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Insights into conifer giga-genomes.
De La Torre AR, Birol I, Bousquet J, Ingvarsson PK, Jansson S, Jones SJ, Keeling CI, MacKay J, Nilsson O, Ritland K, Street N, Yanchuk A, Zerbe P, Bohlmann J. De La Torre AR, et al. Among authors: jones sj. Plant Physiol. 2014 Dec;166(4):1724-32. doi: 10.1104/pp.114.248708. Epub 2014 Oct 27. Plant Physiol. 2014. PMID: 25349325 Free PMC article. Review.
Genomics of hybrid poplar (Populus trichocarpax deltoides) interacting with forest tent caterpillars (Malacosoma disstria): normalized and full-length cDNA libraries, expressed sequence tags, and a cDNA microarray for the study of insect-induced defences in poplar.
Ralph S, Oddy C, Cooper D, Yueh H, Jancsik S, Kolosova N, Philippe RN, Aeschliman D, White R, Huber D, Ritland CE, Benoit F, Rigby T, Nantel A, Butterfield YS, Kirkpatrick R, Chun E, Liu J, Palmquist D, Wynhoven B, Stott J, Yang G, Barber S, Holt RA, Siddiqui A, Jones SJ, Marra MA, Ellis BE, Douglas CJ, Ritland K, Bohlmann J. Ralph S, et al. Among authors: jones sj. Mol Ecol. 2006 Apr;15(5):1275-97. doi: 10.1111/j.1365-294X.2006.02824.x. Mol Ecol. 2006. PMID: 16626454
Conifer defence against insects: microarray gene expression profiling of Sitka spruce (Picea sitchensis) induced by mechanical wounding or feeding by spruce budworms (Choristoneura occidentalis) or white pine weevils (Pissodes strobi) reveals large-scale changes of the host transcriptome.
Ralph SG, Yueh H, Friedmann M, Aeschliman D, Zeznik JA, Nelson CC, Butterfield YS, Kirkpatrick R, Liu J, Jones SJ, Marra MA, Douglas CJ, Ritland K, Bohlmann J. Ralph SG, et al. Among authors: jones sj. Plant Cell Environ. 2006 Aug;29(8):1545-70. doi: 10.1111/j.1365-3040.2006.01532.x. Plant Cell Environ. 2006. PMID: 16898017 Free article.
A physical map of the highly heterozygous Populus genome: integration with the genome sequence and genetic map and analysis of haplotype variation.
Kelleher CT, Chiu R, Shin H, Bosdet IE, Krzywinski MI, Fjell CD, Wilkin J, Yin T, DiFazio SP, Ali J, Asano JK, Chan S, Cloutier A, Girn N, Leach S, Lee D, Mathewson CA, Olson T, O'connor K, Prabhu AL, Smailus DE, Stott JM, Tsai M, Wye NH, Yang GS, Zhuang J, Holt RA, Putnam NH, Vrebalov J, Giovannoni JJ, Grimwood J, Schmutz J, Rokhsar D, Jones SJ, Marra MA, Tuskan GA, Bohlmann J, Ellis BE, Ritland K, Douglas CJ, Schein JE. Kelleher CT, et al. Among authors: jones sj. Plant J. 2007 Jun;50(6):1063-78. doi: 10.1111/j.1365-313X.2007.03112.x. Epub 2007 May 3. Plant J. 2007. PMID: 17488239 Free article.
Genome-wide relationship between histone H3 lysine 4 mono- and tri-methylation and transcription factor binding.
Robertson AG, Bilenky M, Tam A, Zhao Y, Zeng T, Thiessen N, Cezard T, Fejes AP, Wederell ED, Cullum R, Euskirchen G, Krzywinski M, Birol I, Snyder M, Hoodless PA, Hirst M, Marra MA, Jones SJ. Robertson AG, et al. Among authors: jones sj. Genome Res. 2008 Dec;18(12):1906-17. doi: 10.1101/gr.078519.108. Epub 2008 Sep 11. Genome Res. 2008. PMID: 18787082 Free PMC article.
A conifer genomics resource of 200,000 spruce (Picea spp.) ESTs and 6,464 high-quality, sequence-finished full-length cDNAs for Sitka spruce (Picea sitchensis).
Ralph SG, Chun HJ, Kolosova N, Cooper D, Oddy C, Ritland CE, Kirkpatrick R, Moore R, Barber S, Holt RA, Jones SJ, Marra MA, Douglas CJ, Ritland K, Bohlmann J. Ralph SG, et al. Among authors: jones sj. BMC Genomics. 2008 Oct 14;9:484. doi: 10.1186/1471-2164-9-484. BMC Genomics. 2008. PMID: 18854048 Free PMC article.
ABySS: a parallel assembler for short read sequence data.
Simpson JT, Wong K, Jackman SD, Schein JE, Jones SJ, Birol I. Simpson JT, et al. Among authors: jones sj. Genome Res. 2009 Jun;19(6):1117-23. doi: 10.1101/gr.089532.108. Epub 2009 Feb 27. Genome Res. 2009. PMID: 19251739 Free PMC article.
De novo transcriptome assembly with ABySS.
Birol I, Jackman SD, Nielsen CB, Qian JQ, Varhol R, Stazyk G, Morin RD, Zhao Y, Hirst M, Schein JE, Horsman DE, Connors JM, Gascoyne RD, Marra MA, Jones SJ. Birol I, et al. Among authors: jones sj. Bioinformatics. 2009 Nov 1;25(21):2872-7. doi: 10.1093/bioinformatics/btp367. Epub 2009 Jun 15. Bioinformatics. 2009. PMID: 19528083
955 results