Atlas of Genetics and Cytogenetics in Oncology and Haematology

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TNFSF13B (TNF superfamily member 13b)

Identity

Alias_namesTNFSF20
tumor necrosis factor (ligand) superfamily
Alias_symbol (synonym)BAFF
THANK
BLYS
TALL-1
TALL1
CD257
Other aliasDTL
TNLG7A
ZTNF4
HGNC (Hugo) TNFSF13B
LocusID (NCBI) 10673
Atlas_Id 42636
Location 13q33.3  [Link to chromosome band 13q33]
Location_base_pair Starts at 108269629 and ends at 108308484 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)		Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
TNFSF13B (13q33.3) / MYLK (3q21.1)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 2 ]
  Lung: Translocations in Squamous Cell Carcinoma
t(3;13)(q21;q33) TNFSF13B/MYLK

External links

Nomenclature
HGNC (Hugo)TNFSF13B   11929
Cards
Entrez_Gene (NCBI)TNFSF13B  10673  TNF superfamily member 13b
AliasesBAFF; BLYS; CD257; DTL; 
TALL-1; TALL1; THANK; TNFSF20; TNLG7A; ZTNF4
GeneCards (Weizmann)TNFSF13B
Ensembl hg19 (Hinxton)ENSG00000102524 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000102524 [Gene_View]  ENSG00000102524 [Sequence]  chr13:108269629-108308484 [Contig_View]  TNFSF13B [Vega]
ICGC DataPortalENSG00000102524
TCGA cBioPortalTNFSF13B
AceView (NCBI)TNFSF13B
Genatlas (Paris)TNFSF13B
WikiGenes10673
SOURCE (Princeton)TNFSF13B
Genetics Home Reference (NIH)TNFSF13B
Genomic and cartography
GoldenPath hg38 (UCSC)TNFSF13B  -     chr13:108269629-108308484 +  13q33.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)TNFSF13B  -     13q33.3   [Description]    (hg19-Feb_2009)
EnsemblTNFSF13B - 13q33.3 [CytoView hg19]  TNFSF13B - 13q33.3 [CytoView hg38]
Mapping of homologs : NCBITNFSF13B [Mapview hg19]  TNFSF13B [Mapview hg38]
OMIM603969   
Gene and transcription
Genbank (Entrez)AF116456 AF132600 AF134715 AF136293 AF186114
RefSeq transcript (Entrez)NM_001145645 NM_006573
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)TNFSF13B
Cluster EST : UnigeneHs.525157 [ NCBI ]
CGAP (NCI)Hs.525157
Alternative Splicing GalleryENSG00000102524
Gene ExpressionTNFSF13B [ NCBI-GEO ]   TNFSF13B [ EBI - ARRAY_EXPRESS ]   TNFSF13B [ SEEK ]   TNFSF13B [ MEM ]
Gene Expression Viewer (FireBrowse)TNFSF13B [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)10673
GTEX Portal (Tissue expression)TNFSF13B
Human Protein AtlasENSG00000102524-TNFSF13B [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9Y275   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9Y275  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9Y275
Splice isoforms : SwissVarQ9Y275
PhosPhoSitePlusQ9Y275
Domaine pattern : Prosite (Expaxy)TNF_2 (PS50049)   
Domains : Interpro (EBI)TNF_dom    Tumour_necrosis_fac-like_dom   
Domain families : Pfam (Sanger)TNF (PF00229)   
Domain families : Pfam (NCBI)pfam00229   
Conserved Domain (NCBI)TNFSF13B
DMDM Disease mutations10673
Blocks (Seattle)TNFSF13B
PDB (SRS)1JH5    1KD7    1KXG    1OQD    1OQE    1OSG    3V56    4V46    4ZCH    5Y9J    6ERX   
PDB (PDBSum)1JH5    1KD7    1KXG    1OQD    1OQE    1OSG    3V56    4V46    4ZCH    5Y9J    6ERX   
PDB (IMB)1JH5    1KD7    1KXG    1OQD    1OQE    1OSG    3V56    4V46    4ZCH    5Y9J    6ERX   
PDB (RSDB)1JH5    1KD7    1KXG    1OQD    1OQE    1OSG    3V56    4V46    4ZCH    5Y9J    6ERX   
Structural Biology KnowledgeBase1JH5    1KD7    1KXG    1OQD    1OQE    1OSG    3V56    4V46    4ZCH    5Y9J    6ERX   
SCOP (Structural Classification of Proteins)1JH5    1KD7    1KXG    1OQD    1OQE    1OSG    3V56    4V46    4ZCH    5Y9J    6ERX   
CATH (Classification of proteins structures)1JH5    1KD7    1KXG    1OQD    1OQE    1OSG    3V56    4V46    4ZCH    5Y9J    6ERX   
SuperfamilyQ9Y275
Human Protein Atlas [tissue]ENSG00000102524-TNFSF13B [tissue]
Peptide AtlasQ9Y275
HPRD04914
IPIIPI00031802   IPI00923520   IPI01010535   
Protein Interaction databases
DIP (DOE-UCLA)Q9Y275
IntAct (EBI)Q9Y275
FunCoupENSG00000102524
BioGRIDTNFSF13B
STRING (EMBL)TNFSF13B
ZODIACTNFSF13B
Ontologies - Pathways
QuickGOQ9Y275
Ontology : AmiGOB cell homeostasis  positive regulation of germinal center formation  signaling receptor binding  cytokine activity  tumor necrosis factor receptor binding  protein binding  extracellular region  extracellular space  cytoplasm  plasma membrane  immune response  signal transduction  cell proliferation  positive regulation of cell proliferation  regulation of signaling receptor activity  integral component of membrane  positive regulation of B cell proliferation  T cell costimulation  B cell costimulation  tumor necrosis factor-mediated signaling pathway  positive regulation of T cell proliferation  immunoglobulin secretion  perinuclear region of cytoplasm  
Ontology : EGO-EBIB cell homeostasis  positive regulation of germinal center formation  signaling receptor binding  cytokine activity  tumor necrosis factor receptor binding  protein binding  extracellular region  extracellular space  cytoplasm  plasma membrane  immune response  signal transduction  cell proliferation  positive regulation of cell proliferation  regulation of signaling receptor activity  integral component of membrane  positive regulation of B cell proliferation  T cell costimulation  B cell costimulation  tumor necrosis factor-mediated signaling pathway  positive regulation of T cell proliferation  immunoglobulin secretion  perinuclear region of cytoplasm  
Pathways : KEGGCytokine-cytokine receptor interaction    NF-kappa B signaling pathway    Intestinal immune network for IgA production    Rheumatoid arthritis   
NDEx NetworkTNFSF13B
Atlas of Cancer Signalling NetworkTNFSF13B
Wikipedia pathwaysTNFSF13B
Orthology - Evolution
OrthoDB10673
GeneTree (enSembl)ENSG00000102524
Phylogenetic Trees/Animal Genes : TreeFamTNFSF13B
HOVERGENQ9Y275
HOGENOMQ9Y275
Homologs : HomoloGeneTNFSF13B
Homology/Alignments : Family Browser (UCSC)TNFSF13B
Gene fusions - Rearrangements
Fusion : MitelmanTNFSF13B/MYLK [13q33.3/3q21.1]  
Fusion : QuiverTNFSF13B
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerTNFSF13B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TNFSF13B
dbVarTNFSF13B
ClinVarTNFSF13B
1000_GenomesTNFSF13B 
Exome Variant ServerTNFSF13B
ExAC (Exome Aggregation Consortium)ENSG00000102524
GNOMAD BrowserENSG00000102524
Varsome BrowserTNFSF13B
Genetic variants : HAPMAP10673
Genomic Variants (DGV)TNFSF13B [DGVbeta]
DECIPHERTNFSF13B [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisTNFSF13B 
Mutations
ICGC Data PortalTNFSF13B 
TCGA Data PortalTNFSF13B 
Broad Tumor PortalTNFSF13B
OASIS PortalTNFSF13B [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICTNFSF13B  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDTNFSF13B
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch TNFSF13B
DgiDB (Drug Gene Interaction Database)TNFSF13B
DoCM (Curated mutations)TNFSF13B (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)TNFSF13B (select a term)
intoGenTNFSF13B
Cancer3DTNFSF13B(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM603969   
Orphanet
DisGeNETTNFSF13B
MedgenTNFSF13B
Genetic Testing Registry TNFSF13B
NextProtQ9Y275 [Medical]
TSGene10673
GENETestsTNFSF13B
Target ValidationTNFSF13B
Huge Navigator TNFSF13B [HugePedia]
snp3D : Map Gene to Disease10673
BioCentury BCIQTNFSF13B
ClinGenTNFSF13B
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD10673
Chemical/Pharm GKB GenePA434
Clinical trialTNFSF13B
Miscellaneous
canSAR (ICR)TNFSF13B (select the gene name)
Probes
Litterature
PubMed380 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineTNFSF13B
EVEXTNFSF13B
GoPubMedTNFSF13B
iHOPTNFSF13B
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Aug 27 11:58:20 CEST 2018
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