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Decoding the massive genome of loblolly pine using haploid DNA and novel assembly strategies.
Neale DB, Wegrzyn JL, Stevens KA, Zimin AV, Puiu D, Crepeau MW, Cardeno C, Koriabine M, Holtz-Morris AE, Liechty JD, Martínez-García PJ, Vasquez-Gross HA, Lin BY, Zieve JJ, Dougherty WM, Fuentes-Soriano S, Wu LS, Gilbert D, Marçais G, Roberts M, Holt C, Yandell M, Davis JM, Smith KE, Dean JF, Lorenz WW, Whetten RW, Sederoff R, Wheeler N, McGuire PE, Main D, Loopstra CA, Mockaitis K, deJong PJ, Yorke JA, Salzberg SL, Langley CH. Neale DB, et al. Among authors: dejong pj. Genome Biol. 2014 Mar 4;15(3):R59. doi: 10.1186/gb-2014-15-3-r59. Genome Biol. 2014. PMID: 24647006 Free PMC article.
Sequencing and assembly of the 22-gb loblolly pine genome.
Zimin A, Stevens KA, Crepeau MW, Holtz-Morris A, Koriabine M, Marçais G, Puiu D, Roberts M, Wegrzyn JL, de Jong PJ, Neale DB, Salzberg SL, Yorke JA, Langley CH. Zimin A, et al. Genetics. 2014 Mar;196(3):875-90. doi: 10.1534/genetics.113.159715. Genetics. 2014. PMID: 24653210 Free PMC article.
Sequence of the Sugar Pine Megagenome.
Stevens KA, Wegrzyn JL, Zimin A, Puiu D, Crepeau M, Cardeno C, Paul R, Gonzalez-Ibeas D, Koriabine M, Holtz-Morris AE, Martínez-García PJ, Sezen UU, Marçais G, Jermstad K, McGuire PE, Loopstra CA, Davis JM, Eckert A, de Jong P, Yorke JA, Salzberg SL, Neale DB, Langley CH. Stevens KA, et al. Genetics. 2016 Dec;204(4):1613-1626. doi: 10.1534/genetics.116.193227. Epub 2016 Oct 28. Genetics. 2016. PMID: 27794028 Free PMC article.
Insights into the loblolly pine genome: characterization of BAC and fosmid sequences.
Wegrzyn JL, Lin BY, Zieve JJ, Dougherty WM, Martínez-García PJ, Koriabine M, Holtz-Morris A, deJong P, Crepeau M, Langley CH, Puiu D, Salzberg SL, Neale DB, Stevens KA. Wegrzyn JL, et al. Among authors: dejong p. PLoS One. 2013 Sep 4;8(9):e72439. doi: 10.1371/journal.pone.0072439. eCollection 2013. PLoS One. 2013. PMID: 24023741 Free PMC article.
Unique features of the loblolly pine (Pinus taeda L.) megagenome revealed through sequence annotation.
Wegrzyn JL, Liechty JD, Stevens KA, Wu LS, Loopstra CA, Vasquez-Gross HA, Dougherty WM, Lin BY, Zieve JJ, Martínez-García PJ, Holt C, Yandell M, Zimin AV, Yorke JA, Crepeau MW, Puiu D, Salzberg SL, Dejong PJ, Mockaitis K, Main D, Langley CH, Neale DB. Wegrzyn JL, et al. Among authors: dejong pj. Genetics. 2014 Mar;196(3):891-909. doi: 10.1534/genetics.113.159996. Genetics. 2014. PMID: 24653211 Free PMC article.
Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo): genome assembly and analysis.
Dalloul RA, Long JA, Zimin AV, Aslam L, Beal K, Blomberg Le Ann, Bouffard P, Burt DW, Crasta O, Crooijmans RP, Cooper K, Coulombe RA, De S, Delany ME, Dodgson JB, Dong JJ, Evans C, Frederickson KM, Flicek P, Florea L, Folkerts O, Groenen MA, Harkins TT, Herrero J, Hoffmann S, Megens HJ, Jiang A, de Jong P, Kaiser P, Kim H, Kim KW, Kim S, Langenberger D, Lee MK, Lee T, Mane S, Marcais G, Marz M, McElroy AP, Modise T, Nefedov M, Notredame C, Paton IR, Payne WS, Pertea G, Prickett D, Puiu D, Qioa D, Raineri E, Ruffier M, Salzberg SL, Schatz MC, Scheuring C, Schmidt CJ, Schroeder S, Searle SM, Smith EJ, Smith J, Sonstegard TS, Stadler PF, Tafer H, Tu ZJ, Van Tassell CP, Vilella AJ, Williams KP, Yorke JA, Zhang L, Zhang HB, Zhang X, Zhang Y, Reed KM. Dalloul RA, et al. PLoS Biol. 2010 Sep 7;8(9):e1000475. doi: 10.1371/journal.pbio.1000475. PLoS Biol. 2010. PMID: 20838655 Free PMC article.
Evolution of a bitter taste receptor gene cluster in a New World sparrow.
Davis JK, Lowman JJ, Thomas PJ, ten Hallers BF, Koriabine M, Huynh LY, Maney DL, de Jong PJ, Martin CL; NISC Comparative Sequencing Program; Thomas JW. Davis JK, et al. Genome Biol Evol. 2010 Jul 12;2:358-70. doi: 10.1093/gbe/evq027. Genome Biol Evol. 2010. PMID: 20624740 Free PMC article.
A sequence-based survey of the complex structural organization of tumor genomes.
Raphael BJ, Volik S, Yu P, Wu C, Huang G, Linardopoulou EV, Trask BJ, Waldman F, Costello J, Pienta KJ, Mills GB, Bajsarowicz K, Kobayashi Y, Sridharan S, Paris PL, Tao Q, Aerni SJ, Brown RP, Bashir A, Gray JW, Cheng JF, de Jong P, Nefedov M, Ried T, Padilla-Nash HM, Collins CC. Raphael BJ, et al. Genome Biol. 2008;9(3):R59. doi: 10.1186/gb-2008-9-3-r59. Epub 2008 Mar 25. Genome Biol. 2008. PMID: 18364049 Free PMC article.
76 results