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FMLRC: Hybrid long read error correction using an FM-index.
Wang JR, Holt J, McMillan L, Jones CD. Wang JR, et al. Among authors: jones cd. BMC Bioinformatics. 2018 Feb 9;19(1):50. doi: 10.1186/s12859-018-2051-3. BMC Bioinformatics. 2018. PMID: 29426289 Free PMC article.
Evidence for extensive horizontal gene transfer from the draft genome of a tardigrade.
Boothby TC, Tenlen JR, Smith FW, Wang JR, Patanella KA, Nishimura EO, Tintori SC, Li Q, Jones CD, Yandell M, Messina DN, Glasscock J, Goldstein B. Boothby TC, et al. Among authors: jones cd. Proc Natl Acad Sci U S A. 2015 Dec 29;112(52):15976-81. doi: 10.1073/pnas.1510461112. Epub 2015 Nov 23. Proc Natl Acad Sci U S A. 2015. PMID: 26598659 Free PMC article.
Highly contiguous assemblies of 101 drosophilid genomes.
Kim BY, Wang JR, Miller DE, Barmina O, Delaney E, Thompson A, Comeault AA, Peede D, D'Agostino ERR, Pelaez J, Aguilar JM, Haji D, Matsunaga T, Armstrong EE, Zych M, Ogawa Y, Stamenković-Radak M, Jelić M, Veselinović MS, Tanasković M, Erić P, Gao JJ, Katoh TK, Toda MJ, Watabe H, Watada M, Davis JS, Moyle LC, Manoli G, Bertolini E, Košťál V, Hawley RS, Takahashi A, Jones CD, Price DK, Whiteman N, Kopp A, Matute DR, Petrov DA. Kim BY, et al. Among authors: jones cd. Elife. 2021 Jul 19;10:e66405. doi: 10.7554/eLife.66405. Elife. 2021. PMID: 34279216 Free PMC article.
MT-Toolbox: improved amplicon sequencing using molecule tags.
Yourstone SM, Lundberg DS, Dangl JL, Jones CD. Yourstone SM, et al. Among authors: jones cd. BMC Bioinformatics. 2014 Aug 22;15(1):284. doi: 10.1186/1471-2105-15-284. BMC Bioinformatics. 2014. PMID: 25149069 Free PMC article.
Extending assembly of short DNA sequences to handle error.
Jeck WR, Reinhardt JA, Baltrus DA, Hickenbotham MT, Magrini V, Mardis ER, Dangl JL, Jones CD. Jeck WR, et al. Among authors: jones cd. Bioinformatics. 2007 Nov 1;23(21):2942-4. doi: 10.1093/bioinformatics/btm451. Epub 2007 Sep 24. Bioinformatics. 2007. PMID: 17893086
Correction: Highly contiguous assemblies of 101 drosophilid genomes.
Kim BY, Wang JR, Miller DE, Barmina O, Delaney E, Thompson A, Comeault AA, Peede D, D'Agostino ERR, Pelaez J, Aguilar JM, Haji D, Matsunaga T, Armstrong E, Zych M, Ogawa Y, Stamenković-Radak M, Jelić M, Veselinović MS, Tanasković M, Erić P, Gao JJ, Katoh TK, Toda MJ, Watabe H, Watada M, Davis JS, Moyle LC, Manoli G, Bertolini E, Košťál V, Hawley RS, Takahashi A, Jones CD, Price DK, Whiteman N, Kopp A, Matute DR, Petrov DA. Kim BY, et al. Among authors: jones cd. Elife. 2022 Mar 18;11:e78579. doi: 10.7554/eLife.78579. Elife. 2022. PMID: 35302486 Free PMC article.
724 results