Chromosomal abnormalities in band 4q

References

The human genome used in these documents corresponds to the hg38 (Build GRCh38). A more precise informtion about assemby can be found at Human genome Overview.
The limits of cytogenetic bands correspond to data from UCSC : cytoBand.txt.gz
• ISCN Abbreviated Terms and Symbols

• [A]Atlas - Annotated genes
• [G]Atlas - Other Genes
• [F] fishClones (hg38)
• [M] Mitelman Database of Chromosome Aberrations and Gene Fusions in Cancer [ Apr 2020 ]
  and "Mitelman Database of Chromosome Aberrations and Gene Fusions in Cancer" (2012). Mitelman F, Johansson B and Mertens F (Eds.)" [Sept 2016]
• [N] Mitelman Database of Chromosome Aberrations (/number)
• [COS] Catalogue Of Somatic Mutations In Cancer [v91]
• [COF] Catalogue Of Somatic Mutations In Cancer : Gene Fusions [v91] [PubMed 2017]
• [CSV] Catalogue Of Somatic Mutations In Cancer : Structural variations (extracted frorm CosmicStructExport.tsv) [v9]) [PubMed 2014]
• [CEN] Cancer Gene Census [v91]
• [TF] [PubMed 2014]TCGA Fusions (MDAndersson)  TCGA Fusions (Jackson Lab)    [PubMed 2014] (the fusions are limited to tiers 1 and 2)
• [TIC] [PubMed 2007] TicDB
• [H2] [PubMed 2006] ChimerDB_2.0
• [H3] [PubMed 2010]   [PubMed 2017] ChimerDB_3.0
• [H4] ChimerDB4 [PubMed 2017]
• [K] [PubMed 2011] dbCRID
• [CT] [PubMed 2011] [PubMed 2012] [PubMed 2014] ChiTARS-2.1  [PubMed 2016] ChiTARS-3.1
• [LAI] [PubMed 2015] Fusion transcript loci share many genomic Features with non-fusion loci. Lai et al. BMC Genomics 2015
• [PM] Gene Fusions from Pubmed abstract mining
• [L] [PubMed 2011] Fusion gene microarray reveals cancer type-specificity among fusion genes. Lovf M et al.Genes Chromosomes Cancer. 2011 May;50(5):348-57.
• [S] [PubMed 21009] A universal assay for detection of oncogenic fusion transcripts by oligo microarray analysis. Skotheim RI, et al. Mol Cancer. 2009 Jan 19;8:5.
• [V][PubMed 2012] ETV6 fusion genes in hematological malignancies: A review. De Braekeleer E. et al. Leuk Res. 2012 May 12.
• [GT] [Pubmed 2015] Cell Lines (Genentech)   Nature Biotech Suppl.Table8
• [FC] [PubMed 2015] Fusion cancer (Beijing) (the fusions are limited to class A and B)
• [NOR] [PubMed 2016] Babiceanu M et al. Recurrent chimeric fusion RNAs in non-cancer tissues and cells. Nucleic Acids Res. 2016 Feb 2 (Table S3)
• [URK] [PubMed 2016] Urakami et al. Next generation sequencing approach for detecting 491 fusion genes from human cancer. Biomed Res. 2016;37(1):51-62.
• [AM] [PubMed 2016] Global analysis of somatic structural genomic alterations and their impact on gene expression in diverse human cancersAlaei-Mahabadi B. et al.,Proc Natl Acad Sci U S A. 2016 Nov 16. pii: 201606220.
• [FM] [PubMed 2018] Genomic hotspots but few recurrent fusion genes in breast cancer, Fimereli et al., Genes Chromosomes Cancer. (SupplTableS2.xls) 2018 Feb 13
• [MA] [PubMed 2018] Pan-cancer genome and transcriptome analyses of1,699 paediatric leukaemias and solid tumours, Ma et al, Nature (March 2018) Table S3
• [GAO] [PubMed 2018] Driver Fusions and Their Implications in the Development and Treatment of Human Cancers. Gao et al, Cell Reports (April 2018) Table S2
• [MAY] [PubMed 2018] Development and Verification of an RNA Sequencing (RNA-Seq) Assay for the Detection of Gene Fusions in Tumor, Winters et al (July 2018) Table S7
• [GDB] [PubMed 2019] Fusion gene annotation DataBase. Kim P t Zhou X. Nucleic Acids Res. 2019 Jan 8;47(D1):D994-D1004 [site FusionGDB]
• [DDR][DDG] [PubMed 2019] Improved detection of gene fusions by applying statistical methods reveals oncogenic RNA cancer drivers, Dehghannasiri R et al, Proc Natl Acad Sci U S A. 2019 Jul 15. pii: 201900391. doi: 10.1073/pnas.1900391116
  
• [DDR] TGCA novel recurrent fusions - Sup. Table 1
  
• [DDG] GTEx (normal tissus) recurrent fusions - Sup. Table 1
  
• [PC] PCAWG : Pan-cancer analysis of whole genomes. ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium. Nature. 2020 Feb;578(7793):82-93. doi: 10.1038/s41586-020-1969-6. [PubMed 2020] gene fusion data on synapse syn10003873)

Contributor(s)

Written	may 2012	Philippe Dessen
Updated	août 2020	Philippe Dessen and Jean-Loup Huret

Citation

This paper should be referenced as such :

Dessen P and Huret JL. Chromosomal band 4q. Atlas Genet Cytogenet Oncol Haematol. July 2012. URL : http://atlasgeneticsoncology.org/Bands/4q.html

© Atlas of Genetics and Cytogenetics in Oncology and Haematology

indexed on : jeu. août 27 11:26:29 CEST 2020