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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 SFTPB
check button Gene summary
Basic gene informationGene symbolSFTPB
Gene namesurfactant protein B
SynonymsPSP-B|SFTB3|SFTP3|SMDP1|SP-B
CytomapUCSC genome browser: 2p12-p11.2
Type of geneprotein-coding
RefGenesNM_000542.3,
NM_198843.2,
Description18 kDa pulmonary-surfactant protein6 kDa proteinpulmonary surfactant-associated protein Bpulmonary surfactant-associated proteolipid SPL(Phe)
Modification date20141207
dbXrefs MIM : 178640
HGNC : HGNC
Ensembl : ENSG00000168878
HPRD : 01523
Vega : OTTHUMG00000130181
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_SFTPB
BioGPS: 6439
PathwayNCI Pathway Interaction Database: SFTPB
KEGG: SFTPB
REACTOME: SFTPB
Pathway Commons: SFTPB
ContextiHOP: SFTPB
ligand binding site mutation search in PubMed: SFTPB
UCL Cancer Institute: SFTPB
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 SFTPBClinical 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 SFTPB

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
LUSC7.85066201714.22632868-6.3756666671.64E-149.35E-14
THCA8.4223925924.6232722533.7991203395.35E-103.24E-09
LUAD11.7599116414.40788233-2.647970695.54E-092.57E-08
KIRC-3.112869438-0.272193049-2.8406763894.38E-162.39E-15
KICH5.788195507-0.4141444936.202341.39E-101.03E-09
KIRP-1.8221187430.608121882-2.4302406250.0001670.000541061


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TissGene-miRNA for SFTPB

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 SFTPB
TissGeneSNV for SFTPB

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.S29FSKCM2
p.S41FSKCM2
p.A45GSTAD1
p.Q57*LUAD1
p.D174NSKCM1
p.E70KSKCM1
p.E298KBLCA1
p.H2PSKCM1
p.E15KREAD1
p.V241LLUSC1
p.P110SSKCM1
p.R276HTGCT1
p.R177QPCPG1
p.R307QCOAD1
p.E44*BLCA1
p.R307QSTAD1
p.A33GSTAD1
p.Q130RSTAD1
p.L393FLIHC1
p.P306LSTAD1
p.D186NSKCM1
p.P191LSKCM1
p.G263VUCS1
p.F100LSKCM1
p.P110LLUAD1
p.R165QLGG1
p.H151YSTAD1
p.V249MSKCM1
p.V338IUCEC1
p.L172ROV1
p.P122SSKCM1
p.H139YSTAD1
p.R165QPCPG1
p.E58KSKCM1
p.R295QSTAD1
p.Q45*LUAD1
p.V237MUCEC1
p.P294LSTAD1
p.A196TBLCA1
p.F88LSKCM1
p.V326IUCEC1
p.Q315*STAD1
p.E345KSKCM1
p.G296VCOAD1
p.D392ELIHC1
p.H2PLGG1
p.D117HBRCA1
p.S328YLUAD1
p.R177QCOAD1
p.D118NUCEC1


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TissGeneCNV for SFTPB

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 SFTPB

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
Chimerdb3.0ChiTaRsNABF877189DPYSL3-SFTPBchr5:146831387chr2:85886076
Chimerdb3.0ChiTaRsNABC020793LYST-SFTPBchr1:236030175chr2:85885378
Chimerdb3.0ChiTaRsNABI821350SFTPB-TPT1chr2:85895312chr13:45914711
Chimerdb3.0ChiTaRsNABF849841SFTPB-SFTPBchr2:85891990chr2:85891998
Chimerdb3.0ChiTaRsNAAY102072ACTR3C-SFTPBchr7:149959438chr2:85885270
Chimerdb3.0ChiTaRsNABM998827SFTPB-ERP27chr2:85886596chr12:15070129
Chimerdb3.0ChiTaRsNABF358274SFTPB-NFKBIZchr2:85888215chr3:101575178
Chimerdb3.0ChiTaRsNABE827604SFTPB-SFTPBchr2:85893869chr2:85894801
Chimerdb3.0ChiTaRsNABF850323SFTPB-AK3chr2:85888881chr9:4719210
Chimerdb3.0TopHat-FusionLUADTCGA-97-A4M3-01ASFTPB-TPT13'UTR-CDSchr2:85886326chr13:45914858
Chimerdb3.0TopHat-FusionLUADTCGA-35-3615-01ASFTPB-TPT13'UTR-CDSchr2:85886357chr13:45913728
Chimerdb3.0TopHat-FusionLUADTCGA-97-8172-01ASFTPB-TPT1CDS-5'UTRchr2:85889163chr13:45915297
Chimerdb3.0TopHat-FusionLUSCTCGA-56-7222-11ASFTPB-SFTPA1CDS-3'UTRchr2:85895321chr10:81374943
Chimerdb3.0TopHat-FusionLUADTCGA-44-2661-11ASFTPB-SFTPCOut-of-Framechr2:85889170chr8:22019355
Chimerdb3.0TopHat-FusionLUADTCGA-50-5930-11ASFTPB-SFTPCOut-of-Framechr2:85889170chr8:22019355
Chimerdb3.0TopHat-FusionLUSCTCGA-51-4081-11ASFTPB-SFTPCOut-of-Framechr2:85889170chr8:22019355


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TissGeneNet for SFTPB

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)
SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (tumor)SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (normal)
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COAD (tumor)COAD (normal)
SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (tumor)SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (normal)
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HNSC (tumor)HNSC (normal)
SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (tumor)SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (normal)
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KICH (tumor)KICH (normal)
SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (tumor)SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (normal)
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KIRC (tumor)KIRC (normal)
SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (tumor)SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (normal)
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KIRP (tumor)KIRP (normal)
SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (tumor)SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (normal)
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LIHC (tumor)LIHC (normal)
SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (tumor)SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (normal)
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LUAD (tumor)LUAD (normal)
SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (tumor)SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (normal)
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LUSC (tumor)LUSC (normal)
SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (tumor)SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (normal)
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PRAD (tumor)PRAD (normal)
SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (tumor)SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (normal)
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STAD (tumor)STAD (normal)
SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (tumor)SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (normal)
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THCA (tumor)THCA (normal)
SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (tumor)SFTPB, RARA, NKX2-1, RARG, FOXF2, CTSH (normal)
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TissGeneProg for SFTPB

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 SFTPB
TissGeneDrug for SFTPB

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 SFTPB

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0035220Respiratory Distress Syndrome, Newborn31BeFree,GAD,RGD
umls:C0035222Respiratory Distress Syndrome, Adult28BeFree,GAD,LHGDN
umls:C0024115Lung diseases26BeFree,CTD_human,GAD,LHGDN,RGD
umls:C1145670Respiratory Failure16BeFree
umls:C0024117Chronic Obstructive Airway Disease14BeFree,GAD,LHGDN
umls:C0476273Respiratory distress9BeFree
umls:C0206062Lung Diseases, Interstitial8BeFree,GAD
umls:C0001418Adenocarcinoma6BeFree
umls:C0006287Bronchopulmonary Dysplasia6BeFree,GAD
umls:C0006012Borderline Personality Disorder5BeFree
umls:C0032285Pneumonia5BeFree,GAD
umls:C0034050Pulmonary Alveolar Proteinosis5BeFree
umls:C0004096Asthma4BeFree,GAD,RGD
umls:C0242379Malignant neoplasm of lung4BeFree,GAD
umls:C0152013Adenocarcinoma of lung (disorder)3BeFree
umls:C0521648Neonatal respiratory failure3BeFree
umls:C0684249Carcinoma of lung3BeFree
umls:C0746102Chronic lung disease3BeFree
umls:C0852283Respiratory Distress Syndrome3GAD
umls:C0007131Non-Small Cell Lung Carcinoma2BeFree
umls:C0019284Diaphragmatic Hernia2CTD_human
umls:C0024121Lung Neoplasms2CTD_human,GAD
umls:C0035204Respiration Disorders2BeFree
umls:C0035235Respiratory Syncytial Virus Infections2BeFree,GAD
umls:C0035242Respiratory Tract Diseases2BeFree
umls:C0243026Sepsis2GAD
umls:C0694549Community acquired pneumonia2BeFree
umls:C3714514Infection2LHGDN
umls:C0000768Congenital Abnormality1BeFree
umls:C0003130Anoxia1GAD
umls:C0004626Pneumonia, Bacterial1RGD
umls:C0006274Bronchiolitis, Viral1GAD
umls:C0007121Bronchogenic Carcinoma1BeFree
umls:C0010674Cystic Fibrosis1LHGDN
umls:C0013990Pathological accumulation of air in tissues1GAD
umls:C0020440Hypercapnia1GAD
umls:C0020459Hyperinsulinism1BeFree
umls:C0020542Pulmonary Hypertension1GAD
umls:C0020630Hypophosphatasia1BeFree
umls:C0027627Neoplasm Metastasis1BeFree
umls:C0028754Obesity1RGD
umls:C0034063Pulmonary Edema1BeFree
umls:C0034067Pulmonary Emphysema1BeFree
umls:C0034069Pulmonary Fibrosis1GAD
umls:C0036421Systemic Scleroderma1BeFree,GAD,LHGDN
umls:C0149782Squamous cell carcinoma of lung1BeFree
umls:C0152021Congenital heart disease1BeFree
umls:C0206682Follicular thyroid carcinoma1BeFree
umls:C0220810Congenital defects1BeFree
umls:C0221757alpha 1-Antitrypsin Deficiency1GAD
umls:C0235833Congenital diaphragmatic hernia1BeFree
umls:C0242706Hyperoxia1RGD
umls:C0264936Secondary pulmonary hypertension1BeFree
umls:C0265783Congenital hypoplasia of lung1BeFree
umls:C0376358Malignant neoplasm of prostate1BeFree
umls:C0600139Prostate carcinoma1BeFree
umls:C0600260Lung Diseases, Obstructive1BeFree
umls:C0876973Infectious disease of lung1BeFree
umls:C1135361Persistent pulmonary hypertension1BeFree
umls:C1334455Pulmonary Sclerosing Hemangioma1LHGDN
umls:C1800706Idiopathic Pulmonary Fibrosis1BeFree
umls:C1968602Surfactant Metabolism Dysfunction, Pulmonary, 11CLINVAR,CTD_human,ORPHANET,UNIPROT
umls:C2931035Pulmonary alveolar proteinosis, congenital1BeFree
umls:C2931829RDS - infants1BeFree
umls:C3179539Congenital Deficiency of Pulmonary Surfactant Protein B1BeFree
umls:C3711368Surfactant Dysfunction1BeFree
umls:C1968593Respiratory Distress Syndrome In Premature Infants0ORPHANET