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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 SFTPC
check button Gene summary
Basic gene informationGene symbolSFTPC
Gene namesurfactant protein C
SynonymsBRICD6|PSP-C|SFTP2|SMDP2|SP-C
CytomapUCSC genome browser: 8p21
Type of geneprotein-coding
RefGenesNM_001172357.1,
NM_001172410.1,NM_003018.3,
DescriptionBRICHOS domain containing 6SP5pulmonary surfactant apoprotein-2 SP-Cpulmonary surfactant-associated protein Cpulmonary surfactant-associated proteolipid SPL(Val)
Modification date20141219
dbXrefs MIM : 178620
HGNC : HGNC
Ensembl : ENSG00000168484
HPRD : 01520
Vega : OTTHUMG00000163775
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_SFTPC
BioGPS: 6440
PathwayNCI Pathway Interaction Database: SFTPC
KEGG: SFTPC
REACTOME: SFTPC
Pathway Commons: SFTPC
ContextiHOP: SFTPC
ligand binding site mutation search in PubMed: SFTPC
UCL Cancer Institute: SFTPC
Assigned class in TissGDB*A
Included tissue-specific gene expression resourcesHPA,TiGER,GTEx
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx)Lung
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)LUAD,LUSC
Reference showing the relevant tissue of SFTPCClinical and ultrastructural spectrum of diffuse lung disease associated with surfactant protein C mutations. Peca D, Boldrini R, Johannson J, Shieh JT, Citti A, Petrini S, Salerno T, Cazzato S, Testa R, Messina F, Onofri A, Cenacchi G, Westermark P, Ullmann N, Cogo P, Cutrera R, Danhaive O. Eur J Hum Genet. 2015 Aug;23(8):1033-41. doi: 10.1038/ejhg.2015.45. Epub 2015 Mar 18 (pmid:25782673)
go to article
Description by TissGene annotationsCancer gene
* 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 SFTPC

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
LUSC6.35237984816.73739357-10.385013731.39E-212.07E-20
LUAD8.91046646117.01324405-8.1027775869.29E-191.46E-17
THCA0.6276466483.063304275-2.4356576271.60E-111.18E-10
KICH-0.726338505-1.8429545051.1166160.004770.0090865


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TissGene-miRNA for SFTPC

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 SFTPC
TissGeneSNV for SFTPC

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.P13LHNSC1
p.A92TSARC1
p.A78GHNSC1
p.M67ISKCM1
p.R23QCOAD1
p.S180NCOAD1
p.E185KSKCM1
p.G4SLUAD1
p.A75VCOAD1
p.C121RSTAD1
p.D162NLUAD1
p.T138NCOAD1
p.V96IGBM1
p.V179MPAAD1
p.R84CGBM1
p.S17FBLCA1
p.M56ITHYM1
p.P30SPAAD1
p.P117RCOAD1
p.V150LLGG1
p.V185MPAAD1
p.E135DCESC1


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TissGeneCNV for SFTPC

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 SFTPC

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
Chimerdb3.0ChiTaRsNABQ016733SFTPC-SFTPCchr8:22021987chr8:22021792
Chimerdb3.0ChiTaRsNABF845787SFTPC-CGNchr8:22020159chr1:151497469
Chimerdb3.0ChiTaRsNABF875520PDPK1-SFTPCchr16:2604843chr8:22019315
Chimerdb3.0ChiTaRsNABG529836C15orf57-SFTPCchr15:40824415chr8:22021513
Chimerdb3.0ChiTaRsNAAI336345RGMA-SFTPCchr15:93587025chr8:22020597
Chimerdb3.0TopHat-FusionLUSCTCGA-56-7222-11ASFTPC-SFTPA23'UTR-CDSchr8:22021943chr10:81317006
Chimerdb3.0TopHat-FusionLUSCTCGA-22-5472-11ASFTPC-SFTPA1In-Framechr8:22021464chr10:81373772
Chimerdb3.0TopHat-FusionLUSCTCGA-51-4080-11ASFTPC-CD68Out-of-Framechr8:22020192chr17:7483251


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TissGeneNet for SFTPC

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)
SFTPC, WWP2, NEDD4, WWP1, PQBP1 (tumor)SFTPC, WWP2, NEDD4, WWP1, PQBP1 (normal)
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COAD (tumor)COAD (normal)
SFTPC, WWP2, NEDD4, WWP1, PQBP1 (tumor)SFTPC, WWP2, NEDD4, WWP1, PQBP1 (normal)
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HNSC (tumor)HNSC (normal)
SFTPC, WWP2, NEDD4, WWP1, PQBP1 (tumor)SFTPC, WWP2, NEDD4, WWP1, PQBP1 (normal)
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KICH (tumor)KICH (normal)
SFTPC, WWP2, NEDD4, WWP1, PQBP1 (tumor)SFTPC, WWP2, NEDD4, WWP1, PQBP1 (normal)
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KIRC (tumor)KIRC (normal)
SFTPC, WWP2, NEDD4, WWP1, PQBP1 (tumor)SFTPC, WWP2, NEDD4, WWP1, PQBP1 (normal)
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KIRP (tumor)KIRP (normal)
SFTPC, WWP2, NEDD4, WWP1, PQBP1 (tumor)SFTPC, WWP2, NEDD4, WWP1, PQBP1 (normal)
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LIHC (tumor)LIHC (normal)
SFTPC, WWP2, NEDD4, WWP1, PQBP1 (tumor)SFTPC, WWP2, NEDD4, WWP1, PQBP1 (normal)
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LUAD (tumor)LUAD (normal)
SFTPC, WWP2, NEDD4, WWP1, PQBP1 (tumor)SFTPC, WWP2, NEDD4, WWP1, PQBP1 (normal)
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LUSC (tumor)LUSC (normal)
SFTPC, WWP2, NEDD4, WWP1, PQBP1 (tumor)SFTPC, WWP2, NEDD4, WWP1, PQBP1 (normal)
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PRAD (tumor)PRAD (normal)
SFTPC, WWP2, NEDD4, WWP1, PQBP1 (tumor)SFTPC, WWP2, NEDD4, WWP1, PQBP1 (normal)
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STAD (tumor)STAD (normal)
SFTPC, WWP2, NEDD4, WWP1, PQBP1 (tumor)SFTPC, WWP2, NEDD4, WWP1, PQBP1 (normal)
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THCA (tumor)THCA (normal)
SFTPC, WWP2, NEDD4, WWP1, PQBP1 (tumor)SFTPC, WWP2, NEDD4, WWP1, PQBP1 (normal)
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TissGeneProg for SFTPC

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 SFTPC
TissGeneDrug for SFTPC

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 SFTPC

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0206062Lung Diseases, Interstitial36BeFree,GAD,LHGDN
umls:C0024115Lung diseases19BeFree,GAD,LHGDN
umls:C0034069Pulmonary Fibrosis14BeFree,GAD
umls:C0035220Respiratory Distress Syndrome, Newborn13BeFree,GAD,RGD
umls:C1800706Idiopathic Pulmonary Fibrosis12BeFree,CTD_human,ORPHANET
umls:C0035222Respiratory Distress Syndrome, Adult10BeFree
umls:C0206061Pneumonia, Interstitial7BeFree
umls:C0006287Bronchopulmonary Dysplasia5BeFree,GAD
umls:C0085786Hamman-Rich syndrome5BeFree
umls:C0375023Respiratory syncytial virus (RSV) infection in conditions classified elsewhere and of unspecified site5BeFree
umls:C1970470SURFACTANT METABOLISM DYSFUNCTION, PULMONARY, 2 (disorder)5CLINVAR,CTD_human,ORPHANET,UNIPROT
umls:C0024121Lung Neoplasms4BeFree
umls:C1145670Respiratory Failure4BeFree
umls:C0001418Adenocarcinoma3BeFree
umls:C0032285Pneumonia3BeFree
umls:C0152013Adenocarcinoma of lung (disorder)3BeFree
umls:C0746102Chronic lung disease3BeFree
umls:C0004096Asthma2BeFree,GAD,LHGDN
umls:C0006012Borderline Personality Disorder2BeFree
umls:C0008479Chondrosarcoma2BeFree
umls:C0020542Pulmonary Hypertension2BeFree
umls:C0024117Chronic Obstructive Airway Disease2BeFree,GAD
umls:C0034050Pulmonary Alveolar Proteinosis2BeFree
umls:C0035235Respiratory Syncytial Virus Infections2BeFree,GAD
umls:C0476273Respiratory distress2BeFree
umls:C0521648Neonatal respiratory failure2BeFree
umls:C0746105Chronic interstitial lung disease2BeFree
umls:C1290344Nonspecific interstitial pneumonia2BeFree
umls:C2350236Idiopathic Interstitial Pneumonias2BeFree
umls:C2931829RDS - infants2BeFree
umls:C3711368Surfactant Dysfunction2BeFree
umls:C0004626Pneumonia, Bacterial1RGD
umls:C0006274Bronchiolitis, Viral1GAD
umls:C0007131Non-Small Cell Lung Carcinoma1BeFree
umls:C0010633Cystadenoma1BeFree
umls:C0016059Fibrosis1LHGDN
umls:C0019284Diaphragmatic Hernia1CTD_human
umls:C0020459Hyperinsulinism1BeFree
umls:C0023795Lipoid Proteinosis of Urbach and Wiethe1BeFree
umls:C0027627Neoplasm Metastasis1BeFree
umls:C0032460Polycystic Ovary Syndrome1CTD_human
umls:C0034063Pulmonary Edema1BeFree
umls:C0034067Pulmonary Emphysema1GAD
umls:C0035126Reperfusion Injury1RGD
umls:C0035204Respiration Disorders1BeFree
umls:C0035242Respiratory Tract Diseases1BeFree
umls:C0042769Virus Diseases1BeFree
umls:C0149725Lower respiratory tract infection1BeFree
umls:C0149925Small cell carcinoma of lung1BeFree
umls:C0152171Idiopathic pulmonary hypertension1BeFree
umls:C0153676Secondary malignant neoplasm of lung1BeFree
umls:C0221227Centriacinar Emphysema1BeFree
umls:C0235833Congenital diaphragmatic hernia1BeFree
umls:C0242706Hyperoxia1RGD
umls:C0278504Non-small cell lung cancer stage I1BeFree
umls:C0394006Dysequilibrium syndrome1BeFree
umls:C0555214Multiple lung cysts1BeFree
umls:C0596263Carcinogenesis1BeFree
umls:C0600260Lung Diseases, Obstructive1BeFree
umls:C0751071Familial Dementia1BeFree
umls:C0876973Infectious disease of lung1BeFree
umls:C1135361Persistent pulmonary hypertension1BeFree
umls:C1301752Respiratory morbidity1BeFree
umls:C1566302Preterm Premature Rupture of Fetal Membranes1BeFree
umls:C2973725Pulmonary arterial hypertension1BeFree
umls:C3714514Infection1LHGDN
umls:C3714636Pneumonitis1BeFree
umls:C3714844Pulmonary Hypertension, Primary, 1, With Hereditary Hemorrhagic Telangiectasia1BeFree
umls:C0238378Desquamative interstitial pneumonia0MGD,ORPHANET
umls:C1968593Respiratory Distress Syndrome In Premature Infants0ORPHANET
umls:C1968602Surfactant Metabolism Dysfunction, Pulmonary, 10CTD_human