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 NME7
Basic gene info.Gene symbolNME7
Gene nameNME/NM23 family member 7
SynonymsCFAP67|MN23H7|NDK 7|NDK7|nm23-H7
CytomapUCSC genome browser: 1q24
Genomic locationchr1 :169101768-169337186
Type of geneprotein-coding
RefGenesNM_013330.4,
NM_197972.2,NR_104229.1,
Ensembl idENSG00000143156
DescriptionNDP kinase 7cilia and flagella associated protein 67non-metastatic cells 7, protein expressed in (nucleoside-diphosphate kinase)nucleoside diphosphate kinase 7nucleoside-diphosphate kinase 7
Modification date20141207
dbXrefs MIM : 613465
HGNC : HGNC
Ensembl : ENSG00000143156
HPRD : 11394
Vega : OTTHUMG00000034586
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_NME7
BioGPS: 29922
Gene Expression Atlas: ENSG00000143156
The Human Protein Atlas: ENSG00000143156
PathwayNCI Pathway Interaction Database: NME7
KEGG: NME7
REACTOME: NME7
ConsensusPathDB
Pathway Commons: NME7
MetabolismMetaCyc: NME7
HUMANCyc: NME7
RegulationEnsembl's Regulation: ENSG00000143156
miRBase: chr1 :169,101,768-169,337,186
TargetScan: NM_013330
cisRED: ENSG00000143156
ContextiHOP: NME7
cancer metabolism search in PubMed: NME7
UCL Cancer Institute: NME7
Assigned class in ccmGDBC

Top
Phenotypic Information for NME7(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: NME7
Familial Cancer Database: NME7
* 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
KEGG_PURINE_METABOLISM
KEGG_PYRIMIDINE_METABOLISM

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: NME7
MedGen: NME7 (Human Medical Genetics with Condition)
ClinVar: NME7
PhenotypeMGI: NME7 (International Mouse Phenotyping Consortium)
PhenomicDB: NME7

Mutations for NME7
* 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
breastNME7chr1169297690169297690NME7chr1169312732169312732
ovaryNME7chr1169328756169328776chr1168515733168515753
pancreasNME7chr1169144761169144781chr112618159826181618
pancreasNME7chr1169145846169145866chr125573339555733415
pancreasNME7chr1169147327169147347chr33595152735951547
pancreasNME7chr1169160010169160030NME7chr1169160340169160360
pancreasNME7chr1169256766169256786chr124099523540995255
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 NME7 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BF913184ZNF672182181249143334249145545NME72154251169308938169309148
CA433037RBM318215X4843647648436672NME72116281169102012169336975

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 # sample1 2 1   5    1111
GAIN (# sample)1 2     5    1111
LOSS (# sample)    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=3

Top
check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=36)
Stat. for Synonymous SNVs
(# total SNVs=2)
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
chr1:169267823-169267823p.G207S3
chr1:169256604-169256604p.A231T2
chr1:169267804-169267804p.S213F2
chr1:169102065-169102065p.?2
chr1:169199982-169199982p.R322*2
chr1:169267888-169267888p.R185H2
chr1:169293678-169293678p.R22*2
chr1:169102023-169102023p.*377Y1
chr1:169292429-169292429p.V68V1
chr1:169293734-169293734p.H3R1

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
# sample14 84 2 11 52   34 2
# mutation14 64 2 11 83   34 2
nonsynonymous SNV14 64 2 11 63   32 2
synonymous SNV           2     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
chr1:169267823p.G207S,NME73
chr1:169267888p.R185H,NME72
chr1:169256604p.A231T,NME72
chr1:169102038p.H43Y,NME71
chr1:169292503p.F370L,NME71
chr1:169256641p.R23C1
chr1:169272390p.P338S,NME71
chr1:169102046p.R22Q1
chr1:169292506p.R337L,NME71
chr1:169267804p.V183V,NME71

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 NME7 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 NME7

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

BLZF1,SAMD15,METTL18,TRMT1L,C1orf27,FAM229B,COG2,
KIFAP3,MDH1B,MR1,MRPS14,NEK11,NME7,NPHP1,
NSL1,PIH1D2,SCYL3,SNAPIN,TCTN2,VAMP4,XPR1
ALG2,PIFO,TMEM248,CETN2,DAZAP2,DDX47,IFT57,
IQCK,LOC653566,MEAF6,NME7,PIGC,PPT1,IFT22,
SLC35A1,SMU1,TCTN1,TCTN3,TMCO1,YWHAQ,ZDHHC6

TRMT1L,SWT1,CREG1,DEDD,NME7,PIP5K1A,POLR3C,
PPOX,PRUNE,RBM8A,RNF2,SDCCAG8,SNAPIN,TIPRL,
TOR1AIP1,TROVE2,TSNAX,UBE2Q1,UFC1,VPS45,VPS72
AP1S2,BBS10,BEX4,BMI1,C11orf74,C1orf123,C22orf39,
CAMK1,CETN2,DNAJC18,EID1,FKBP7,MSANTD4,NGFRAP1,
NKIRAS1,NME7,PABPC5,IFT22,RPL23AP82,TCEAL1,ZFP1
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 NME7


There's no related Drug.
Top
Cross referenced IDs for NME7
* 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