E-MTAB-1728 - RNA-seq read alignment evaluation

Status
Released on 15 July 2013, last updated on 2 May 2014
Organism
Homo sapiens, Mus musculus
Samples (8)
Protocols (33)
Description
To assess the performance of read mapping software for RNA-seq, 26 spliced alignment protocols based on 11 programs and pipelines (BAGET, GEM, GSNAP, GSTRUCT, MapSplice, PALMapper, PASS, ReadsMap, SMALT, STAR and TopHat) were applied to four human and mouse transcriptome data sets.
Experiment types
RNA-seq of coding RNA, co-expression, reference, software variation, species
Contact
Citation
Assessment of transcript reconstruction methods for RNA-seq. Tamara Steijger, Josep F. Abril, Pär G. Engström, Felix Kokocinski, RGASP Consortium, Tim J. Hubbard, Roderic Guigó, Jennifer Harrow, Paul Bertone. Nat Methods 10(12):1177–1184 (2013), Europe PMC 24185836
MINSEQE
Exp. designProtocolsFactorsProcessedSeq. reads
Files
Investigation descriptionE-MTAB-1728.idf.txt
Sample and data relationshipE-MTAB-1728.sdrf.txt
Links