323 related articles for article (PubMed ID: 20371516)
1. 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]
2. 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]
3. 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]
4. 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]
5. Accurate mapping of RNA-Seq data.
Au KF
Methods Mol Biol; 2015; 1269():147-61. PubMed ID: 25577377
[TBL] [Abstract][Full Text] [Related]
6. 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]
7. Prediction and Quantification of Splice Events from RNA-Seq Data.
Goldstein LD; Cao Y; Pau G; Lawrence M; Wu TD; Seshagiri S; Gentleman R
PLoS One; 2016; 11(5):e0156132. PubMed ID: 27218464
[TBL] [Abstract][Full Text] [Related]
8. SplicingCompass: differential splicing detection using RNA-seq data.
Aschoff M; Hotz-Wagenblatt A; Glatting KH; Fischer M; Eils R; König R
Bioinformatics; 2013 May; 29(9):1141-8. PubMed ID: 23449093
[TBL] [Abstract][Full Text] [Related]
9. IRcall and IRclassifier: two methods for flexible detection of intron retention events from RNA-Seq data.
Bai Y; Ji S; Wang Y
BMC Genomics; 2015; 16 Suppl 2(Suppl 2):S9. PubMed ID: 25707295
[TBL] [Abstract][Full Text] [Related]
10. 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]
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. 2passtools: two-pass alignment using machine-learning-filtered splice junctions increases the accuracy of intron detection in long-read RNA sequencing.
Parker MT; Knop K; Barton GJ; Simpson GG
Genome Biol; 2021 Mar; 22(1):72. PubMed ID: 33648554
[TBL] [Abstract][Full Text] [Related]
13. Human splicing diversity and the extent of unannotated splice junctions across human RNA-seq samples on the Sequence Read Archive.
Nellore A; Jaffe AE; Fortin JP; Alquicira-Hernández J; Collado-Torres L; Wang S; Phillips RA; Karbhari N; Hansen KD; Langmead B; Leek JT
Genome Biol; 2016 Dec; 17(1):266. PubMed ID: 28038678
[TBL] [Abstract][Full Text] [Related]
14. A novel model used to detect differential splice junctions as biomarkers in prostate cancer from RNA-Seq data.
Rezaeian I; Tavakoli A; Cavallo-Medved D; Porter LA; Rueda L
J Biomed Inform; 2016 Apr; 60():422-30. PubMed ID: 26992567
[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. 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]
17. SplicingTypesAnno: annotating and quantifying alternative splicing events for RNA-Seq data.
Sun X; Zuo F; Ru Y; Guo J; Yan X; Sablok G
Comput Methods Programs Biomed; 2015 Apr; 119(1):53-62. PubMed ID: 25720307
[TBL] [Abstract][Full Text] [Related]
18. Observations on novel splice junctions from RNA sequencing data.
Wang L; Wang X; Wang X; Liang Y; Zhang X
Biochem Biophys Res Commun; 2011 Jun; 409(2):299-303. PubMed ID: 21575597
[TBL] [Abstract][Full Text] [Related]
19. 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]
20. SpliceVec: Distributed feature representations for splice junction prediction.
Dutta A; Dubey T; Singh KK; Anand A
Comput Biol Chem; 2018 Jun; 74():434-441. PubMed ID: 29580738
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
