179 related articles for article (PubMed ID: 28824658)
1.
Izan S; Esselink D; Visser RGF; Smulders MJM; Borm T
Front Plant Sci; 2017; 8():1271. PubMed ID: 28824658
[TBL] [Abstract][Full Text] [Related]
2. Norgal: extraction and de novo assembly of mitochondrial DNA from whole-genome sequencing data.
Al-Nakeeb K; Petersen TN; Sicheritz-Pontén T
BMC Bioinformatics; 2017 Nov; 18(1):510. PubMed ID: 29162031
[TBL] [Abstract][Full Text] [Related]
3. SMRT sequencing only de novo assembly of the sugar beet (Beta vulgaris) chloroplast genome.
Stadermann KB; Weisshaar B; Holtgräwe D
BMC Bioinformatics; 2015 Sep; 16(1):295. PubMed ID: 26377912
[TBL] [Abstract][Full Text] [Related]
4. Can we use it? On the utility of de novo and reference-based assembly of Nanopore data for plant plastome sequencing.
Scheunert A; Dorfner M; Lingl T; Oberprieler C
PLoS One; 2020; 15(3):e0226234. PubMed ID: 32208422
[TBL] [Abstract][Full Text] [Related]
5. Assembly of chloroplast genomes with long- and short-read data: a comparison of approaches using Eucalyptus pauciflora as a test case.
Wang W; Schalamun M; Morales-Suarez A; Kainer D; Schwessinger B; Lanfear R
BMC Genomics; 2018 Dec; 19(1):977. PubMed ID: 30594129
[TBL] [Abstract][Full Text] [Related]
6. Organelle_PBA, a pipeline for assembling chloroplast and mitochondrial genomes from PacBio DNA sequencing data.
Soorni A; Haak D; Zaitlin D; Bombarely A
BMC Genomics; 2017 Jan; 18(1):49. PubMed ID: 28061749
[TBL] [Abstract][Full Text] [Related]
7. CLAW: An automated Snakemake workflow for the assembly of chloroplast genomes from long-read data.
Phillips AL; Ferguson S; Burton RA; Watson-Haigh NS
PLoS Comput Biol; 2024 Feb; 20(2):e1011870. PubMed ID: 38335225
[TBL] [Abstract][Full Text] [Related]
8. High-accuracy de novo assembly and SNP detection of chloroplast genomes using a SMRT circular consensus sequencing strategy.
Li Q; Li Y; Song J; Xu H; Xu J; Zhu Y; Li X; Gao H; Dong L; Qian J; Sun C; Chen S
New Phytol; 2014 Dec; 204(4):1041-9. PubMed ID: 25103547
[TBL] [Abstract][Full Text] [Related]
9. RepAHR: an improved approach for de novo repeat identification by assembly of the high-frequency reads.
Liao X; Gao X; Zhang X; Wu FX; Wang J
BMC Bioinformatics; 2020 Oct; 21(1):463. PubMed ID: 33076827
[TBL] [Abstract][Full Text] [Related]
10. Annotation-based genome-wide SNP discovery in the large and complex Aegilops tauschii genome using next-generation sequencing without a reference genome sequence.
You FM; Huo N; Deal KR; Gu YQ; Luo MC; McGuire PE; Dvorak J; Anderson OD
BMC Genomics; 2011 Jan; 12():59. PubMed ID: 21266061
[TBL] [Abstract][Full Text] [Related]
11. Assembly of the Complete Sitka Spruce Chloroplast Genome Using 10X Genomics' GemCode Sequencing Data.
Coombe L; Warren RL; Jackman SD; Yang C; Vandervalk BP; Moore RA; Pleasance S; Coope RJ; Bohlmann J; Holt RA; Jones SJ; Birol I
PLoS One; 2016; 11(9):e0163059. PubMed ID: 27632164
[TBL] [Abstract][Full Text] [Related]
12. Are we there yet? Benchmarking low-coverage nanopore long-read sequencing for the assembling of mitochondrial genomes using the vulnerable silky shark Carcharhinus falciformis.
Baeza JA; García-De León FJ
BMC Genomics; 2022 Apr; 23(1):320. PubMed ID: 35459089
[TBL] [Abstract][Full Text] [Related]
13. Optimizing de novo assembly of short-read RNA-seq data for phylogenomics.
Yang Y; Smith SA
BMC Genomics; 2013 May; 14():328. PubMed ID: 23672450
[TBL] [Abstract][Full Text] [Related]
14. Statistical Mitogenome Assembly with RepeaTs.
Alqahtani F; Măndoiu II
J Comput Biol; 2020 Sep; 27(9):1407-1421. PubMed ID: 32048871
[TBL] [Abstract][Full Text] [Related]
15. An evaluation of the PacBio RS platform for sequencing and de novo assembly of a chloroplast genome.
Ferrarini M; Moretto M; Ward JA; Šurbanovski N; Stevanović V; Giongo L; Viola R; Cavalieri D; Velasco R; Cestaro A; Sargent DJ
BMC Genomics; 2013 Oct; 14():670. PubMed ID: 24083400
[TBL] [Abstract][Full Text] [Related]
16. Optimization of de novo transcriptome assembly from high-throughput short read sequencing data improves functional annotation for non-model organisms.
Haznedaroglu BZ; Reeves D; Rismani-Yazdi H; Peccia J
BMC Bioinformatics; 2012 Jul; 13():170. PubMed ID: 22808927
[TBL] [Abstract][Full Text] [Related]
17. Long-read based de novo assembly of low-complexity metagenome samples results in finished genomes and reveals insights into strain diversity and an active phage system.
Somerville V; Lutz S; Schmid M; Frei D; Moser A; Irmler S; Frey JE; Ahrens CH
BMC Microbiol; 2019 Jun; 19(1):143. PubMed ID: 31238873
[TBL] [Abstract][Full Text] [Related]
18. An efficient procedure for plant organellar genome assembly, based on whole genome data from the 454 GS FLX sequencing platform.
Zhang T; Zhang X; Hu S; Yu J
Plant Methods; 2011 Nov; 7():38. PubMed ID: 22126655
[TBL] [Abstract][Full Text] [Related]
19. Lerna: transformer architectures for configuring error correction tools for short- and long-read genome sequencing.
Sharma A; Jain P; Mahgoub A; Zhou Z; Mahadik K; Chaterji S
BMC Bioinformatics; 2022 Jan; 23(1):25. PubMed ID: 34991450
[TBL] [Abstract][Full Text] [Related]
20. Optimizing de novo common wheat transcriptome assembly using short-read RNA-Seq data.
Duan J; Xia C; Zhao G; Jia J; Kong X
BMC Genomics; 2012 Aug; 13():392. PubMed ID: 22891638
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]