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economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas).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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CYBA (cytochrome b-245, alpha polypeptide)

Identity

Other namesp22-PHOX
HGNC (Hugo) CYBA
LocusID (NCBI) 1535
Location 16q24.3
Location_base_pair Starts at 88709697 and ends at 88717492 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)CYBA   2577
Cards
Entrez_Gene (NCBI)CYBA  1535  cytochrome b-245, alpha polypeptide
GeneCards (Weizmann)CYBA
Ensembl hg19 (Hinxton)ENSG00000051523 [Gene_View]  chr16:88709697-88717492 [Contig_View]  CYBA [Vega]
Ensembl hg38 (Hinxton)ENSG00000051523 [Gene_View]  chr16:88709697-88717492 [Contig_View]  CYBA [Vega]
ICGC DataPortalENSG00000051523
cBioPortalCYBA
AceView (NCBI)CYBA
Genatlas (Paris)CYBA
WikiGenes1535
SOURCE (Princeton)CYBA
Genomic and cartography
GoldenPath hg19 (UCSC)CYBA  -     chr16:88709697-88717492 -  16q24.3   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)CYBA  -     16q24.3   [Description]    (hg38-Dec_2013)
EnsemblCYBA - 16q24.3 [CytoView hg19]  CYBA - 16q24.3 [CytoView hg38]
Mapping of homologs : NCBICYBA [Mapview hg19]  CYBA [Mapview hg38]
OMIM233690   608508   
Gene and transcription
Genbank (Entrez)AK097127 AK125578 AK300049 AK309030 BC006465
RefSeq transcript (Entrez)NM_000101
RefSeq genomic (Entrez)NC_000016 NC_018927 NG_007291 NT_010498 NW_004929403
Consensus coding sequences : CCDS (NCBI)CYBA
Cluster EST : UnigeneHs.513803 [ NCBI ]
CGAP (NCI)Hs.513803
Alternative Splicing : Fast-db (Paris)GSHG0012066
Alternative Splicing GalleryENSG00000051523
Gene ExpressionCYBA [ NCBI-GEO ]     CYBA [ SEEK ]   CYBA [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP13498 (Uniprot)
NextProtP13498  [Medical]
With graphics : InterProP13498
Splice isoforms : SwissVarP13498 (Swissvar)
Domains : Interpro (EBI)Cyt_b558_asu   
Related proteins : CluSTrP13498
Domain families : Pfam (Sanger)Cytochrom_B558a (PF05038)   
Domain families : Pfam (NCBI)pfam05038   
DMDM Disease mutations1535
Blocks (Seattle)P13498
PDB (SRS)1WLP   
PDB (PDBSum)1WLP   
PDB (IMB)1WLP   
PDB (RSDB)1WLP   
Human Protein AtlasENSG00000051523
Peptide AtlasP13498
HPRD01989
IPIIPI00218433   
Protein Interaction databases
DIP (DOE-UCLA)P13498
IntAct (EBI)P13498
FunCoupENSG00000051523
BioGRIDCYBA
IntegromeDBCYBA
STRING (EMBL)CYBA
Ontologies - Pathways
QuickGOP13498
Ontology : AmiGOpositive regulation of endothelial cell proliferation  antigen processing and presentation of peptide antigen via MHC class I  antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent  negative regulation of glomerular filtration by angiotensin  protein binding  mitochondrion  endosome  Golgi apparatus  plasma membrane  superoxide metabolic process  inflammatory response  electron carrier activity  electron carrier activity  smooth muscle hypertrophy  membrane  superoxide-generating NADPH oxidase activity  apical plasma membrane  cytochrome complex assembly  SH3 domain binding  heme binding  secretory granule  positive regulation of cell growth  dendrite  phagocytic vesicle membrane  response to nutrient levels  response to drug  superoxide anion generation  antigen processing and presentation of exogenous peptide antigen via MHC class I  NADPH oxidase complex  NADPH oxidase complex  neuronal cell body  innate immune response  respiratory burst  metal ion binding  protein heterodimerization activity  vascular endothelial growth factor receptor signaling pathway  hydrogen peroxide biosynthetic process  regulation of release of sequestered calcium ion into cytosol  interaction with host  oxidation-reduction process  positive regulation of mucus secretion  response to interleukin-1  cellular response to amino acid stimulus  cellular response to mechanical stimulus  cellular response to glucose stimulus  cellular response to tumor necrosis factor  cellular response to organic cyclic compound  cellular response to gamma radiation  phagosome maturation  perinuclear endoplasmic reticulum  
Ontology : EGO-EBIpositive regulation of endothelial cell proliferation  antigen processing and presentation of peptide antigen via MHC class I  antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent  negative regulation of glomerular filtration by angiotensin  protein binding  mitochondrion  endosome  Golgi apparatus  plasma membrane  superoxide metabolic process  inflammatory response  electron carrier activity  electron carrier activity  smooth muscle hypertrophy  membrane  superoxide-generating NADPH oxidase activity  apical plasma membrane  cytochrome complex assembly  SH3 domain binding  heme binding  secretory granule  positive regulation of cell growth  dendrite  phagocytic vesicle membrane  response to nutrient levels  response to drug  superoxide anion generation  antigen processing and presentation of exogenous peptide antigen via MHC class I  NADPH oxidase complex  NADPH oxidase complex  neuronal cell body  innate immune response  respiratory burst  metal ion binding  protein heterodimerization activity  vascular endothelial growth factor receptor signaling pathway  hydrogen peroxide biosynthetic process  regulation of release of sequestered calcium ion into cytosol  interaction with host  oxidation-reduction process  positive regulation of mucus secretion  response to interleukin-1  cellular response to amino acid stimulus  cellular response to mechanical stimulus  cellular response to glucose stimulus  cellular response to tumor necrosis factor  cellular response to organic cyclic compound  cellular response to gamma radiation  phagosome maturation  perinuclear endoplasmic reticulum  
Pathways : KEGGPhagosome    Osteoclast differentiation    Leukocyte transendothelial migration    Leishmaniasis   
Protein Interaction DatabaseCYBA
DoCM (Curated mutations)CYBA
Wikipedia pathwaysCYBA
Gene fusion - rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerCYBA [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CYBA
dbVarCYBA
ClinVarCYBA
1000_GenomesCYBA 
Exome Variant ServerCYBA
SNP (GeneSNP Utah)CYBA
SNP : HGBaseCYBA
Genetic variants : HAPMAPCYBA
Genomic Variants (DGV)CYBA [DGVbeta]
Mutations
ICGC Data PortalENSG00000051523 
Somatic Mutations in Cancer : COSMICCYBA 
CONAN: Copy Number AnalysisCYBA 
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)**PUBLIC** CCHMC Molecular Genetics Laboratory Mutation Database
LOVD (Leiden Open Variation Database)MSeqDR-LSDB Mitochondrial Disease Locus Specific Database
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)16:88709697-88717492
Mutations and Diseases : HGMDCYBA
OMIM233690    608508   
MedgenCYBA
NextProtP13498 [Medical]
GENETestsCYBA
Disease Genetic AssociationCYBA
Huge Navigator CYBA [HugePedia]  CYBA [HugeCancerGEM]
snp3D : Map Gene to Disease1535
DGIdb (Drug Gene Interaction db)CYBA
General knowledge
Homologs : HomoloGeneCYBA
Homology/Alignments : Family Browser (UCSC)CYBA
Phylogenetic Trees/Animal Genes : TreeFamCYBA
Chemical/Protein Interactions : CTD1535
Chemical/Pharm GKB GenePA27075
Clinical trialCYBA
Cancer Resource (Charite)ENSG00000051523
Other databases
Probes
Litterature
PubMed265 Pubmed reference(s) in Entrez
CoreMineCYBA
GoPubMedCYBA
iHOPCYBA
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 15:09:24 CET 2015

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For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.