153 related articles for article (PubMed ID: 23396121)
1. RNA-eXpress annotates novel transcript features in RNA-seq data.
Forster SC; Finkel AM; Gould JA; Hertzog PJ
Bioinformatics; 2013 Mar; 29(6):810-2. PubMed ID: 23396121
[TBL] [Abstract][Full Text] [Related]
2. CLASS: constrained transcript assembly of RNA-seq reads.
Song L; Florea L
BMC Bioinformatics; 2013; 14 Suppl 5(Suppl 5):S14. PubMed ID: 23734605
[TBL] [Abstract][Full Text] [Related]
3. Combining DGE and RNA-sequencing data to identify new polyA+ non-coding transcripts in the human genome.
Philippe N; Bou Samra E; Boureux A; Mancheron A; Rufflé F; Bai Q; De Vos J; Rivals E; Commes T
Nucleic Acids Res; 2014 Mar; 42(5):2820-32. PubMed ID: 24357408
[TBL] [Abstract][Full Text] [Related]
4. Grape RNA-Seq analysis pipeline environment.
Knowles DG; Röder M; Merkel A; Guigó R
Bioinformatics; 2013 Mar; 29(5):614-21. PubMed ID: 23329413
[TBL] [Abstract][Full Text] [Related]
5. 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]
6. Transcript mapping based on dRNA-seq data.
Bischler T; Kopf M; Voß B
BMC Bioinformatics; 2014 Apr; 15():122. PubMed ID: 24780064
[TBL] [Abstract][Full Text] [Related]
7. ORMAN: optimal resolution of ambiguous RNA-Seq multimappings in the presence of novel isoforms.
Dao P; Numanagić I; Lin YY; Hach F; Karakoc E; Donmez N; Collins C; Eichler EE; Sahinalp SC
Bioinformatics; 2014 Mar; 30(5):644-51. PubMed ID: 24130305
[TBL] [Abstract][Full Text] [Related]
8. SPARTA: Simple Program for Automated reference-based bacterial RNA-seq Transcriptome Analysis.
Johnson BK; Scholz MB; Teal TK; Abramovitch RB
BMC Bioinformatics; 2016 Feb; 17():66. PubMed ID: 26847232
[TBL] [Abstract][Full Text] [Related]
9. RES-Scanner: a software package for genome-wide identification of RNA-editing sites.
Wang Z; Lian J; Li Q; Zhang P; Zhou Y; Zhan X; Zhang G
Gigascience; 2016 Aug; 5(1):37. PubMed ID: 27538485
[TBL] [Abstract][Full Text] [Related]
10. Updating RNA-Seq analyses after re-annotation.
Roberts A; Schaeffer L; Pachter L
Bioinformatics; 2013 Jul; 29(13):1631-7. PubMed ID: 23677943
[TBL] [Abstract][Full Text] [Related]
11. mmannot: How to improve small-RNA annotation?
Zytnicki M; Gaspin C
PLoS One; 2020; 15(5):e0231738. PubMed ID: 32463818
[TBL] [Abstract][Full Text] [Related]
12. Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown.
Pertea M; Kim D; Pertea GM; Leek JT; Salzberg SL
Nat Protoc; 2016 Sep; 11(9):1650-67. PubMed ID: 27560171
[TBL] [Abstract][Full Text] [Related]
13. Computational discovery of human coding and non-coding transcripts with conserved splice sites.
Rose D; Hiller M; Schutt K; Hackermüller J; Backofen R; Stadler PF
Bioinformatics; 2011 Jul; 27(14):1894-900. PubMed ID: 21622663
[TBL] [Abstract][Full Text] [Related]
14. Inferring bona fide transfrags in RNA-Seq derived-transcriptome assemblies of non-model organisms.
Mbandi SK; Hesse U; van Heusden P; Christoffels A
BMC Bioinformatics; 2015 Feb; 16(1):58. PubMed ID: 25880035
[TBL] [Abstract][Full Text] [Related]
15. Knowledge-based reconstruction of mRNA transcripts with short sequencing reads for transcriptome research.
Seok J; Xu W; Jiang H; Davis RW; Xiao W
PLoS One; 2012; 7(2):e31440. PubMed ID: 22312447
[TBL] [Abstract][Full Text] [Related]
16. Transcriptator: An Automated Computational Pipeline to Annotate Assembled Reads and Identify Non Coding RNA.
Tripathi KP; Evangelista D; Zuccaro A; Guarracino MR
PLoS One; 2015; 10(11):e0140268. PubMed ID: 26581084
[TBL] [Abstract][Full Text] [Related]
17. EasyCluster2: an improved tool for clustering and assembling long transcriptome reads.
Bevilacqua V; Pietroleonardo N; Giannino E; Stroppa F; Simone D; Pesole G; Picardi E
BMC Bioinformatics; 2014; 15 Suppl 15(Suppl 15):S7. PubMed ID: 25474441
[TBL] [Abstract][Full Text] [Related]
18. 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]
19. Transcriptome profile of a bovine respiratory disease pathogen: Mannheimia haemolytica PHL213.
Reddy JS; Kumar R; Watt JM; Lawrence ML; Burgess SC; Nanduri B
BMC Bioinformatics; 2012; 13 Suppl 15(Suppl 15):S4. PubMed ID: 23046475
[TBL] [Abstract][Full Text] [Related]
20. RNA Sequencing in B-Cell Lymphomas.
Huang DW; Dawood M; Johnson CA; Schmitz R
Methods Mol Biol; 2019; 1956():283-303. PubMed ID: 30779040
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]