204 related articles for article (PubMed ID: 25283306)
1. IUTA: a tool for effectively detecting differential isoform usage from RNA-Seq data.
Niu L; Huang W; Umbach DM; Li L
BMC Genomics; 2014 Oct; 15(1):862. PubMed ID: 25283306
[TBL] [Abstract][Full Text] [Related]
2. Towards reliable isoform quantification using RNA-SEQ data.
Howard BE; Heber S
BMC Bioinformatics; 2010 Apr; 11 Suppl 3(Suppl 3):S6. PubMed ID: 20438653
[TBL] [Abstract][Full Text] [Related]
3. PennDiff: detecting differential alternative splicing and transcription by RNA sequencing.
Hu Y; Lin J; Hu J; Hu G; Wang K; Zhang H; Reilly MP; Li M
Bioinformatics; 2018 Jul; 34(14):2384-2391. PubMed ID: 29474557
[TBL] [Abstract][Full Text] [Related]
4. Detecting differential usage of exons from RNA-seq data.
Anders S; Reyes A; Huber W
Genome Res; 2012 Oct; 22(10):2008-17. PubMed ID: 22722343
[TBL] [Abstract][Full Text] [Related]
5. Splice Expression Variation Analysis (SEVA) for inter-tumor heterogeneity of gene isoform usage in cancer.
Afsari B; Guo T; Considine M; Florea L; Kagohara LT; Stein-O'Brien GL; Kelley D; Flam E; Zambo KD; Ha PK; Geman D; Ochs MF; Califano JA; Gaykalova DA; Favorov AV; Fertig EJ
Bioinformatics; 2018 Jun; 34(11):1859-1867. PubMed ID: 29342249
[TBL] [Abstract][Full Text] [Related]
6. IQSeq: integrated isoform quantification analysis based on next-generation sequencing.
Du J; Leng J; Habegger L; Sboner A; McDermott D; Gerstein M
PLoS One; 2012; 7(1):e29175. PubMed ID: 22238592
[TBL] [Abstract][Full Text] [Related]
7. Comparative assessment of methods for the computational inference of transcript isoform abundance from RNA-seq data.
Kanitz A; Gypas F; Gruber AJ; Gruber AR; Martin G; Zavolan M
Genome Biol; 2015 Jul; 16(1):150. PubMed ID: 26201343
[TBL] [Abstract][Full Text] [Related]
8. A convex formulation for joint RNA isoform detection and quantification from multiple RNA-seq samples.
Bernard E; Jacob L; Mairal J; Viara E; Vert JP
BMC Bioinformatics; 2015 Aug; 16():262. PubMed ID: 26286719
[TBL] [Abstract][Full Text] [Related]
9. Obstacles to detecting isoforms using full-length scRNA-seq data.
Westoby J; Artemov P; Hemberg M; Ferguson-Smith A
Genome Biol; 2020 Mar; 21(1):74. PubMed ID: 32293520
[TBL] [Abstract][Full Text] [Related]
10. Identification and visualization of differential isoform expression in RNA-seq time series.
Nueda MJ; Martorell-Marugan J; Martà C; Tarazona S; Conesa A
Bioinformatics; 2018 Feb; 34(3):524-526. PubMed ID: 28968682
[TBL] [Abstract][Full Text] [Related]
11. 3D RNA-seq: a powerful and flexible tool for rapid and accurate differential expression and alternative splicing analysis of RNA-seq data for biologists.
Guo W; Tzioutziou NA; Stephen G; Milne I; Calixto CP; Waugh R; Brown JWS; Zhang R
RNA Biol; 2021 Nov; 18(11):1574-1587. PubMed ID: 33345702
[TBL] [Abstract][Full Text] [Related]
12. TIGAR: transcript isoform abundance estimation method with gapped alignment of RNA-Seq data by variational Bayesian inference.
Nariai N; Hirose O; Kojima K; Nagasaki M
Bioinformatics; 2013 Sep; 29(18):2292-9. PubMed ID: 23821651
[TBL] [Abstract][Full Text] [Related]
13. rSeqDiff: detecting differential isoform expression from RNA-Seq data using hierarchical likelihood ratio test.
Shi Y; Jiang H
PLoS One; 2013; 8(11):e79448. PubMed ID: 24260225
[TBL] [Abstract][Full Text] [Related]
14. Joint estimation of isoform expression and isoform-specific read distribution using multisample RNA-Seq data.
Suo C; Calza S; Salim A; Pawitan Y
Bioinformatics; 2014 Feb; 30(4):506-13. PubMed ID: 24307704
[TBL] [Abstract][Full Text] [Related]
15. Robust detection of alternative splicing in a population of single cells.
Welch JD; Hu Y; Prins JF
Nucleic Acids Res; 2016 May; 44(8):e73. PubMed ID: 26740580
[TBL] [Abstract][Full Text] [Related]
16. 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]
17. SigFuge: single gene clustering of RNA-seq reveals differential isoform usage among cancer samples.
Kimes PK; Cabanski CR; Wilkerson MD; Zhao N; Johnson AR; Perou CM; Makowski L; Maher CA; Liu Y; Marron JS; Hayes DN
Nucleic Acids Res; 2014 Aug; 42(14):e113. PubMed ID: 25030904
[TBL] [Abstract][Full Text] [Related]
18. Design of RNA splicing analysis null models for post hoc filtering of Drosophila head RNA-Seq data with the splicing analysis kit (Spanki).
Sturgill D; Malone JH; Sun X; Smith HE; Rabinow L; Samson ML; Oliver B
BMC Bioinformatics; 2013 Nov; 14():320. PubMed ID: 24209455
[TBL] [Abstract][Full Text] [Related]
19. Computational approaches for isoform detection and estimation: good and bad news.
Angelini C; De Canditiis D; De Feis I
BMC Bioinformatics; 2014 May; 15():135. PubMed ID: 24885830
[TBL] [Abstract][Full Text] [Related]
20. SSP: an interval integer linear programming for de novo transcriptome assembly and isoform discovery of RNA-seq reads.
Safikhani Z; Sadeghi M; Pezeshk H; Eslahchi C
Genomics; 2013; 102(5-6):507-14. PubMed ID: 24161398
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
