Atlas of Genetics and Cytogenetics in Oncology and Haematology


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Taking over the Atlas
Dear Colleagues,
The Atlas, once more, is in great danger, and I will have to proceed to a collective economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas). I ask you herein if any Scientific Society (a Society of Cytogenetics, of Clinical Genetics, of Hematology, or a Cancer Society, or any other...), any University and/or Hospital, any Charity, or any database would be interested in taking over the Atlas, in whole or in part. If taking charge of the whole lot is too big, a consortium of various actors could be the solution (I am myself trying to find partners). Could you please spread the information, contact the relevant authorities, and find partners.
Survival of the Atlas will be critically dependant upon your ability to find solutions (and urgently!).
Kind regards.
Jean-Loup Huret jlhuret@AtlasGeneticsOncology.org
Donations are also welcome
If each casual visitor gives 3 Euros or Dollars, the Atlas is saved in a week !
If each professional gives 100 Euros or Dollars once a year (now), the Atlas is saved in 2 weeks !
Don't let the Atlas imminent demise
Note: we send fiscal receipts for donations equal or above 50 Euros or Dollars

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BGN (biglycan)

Identity

Other namesDSPG1
PG-S1
PGI
SLRR1A
HGNC (Hugo) BGN
LocusID (NCBI) 633
Location Xq28
Location_base_pair Starts at 152760347 and ends at 152775004 bp from pter ( according to hg19-Feb_2009)
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

 

External links

Nomenclature
HGNC (Hugo)BGN   1044
Cards
Entrez_Gene (NCBI)BGN  633  biglycan
GeneCards (Weizmann)BGN
Ensembl hg19 (Hinxton)ENSG00000182492 [Gene_View]  chrX:152760347-152775004 [Contig_View]  BGN [Vega]
Ensembl hg38 (Hinxton)ENSG00000182492 [Gene_View]  chrX:152760347-152775004 [Contig_View]  BGN [Vega]
ICGC DataPortalENSG00000182492
cBioPortalBGN
AceView (NCBI)BGN
Genatlas (Paris)BGN
WikiGenes633
SOURCE (Princeton)BGN
Genomic and cartography
GoldenPath hg19 (UCSC)BGN  -     chrX:152760347-152775004 +  Xq28   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)BGN  -     Xq28   [Description]    (hg38-Dec_2013)
EnsemblBGN - Xq28 [CytoView hg19]  BGN - Xq28 [CytoView hg38]
Mapping of homologs : NCBIBGN [Mapview hg19]  BGN [Mapview hg38]
OMIM301870   
Gene and transcription
Genbank (Entrez)AI538325 AI570205 AK092954 AK093023 AK094059
RefSeq transcript (Entrez)NM_001711
RefSeq genomic (Entrez)NC_000023 NC_018934 NG_015961 NT_011681 NW_004929448
Consensus coding sequences : CCDS (NCBI)BGN
Cluster EST : UnigeneHs.821 [ NCBI ]
CGAP (NCI)Hs.821
Alternative Splicing : Fast-db (Paris)GSHG0031901
Alternative Splicing GalleryENSG00000182492
Gene ExpressionBGN [ NCBI-GEO ]     BGN [ SEEK ]   BGN [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP21810 (Uniprot)
NextProtP21810  [Medical]
With graphics : InterProP21810
Splice isoforms : SwissVarP21810 (Swissvar)
Domaine pattern : Prosite (Expaxy)LRR (PS51450)   
Domains : Interpro (EBI)Biglycan    Leu-rich_rpt    LRR-contain_N    SLRP_I_decor/aspor/byglycan   
Related proteins : CluSTrP21810
Domain families : Pfam (Sanger)LRR_8 (PF13855)    LRRNT (PF01462)   
Domain families : Pfam (NCBI)pfam13855    pfam01462   
Domain families : Smart (EMBL)LRRNT (SM00013)  
DMDM Disease mutations633
Blocks (Seattle)P21810
Human Protein AtlasENSG00000182492
Peptide AtlasP21810
HPRD02359
IPIIPI00010790   IPI00903084   IPI00909494   IPI00909809   IPI00385748   IPI00639967   IPI00643384   
Protein Interaction databases
DIP (DOE-UCLA)P21810
IntAct (EBI)P21810
FunCoupENSG00000182492
BioGRIDBGN
IntegromeDBBGN
STRING (EMBL)BGN
Ontologies - Pathways
QuickGOP21810
Ontology : AmiGOblood vessel remodeling  extracellular matrix structural constituent  glycosaminoglycan binding  extracellular region  proteinaceous extracellular matrix  Golgi lumen  carbohydrate metabolic process  biological_process  pathogenesis  cell surface  peptide cross-linking via chondroitin 4-sulfate glycosaminoglycan  transport vesicle  extracellular matrix organization  glycosaminoglycan metabolic process  chondroitin sulfate metabolic process  chondroitin sulfate biosynthetic process  chondroitin sulfate catabolic process  dermatan sulfate biosynthetic process  extracellular matrix  extracellular matrix  sarcolemma  lysosomal lumen  small molecule metabolic process  extracellular matrix binding  extracellular exosome  
Ontology : EGO-EBIblood vessel remodeling  extracellular matrix structural constituent  glycosaminoglycan binding  extracellular region  proteinaceous extracellular matrix  Golgi lumen  carbohydrate metabolic process  biological_process  pathogenesis  cell surface  peptide cross-linking via chondroitin 4-sulfate glycosaminoglycan  transport vesicle  extracellular matrix organization  glycosaminoglycan metabolic process  chondroitin sulfate metabolic process  chondroitin sulfate biosynthetic process  chondroitin sulfate catabolic process  dermatan sulfate biosynthetic process  extracellular matrix  extracellular matrix  sarcolemma  lysosomal lumen  small molecule metabolic process  extracellular matrix binding  extracellular exosome  
Pathways : BIOCARTASmall Leucine-rich Proteoglycan (SLRP) molecules [Genes]   
Protein Interaction DatabaseBGN
DoCM (Curated mutations)BGN
Wikipedia pathwaysBGN
Gene fusion - rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerBGN [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)BGN
dbVarBGN
ClinVarBGN
1000_GenomesBGN 
Exome Variant ServerBGN
SNP (GeneSNP Utah)BGN
SNP : HGBaseBGN
Genetic variants : HAPMAPBGN
Genomic Variants (DGV)BGN [DGVbeta]
Mutations
ICGC Data PortalENSG00000182492 
Somatic Mutations in Cancer : COSMICBGN 
CONAN: Copy Number AnalysisBGN 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
LOVD (Leiden Open Variation Database)X-chromosome gene database
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)X:152760347-152775004
Mutations and Diseases : HGMDBGN
OMIM301870   
MedgenBGN
NextProtP21810 [Medical]
GENETestsBGN
Disease Genetic AssociationBGN
Huge Navigator BGN [HugePedia]  BGN [HugeCancerGEM]
snp3D : Map Gene to Disease633
DGIdb (Drug Gene Interaction db)BGN
General knowledge
Homologs : HomoloGeneBGN
Homology/Alignments : Family Browser (UCSC)BGN
Phylogenetic Trees/Animal Genes : TreeFamBGN
Chemical/Protein Interactions : CTD633
Chemical/Pharm GKB GenePA25346
Clinical trialBGN
Cancer Resource (Charite)ENSG00000182492
Other databases
Probes
Litterature
PubMed98 Pubmed reference(s) in Entrez
CoreMineBGN
GoPubMedBGN
iHOPBGN
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

Contributor(s)

Written09-2002Dessen P, Le Minor S
Updated02-2015Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sat Mar 28 14:49:22 CET 2015

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For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.