571 related articles for article (PubMed ID: 25717189)
1. rSeqNP: a non-parametric approach for detecting differential expression and splicing from RNA-Seq data.
Shi Y; Chinnaiyan AM; Jiang H
Bioinformatics; 2015 Jul; 31(13):2222-4. PubMed ID: 25717189
[TBL] [Abstract][Full Text] [Related]
2. Polyester: simulating RNA-seq datasets with differential transcript expression.
Frazee AC; Jaffe AE; Langmead B; Leek JT
Bioinformatics; 2015 Sep; 31(17):2778-84. PubMed ID: 25926345
[TBL] [Abstract][Full Text] [Related]
3. SimSeq: a nonparametric approach to simulation of RNA-sequence datasets.
Benidt S; Nettleton D
Bioinformatics; 2015 Jul; 31(13):2131-40. PubMed ID: 25725090
[TBL] [Abstract][Full Text] [Related]
4. SparseIso: a novel Bayesian approach to identify alternatively spliced isoforms from RNA-seq data.
Shi X; Wang X; Wang TL; Hilakivi-Clarke L; Clarke R; Xuan J
Bioinformatics; 2018 Jan; 34(1):56-63. PubMed ID: 28968634
[TBL] [Abstract][Full Text] [Related]
5. 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]
6. SNPlice: variants that modulate Intron retention from RNA-sequencing data.
Mudvari P; Movassagh M; Kowsari K; Seyfi A; Kokkinaki M; Edwards NJ; Golestaneh N; Horvath A
Bioinformatics; 2015 Apr; 31(8):1191-8. PubMed ID: 25481010
[TBL] [Abstract][Full Text] [Related]
7. Normalization and noise reduction for single cell RNA-seq experiments.
Ding B; Zheng L; Zhu Y; Li N; Jia H; Ai R; Wildberg A; Wang W
Bioinformatics; 2015 Jul; 31(13):2225-7. PubMed ID: 25717193
[TBL] [Abstract][Full Text] [Related]
8. Detecting Multivariate Gene Interactions in RNA-Seq Data Using Optimal Bayesian Classification.
Knight JM; Ivanov I; Triff K; Chapkin RS; Dougherty ER
IEEE/ACM Trans Comput Biol Bioinform; 2018; 15(2):484-493. PubMed ID: 26441451
[TBL] [Abstract][Full Text] [Related]
9. NPEBseq: nonparametric empirical bayesian-based procedure for differential expression analysis of RNA-seq data.
Bi Y; Davuluri RV
BMC Bioinformatics; 2013 Aug; 14():262. PubMed ID: 23981227
[TBL] [Abstract][Full Text] [Related]
10. CIDANE: comprehensive isoform discovery and abundance estimation.
Canzar S; Andreotti S; Weese D; Reinert K; Klau GW
Genome Biol; 2016 Jan; 17():16. PubMed ID: 26831908
[TBL] [Abstract][Full Text] [Related]
11. Snaptron: querying splicing patterns across tens of thousands of RNA-seq samples.
Wilks C; Gaddipati P; Nellore A; Langmead B
Bioinformatics; 2018 Jan; 34(1):114-116. PubMed ID: 28968689
[TBL] [Abstract][Full Text] [Related]
12. Threshold-seq: a tool for determining the threshold in short RNA-seq datasets.
Magee R; Loher P; Londin E; Rigoutsos I
Bioinformatics; 2017 Jul; 33(13):2034-2036. PubMed ID: 28203700
[TBL] [Abstract][Full Text] [Related]
13. piPipes: a set of pipelines for piRNA and transposon analysis via small RNA-seq, RNA-seq, degradome- and CAGE-seq, ChIP-seq and genomic DNA sequencing.
Han BW; Wang W; Zamore PD; Weng Z
Bioinformatics; 2015 Feb; 31(4):593-5. PubMed ID: 25342065
[TBL] [Abstract][Full Text] [Related]
14. PROPER: comprehensive power evaluation for differential expression using RNA-seq.
Wu H; Wang C; Wu Z
Bioinformatics; 2015 Jan; 31(2):233-41. PubMed ID: 25273110
[TBL] [Abstract][Full Text] [Related]
15. 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]
16. Information transduction capacity reduces the uncertainties in annotation-free isoform discovery and quantification.
Deng Y; Bao F; Yang Y; Ji X; Du M; Zhang Z; Wang M; Dai Q
Nucleic Acids Res; 2017 Sep; 45(15):e143. PubMed ID: 28911101
[TBL] [Abstract][Full Text] [Related]
17. smallWig: parallel compression of RNA-seq WIG files.
Wang Z; Weissman T; Milenkovic O
Bioinformatics; 2016 Jan; 32(2):173-80. PubMed ID: 26424856
[TBL] [Abstract][Full Text] [Related]
18. 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]
19. Using BRIE to Detect and Analyze Splicing Isoforms in scRNA-Seq Data.
Huang Y; Sanguinetti G
Methods Mol Biol; 2019; 1935():175-185. PubMed ID: 30758827
[TBL] [Abstract][Full Text] [Related]
20. Guidance for RNA-seq co-expression network construction and analysis: safety in numbers.
Ballouz S; Verleyen W; Gillis J
Bioinformatics; 2015 Jul; 31(13):2123-30. PubMed ID: 25717192
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]