215 related articles for article (PubMed ID: 23666209)
41. Critical assessment of assembly strategies for non-model species mRNA-Seq data and application of next-generation sequencing to the comparison of C(3) and C(4) species.
Bräutigam A; Mullick T; Schliesky S; Weber AP
J Exp Bot; 2011 May; 62(9):3093-102. PubMed ID: 21398430
[TBL] [Abstract][Full Text] [Related]
42. Analysis of RNA Sequencing Data Using CLC Genomics Workbench.
Liu CH; Di YP
Methods Mol Biol; 2020; 2102():61-113. PubMed ID: 31989550
[TBL] [Abstract][Full Text] [Related]
43. IDBA-tran: a more robust de novo de Bruijn graph assembler for transcriptomes with uneven expression levels.
Peng Y; Leung HC; Yiu SM; Lv MJ; Zhu XG; Chin FY
Bioinformatics; 2013 Jul; 29(13):i326-34. PubMed ID: 23813001
[TBL] [Abstract][Full Text] [Related]
44. FRAMA: from RNA-seq data to annotated mRNA assemblies.
Bens M; Sahm A; Groth M; Jahn N; Morhart M; Holtze S; Hildebrandt TB; Platzer M; Szafranski K
BMC Genomics; 2016 Jan; 17():54. PubMed ID: 26763976
[TBL] [Abstract][Full Text] [Related]
45. Improved annotation with de novo transcriptome assembly in four social amoeba species.
Singh R; Lawal HM; Schilde C; Glöckner G; Barton GJ; Schaap P; Cole C
BMC Genomics; 2017 Jan; 18(1):120. PubMed ID: 28143409
[TBL] [Abstract][Full Text] [Related]
46. TransBorrow: genome-guided transcriptome assembly by borrowing assemblies from different assemblers.
Yu T; Mu Z; Fang Z; Liu X; Gao X; Liu J
Genome Res; 2020 Aug; 30(8):1181-1190. PubMed ID: 32817072
[TBL] [Abstract][Full Text] [Related]
47. A comparative analysis of methods for de novo assembly of hymenopteran genomes using either haploid or diploid samples.
Yahav T; Privman E
Sci Rep; 2019 Apr; 9(1):6480. PubMed ID: 31019201
[TBL] [Abstract][Full Text] [Related]
48. dnAQET: a framework to compute a consolidated metric for benchmarking quality of de novo assemblies.
Yavas G; Hong H; Xiao W
BMC Genomics; 2019 Sep; 20(1):706. PubMed ID: 31510940
[TBL] [Abstract][Full Text] [Related]
49. rnaQUAST: a quality assessment tool for de novo transcriptome assemblies.
Bushmanova E; Antipov D; Lapidus A; Suvorov V; Prjibelski AD
Bioinformatics; 2016 Jul; 32(14):2210-2. PubMed ID: 27153654
[TBL] [Abstract][Full Text] [Related]
50. Efficient Application of De Novo RNA Assemblers for Proteomics Informed by Transcriptomics.
Luge T; Fischer C; Sauer S
J Proteome Res; 2016 Oct; 15(10):3938-3943. PubMed ID: 27523192
[TBL] [Abstract][Full Text] [Related]
51. The present and future of de novo whole-genome assembly.
Sohn JI; Nam JW
Brief Bioinform; 2018 Jan; 19(1):23-40. PubMed ID: 27742661
[TBL] [Abstract][Full Text] [Related]
52. FastEtch: A Fast Sketch-Based Assembler for Genomes.
Ghosh P; Kalyanaraman A
IEEE/ACM Trans Comput Biol Bioinform; 2019; 16(4):1091-1106. PubMed ID: 28910776
[TBL] [Abstract][Full Text] [Related]
53. 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]
54. A consensus-based ensemble approach to improve transcriptome assembly.
Voshall A; Behera S; Li X; Yu XH; Kapil K; Deogun JS; Shanklin J; Cahoon EB; Moriyama EN
BMC Bioinformatics; 2021 Oct; 22(1):513. PubMed ID: 34674629
[TBL] [Abstract][Full Text] [Related]
55. TransFlow: a modular framework for assembling and assessing accurate de novo transcriptomes in non-model organisms.
Seoane P; Espigares M; Carmona R; Polonio Á; Quintana J; Cretazzo E; Bota J; Pérez-García A; Dios Alché J; Gómez L; Claros MG
BMC Bioinformatics; 2018 Nov; 19(Suppl 14):416. PubMed ID: 30453874
[TBL] [Abstract][Full Text] [Related]
56. 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]
57. Efficient de novo assembly of large genomes using compressed data structures.
Simpson JT; Durbin R
Genome Res; 2012 Mar; 22(3):549-56. PubMed ID: 22156294
[TBL] [Abstract][Full Text] [Related]
58. Full-length transcriptome assembly from RNA-Seq data without a reference genome.
Grabherr MG; Haas BJ; Yassour M; Levin JZ; Thompson DA; Amit I; Adiconis X; Fan L; Raychowdhury R; Zeng Q; Chen Z; Mauceli E; Hacohen N; Gnirke A; Rhind N; di Palma F; Birren BW; Nusbaum C; Lindblad-Toh K; Friedman N; Regev A
Nat Biotechnol; 2011 May; 29(7):644-52. PubMed ID: 21572440
[TBL] [Abstract][Full Text] [Related]
59. GAM-NGS: genomic assemblies merger for next generation sequencing.
Vicedomini R; Vezzi F; Scalabrin S; Arvestad L; Policriti A
BMC Bioinformatics; 2013; 14 Suppl 7(Suppl 7):S6. PubMed ID: 23815503
[TBL] [Abstract][Full Text] [Related]
60. Reference-guided de novo assembly approach improves genome reconstruction for related species.
Lischer HEL; Shimizu KK
BMC Bioinformatics; 2017 Nov; 18(1):474. PubMed ID: 29126390
[TBL] [Abstract][Full Text] [Related]
[Previous] [Next] [New Search]
