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Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

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TissGeneSummary

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TissGeneExp

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TissGene-miRNA

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TissGeneMut: TissGeneSNV, TissGeneCNV, and TissGeneFusions

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TissGeneNet

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TissGeneProg

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TissGeneClin: TissGeneDrug and TissGeneDisease

TissGeneSummary for CCNA1
check button Gene summary
Basic gene informationGene symbolCCNA1
Gene namecyclin A1
SynonymsCT146
CytomapUCSC genome browser: 13q12.3-q13
Type of geneprotein-coding
RefGenesNM_001111045.1,
NM_001111046.1,NM_001111047.1,NM_003914.3,
Descriptioncyclin-A1
Modification date20141207
dbXrefs MIM : 604036
HGNC : HGNC
Ensembl : ENSG00000133101
HPRD : 04946
Vega : OTTHUMG00000016733
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CCNA1
BioGPS: 8900
PathwayNCI Pathway Interaction Database: CCNA1
KEGG: CCNA1
REACTOME: CCNA1
Pathway Commons: CCNA1
ContextiHOP: CCNA1
ligand binding site mutation search in PubMed: CCNA1
UCL Cancer Institute: CCNA1
Assigned class in TissGDB*C
Included tissue-specific gene expression resourcesTiGER,GTEx
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx)Bone marrowTestis
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)LAMLTGCT
Reference showing the relevant tissue of CCNA1
Description by TissGene annotations
* Class A consists of genes with literature evidence and is part of the cTissGenes. Class B consists of only cTissGenes without additional evidence. The remaining genes belong to Class C.

check button Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO IDGO termPubMed ID


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TissGeneExp for CCNA1

check button Gene expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
gene exp


check button Gene isoform expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA pan-cancer tcga_rsem_isoform_tpm, version 2016-09-01)
gene isoform exp


check button Gene expressions across normal tissues of GTEx data
(GTEx GTEx_Analysis_v6_RNA-seq_RNA-SeQCv1.1.8_gene_rpkm.gct)
- Here, we shows the matched tissue types only among our 28 cancer types.
normal gene exp


check button Different expressions across 14 cancer types with more than 10 samples between matched tumors and normals (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
DEG exp

- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05)
Cancer typeMean(exp) in tumorMean(exp) in matched normalLog2FCP-val.FDR
HNSC2.9855424450.6972122132.2883302331.83E-059.78E-05
THCA0.766071968-1.2738466762.0399186441.10E-096.31E-09
KIRC-2.329671605-1.174520216-1.1551513891.72E-074.71E-07
STAD-2.772939314-1.282270564-1.490668755.43E-071.00E-05
LUAD-0.4227234731.057036872-1.4797603450.0002130.000509338
COAD-2.946023208-1.760669362-1.1853538460.000110.000395098


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TissGene-miRNA for CCNA1

check button Significantly anti-correlated miRNAs of TissGene across 28 cancer types
(Gene-miRNA relations from TargetScanHuman Relsease 7.1, Conserved_Site_Context_Scores.txt.zip, 06.01.2016)
(TCGA IlluminaHiSeq_miRNASeq, log2(RPM+1) data, version 2016-11-21)
(TCGA IlluminaHiSeq_RNASeqV2, log2(normalized_count+1) data, version 2016-08-16)
(Spearman’s Rank Correlation (p-value<0.05 and coefficient<-0.25))
Cancer typemiRNA idmiRNA accessionP-val.Coeff.# samples


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TissGeneMut for CCNA1
TissGeneSNV for CCNA1

check button nsSNV counts per each loci.
Different colors of circles represent different cancer types. Circle size denotes number of samples.
(TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25)

* Click on the image to enlarge it in a new window.
SNV lollipop
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check button Somatic nucleotide variants of TissGene across 28 cancer types
(X-axis: cancer type and Y-axis: % of mutated samples)
The numbers in parentheses are numbers of samples with mutation (nsSNVs).
(TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25)
SNV distribution

- nsSNVs sorted by frequency.
AAchangeCancer type# samples
p.V315ICOAD2
p.D315NSKCM2
p.S13FCOAD1
p.D139NSKCM1
p.H426YSKCM1
p.V358IHNSC1
p.E26KSTAD1
p.D377HLUAD1
p.S415*UCEC1
p.L462FSKCM1
p.M138ISKCM1
p.M326VSKCM1
p.Y22NCOAD1
p.S110PLIHC1
p.G16WTHYM1
p.Q437KSKCM1
p.Q350*CESC1
p.R353QESCA1
p.G289ESKCM1
p.G27ESKCM1
p.R360KSTAD1
p.T240MUCEC1
p.Q36HCOAD1
p.L228MCOAD1
p.A112DHNSC1
p.E2DLUAD1
p.P377AHNSC1
p.R278QCOAD1
p.R354QESCA1
p.A65GLIHC1
p.E43GHNSC1
p.K449RSTAD1
p.P79LSKCM1
p.H383YSKCM1
p.L200IESCA1
p.I303MSTAD1
p.P115AHNSC1
p.W360RLGG1
p.R50MCOAD1
p.T315NLUAD1
p.E406ASTAD1
p.D249VSTAD1
p.E300KSKCM1
p.L122HESCA1
p.C452YOV1
p.E42GHNSC1
p.G41WCOAD1
p.D376HLUAD1
p.P79SSKCM1
p.G27RSKCM1
p.S108TGBM1
p.R94WCESC1
p.E213AHNSC1
p.R359SLUAD1
p.M455ISKCM1
p.L305FSKCM1
p.R244HUCEC1
p.D272NSKCM1
p.T264AUCEC1
p.K233QSKCM1
p.R146KSKCM1
p.T70PSTAD1
p.G255VLUAD1
p.V357MPAAD1
p.P73TOV1
p.V186IBLCA1
p.D316NSKCM1
p.Q132KSARC1
p.L121HESCA1
p.I104SUCS1
p.L411FSKCM1
p.G254VLUAD1
p.T320ASTAD1
p.L190IPAAD1
p.L454FSKCM1
p.S13CHNSC1
p.P140SSKCM1
p.V187IBLCA1
p.D273NSKCM1
p.V254GLUAD1
p.L386VLUAD1
p.P378AHNSC1
p.R61XREAD1
p.P304SSKCM1
p.P183SSKCM1
p.R360SLUSC1
p.L191IPAAD1
p.T69PSTAD1
p.T314NLUAD1
p.L385VLUAD1
p.F336YBLCA1
p.K259ELIHC1
p.K234TSTAD1
p.Y10CREAD1
p.V359IHNSC1
p.T407NBRCA1
p.T101RSKCM1
p.E309KSKCM1
p.S48NPAAD1
p.E26KPRAD1
p.M95ISKCM1
p.S107FBLCA1
p.P122SSKCM1
p.I103SUCS1
p.E170XCOAD1
p.R261*UCEC1
p.P122LSKCM1
p.M412ISKCM1
p.P114AHNSC1
p.V356MPAAD1
p.Q355HUCEC1
p.W403RLGG1
p.L348FSKCM1


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TissGeneCNV for CCNA1

check button Copy number variations of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of CNV samples)
(TCGA Gistic2_CopyNumber_Gistic2_all_data_by_genes, Gistic2 copy number data, version 2016-08-16)
CNV


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TissGeneFusions for CCNA1

check button Fusion genes including TissGene
(ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01)
DatabaseSrcCancer typeSampleFusion geneORF5'-gene BP3'-gene BP


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TissGeneNet for CCNA1

check button Co-expressed gene networks based on protein-protein interaction data (CePIN)
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(PINA2 ppi data)
BRCA (tumor)BRCA (normal)
CCNA1, KIAA0101, SRC, MCM3, CDK2, TCF4, MCM2, PARK2, MCM4, PGR, PAICS, CDT1, MTHFD1, CKS2, USP2, CDC20, CUX1, TGFB1I1, XPO5, OAT, KLHDC9 (tumor)CCNA1, CUL1, MCM3, SKP2, HIST1H1B, ARID2, PGR, MCM6, USP2, MYBL2, CDC25A, HIST1H1A, CDC20, ACAT2, ACLY, GOT2, XPO5, CABLES1, KLHDC9, CKS1B, STOML2 (normal)
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COAD (tumor)COAD (normal)
CCNA1, COPS6, PPP1CA, CDKN1A, SRC, VHL, CUL1, TCF4, PARK2, PSMD6, MCC, PGR, NPAT, CDT1, USP2, MYBL2, TUFM, TGFB1I1, CABLES1, ATXN2L, LARP4B (tumor)CCNA1, BRCA1, KIAA0101, E2F1, CDK1, CDK2, TCF4, LRPPRC, MCC, PGR, PAICS, CDT1, CKS2, LRRC59, CDC25A, TUFM, CDC20, TGFB1I1, GOT2, CKS1B, STOML2 (normal)
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HNSC (tumor)HNSC (normal)
CCNA1, KIAA1967, BRCA1, CDKN1A, SP1, RBL2, VHL, CUL1, EP300, SKP2, MCM4, TRIM28, RB1, ARID2, CSNK1E, RPA1, RBL1, CDKN1B, MTHFD1, ACAT2, PROCA1 (tumor)CCNA1, KIAA1967, BRCA1, KIAA0101, E2F1, MCM3, CDK1, MCM2, SEC13, MCC, CDKN1B, MCM6, CDT1, LRRC59, USP2, CDC25A, ACLY, GOT2, XPO5, CABLES1, PROCA1 (normal)
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KICH (tumor)KICH (normal)
CCNA1, BRCA1, CDKN1A, E2F1, CDK2, MCM2, LRPPRC, SEC13, MCM4, RB1, PPP2CB, PGR, CSNK1E, CDKN1B, NPAT, MTHFD1, CUX1, OAT, INCA1, RBM4, STOML2 (tumor)CCNA1, CDKN1A, SRC, CUL1, COPS5, MCM2, SEC13, PSMD6, GNB2L1, PAICS, CKS2, CDC20, CUX1, XPO5, CABLES1, OAT, RBM4, ATXN2L, STOML2, LARP4B, VPS18 (normal)
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KIRC (tumor)KIRC (normal)
CCNA1, CDKN1A, KIAA0101, CDK1, CDK2, TCF4, MCM2, PARK2, RB1, PPP2CB, PAICS, MCM6, MTHFD1, FZR1, LRRC59, USP2, XRCC6, CUX1, CAPZA1, GPS2, CKS1B (tumor)CCNA1, SRC, E2F1, CDK1, CDK2, MCM2, LRPPRC, CSNK1D, PARK2, SEC13, PSMD6, HIST1H1B, MCM4, TRIM28, CDT1, CKS2, MYBL2, CDC25A, CDC20, ACLY, CABLES1 (normal)
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KIRP (tumor)KIRP (normal)
CCNA1, CDKN1A, RBL2, CDK1, CDK2, LRPPRC, PARK2, RB1, PPP2CB, MCM6, NPAT, MTHFD1, LRRC59, CDC25A, TUFM, CDC20, XRCC6, CAPZA1, GOT2, PFAS, STOML2 (tumor)CCNA1, COPS6, MCM3, TCF4, LRPPRC, SEC13, EP300, TRIM28, RB1, ARID2, PGR, CSNK1E, CDKN1B, MTHFD1, USP2, TUFM, CUX1, ACLY, GOT2, GPS2, LARP4B (normal)
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LIHC (tumor)LIHC (normal)
CCNA1, SRC, GANAB, COPS5, PARK2, SKP2, EIF3I, APEX1, RB1, CSNK1E, MCM6, MTHFD1, HIST1H1A, TUFM, CUX1, CAPZA1, GPS2, INCA1, RBM4, ATXN2L, PROCA1 (tumor)CCNA1, KIAA1967, KIAA0101, SRC, CDK1, CDK2, TCF4, TRIM28, RB1, PGR, CSNK1E, RPA1, NPAT, MTHFD1, MYBL2, TGFB1I1, CAPZA1, ACLY, GOT2, ATXN2L, LARP4B (normal)
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LUAD (tumor)LUAD (normal)
CCNA1, COPS6, KIAA1967, BRCA1, CDKN1A, CUL1, CDK2, TCF4, MCM2, LRPPRC, HIST1H1B, MCM4, RPA1, PAICS, SRY, USP2, TGFB1I1, OAT, KLHDC9, CKS1B, PROCA1 (tumor)CCNA1, CDKN1A, TCF4, LRPPRC, PTK2, CSNK1D, PARK2, MCC, PPP2CB, PGR, FZR1, USP2, TGFB1I1, ACLY, PFAS, XPO5, CABLES1, OAT, RBM4, LARP4B, VPS18 (normal)
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LUSC (tumor)LUSC (normal)
CCNA1, KIAA1967, BRCA1, GANAB, CUL1, LRPPRC, PARK2, PSMD6, EIF3F, TRIM28, GNB2L1, MTHFD1, SRY, USP2, HIST1H1A, CAPZA1, PFAS, CABLES1, OAT, KLHDC9, PROCA1 (tumor)CCNA1, COPS6, CDKN1A, CUL1, TCF4, PTK2, CSNK1D, PSMD6, MCC, HIST1H1B, PPP2CB, RPA1, CKS2, LRRC59, HIST1H1A, GOT2, CABLES1, RBM4, ATXN2L, STOML2, LARP4B (normal)
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PRAD (tumor)PRAD (normal)
CCNA1, PPP1CA, CDKN1A, VHL, GANAB, PTK2, EIF3I, MCM4, TRIM28, GNB2L1, PAICS, RBL1, NPAT, TUFM, CUX1, ACAT2, ACLY, GOT2, CABLES1, RBM4, KLHDC9 (tumor)CCNA1, PPP1CA, CDKN1A, GANAB, CUL1, TCF4, MCC, EIF3I, APEX1, TRIM28, PPP2CB, PGR, GNB2L1, PAICS, MCM6, USP2, CDC25A, TGFB1I1, CABLES1, RBM4, LARP4B (normal)
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STAD (tumor)STAD (normal)
CCNA1, KIAA0101, E2F1, CUL1, CDK1, TCF4, MCM2, PARK2, MCM4, PGR, CDT1, MTHFD1, MYBL2, CDC25A, TUFM, CDC20, TGFB1I1, ACAT2, CABLES1, KLHDC9, LARP4B (tumor)CCNA1, PPP1CA, KIAA0101, E2F1, MCM3, CDK1, TCF4, PARK2, MCC, MCM4, PGR, PAICS, CDT1, MTHFD1, USP2, MYBL2, CDC25A, TUFM, CDC20, TGFB1I1, ACAT2 (normal)
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THCA (tumor)THCA (normal)
CCNA1, CDKN1A, SP1, KIAA0101, E2F1, GANAB, CUL1, COPS5, CDK2, PTK2, PARK2, PSMD6, HIST1H1B, CKS2, MYBL2, CDC20, CUX1, CABLES1, RBM4, LARP4B, PROCA1 (tumor)CCNA1, CDKN1A, SRC, CDK2, TCF4, PARK2, MCM4, APEX1, PGR, CSNK1E, MCM6, CKS2, USP2, MYBL2, CDC25A, XRCC6, CUX1, TGFB1I1, CAPZA1, GOT2, CABLES1 (normal)
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TissGeneProg for CCNA1

check button Kaplan-Meier plots with logrank tests of overall survival (OS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image to enlarge it in a new window.
survival 1

check button Kaplan-Meier plots with logrank test of relapse free survival (RFS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 2

check button Forest plot of Cox proportional hazard ratio (HR) and 95% CI of overall survival (OS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 3

check button Forest plot of Cox proportional hazard ratio (HR) and 95% CI of relapse free survival (RFS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 4

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TissGeneClin for CCNA1
TissGeneDrug for CCNA1

check button Drug information targeting TissGene
(DrugBank Version 5.0.6, 2017-04-01)
DrugBank IDDrug nameDrug activityDrug typeDrug status


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TissGeneDisease for CCNA1

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0023467Leukemia, Myelocytic, Acute11BeFree
umls:C0007847Malignant tumor of cervix8BeFree
umls:C0302592Cervix carcinoma8BeFree
umls:C0023418leukemia7BeFree,LHGDN
umls:C1168401Squamous cell carcinoma of the head and neck5BeFree,CTD_human
umls:C0007137Squamous cell carcinoma3BeFree
umls:C0027627Neoplasm Metastasis3BeFree
umls:C0376358Malignant neoplasm of prostate3BeFree
umls:C0596263Carcinogenesis3BeFree
umls:C0600139Prostate carcinoma3BeFree
umls:C0678222Breast Carcinoma3BeFree
umls:C1334177Infiltrating Cervical Carcinoma3BeFree
umls:C0004509Azoospermia2BeFree
umls:C0006142Malignant neoplasm of breast2BeFree
umls:C0009402Colorectal Carcinoma2BeFree
umls:C0023449Acute lymphocytic leukemia2BeFree
umls:C0033578Prostatic Neoplasms2BeFree,LHGDN
umls:C0153594Malignant neoplasm of testis2BeFree
umls:C0333875High-Grade Squamous Intraepithelial Lesions2BeFree
umls:C0598766Leukemogenesis2BeFree
umls:C0684249Carcinoma of lung2BeFree
umls:C0751688Malignant Squamous Cell Neoplasm2BeFree
umls:C1302773Low Grade Squamous Intraepithelial Neoplasia2BeFree
umls:C1527249Colorectal Cancer2BeFree
umls:C1961102Precursor Cell Lymphoblastic Leukemia Lymphoma2BeFree
umls:C0005684Malignant neoplasm of urinary bladder1BeFree
umls:C0005695Bladder Neoplasm1BeFree
umls:C0007134Renal Cell Carcinoma1BeFree
umls:C0007868Cervical dysplasia1BeFree
umls:C0018939Hematological Disease1BeFree
umls:C0019693HIV Infections1BeFree
umls:C0021364Male infertility1BeFree,GAD
umls:C0023464Acute biphenotypic leukemia1BeFree
umls:C0023473Myeloid Leukemia, Chronic1BeFree
umls:C0023890Liver Cirrhosis1BeFree
umls:C0026764Multiple Myeloma1BeFree
umls:C0035369Retroviridae Infections1BeFree
umls:C0206708Cervical Intraepithelial Neoplasia1BeFree
umls:C0238461Anaplastic thyroid carcinoma1BeFree
umls:C0242379Malignant neoplasm of lung1BeFree
umls:C0278996Cancer of Head and Neck1BeFree
umls:C0349459Cervical intraepithelial neoplasia grade 21BeFree
umls:C0376545Hematologic Neoplasms1BeFree
umls:C0686619Secondary malignant neoplasm of lymph node1BeFree
umls:C0699885Carcinoma of bladder1BeFree
umls:C0855197Testicular malignant germ cell tumor1BeFree
umls:C0950124Papillomavirus Infections1CTD_human
umls:C1140680Malignant neoplasm of ovary1GAD
umls:C1332922Cervical Squamous Intraepithelial Neoplasia1BeFree
umls:C1334011High Grade Cervical Intraepithelial Neoplasia1BeFree
umls:C1384583Congenital absence of germinal epithelium of testes1BeFree
umls:C1458155Mammary Neoplasms1BeFree
umls:C1561955Fibrinogen Adverse Event1GAD
umls:C1623038Cirrhosis1BeFree
umls:C2239176Liver carcinoma1CTD_human
umls:C2931822Nasopharyngeal carcinoma1BeFree