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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economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas).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
Donations are also welcome

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SAA1 (serum amyloid A1)

Identity

Other namesPIG4
SAA
SAA2
TP53I4
HGNC (Hugo) SAA1
LocusID (NCBI) 6288
Location 11p15.1
Location_base_pair Starts at 18287808 and ends at 18291523 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)SAA1   10513
Cards
Entrez_Gene (NCBI)SAA1  6288  serum amyloid A1
GeneCards (Weizmann)SAA1
Ensembl hg19 (Hinxton)ENSG00000173432 [Gene_View]  chr11:18287808-18291523 [Contig_View]  SAA1 [Vega]
Ensembl hg38 (Hinxton)ENSG00000173432 [Gene_View]  chr11:18287808-18291523 [Contig_View]  SAA1 [Vega]
ICGC DataPortalENSG00000173432
cBioPortalSAA1
AceView (NCBI)SAA1
Genatlas (Paris)SAA1
WikiGenes6288
SOURCE (Princeton)SAA1
Genomic and cartography
GoldenPath hg19 (UCSC)SAA1  -     chr11:18287808-18291523 +  11p15.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)SAA1  -     11p15.1   [Description]    (hg38-Dec_2013)
EnsemblSAA1 - 11p15.1 [CytoView hg19]  SAA1 - 11p15.1 [CytoView hg38]
Mapping of homologs : NCBISAA1 [Mapview hg19]  SAA1 [Mapview hg38]
OMIM104750   
Gene and transcription
Genbank (Entrez)BC007022 BC105796 BG533276 BG565078 BG567902
RefSeq transcript (Entrez)NM_000331 NM_001178006 NM_199161
RefSeq genomic (Entrez)AC_000143 NC_000011 NC_018922 NG_021330 NT_009237 NW_001838022 NW_004929378
Consensus coding sequences : CCDS (NCBI)SAA1
Cluster EST : UnigeneHs.632144 [ NCBI ]
CGAP (NCI)Hs.632144
Alternative Splicing : Fast-db (Paris)GSHG0004676
Alternative Splicing GalleryENSG00000173432
Gene ExpressionSAA1 [ NCBI-GEO ]     SAA1 [ SEEK ]   SAA1 [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP0DJI8 (Uniprot)
NextProtP0DJI8  [Medical]
With graphics : InterProP0DJI8
Splice isoforms : SwissVarP0DJI8 (Swissvar)
Domaine pattern : Prosite (Expaxy)SAA (PS00992)   
Domains : Interpro (EBI)Serum_amyloid_A   
Related proteins : CluSTrP0DJI8
Domain families : Pfam (Sanger)SAA (PF00277)   
Domain families : Pfam (NCBI)pfam00277   
Domain families : Smart (EMBL)SAA (SM00197)  
DMDM Disease mutations6288
Blocks (Seattle)P0DJI8
PDB (SRS)4IP8    4IP9   
PDB (PDBSum)4IP8    4IP9   
PDB (IMB)4IP8    4IP9   
PDB (RSDB)4IP8    4IP9   
Human Protein AtlasENSG00000173432
Peptide AtlasP0DJI8
HPRD00097
IPIIPI00552578   IPI00895943   IPI00979784   IPI00930533   IPI00006146   
Protein Interaction databases
DIP (DOE-UCLA)P0DJI8
IntAct (EBI)P0DJI8
FunCoupENSG00000173432
BioGRIDSAA1
IntegromeDBSAA1
STRING (EMBL)SAA1
Ontologies - Pathways
QuickGOP0DJI8
Ontology : AmiGOG-protein coupled receptor binding  extracellular region  extracellular region  acute-phase response  positive regulation of cytosolic calcium ion concentration  positive regulation of cytosolic calcium ion concentration  heparin binding  platelet activation  neutrophil chemotaxis  high-density lipoprotein particle  innate immune response  positive regulation of cell adhesion  positive regulation of cell adhesion  macrophage chemotaxis  lymphocyte chemotaxis  regulation of protein secretion  positive regulation of cytokine secretion  positive regulation of interleukin-1 secretion  negative regulation of inflammatory response  extracellular vesicular exosome  endocytic vesicle lumen  
Ontology : EGO-EBIG-protein coupled receptor binding  extracellular region  extracellular region  acute-phase response  positive regulation of cytosolic calcium ion concentration  positive regulation of cytosolic calcium ion concentration  heparin binding  platelet activation  neutrophil chemotaxis  high-density lipoprotein particle  innate immune response  positive regulation of cell adhesion  positive regulation of cell adhesion  macrophage chemotaxis  lymphocyte chemotaxis  regulation of protein secretion  positive regulation of cytokine secretion  positive regulation of interleukin-1 secretion  negative regulation of inflammatory response  extracellular vesicular exosome  endocytic vesicle lumen  
Protein Interaction DatabaseSAA1
DoCM (Curated mutations)SAA1
Wikipedia pathwaysSAA1
Gene fusion - rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerSAA1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SAA1
dbVarSAA1
ClinVarSAA1
1000_GenomesSAA1 
Exome Variant ServerSAA1
SNP (GeneSNP Utah)SAA1
SNP : HGBaseSAA1
Genetic variants : HAPMAPSAA1
Genomic Variants (DGV)SAA1 [DGVbeta]
Mutations
ICGC Data PortalENSG00000173432 
Somatic Mutations in Cancer : COSMICSAA1 
CONAN: Copy Number AnalysisSAA1 
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
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)11:18287808-18291523
Mutations and Diseases : HGMDSAA1
OMIM104750   
MedgenSAA1
NextProtP0DJI8 [Medical]
GENETestsSAA1
Disease Genetic AssociationSAA1
Huge Navigator SAA1 [HugePedia]  SAA1 [HugeCancerGEM]
snp3D : Map Gene to Disease6288
DGIdb (Drug Gene Interaction db)SAA1
General knowledge
Homologs : HomoloGeneSAA1
Homology/Alignments : Family Browser (UCSC)SAA1
Phylogenetic Trees/Animal Genes : TreeFamSAA1
Chemical/Protein Interactions : CTD6288
Chemical/Pharm GKB GenePA34921
Clinical trialSAA1
Cancer Resource (Charite)ENSG00000173432
Other databases
Probes
Litterature
PubMed181 Pubmed reference(s) in Entrez
CoreMineSAA1
GoPubMedSAA1
iHOPSAA1
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
Updated12-2014Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sat Feb 14 18:26:00 CET 2015
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