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 MLXIPL
Basic gene info.Gene symbolMLXIPL
Gene nameMLX interacting protein-like
SynonymsCHREBP|MIO|MONDOB|WBSCR14|WS-bHLH|bHLHd14
CytomapUCSC genome browser: 7q11.23
Genomic locationchr7 :73007523-73038870
Type of geneprotein-coding
RefGenesNM_032951.2,
NM_032952.2,NM_032953.2,NM_032954.2,NM_032994.2,
Ensembl idENSG00000262077
DescriptionMLX-interacting protein-likeMlx interactorWS basic-helix-loop-helix leucine zipper proteinWilliams Beuren syndrome chromosome region 14Williams-Beuren syndrome chromosome region 14 protein 1Williams-Beuren syndrome chromosome region 14 protein 2carb
Modification date20141207
dbXrefs MIM : 605678
HGNC : HGNC
Ensembl : ENSG00000009950
HPRD : 12033
Vega : OTTHUMG00000129995
ProteinUniProt: Q9NP71
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_MLXIPL
BioGPS: 51085
Gene Expression Atlas: ENSG00000262077
The Human Protein Atlas: ENSG00000262077
PathwayNCI Pathway Interaction Database: MLXIPL
KEGG: MLXIPL
REACTOME: MLXIPL
ConsensusPathDB
Pathway Commons: MLXIPL
MetabolismMetaCyc: MLXIPL
HUMANCyc: MLXIPL
RegulationEnsembl's Regulation: ENSG00000262077
miRBase: chr7 :73,007,523-73,038,870
TargetScan: NM_032951
cisRED: ENSG00000262077
ContextiHOP: MLXIPL
cancer metabolism search in PubMed: MLXIPL
UCL Cancer Institute: MLXIPL
Assigned class in ccmGDBA - This gene has a literature evidence and it belongs to cancer gene.
References showing role of MLXIPL in cancer cell metabolism1. Meidtner K, Fisher E, Ă„ngquist L, Holst C, Vimaleswaran KS, et al. (2014) Variation in genes related to hepatic lipid metabolism and changes in waist circumference and body weight. Genes & nutrition 9: 1-11. go to article

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Phenotypic Information for MLXIPL(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: MLXIPL
Familial Cancer Database: MLXIPL
* 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_INTEGRATION_OF_ENERGY_METABOLISM

check002.gifOthers
OMIM 605678; gene.
605678; gene.
Orphanet 904; Williams syndrome.
904; Williams syndrome.
DiseaseKEGG Disease: MLXIPL
MedGen: MLXIPL (Human Medical Genetics with Condition)
ClinVar: MLXIPL
PhenotypeMGI: MLXIPL (International Mouse Phenotyping Consortium)
PhenomicDB: MLXIPL

Mutations for MLXIPL
* 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
* 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
prostateMLXIPLchr77300806373008063chr7106648374106648374
prostateMLXIPLchr77301380473013804chr7115908989115908989
prostateMLXIPLchr77301397073013970PIK3CGchr7106532889106532889
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 MLXIPL related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
AI739073PUSL11212112469891247203MLXIPL19537877301406273014245

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=52)
Stat. for Synonymous SNVs
(# total SNVs=16)
Stat. for Deletions
(# total SNVs=0)
Stat. for Insertions
(# total SNVs=1)
There's no deleted 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
chr7:73021981-73021981p.P141L4
chr7:73020337-73020337p.Q241H4
chr7:73013941-73013941p.S329F2
chr7:73011060-73011060p.P577P2
chr7:73008622-73008622p.L808V2
chr7:73011747-73011747p.P456P2
chr7:73020301-73020302p.S253L2
chr7:73008676-73008676p.S790R2
chr7:73011083-73011083p.P570S2
chr7:73020319-73020319p.C247C2

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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=2

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample21253 214  511  1612 4
# mutation21253 213  511  1712 4
nonsynonymous SNV21252 1 3  31   1211 3
synonymous SNV    1 11   2 1  51 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
chr7:73008676p.R761C,MLXIPL2
chr7:73010570p.A657A,MLXIPL2
chr7:73009996p.S790R,MLXIPL2
chr7:73010717p.R639W,MLXIPL2
chr7:73011984p.G608S,MLXIPL1
chr7:73008630p.S354N,MLXIPL1
chr7:73010501p.D67H,MLXIPL1
chr7:73020081p.R746C,MLXIPL1
chr7:73011080p.R579W,MLXIPL1
chr7:73012007p.S345L,MLXIPL1

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 MLXIPL 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 MLXIPL

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

ADH1B,ADIPOQ,AQP7,AQP7P1,C14orf180,CIDEA,CIDEC,
FRMD1,GPD1,HEPACAM,HSD17B13,KCNIP2,LIPE,LOC283392,
MLXIPL,PLIN1,PLIN4,RDH5,SLC19A3,TMEM132C,TUSC5
ABHD15,ACACB,AGPAT2,ALDH1L1,ANKRD53,AQP7,C14orf180,
CIDEC,CNTFR,CSPG4,ECHDC3,FGFRL1,LGALS12,MLXIPL,
ORMDL3,PC,PECR,PLA2G16,PNPLA2,SHMT1,TMEM132C

ADCK5,BRAT1,DMTF1,DICER1-AS1,GIGYF1,LOC349114,LTB4R,
MLXIPL,MSH5,NSUN5P1,NSUN5P2,OGT,PABPC1L,PILRB,
PRKRIP1,SLC12A9,STX16,TAZ,ZMIZ2,ZNF335,ZNF3
ABCC2,CCDC108,CREB3L3,CYP3A4,DNASE1,GPR112,GRAMD1B,
GSTA1,KCNH6,KCNJ3,MLXIPL,MME,MRO,NR0B2,
PLB1,PRODH,RBP3,REEP6,SI,SLC13A1,ZNF488
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 MLXIPL
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link
Organism-specific databasesPharmGKB PA37353; -.
Organism-specific databasesPharmGKB PA37353; -.
Organism-specific databasesCTD 51085; -.
Organism-specific databasesCTD 51085; -.

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB00131MLX interacting protein-likeapproved; nutraceuticalAdenosine monophosphate
DB00171MLX interacting protein-likeapproved; nutraceuticalAdenosine triphosphate


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Cross referenced IDs for MLXIPL
* 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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