847 related articles for article (PubMed ID: 20802226)
1. MapSplice: accurate mapping of RNA-seq reads for splice junction discovery.
Wang K; Singh D; Zeng Z; Coleman SJ; Huang Y; Savich GL; He X; Mieczkowski P; Grimm SA; Perou CM; MacLeod JN; Chiang DY; Prins JF; Liu J
Nucleic Acids Res; 2010 Oct; 38(18):e178. PubMed ID: 20802226
[TBL] [Abstract][Full Text] [Related]
2. A probabilistic framework for aligning paired-end RNA-seq data.
Hu Y; Wang K; He X; Chiang DY; Prins JF; Liu J
Bioinformatics; 2010 Aug; 26(16):1950-7. PubMed ID: 20576625
[TBL] [Abstract][Full Text] [Related]
3. PASSion: a pattern growth algorithm-based pipeline for splice junction detection in paired-end RNA-Seq data.
Zhang Y; Lameijer EW; 't Hoen PA; Ning Z; Slagboom PE; Ye K
Bioinformatics; 2012 Feb; 28(4):479-86. PubMed ID: 22219203
[TBL] [Abstract][Full Text] [Related]
4. TopHat: discovering splice junctions with RNA-Seq.
Trapnell C; Pachter L; Salzberg SL
Bioinformatics; 2009 May; 25(9):1105-11. PubMed ID: 19289445
[TBL] [Abstract][Full Text] [Related]
5. Detection of splice junctions from paired-end RNA-seq data by SpliceMap.
Au KF; Jiang H; Lin L; Xing Y; Wong WH
Nucleic Acids Res; 2010 Aug; 38(14):4570-8. PubMed ID: 20371516
[TBL] [Abstract][Full Text] [Related]
6. PASTA: splice junction identification from RNA-sequencing data.
Tang S; Riva A
BMC Bioinformatics; 2013 Apr; 14():116. PubMed ID: 23557086
[TBL] [Abstract][Full Text] [Related]
7. Read-Split-Run: an improved bioinformatics pipeline for identification of genome-wide non-canonical spliced regions using RNA-Seq data.
Bai Y; Kinne J; Donham B; Jiang F; Ding L; Hassler JR; Kaufman RJ
BMC Genomics; 2016 Aug; 17 Suppl 7(Suppl 7):503. PubMed ID: 27556805
[TBL] [Abstract][Full Text] [Related]
8. HMMSplicer: a tool for efficient and sensitive discovery of known and novel splice junctions in RNA-Seq data.
Dimon MT; Sorber K; DeRisi JL
PLoS One; 2010 Nov; 5(11):e13875. PubMed ID: 21079731
[TBL] [Abstract][Full Text] [Related]
9. UnSplicer: mapping spliced RNA-Seq reads in compact genomes and filtering noisy splicing.
Burns PD; Li Y; Ma J; Borodovsky M
Nucleic Acids Res; 2014 Feb; 42(4):e25. PubMed ID: 24259430
[TBL] [Abstract][Full Text] [Related]
10. iMapSplice: Alleviating reference bias through personalized RNA-seq alignment.
Liu X; MacLeod JN; Liu J
PLoS One; 2018; 13(8):e0201554. PubMed ID: 30096157
[TBL] [Abstract][Full Text] [Related]
11. Discover hidden splicing variations by mapping personal transcriptomes to personal genomes.
Stein S; Lu ZX; Bahrami-Samani E; Park JW; Xing Y
Nucleic Acids Res; 2015 Dec; 43(22):10612-22. PubMed ID: 26578562
[TBL] [Abstract][Full Text] [Related]
12. DiffSplice: the genome-wide detection of differential splicing events with RNA-seq.
Hu Y; Huang Y; Du Y; Orellana CF; Singh D; Johnson AR; Monroy A; Kuan PF; Hammond SM; Makowski L; Randell SH; Chiang DY; Hayes DN; Jones C; Liu Y; Prins JF; Liu J
Nucleic Acids Res; 2013 Jan; 41(2):e39. PubMed ID: 23155066
[TBL] [Abstract][Full Text] [Related]
13. Concurrent and Accurate Short Read Mapping on Multicore Processors.
Martínez H; Tárraga J; Medina I; Barrachina S; Castillo M; Dopazo J; Quintana-Ortí ES
IEEE/ACM Trans Comput Biol Bioinform; 2015; 12(5):995-1007. PubMed ID: 26451814
[TBL] [Abstract][Full Text] [Related]
14. TrueSight: a new algorithm for splice junction detection using RNA-seq.
Li Y; Li-Byarlay H; Burns P; Borodovsky M; Robinson GE; Ma J
Nucleic Acids Res; 2013 Feb; 41(4):e51. PubMed ID: 23254332
[TBL] [Abstract][Full Text] [Related]
15. FineSplice, enhanced splice junction detection and quantification: a novel pipeline based on the assessment of diverse RNA-Seq alignment solutions.
Gatto A; Torroja-Fungairiño C; Mazzarotto F; Cook SA; Barton PJ; Sánchez-Cabo F; Lara-Pezzi E
Nucleic Acids Res; 2014 Apr; 42(8):e71. PubMed ID: 24574529
[TBL] [Abstract][Full Text] [Related]
16. A context-based approach to identify the most likely mapping for RNA-seq experiments.
Bonfert T; Csaba G; Zimmer R; Friedel CC
BMC Bioinformatics; 2012 Apr; 13 Suppl 6(Suppl 6):S9. PubMed ID: 22537048
[TBL] [Abstract][Full Text] [Related]
17. RNA-Seq Analysis of Differential Splice Junction Usage and Intron Retentions by DEXSeq.
Li Y; Rao X; Mattox WW; Amos CI; Liu B
PLoS One; 2015; 10(9):e0136653. PubMed ID: 26327458
[TBL] [Abstract][Full Text] [Related]
18. RNASequel: accurate and repeat tolerant realignment of RNA-seq reads.
Wilson GW; Stein LD
Nucleic Acids Res; 2015 Oct; 43(18):e122. PubMed ID: 26082497
[TBL] [Abstract][Full Text] [Related]
19. STAR: ultrafast universal RNA-seq aligner.
Dobin A; Davis CA; Schlesinger F; Drenkow J; Zaleski C; Jha S; Batut P; Chaisson M; Gingeras TR
Bioinformatics; 2013 Jan; 29(1):15-21. PubMed ID: 23104886
[TBL] [Abstract][Full Text] [Related]
20. OLego: fast and sensitive mapping of spliced mRNA-Seq reads using small seeds.
Wu J; Anczuków O; Krainer AR; Zhang MQ; Zhang C
Nucleic Acids Res; 2013 May; 41(10):5149-63. PubMed ID: 23571760
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]