381 related articles for article (PubMed ID: 22891638)
21. A comparison across non-model animals suggests an optimal sequencing depth for de novo transcriptome assembly.
Francis WR; Christianson LM; Kiko R; Powers ML; Shaner NC; Haddock SH
BMC Genomics; 2013 Mar; 14():167. PubMed ID: 23496952
[TBL] [Abstract][Full Text] [Related]
22. Comparison of De Novo Transcriptome Assemblers and k-mer Strategies Using the Killifish, Fundulus heteroclitus.
Rana SB; Zadlock FJ; Zhang Z; Murphy WR; Bentivegna CS
PLoS One; 2016; 11(4):e0153104. PubMed ID: 27054874
[TBL] [Abstract][Full Text] [Related]
23. Improving the quality of barley transcriptome de novo assembling by using a hybrid approach for lines with varying spike and stem coloration.
Shmakov NА
Vavilovskii Zhurnal Genet Selektsii; 2021 Feb; 25(1):30-38. PubMed ID: 34901701
[TBL] [Abstract][Full Text] [Related]
24. De novo sequencing and characterization of Picrorhiza kurrooa transcriptome at two temperatures showed major transcriptome adjustments.
Gahlan P; Singh HR; Shankar R; Sharma N; Kumari A; Chawla V; Ahuja PS; Kumar S
BMC Genomics; 2012 Mar; 13():126. PubMed ID: 22462805
[TBL] [Abstract][Full Text] [Related]
25. Separating homeologs by phasing in the tetraploid wheat transcriptome.
Krasileva KV; Buffalo V; Bailey P; Pearce S; Ayling S; Tabbita F; Soria M; Wang S; ; Akhunov E; Uauy C; Dubcovsky J
Genome Biol; 2013 Jun; 14(6):R66. PubMed ID: 23800085
[TBL] [Abstract][Full Text] [Related]
26. Comparisons of de novo transcriptome assemblers in diploid and polyploid species using peanut (Arachis spp.) RNA-Seq data.
Chopra R; Burow G; Farmer A; Mudge J; Simpson CE; Burow MD
PLoS One; 2014; 9(12):e115055. PubMed ID: 25551607
[TBL] [Abstract][Full Text] [Related]
27. Comparing de novo transcriptome assembly tools in di- and autotetraploid non-model plant species.
Madritsch S; Burg A; Sehr EM
BMC Bioinformatics; 2021 Mar; 22(1):146. PubMed ID: 33752598
[TBL] [Abstract][Full Text] [Related]
28. PARRoT- a homology-based strategy to quantify and compare RNA-sequencing from non-model organisms.
Gan RC; Chen TW; Wu TH; Huang PJ; Lee CC; Yeh YM; Chiu CH; Huang HD; Tang P
BMC Bioinformatics; 2016 Dec; 17(Suppl 19):513. PubMed ID: 28155708
[TBL] [Abstract][Full Text] [Related]
29. Combining independent de novo assemblies optimizes the coding transcriptome for nonconventional model eukaryotic organisms.
Cerveau N; Jackson DJ
BMC Bioinformatics; 2016 Dec; 17(1):525. PubMed ID: 27938328
[TBL] [Abstract][Full Text] [Related]
30. De novo transcriptome assembly and analyses of gene expression during photomorphogenesis in diploid wheat Triticum monococcum.
Fox SE; Geniza M; Hanumappa M; Naithani S; Sullivan C; Preece J; Tiwari VK; Elser J; Leonard JM; Sage A; Gresham C; Kerhornou A; Bolser D; McCarthy F; Kersey P; Lazo GR; Jaiswal P
PLoS One; 2014; 9(5):e96855. PubMed ID: 24821410
[TBL] [Abstract][Full Text] [Related]
31. Analysis of wheat microspore embryogenesis induction by transcriptome and small RNA sequencing using the highly responsive cultivar "Svilena".
Seifert F; Bössow S; Kumlehn J; Gnad H; Scholten S
BMC Plant Biol; 2016 Apr; 16():97. PubMed ID: 27098368
[TBL] [Abstract][Full Text] [Related]
32. Compacting and correcting Trinity and Oases RNA-Seq
Cabau C; Escudié F; Djari A; Guiguen Y; Bobe J; Klopp C
PeerJ; 2017; 5():e2988. PubMed ID: 28224052
[TBL] [Abstract][Full Text] [Related]
33. The impacts of read length and transcriptome complexity for de novo assembly: a simulation study.
Chang Z; Wang Z; Li G
PLoS One; 2014; 9(4):e94825. PubMed ID: 24736633
[TBL] [Abstract][Full Text] [Related]
34. Ameliorated de novo transcriptome assembly using Illumina paired end sequence data with Trinity Assembler.
Bankar KG; Todur VN; Shukla RN; Vasudevan M
Genom Data; 2015 Sep; 5():352-9. PubMed ID: 26484285
[TBL] [Abstract][Full Text] [Related]
35. Combined de novo and genome guided assembly and annotation of the Pinus patula juvenile shoot transcriptome.
Visser EA; Wegrzyn JL; Steenkmap ET; Myburg AA; Naidoo S
BMC Genomics; 2015 Dec; 16():1057. PubMed ID: 26652261
[TBL] [Abstract][Full Text] [Related]
36. Genomic tools for durum wheat breeding: de novo assembly of Svevo transcriptome and SNP discovery in elite germplasm.
Vendramin V; Ormanbekova D; Scalabrin S; Scaglione D; Maccaferri M; Martelli P; Salvi S; Jurman I; Casadio R; Cattonaro F; Tuberosa R; Massi A; Morgante M
BMC Genomics; 2019 Apr; 20(1):278. PubMed ID: 30971220
[TBL] [Abstract][Full Text] [Related]
37. Optimization of de novo transcriptome assembly from next-generation sequencing data.
Surget-Groba Y; Montoya-Burgos JI
Genome Res; 2010 Oct; 20(10):1432-40. PubMed ID: 20693479
[TBL] [Abstract][Full Text] [Related]
38. Assembly-free rapid differential gene expression analysis in non-model organisms using DNA-protein alignment.
Shrestha AMS; B Guiao JE; R Santiago KC
BMC Genomics; 2022 Feb; 23(1):97. PubMed ID: 35120462
[TBL] [Abstract][Full Text] [Related]
39. Removal of redundant contigs from de novo RNA-Seq assemblies via homology search improves accurate detection of differentially expressed genes.
Ono H; Ishii K; Kozaki T; Ogiwara I; Kanekatsu M; Yamada T
BMC Genomics; 2015 Dec; 16():1031. PubMed ID: 26637306
[TBL] [Abstract][Full Text] [Related]
40. RNA-seq analysis of Quercus pubescens Leaves: de novo transcriptome assembly, annotation and functional markers development.
Torre S; Tattini M; Brunetti C; Fineschi S; Fini A; Ferrini F; Sebastiani F
PLoS One; 2014; 9(11):e112487. PubMed ID: 25393112
[TBL] [Abstract][Full Text] [Related]
[Previous] [Next] [New Search]