukaryotic translation initiation factor 3, subuni
Modification date20141207
dbXrefs MIM : 603911
HGNC : HGNC
Ensembl : ENSG00000084623
HPRD : 04884
Vega : OTTHUMG00000007364
ProteinUniProt: Q13347
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_EIF3I
BioGPS: 8668
Gene Expression Atlas: ENSG00000084623
The Human Protein Atlas: ENSG00000084623
PathwayNCI Pathway Interaction Database: EIF3I
KEGG: EIF3I
REACTOME: EIF3I
ConsensusPathDB
Pathway Commons: EIF3I
MetabolismMetaCyc: EIF3I
HUMANCyc: EIF3I
RegulationEnsembl's Regulation: ENSG00000084623
miRBase: chr1 :32,687,970-32,697,205
TargetScan: NM_003757
cisRED: ENSG00000084623
ContextiHOP: EIF3I
cancer metabolism search in PubMed: EIF3I
UCL Cancer Institute: EIF3I
Assigned class in ccmGDBA - This gene has a literature evidence and it belongs to cancer gene.
References showing role of EIF3I in cancer cell metabolism1. Perez RE, Navarro A, Rezaiekhaligh MH, Mabry SM, Ekekezie, II (2011) TRIP-1 regulates TGF-beta1-induced epithelial-mesenchymal transition of human lung epithelial cell line A549. Am J Physiol Lung Cell Mol Physiol 300: L799-807. doi: 10.1152/ajplung.00350.2010. go to article
2. Ahlemann M, Zeidler R, Lang S, Mack B, Munz M, et al. (2006) Carcinoma-associated eIF3i overexpression facilitates mTOR-dependent growth transformation. Mol Carcinog 45: 957-967. doi: 10.1002/mc.20269. go to article
3. Yuan Y, Zhang Y, Yao S, Shi H, Huang X, et al. (2014) The translation initiation factor eIF3i up-regulates vascular endothelial growth factor A, accelerates cell proliferation, and promotes angiogenesis in embryonic development and tumorigenesis. J Biol Chem 289: 28310-28323. doi: 10.1074/jbc.M114.571356. pmid: 4192485. go to article
4. Qi J, Dong Z, Liu J, Zhang JT (2014) EIF3i promotes colon oncogenesis by regulating COX-2 protein synthesis and beta-catenin activation. Oncogene 33: 4156-4163. doi: 10.1038/onc.2013.397. pmid: 3962800. go to article

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Phenotypic Information for EIF3I(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: EIF3I
Familial Cancer Database: EIF3I
* 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 603911; gene.
Orphanet
DiseaseKEGG Disease: EIF3I
MedGen: EIF3I (Human Medical Genetics with Condition)
ClinVar: EIF3I
PhenotypeMGI: EIF3I (International Mouse Phenotyping Consortium)
PhenomicDB: EIF3I

Mutations for EIF3I
* 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 EIF3I related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BG566325EIF3I263113268801432694172ST56276741188134438813490
AA032022LRRC472412136974813697891EIF3I40549413269700232697091
AI682532EIF3I2713713269709332697203HDAC112321613278606132786517
AU123912SNRPA9218194126323641265371EIF3I21877213268801032692123
BC015407MTMR9LP192513269734532705863EIF3I924178113269409832697203

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=4

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=32)
Stat. for Synonymous SNVs
(# total SNVs=11)
Stat. for Deletions
(# total SNVs=1)
Stat. for Insertions
(# total SNVs=0)
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
chr1:32694343-32694343p.T219A4
chr1:32694386-32694386p.N233S3
chr1:32696779-32696779p.E320D2
chr1:32694334-32694334p.D216Y2
chr1:32691791-32691791p.L90L2
chr1:32694367-32694367p.R227W2
chr1:32691906-32691906p.D129N1
chr1:32696725-32696725p.S302S1
chr1:32688148-32688148p.L5V1
chr1:32694326-32694326p.?1

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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=3

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample3416  2    3 1 126 3
# mutation4416  2    3 1 126 3
nonsynonymous SNV4415  2    2 1  25 2
synonymous SNV   1       1   1 1 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
chr1:32694367p.R227W2
chr1:32694368p.L5V1
chr1:32688149p.E169Q1
chr1:32691860p.E322K1
chr1:32694376p.L5P1
chr1:32688180p.A206V1
chr1:32691906p.Q15H1
chr1:32694410p.D216D1
chr1:32688215p.T27I1
chr1:32691917p.T218A1

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 EIF3I 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 EIF3I

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

ADPRHL2,AK2,DNAJC8,EIF3I,ERI3,HDAC1,MARCKSL1,
MRPS15,MRTO4,NDUFS5,NUDC,PARK7,PEF1,PSMB2,
RPL11,RPL24,RPS8,TRAPPC3,UQCRH,ZBTB8OS,ZCCHC17
C12orf10,CCT7,EIF3G,EIF3I,FAU,NHP2,NHP2L1,
NME2,PHB2,RPL27A,RPL29,RPL35,RPL36,RPL7A,
RPL8,RPLP1,RPS11,RPS15,RPS16,SARS,SNRPD2

AK2,ATP5G1,ATPIF1,AURKAIP1,EBNA1BP2,EIF3I,LAMTOR5,
LSM10,MRPL20,MRPL37,MRPS15,MRTO4,PEF1,PSMA5,
PSMB2,TRAPPC3,UQCRH,UQCRHL,UTP11L,ZBTB8OS,ZNF593
HYPK,CCT7,DCUN1D5,EBNA1BP2,EIF2S2,EIF3I,EIF4A1,
EIF5AL1,MRPL3,MRPL52,NHP2,NHP2L1,NME1,NPM3,
PPIL1,PRMT1,PSMB5,RAN,RANBP1,SNRPE,TMEM147
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 EIF3I


There's no related Drug.
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Cross referenced IDs for EIF3I
* 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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