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 KIFC3
Basic gene info.Gene symbolKIFC3
Gene namekinesin family member C3
Synonyms-
CytomapUCSC genome browser: 16q13-q21
Genomic locationchr16 :57792128-57831929
Type of geneprotein-coding
RefGenesNM_001130099.1,
NM_001130100.1,NM_005550.3,
Ensembl idENSG00000269180
Descriptionkinesin-like protein KIFC3
Modification date20141207
dbXrefs MIM : 604535
HGNC : HGNC
Ensembl : ENSG00000140859
HPRD : 05171
Vega : OTTHUMG00000133455
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_KIFC3
BioGPS: 3801
Gene Expression Atlas: ENSG00000269180
The Human Protein Atlas: ENSG00000269180
PathwayNCI Pathway Interaction Database: KIFC3
KEGG: KIFC3
REACTOME: KIFC3
ConsensusPathDB
Pathway Commons: KIFC3
MetabolismMetaCyc: KIFC3
HUMANCyc: KIFC3
RegulationEnsembl's Regulation: ENSG00000269180
miRBase: chr16 :57,792,128-57,831,929
TargetScan: NM_001130099
cisRED: ENSG00000269180
ContextiHOP: KIFC3
cancer metabolism search in PubMed: KIFC3
UCL Cancer Institute: KIFC3
Assigned class in ccmGDBC

Top
Phenotypic Information for KIFC3(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: KIFC3
Familial Cancer Database: KIFC3
* 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: KIFC3
MedGen: KIFC3 (Human Medical Genetics with Condition)
ClinVar: KIFC3
PhenotypeMGI: KIFC3 (International Mouse Phenotyping Consortium)
PhenomicDB: KIFC3

Mutations for KIFC3
* 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
There's no intra-chromosomal structural variation.
SampleSymbol_aChr_aStart_aEnd_aSymbol_bChr_bStart_bEnd_b
breastKIFC3chr165781032757810327KCNJ6chr213913044739130447
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 KIFC3 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BM726297KIFC3169165779233357792401CANX694955179157500179157926
BM680904CANX194455179157500179157926KIFC3445498165779233357792386
BE715187LAMB3151011209791887209791973KIFC395265165781859157818761
CV355096KIFC35377165780659857806970INSR3685871972278147228036

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          1      
GAIN (# sample)                 
LOSS (# sample)          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=4

Top
check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=47)
Stat. for Synonymous SNVs
(# total SNVs=11)
Stat. for Deletions
(# total SNVs=2)
Stat. for Insertions
(# total SNVs=1)

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
chr16:57804520-57804520p.V286V2
chr16:57804546-57804546p.R278W2
chr16:57799532-57799532p.R451C2
chr16:57794781-57794781p.I697V2
chr16:57793712-57793712p.R802W2
chr16:57794238-57794238p.R775C2
chr16:57794976-57794976p.C660C1
chr16:57799526-57799526p.R453W1
chr16:57805333-57805333p.R181H1
chr16:57828979-57828979p.Q83*1

Top
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
# sample   101 1  1 5121 26 7
# mutation   111 1  1 6121 37 9
nonsynonymous SNV   91      6 21 36 9
synonymous SNV   2  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])

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
chr16:57799532p.R312C,KIFC32
chr16:57799480p.R663W,KIFC31
chr16:57805181p.F332C,KIFC31
chr16:57794777p.H34Q,KIFC31
chr16:57829005p.G641V,KIFC31
chr16:57799526p.A329V,KIFC31
chr16:57805259p.R22R,KIFC31
chr16:57794781p.R636C,KIFC31
chr16:57829017p.R314W,KIFC31
chr16:57799530p.R22C,KIFC31

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 KIFC3 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 KIFC3

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

PXDC1,CCDC102A,COL18A1,FAM20C,FHL3,KIFC3,LCAT,
LMNA,MAP7D1,MGAT1,PDLIM2,PDLIM7,PLEKHM2,PPM1F,
PRKCDBP,PTGIR,RAB3IL1,RIN3,SERPINH1,SPHK1,TUBB6
ASCC2,DBNL,EGLN2,EML3,FES,FURIN,INF2,
KANK3,KIFC3,LRFN4,LZTR1,LZTS2,NUCB1,PHLDA3,
PKN1,PPP1R12C,RNH1,RNPEPL1,RPS6KA4,TAOK2,ZDHHC8

BMP1,CERCAM,CFH,CHST15,COL18A1,COL6A2,GNAI2,
KIFC3,LAMB2,LATS2,LEPRE1,LOXL1,MAP7D1,MAPK11,
MMP14,MRC2,NXN,PRKCDBP,SLC12A4,TSPAN4,UBTD1
ABCD1,ANGPTL4,CDR2L,CITED1,DFNA5,FTCD,HOXC11,
KIFC3,MAOB,MGC45800,PHYHIPL,PMP22,RHOBTB2,SEC14L2,
SFRP5,SFXN3,SH3GL1,SLC16A4,SUSD2,TIAM2,TMEM25
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 KIFC3


There's no related Drug.
Top
Cross referenced IDs for KIFC3
* 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