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De novo sequencing, assembly and analysis of the genome of the laboratory strain Saccharomyces cerevisiae CEN.PK113-7D, a model for modern industrial biotechnology.
Nijkamp JF, van den Broek M, Datema E, de Kok S, Bosman L, Luttik MA, Daran-Lapujade P, Vongsangnak W, Nielsen J, Heijne WH, Klaassen P, Paddon CJ, Platt D, Kötter P, van Ham RC, Reinders MJ, Pronk JT, de Ridder D, Daran JM. Nijkamp JF, et al. Among authors: van den broek m, van ham rc. Microb Cell Fact. 2012 Mar 26;11:36. doi: 10.1186/1475-2859-11-36. Microb Cell Fact. 2012. PMID: 22448915 Free PMC article.
Automatic Gene Function Prediction in the 2020's.
Makrodimitris S, van Ham RCHJ, Reinders MJT. Makrodimitris S, et al. Among authors: van ham rchj. Genes (Basel). 2020 Oct 27;11(11):1264. doi: 10.3390/genes11111264. Genes (Basel). 2020. PMID: 33120976 Free PMC article. Review.
Metric learning on expression data for gene function prediction.
Makrodimitris S, Reinders MJT, van Ham RCHJ. Makrodimitris S, et al. Among authors: van ham rchj. Bioinformatics. 2020 Feb 15;36(4):1182-1190. doi: 10.1093/bioinformatics/btz731. Bioinformatics. 2020. PMID: 31562759 Free PMC article.
High-throughput bioinformatics with the Cyrille2 pipeline system.
Fiers MW, van der Burgt A, Datema E, de Groot JC, van Ham RC. Fiers MW, et al. Among authors: van ham rc, van der burgt a. BMC Bioinformatics. 2008 Feb 12;9:96. doi: 10.1186/1471-2105-9-96. BMC Bioinformatics. 2008. PMID: 18269742 Free PMC article.
Exploring genetic variation in the tomato (Solanum section Lycopersicon) clade by whole-genome sequencing.
100 Tomato Genome Sequencing Consortium; Aflitos S, Schijlen E, de Jong H, de Ridder D, Smit S, Finkers R, Wang J, Zhang G, Li N, Mao L, Bakker F, Dirks R, Breit T, Gravendeel B, Huits H, Struss D, Swanson-Wagner R, van Leeuwen H, van Ham RC, Fito L, Guignier L, Sevilla M, Ellul P, Ganko E, Kapur A, Reclus E, de Geus B, van de Geest H, Te Lintel Hekkert B, van Haarst J, Smits L, Koops A, Sanchez-Perez G, van Heusden AW, Visser R, Quan Z, Min J, Liao L, Wang X, Wang G, Yue Z, Yang X, Xu N, Schranz E, Smets E, Vos R, Rauwerda J, Ursem R, Schuit C, Kerns M, van den Berg J, Vriezen W, Janssen A, Datema E, Jahrman T, Moquet F, Bonnet J, Peters S. 100 Tomato Genome Sequencing Consortium, et al. Among authors: van ham rc. Plant J. 2014 Oct;80(1):136-48. doi: 10.1111/tpj.12616. Epub 2014 Sep 3. Plant J. 2014. PMID: 25039268 Free article.
Solanum lycopersicum cv. Heinz 1706 chromosome 6: distribution and abundance of genes and retrotransposable elements.
Peters SA, Datema E, Szinay D, van Staveren MJ, Schijlen EG, van Haarst JC, Hesselink T, Abma-Henkens MH, Bai Y, de Jong H, Stiekema WJ, Klein Lankhorst RM, van Ham RC. Peters SA, et al. Among authors: van haarst jc, van ham rc, van staveren mj. Plant J. 2009 Jun;58(5):857-69. doi: 10.1111/j.1365-313X.2009.03822.x. Epub 2009 Feb 4. Plant J. 2009. PMID: 19207213 Free article.
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