Genome-Wide Survey of Human Alternative Pre-mRNA Splicing with Exon Junction Microarrays

By Jason M. Johnson, J. Castle, P. Garrett-engele, Zhengyan Kan, P. Loerch, C. Armour, R. Santos, Eric E. Schadt, R. Stoughton, D. Shoemaker. Science, 2003

1,529 citations recorded by the source corpus.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/78017150fb3f10579b6e65c35e9a824cdaa79f19

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In Molecular Biology

Citations in the corpus

Complexity of the Alternative Splicing Landscape in Plants[C][W][OPEN] (2013, background): “In mammals, the use of RNA-seq has been applied multiple times revealing tissue-specific AS (Mortazavi et al., 2008; Pan et al., 2008;Wanget al., 2008;Barbosa-Morais et al., 2012;Merkin et al., 2012), but only a few studies are available for plant systems (Jiao andMeyerowitz, 2010; Loraine et al., 2”
RNA‐binding proteins and post‐transcriptional gene regulation (2008, positive): “At least 74% of human genes express multiple mRNAs through alternative splicing [50].”
The gene encoding the splicing factor SF2/ASF is a proto-oncogene (2007, background): “Thyroid Small intestine Kidney (1) Kidney (2) Lung N T N T T N N T N T N”
Splicing regulation: from a parts list of regulatory elements to an integrated splicing code. (2008, background): “‘‘Exon junction arrays’’ represent one early design, with high-density oligonucleotide probes targeted to the junctions between consecutive exons (Johnson et al. 2003).”
QGRS Mapper: a web-based server for predicting G-quadruplexes in nucleotide sequences (2006, background): “Over two-thirds of human genes are thought to undergo alternative splicing (32).”
Opportunities and challenges Genome-wide analyses of alternative splicing in plants: (2008, positive): “Exon junction (EJ) DNA microarrays are very sensitive indicators of AS (Johnson et al. 2003; Blanchette et al. 2005; Ule et al. 2005 ).”
Alternative Isoform Regulation in Human Tissue Transcriptomes (2008, methodology): “Columns 1–4 show the numbers of events of each type: (1) supported by cDNA and/or EST data; (2) with $1 isoform supported by mRNA-Seq reads; (3) with both isoforms supported by reads; and (4) events detected as tissueregulated (Fisher’s exact test) at an FDR of 5% (assuming negligible technical vari”