Ji Won Lee, Emily Kay Hollingsworth, Avantika Saraf Shah, Sarah L Szanton, Nancy Perrin, Amanda S Mixon, Eduard Eric Vasilevskis, Cynthia M Boyd, Hae-Ra Han, Ariel R Green, Janiece L Taylor, Sandra Faye Simmons
Emergency department visits and hospital readmissions after a deprescribing intervention among hospitalized older adults
Journal of the American Geriatrics Society
alternative splicing introns premrna produces diverse sets transcripts across cell types tissues also dysregulated many diseases alignmentfree computational methods greatly accelerated quantification mrna transcripts short rnaseq reads inherently rely catalog known transcripts might miss novel diseasespecific splicing events contrast alignment reads genome effectively identify novel exonic segments introns eventbased methods count many reads align predefined features however alignment expensive compute constitutes bottleneck many analysis methods propose fortuna method guesses novel combinations annotated splice sites create transcript fragments pseudoaligns reads fragments using kallisto efficiently derives counts elementary splicing units kallistos equivalence classes counts directly used analysis summarized larger units used widely applied methods experiments synthetic real data fortuna around 7 faster traditional align count approaches able analyze almost 300 million reads 15 min using four threads mapped reads containing mismatches accurately across novel junctions found reads supporting aberrant splicing events patients autism spectrum disorder existing methods used fortuna identify novel tissuespecific splicing events drosophila fortuna source code available httpsgithubcomcanzarlabfortuna