TY - JOUR AU - Stenson, P. D. AU - Ball, E. V. AU - Howells, K. AU - Phillips, A. D. AU - Mort, M. AU - Cooper, D. N. PY - 2009 DA - 2009// TI - The Human Gene Mutation Database: Providing a comprehensive central mutation database for molecular diagnostics and personalized genomics JO - Hum Genomics VL - 4 UR - https://doi.org/10.1186/1479-7364-4-2-69 DO - 10.1186/1479-7364-4-2-69 ID - Stenson2009 ER - TY - JOUR AU - Jannink, J. L. AU - Lorenz, A. J. AU - Iwata, H. PY - 2010 DA - 2010// TI - Genomic selection in plant breeding: From theory to practice JO - Brief Funct Genomics VL - 9 UR - https://doi.org/10.1093/bfgp/elq001 DO - 10.1093/bfgp/elq001 ID - Jannink2010 ER - TY - JOUR AU - Schefers, J. M. AU - Weigel, K. A. PY - 2012 DA - 2012// TI - Genomic selection in dairy cattle: Integration of DNA testing into breeding programs JO - Anim Front VL - 2 UR - https://doi.org/10.2527/af.2011-0032 DO - 10.2527/af.2011-0032 ID - Schefers2012 ER - TY - JOUR AU - Ingvarsson, P. K. AU - Street, N. R. PY - 2011 DA - 2011// TI - Association genetics of complex traits in plants JO - New Phytol VL - 189 UR - https://doi.org/10.1111/j.1469-8137.2010.03593.x DO - 10.1111/j.1469-8137.2010.03593.x ID - Ingvarsson2011 ER - TY - JOUR AU - Rockman, M. V. PY - 2012 DA - 2012// TI - The QTN program and the alleles that matter for evolution: All that's gold does not glitter JO - Evolution VL - 66 UR - https://doi.org/10.1111/j.1558-5646.2011.01486.x DO - 10.1111/j.1558-5646.2011.01486.x ID - Rockman2012 ER - TY - JOUR AU - Meuwissen, T. H. E. AU - Hayes, B. J. AU - Goddard, M. E. PY - 2001 DA - 2001// TI - Prediction of total genetic value using genome-wide dense marker maps JO - Genetics VL - 157 ID - Meuwissen2001 ER - TY - JOUR AU - Wiggans, G. R. AU - Van Raden, P. M. AU - Cooper, T. A. PY - 2011 DA - 2011// TI - The genomic evaluation system in the United States: Past, present, future JO - J Dairy Sci VL - 94 UR - https://doi.org/10.3168/jds.2010-3866 DO - 10.3168/jds.2010-3866 ID - Wiggans2011 ER - TY - JOUR AU - Slavov, G. T. AU - Howe, G. T. AU - Adams, W. T. PY - 2005 DA - 2005// TI - Pollen contamination and mating patterns in a Douglas-fir seed orchard as measured by simple sequence repeat markers JO - Can J For Res VL - 35 UR - https://doi.org/10.1139/x05-082 DO - 10.1139/x05-082 ID - Slavov2005 ER - TY - JOUR AU - El-Kassaby, Y. A. AU - Funda, T. AU - Lai, B. S. K. PY - 2010 DA - 2010// TI - Female reproductive success variation in a Pseudotsuga menziesii seed orchard as revealed by pedigree reconstruction from a bulk seed collection JO - J Hered VL - 101 UR - https://doi.org/10.1093/jhered/esp126 DO - 10.1093/jhered/esp126 ID - El-Kassaby2010 ER - TY - JOUR AU - Lambeth, C. AU - Lee, B. C. AU - O'Malley, D. AU - Wheeler, N. PY - 2001 DA - 2001// TI - Polymix breeding with parental analysis of progeny: An alternative to full-sib breeding and testing JO - Theor Appl Genet VL - 103 UR - https://doi.org/10.1007/s001220100627 DO - 10.1007/s001220100627 ID - Lambeth2001 ER - TY - JOUR AU - El-Kassaby, Y. A. AU - Cappa, E. P. AU - Liewlaksaneeyanawin, C. AU - Klapste, J. AU - Lstiburek, M. PY - 2011 DA - 2011// TI - Breeding without breeding: Is a complete pedigree necessary for efficient breeding? JO - PLoS One VL - 6 UR - https://doi.org/10.1371/journal.pone.0025737 DO - 10.1371/journal.pone.0025737 ID - El-Kassaby2011 ER - TY - JOUR AU - Gugger, P. F. AU - Gonzalez-Rodriguez, A. AU - Rodriguez-Correa, H. AU - Sugita, S. AU - Cavender-Bares, J. PY - 2011 DA - 2011// TI - Southward Pleistocene migration of Douglas-fir into Mexico: Phylogeography, ecological niche modeling, and conservation of 'rear edge' populations JO - New Phytol VL - 189 UR - https://doi.org/10.1111/j.1469-8137.2010.03559.x DO - 10.1111/j.1469-8137.2010.03559.x ID - Gugger2011 ER - TY - STD TI - Earle C: The gymnosperm database: Pseudotsuga lindleyana. http://www.conifers.org/pi/Pseudotsuga_lindleyana.php, UR - http://www.conifers.org/pi/Pseudotsuga_lindleyana.php ID - ref13 ER - TY - JOUR AU - Howe, G. T. AU - Jayawickrama, K. AU - Cherry, M. AU - Johnson, G. AU - Wheeler, N. C. PY - 2006 DA - 2006// TI - Breeding Douglas-fir JO - Plant Breed Rev VL - 27 ID - Howe2006 ER - TY - JOUR AU - Eckert, A. J. AU - Bower, A. D. AU - Wegrzyn, J. L. AU - Pande, B. AU - Jermstad, K. D. AU - Krutovsky, K. V. AU - St Clair, J. B. AU - Neale, D. B. PY - 2009 DA - 2009// TI - Association genetics of coastal Douglas-fir (Pseudotsuga menziesii var. menziesii, Pinaceae). I. Cold-hardiness related traits JO - Genetics VL - 182 UR - https://doi.org/10.1534/genetics.109.102350 DO - 10.1534/genetics.109.102350 ID - Eckert2009 ER - TY - JOUR AU - Rigault, P. AU - Boyle, B. AU - Lepage, P. AU - Cooke, J. E. K. AU - Bousquet, J. AU - MacKay, J. J. PY - 2011 DA - 2011// TI - A white spruce gene catalog for conifer genome analyses JO - Plant Physiol VL - 157 UR - https://doi.org/10.1104/pp.111.179663 DO - 10.1104/pp.111.179663 ID - Rigault2011 ER - TY - JOUR AU - Barker, M. S. AU - Dlugosch, K. M. AU - Reddy, A. C. C. AU - Amyotte, S. N. AU - Rieseberg, L. H. PY - 2009 DA - 2009// TI - SCARF: Maximizing next-generation EST assemblies for evolutionary and population genomic analyses JO - Bioinformatics VL - 25 UR - https://doi.org/10.1093/bioinformatics/btp011 DO - 10.1093/bioinformatics/btp011 ID - Barker2009 ER - TY - JOUR AU - Gunderson, K. L. PY - 2009 DA - 2009// TI - Whole-genome genotyping on bead arrays JO - Meth Mol Biol VL - 529 UR - https://doi.org/10.1007/978-1-59745-538-1_13 DO - 10.1007/978-1-59745-538-1_13 ID - Gunderson2009 ER - TY - BOOK PY - 2010 DA - 2010// TI - Infinium genotyping data analysis: A guide for analyzing Infinium genotyping data using the Illumina GenomeStudio Genotyping Module PB - Pub. No. 970-2007-005 (current as of 13 January 2010), Illumina Inc CY - San Diego, CA ID - ref19 ER - TY - JOUR AU - Kumar, S. AU - Blaxter, M. L. PY - 2010 DA - 2010// TI - Comparing de novo assemblers for 454 transcriptome data JO - BMC Genomics VL - 11 UR - https://doi.org/10.1186/1471-2164-11-571 DO - 10.1186/1471-2164-11-571 ID - Kumar2010 ER - TY - JOUR AU - Martin, J. A. AU - Wang, Z. PY - 2011 DA - 2011// TI - Next-generation transcriptome assembly JO - Nat Rev Genet VL - 12 UR - https://doi.org/10.1038/nrg3068 DO - 10.1038/nrg3068 ID - Martin2011 ER - TY - JOUR AU - Parchman, T. L. AU - Geist, K. S. AU - Grahnen, J. A. AU - Benkman, C. W. AU - Buerkle, C. A. PY - 2010 DA - 2010// TI - Transcriptome sequencing in an ecologically important tree species: Assembly, annotation, and marker discovery JO - BMC Genomics VL - 11 UR - https://doi.org/10.1186/1471-2164-11-180 DO - 10.1186/1471-2164-11-180 ID - Parchman2010 ER - TY - JOUR AU - Fernandez-Pozo, N. AU - Canales, J. AU - Guerrero-Fernandez, D. AU - Villalobos, D. P. AU - Diaz-Moreno, S. M. AU - Bautista, R. AU - Flores-Monterroso, A. AU - Guevara, M. A. AU - Perdiguero, P. AU - Collada, C. AU - Cervera, T. M. AU - Soto, A. AU - Ordas, R. AU - Canton, F. R. AU - Avila, C. AU - Canovas, F. M. AU - Claros, M. G. PY - 2011 DA - 2011// TI - EuroPineDB: A high-coverage web database for maritime pine transcriptome JO - BMC Genomics VL - 12 UR - https://doi.org/10.1186/1471-2164-12-366 DO - 10.1186/1471-2164-12-366 ID - Fernandez-Pozo2011 ER - TY - JOUR AU - Silby, M. W. AU - Winstanley, C. AU - Godfrey, S. A. C. AU - Levy, S. B. AU - Jackson, R. W. PY - 2011 DA - 2011// TI - Pseudomonas genomes: Diverse and adaptable JO - Fems Microbiol Rev VL - 35 UR - https://doi.org/10.1111/j.1574-6976.2011.00269.x DO - 10.1111/j.1574-6976.2011.00269.x ID - Silby2011 ER - TY - JOUR AU - Frey-Klett, P. AU - Garbaye, J. AU - Tarkka, M. PY - 2007 DA - 2007// TI - The mycorrhiza helper bacteria revisited JO - New Phytologist VL - 176 UR - https://doi.org/10.1111/j.1469-8137.2007.02191.x DO - 10.1111/j.1469-8137.2007.02191.x ID - Frey-Klett2007 ER - TY - JOUR AU - Peterson, M. J. AU - Sutherland, J. R. AU - Tuller, S. E. PY - 1988 DA - 1988// TI - Greenhouse environment and epidemiology of grey mold of container-grown Douglas-fir seedlings JO - Can J For Res VL - 18 UR - https://doi.org/10.1139/x88-149 DO - 10.1139/x88-149 ID - Peterson1988 ER - TY - JOUR AU - Gordon, T. R. AU - Kirkpatrick, S. C. AU - Aegerter, B. J. AU - Wood, D. L. AU - Storer, A. J. PY - 2006 DA - 2006// TI - Susceptibility of Douglas fir (Pseudotsuga menziesii) to pitch canker, caused by Gibberella circinata (anamorph = Fusarium circinatum) JO - Plant Pathol VL - 55 UR - https://doi.org/10.1111/j.1365-3059.2006.01351.x DO - 10.1111/j.1365-3059.2006.01351.x ID - Gordon2006 ER - TY - JOUR AU - Lorenz, W. W. AU - Neale, D. B. AU - Jermstad, K. D. AU - Howe, G. T. AU - Rogers, D. L. AU - Bordeaux, J. M. AU - Ayyampalayam, S. AU - Dean, J. F. D. PY - 2012 DA - 2012// TI - Conifer DBMagic: A database housing multiple de novo transcriptome assemblies for 12 diverse conifer species JO - Tree Genetics & Genomes VL - 8 UR - https://doi.org/10.1007/s11295-012-0547-y DO - 10.1007/s11295-012-0547-y ID - Lorenz2012 ER - TY - JOUR AU - Alagna, F. AU - D'Agostino, N. AU - Torchia, L. AU - Servili, M. AU - Rao, R. AU - Pietrella, M. AU - Giuliano, G. AU - Chiusano, M. L. AU - Baldoni, L. AU - Perrotta, G. PY - 2009 DA - 2009// TI - Comparative 454 pyrosequencing of transcripts from two olive genotypes during fruit development JO - BMC Genomics VL - 10 UR - https://doi.org/10.1186/1471-2164-10-399 DO - 10.1186/1471-2164-10-399 ID - Alagna2009 ER - TY - JOUR AU - Barakat, A. AU - DiLoreto, D. S. AU - Zhang, Y. AU - Smith, C. AU - Baier, K. AU - Powell, W. A. AU - Wheeler, N. AU - Sederoff, R. AU - Carlson, J. E. PY - 2009 DA - 2009// TI - Comparison of the transcriptomes of American chestnut (Castanea dentata) and Chinese chestnut (Castanea mollissima) in response to the chestnut blight infection JO - BMC Plant Biol VL - 9 UR - https://doi.org/10.1186/1471-2229-9-51 DO - 10.1186/1471-2229-9-51 ID - Barakat2009 ER - TY - JOUR AU - Delano-Frier, J. P. AU - Aviles-Arnaut, H. AU - Casarrubias-Castillo, K. AU - Casique-Arroyo, G. AU - Castrillon-Arbelaez, P. A. AU - Herrera-Estrella, L. AU - Massange-Sanchez, J. AU - Martinez-Gallardo, N. A. AU - Parra-Cota, F. I. AU - Estrada-Hernandez, M. G. PY - 2011 DA - 2011// TI - Transcriptomic analysis of grain amaranth (Amaranthus hypochondriacus) using 454 pyrosequencing: Comparison with A. tuberculatus, expression profiling in stems and in response to biotic and abiotic stress JO - BMC Genomics VL - 12 UR - https://doi.org/10.1186/1471-2164-12-363 DO - 10.1186/1471-2164-12-363 ID - Delano-Frier2011 ER - TY - JOUR AU - Logacheva, M. D. AU - Kasianov, A. S. AU - Vinogradov, D. V. AU - Samigullin, T. H. AU - Gelfand, M. S. AU - Makeev, V. J. AU - Penin, A. A. PY - 2011 DA - 2011// TI - De novo sequencing and characterization of floral transcriptome in two species of buckwheat (Fagopyrum) JO - BMC Genomics VL - 12 UR - https://doi.org/10.1186/1471-2164-12-30 DO - 10.1186/1471-2164-12-30 ID - Logacheva2011 ER - TY - JOUR AU - Bajgain, P. AU - Richardson, B. A. AU - Price, J. C. AU - Cronn, R. C. AU - Udall, J. A. PY - 2011 DA - 2011// TI - Transcriptome characterization and polymorphism detection between subspecies of big sagebrush (Artemisia tridentata) JO - BMC Genomics VL - 12 UR - https://doi.org/10.1186/1471-2164-12-370 DO - 10.1186/1471-2164-12-370 ID - Bajgain2011 ER - TY - JOUR AU - Hsiao, Y. Y. AU - Chen, Y. W. AU - Huang, S. C. AU - Pan, Z. J. AU - Fu, C. H. AU - Chen, W. H. AU - Tsai, W. C. AU - Chen, H. H. PY - 2011 DA - 2011// TI - Gene discovery using next-generation pyrosequencing to develop ESTs for Phalaenopsis orchids JO - BMC Genomics VL - 12 UR - https://doi.org/10.1186/1471-2164-12-360 DO - 10.1186/1471-2164-12-360 ID - Hsiao2011 ER - TY - JOUR AU - Schmid, R. PY - 2008 DA - 2008// TI - Blaxter ML: annot8r: GO, EC and KEGG annotation of EST datasets JO - BMC Bioinformatics VL - 9 UR - https://doi.org/10.1186/1471-2105-9-180 DO - 10.1186/1471-2105-9-180 ID - Schmid2008 ER - TY - JOUR AU - Eckert, A. J. AU - van Heerwaarden, J. AU - Wegrzyn, J. L. AU - Nelson, C. D. AU - Ross-Ibarra, J. AU - Gonzalez-Martinez, S. C. AU - Neale, D. B. PY - 2010 DA - 2010// TI - Patterns of population structure and environmental associations to aridity across the range of loblolly pine (Pinus taeda L., Pinaceae) JO - Genetics VL - 185 UR - https://doi.org/10.1534/genetics.110.115543 DO - 10.1534/genetics.110.115543 ID - Eckert2010 ER - TY - JOUR AU - Pavy, N. AU - Pelgas, B. AU - Beauseigle, S. AU - Blais, S. AU - Gagnon, F. AU - Gosselin, I. AU - Lamothe, M. AU - Isabel, N. AU - Bousquet, J. PY - 2008 DA - 2008// TI - Enhancing genetic mapping of complex genomes through the design of highly-multiplexed SNP arrays: Application to the large and unsequenced genomes of white spruce and black spruce JO - BMC Genomics VL - 9 UR - https://doi.org/10.1186/1471-2164-9-21 DO - 10.1186/1471-2164-9-21 ID - Pavy2008 ER - TY - JOUR AU - Khan, M. A. AU - Han, Y. P. AU - Zhao, Y. F. AU - Korban, S. S. PY - 2012 DA - 2012// TI - A high-throughput apple SNP genotyping platform using the GoldenGate (TM) assay JO - Gene VL - 494 UR - https://doi.org/10.1016/j.gene.2011.12.001 DO - 10.1016/j.gene.2011.12.001 ID - Khan2012 ER - TY - JOUR AU - Eckert, A. J. AU - Pande, B. AU - Ersoz, E. S. AU - Wright, M. H. AU - Rashbrook, V. K. AU - Nicolet, C. M. AU - Neale, D. B. PY - 2009 DA - 2009// TI - High-throughput genotyping and mapping of single nucleotide polymorphisms in loblolly pine (Pinus taeda L.) JO - Tree Genet Genomes VL - 5 UR - https://doi.org/10.1007/s11295-008-0183-8 DO - 10.1007/s11295-008-0183-8 ID - Eckert2009 ER - TY - JOUR AU - Bachlava, E. AU - Taylor, C. A. AU - Tang, S. X. AU - Bowers, J. E. AU - Mandel, J. R. AU - Burke, J. M. AU - Knapp, S. J. PY - 2012 DA - 2012// TI - SNP discovery and development of a high-density genotyping array for sunflower JO - PLoS One VL - 7 UR - https://doi.org/10.1371/journal.pone.0029814 DO - 10.1371/journal.pone.0029814 ID - Bachlava2012 ER - TY - JOUR AU - Hyten, D. L. AU - Song, Q. AU - Choi, I. Y. AU - Yoon, M. S. AU - Specht, J. E. AU - Matukumalli, L. K. AU - Nelson, R. L. AU - Shoemaker, R. C. AU - Young, N. D. AU - Cregan, P. B. PY - 2008 DA - 2008// TI - High-throughput genotyping with the GoldenGate assay in the complex genome of soybean JO - Theor Appl Genet VL - 116 UR - https://doi.org/10.1007/s00122-008-0726-2 DO - 10.1007/s00122-008-0726-2 ID - Hyten2008 ER - TY - JOUR AU - Jones, E. AU - Chu, W. C. AU - Ayele, M. AU - Ho, J. AU - Bruggeman, E. AU - Yourstone, K. AU - Rafalski, A. AU - Smith, O. S. AU - McMullen, M. D. AU - Bezawada Warren, J. AU - Babayev, J. AU - Basu, S. AU - Smith, S. PY - 2009 DA - 2009// TI - Development of single nucleotide polymorphism (SNP) markers for use in commercial maize (Zea mays L.) germplasm JO - Mol Breeding VL - 24 UR - https://doi.org/10.1007/s11032-009-9281-z DO - 10.1007/s11032-009-9281-z ID - Jones2009 ER - TY - JOUR AU - Akhunov, E. AU - Nicolet, C. AU - Dvorak, J. PY - 2009 DA - 2009// TI - Single nucleotide polymorphism genotyping in polyploid wheat with the Illumina GoldenGate assay JO - Theor Appl Genet VL - 119 UR - https://doi.org/10.1007/s00122-009-1059-5 DO - 10.1007/s00122-009-1059-5 ID - Akhunov2009 ER - TY - JOUR AU - Rostoks, N. AU - Ramsay, L. AU - MacKenzie, K. AU - Cardle, L. AU - Bhat, P. R. AU - Roose, M. L. AU - Svensson, J. T. AU - Stein, N. AU - Varshney, R. K. AU - Marshall, D. F. AU - Graner, A. AU - Close, T. J. AU - Waugh, R. PY - 2006 DA - 2006// TI - Recent history of artificial outcrossing facilitates whole-genome association mapping in elite inbred crop varieties JO - Proc Natl Acad Sci USA VL - 103 UR - https://doi.org/10.1073/pnas.0606133103 DO - 10.1073/pnas.0606133103 ID - Rostoks2006 ER - TY - JOUR AU - Chao, S. M. AU - Dubcovsky, J. AU - Dvorak, J. AU - Luo, M. C. AU - Baenziger, S. P. AU - Matnyazov, R. AU - Clark, D. R. AU - Talbert, L. E. AU - Anderson, J. A. AU - Dreisigacker, S. PY - 2010 DA - 2010// TI - Population- and genome-specific patterns of linkage disequilibrium and SNP variation in spring and winter wheat (Triticum aestivum L.) JO - BMC Genomics VL - 11 UR - https://doi.org/10.1186/1471-2164-11-727 DO - 10.1186/1471-2164-11-727 ID - Chao2010 ER - TY - JOUR AU - Yan, J. B. AU - Yang, X. H. AU - Shah, T. AU - Sanchez-Villeda, H. AU - Li, J. S. AU - Warburton, M. AU - Zhou, Y. AU - Crouch, J. H. AU - Xu, Y. B. PY - 2010 DA - 2010// TI - High-throughput SNP genotyping with the GoldenGate assay in maize JO - Mol Breeding VL - 25 UR - https://doi.org/10.1007/s11032-009-9343-2 DO - 10.1007/s11032-009-9343-2 ID - Yan2010 ER - TY - JOUR AU - Yuan, S. H. AU - Dean, J. F. D. PY - 2010 DA - 2010// TI - Differential responses of the promoters from nearly identical paralogs of loblolly pine (Pinus taeda L.) ACC oxidase to biotic and abiotic stresses in transgenic Arabidopsis thaliana JO - Planta VL - 232 UR - https://doi.org/10.1007/s00425-010-1224-8 DO - 10.1007/s00425-010-1224-8 ID - Yuan2010 ER - TY - JOUR AU - Little, J. AU - Higgins, J. P. T. AU - Ioannidis, J. P. A. AU - Moher, D. AU - Gagnon, F. AU - von Elm, E. AU - Khoury, M. J. AU - Cohen, B. AU - Davey-Smith, G. AU - Grimshaw, J. AU - Scheet, P. AU - Gwinn, M. AU - Williamson, R. E. AU - Zou, G. Y. AU - Hutchings, K. AU - Johnson, C. Y. AU - Wiens, M. AU - Golding, J. AU - van Duijn, C. AU - McLaughlin, J. AU - Paterson, A. AU - Wells, G. AU - Fortier, I. AU - Freedman, M. AU - Zecevic, M. AU - King, R. AU - Infante-Rivard, C. AU - Steart, A. AU - Birkett, N. PY - 2009 DA - 2009// TI - STrengthening the REporting of Genetic Association Studies (STREGA) - An extension of the STROBE statement JO - Plos Med VL - 6 UR - https://doi.org/10.1371/journal.pmed.1000022 DO - 10.1371/journal.pmed.1000022 ID - Little2009 ER - TY - JOUR AU - Pare, G. PY - 2010 DA - 2010// TI - Genome-wide association studies-data generation, storage, interpretation, and bioinformatics JO - J Cardiovasc Transl VL - 3 UR - https://doi.org/10.1007/s12265-010-9181-y DO - 10.1007/s12265-010-9181-y ID - Pare2010 ER - TY - JOUR AU - Hayes, B. AU - Goddard, M. PY - 2010 DA - 2010// TI - Genome-wide association and genomic selection in animal breeding JO - Genome VL - 53 UR - https://doi.org/10.1139/G10-076 DO - 10.1139/G10-076 ID - Hayes2010 ER - TY - JOUR AU - Grattapaglia, D. AU - Resende, M. D. V. PY - 2011 DA - 2011// TI - Genomic selection in forest tree breeding JO - Tree Genet Genomes VL - 7 UR - https://doi.org/10.1007/s11295-010-0328-4 DO - 10.1007/s11295-010-0328-4 ID - Grattapaglia2011 ER - TY - JOUR AU - Sonesson, A. K. AU - Meuwissen, T. H. E. PY - 2009 DA - 2009// TI - Testing strategies for genomic selection in aquaculture breeding programs JO - Genet Sel Evol VL - 41 UR - https://doi.org/10.1186/1297-9686-41-37 DO - 10.1186/1297-9686-41-37 ID - Sonesson2009 ER - TY - JOUR AU - Boichard, D. AU - Guillaume, F. AU - Baur, A. AU - Croiseau, P. AU - Rossignol, M. N. AU - Boscher, M. Y. AU - Druet, T. AU - Genestout, L. AU - Colleau, J. J. AU - Journaux, L. AU - Ducrocq, V. AU - Fritz, S. PY - 2012 DA - 2012// TI - Genomic selection in French dairy cattle JO - Anim Prod Sci VL - 52 UR - https://doi.org/10.1071/AN11119 DO - 10.1071/AN11119 ID - Boichard2012 ER - TY - JOUR AU - Iwata, H. AU - Hayashi, T. AU - Tsumura, Y. PY - 2011 DA - 2011// TI - Prospects for genomic selection in conifer breeding: A simulation study of Cryptomeria japonica JO - Tree Genet Genomes VL - 7 UR - https://doi.org/10.1007/s11295-011-0371-9 DO - 10.1007/s11295-011-0371-9 ID - Iwata2011 ER - TY - JOUR AU - Krutovsky, K. V. AU - Troggio, M. AU - Brown, G. R. AU - Jermstad, K. D. AU - Neale, D. B. PY - 2004 DA - 2004// TI - Comparative mapping in the Pinaceae JO - Genetics VL - 168 UR - https://doi.org/10.1534/genetics.104.028381 DO - 10.1534/genetics.104.028381 ID - Krutovsky2004 ER - TY - JOUR AU - Resende, M. D. V. AU - Resende, M. F. R. AU - Sansaloni, C. P. AU - Petroli, C. D. AU - Missiaggia, A. A. AU - Aguiar, A. M. AU - Abad, J. M. AU - Takahashi, E. K. AU - Rosado, A. M. AU - Faria, D. A. AU - Pappas, G. J. AU - Kilian, A. AU - Grattapaglia, D. PY - 2012 DA - 2012// TI - Genomic selection for growth and wood quality in Eucalyptus: Capturing the missing heritability and accelerating breeding for complex traits in forest trees JO - New Phytologist VL - 194 UR - https://doi.org/10.1111/j.1469-8137.2011.04038.x DO - 10.1111/j.1469-8137.2011.04038.x ID - Resende2012 ER - TY - JOUR AU - Resende, M. F. R. AU - Munoz, P. AU - Acosta, J. J. AU - Peter, G. F. AU - Davis, J. M. AU - Grattapaglia, D. AU - Resende, M. D. V. AU - Kirst, M. PY - 2012 DA - 2012// TI - Accelerating the domestication of trees using genomic selection: Accuracy of prediction models across ages and environments JO - New Phytologist VL - 193 UR - https://doi.org/10.1111/j.1469-8137.2011.03895.x DO - 10.1111/j.1469-8137.2011.03895.x ID - Resende2012 ER - TY - BOOK AU - Howe, D. K. PY - 2006 DA - 2006// TI - Identifying candidate genes associated with cold adaptation in Douglas-fir using DNA microarrays PB - MS thesis CY - Oregon State University, Department of Forest Science, Corvallis, OR ID - Howe2006 ER - TY - JOUR AU - Chang, S. AU - Puryear, J. AU - Cairney, J. PY - 1993 DA - 1993// TI - A simple and efficient method for isolating RNA from pine trees JO - Plant Mol Biol Rep VL - 11 UR - https://doi.org/10.1007/BF02670468 DO - 10.1007/BF02670468 ID - Chang1993 ER - TY - CHAP AU - Lorenz, W. W. AU - Alba, R. AU - Yu, Y. S. AU - Bordeaux, J. M. AU - Simoes, M. AU - Dean, J. F. D. PY - 2011 DA - 2011// TI - Microarray analysis and scale-free gene networks identify candidate regulators in drought-stressed roots of loblolly pine (P. taeda L.) BT - BMC Genomics ID - Lorenz2011 ER - TY - JOUR AU - St Clair, J. B. AU - Mandel, N. L. AU - Vance-Boland, K. W. PY - 2005 DA - 2005// TI - Genecology of Douglas fir in western Oregon and Washington JO - Ann Bot-London VL - 96 UR - https://doi.org/10.1093/aob/mci278 DO - 10.1093/aob/mci278 ID - St Clair2005 ER - TY - CHAP AU - Jaquish, B. PY - 1990 DA - 1990// TI - Geographic variation in ten-year height growth of interior Douglas-fir in British Columbia BT - Joint Meeting Western Forest Genetics Assoc and IUFRO Working Parties S202-05, 06, 12, and 14: Douglas-fir, contorta pine, Sitka spruce, and Abies breeding and genetic resources: 20–24 Aug 1990 PB - Olympia CY - WA ID - Jaquish1990 ER - TY - JOUR AU - Zhu, Y. Y. AU - Machleder, E. M. AU - Chenchik, A. AU - Li, R. AU - Siebert, P. D. PY - 2001 DA - 2001// TI - Reverse transcriptase template switching: A SMART (TM) approach for full-length cDNA library construction JO - Biotechniques VL - 30 ID - Zhu2001 ER - TY - JOUR AU - Zhulidov, P. A. AU - Bogdanova, E. A. AU - Shcheglov, A. S. AU - Shagina, I. A. AU - Wagner, L. L. AU - Khazpekov, G. L. AU - Kozhemyako, V. V. AU - Lukyanov, S. A. AU - Shagin, D. A. PY - 2005 DA - 2005// TI - A method for the preparation of normalized cDNA libraries enriched with full-length sequences JO - Russ J Bioorg Chem VL - 31 UR - https://doi.org/10.1007/s11171-005-0023-7 DO - 10.1007/s11171-005-0023-7 ID - Zhulidov2005 ER - TY - JOUR AU - Parkhomchuk, D. AU - Borodina, T. AU - Amstislavskiy, V. AU - Banaru, M. AU - Hallen, L. AU - Krobitsch, S. AU - Lehrach, H. AU - Soldatov, A. PY - 2009 DA - 2009// TI - Transcriptome analysis by strand-specific sequencing of complementary DNA JO - Nucleic Acids Res VL - 37 UR - https://doi.org/10.1093/nar/gkp596 DO - 10.1093/nar/gkp596 ID - Parkhomchuk2009 ER - TY - JOUR AU - Cronn, R. AU - Liston, A. AU - Parks, M. AU - Gernandt, D. S. AU - Shen, R. AU - Mockler, T. PY - 2008 DA - 2008// TI - Multiplex sequencing of plant chloroplast genomes using Solexa sequencing-by-synthesis technology JO - Nucleic Acids Res VL - 36 UR - https://doi.org/10.1093/nar/gkn502 DO - 10.1093/nar/gkn502 ID - Cronn2008 ER - TY - JOUR AU - Ewing, B. AU - Hillier, L. AU - Wendl, M. C. AU - Green, P. PY - 1998 DA - 1998// TI - Base-calling of automated sequencer traces using phred. I. Accuracy assessment JO - Genome Res VL - 8 UR - https://doi.org/10.1101/gr.8.3.175 DO - 10.1101/gr.8.3.175 ID - Ewing1998 ER - TY - JOUR AU - Parks, M. AU - Cronn, R. AU - Liston, A. PY - 2012 DA - 2012// TI - Separating the wheat from the chaff: Mitigating the effects of noise in a plastome phylogenomic data set from Pinus L. (Pinaceae) JO - BMC Evol Biol VL - 12 UR - https://doi.org/10.1186/1471-2148-12-100 DO - 10.1186/1471-2148-12-100 ID - Parks2012 ER - TY - JOUR AU - Altschul, S. F. AU - Madden, T. L. AU - Schaffer, A. A. AU - Zhang, J. H. AU - Zhang, Z. AU - Miller, W. AU - Lipman, D. J. PY - 1997 DA - 1997// TI - Gapped BLAST and PSI-BLAST: A new generation of protein database search programs JO - Nucleic Acids Res VL - 25 UR - https://doi.org/10.1093/nar/25.17.3389 DO - 10.1093/nar/25.17.3389 ID - Altschul1997 ER - TY - JOUR AU - Zhang, Z. AU - Schwartz, S. AU - Wagner, L. AU - Miller, W. PY - 2000 DA - 2000// TI - A greedy algorithm for aligning DNA sequences JO - J Comput Biol VL - 7 UR - https://doi.org/10.1089/10665270050081478 DO - 10.1089/10665270050081478 ID - Zhang2000 ER - TY - JOUR AU - Suzek, B. E. AU - Huang, H. Z. AU - McGarvey, P. AU - Mazumder, R. AU - Wu, C. H. PY - 2007 DA - 2007// TI - UniRef: Comprehensive and non-redundant UniProt reference clusters JO - Bioinformatics VL - 23 UR - https://doi.org/10.1093/bioinformatics/btm098 DO - 10.1093/bioinformatics/btm098 ID - Suzek2007 ER - TY - JOUR AU - Swarbreck, D. AU - Wilks, C. AU - Lamesch, P. AU - Berardini, T. Z. AU - Garcia-Hernandez, M. AU - Foerster, H. AU - Li, D. AU - Meyer, T. AU - Muller, R. AU - Ploetz, L. AU - Radenbaugh, A. AU - Singh, S. AU - Swing, V. AU - Tissier, C. AU - Zhang, P. AU - Huala, E. PY - 2008 DA - 2008// TI - The Arabidopsis Information Resource (TAIR): Gene structure and function annotation JO - Nucleic Acids Res VL - 36 UR - https://doi.org/10.1093/nar/gkm965 DO - 10.1093/nar/gkm965 ID - Swarbreck2008 ER - TY - JOUR PY - 2012 DA - 2012// TI - The Gene Ontology: Enhancements for 2011 JO - Nucleic Acids Res VL - 40 UR - https://doi.org/10.1093/nar/gkr1028 DO - 10.1093/nar/gkr1028 ID - ref73 ER - TY - JOUR AU - Kanehisa, M. AU - Goto, S. PY - 2000 DA - 2000// TI - KEGG: Kyoto Encyclopedia of Genes and Genomes JO - Nucleic Acids Res VL - 28 UR - https://doi.org/10.1093/nar/28.1.27 DO - 10.1093/nar/28.1.27 ID - Kanehisa2000 ER - TY - JOUR AU - Langmead, B. AU - Trapnell, C. AU - Pop, M. AU - Salzberg, S. L. PY - 2009 DA - 2009// TI - Ultrafast and memory-efficient alignment of short DNA sequences to the human genome JO - Genome Biol VL - 10 UR - https://doi.org/10.1186/gb-2009-10-3-r25 DO - 10.1186/gb-2009-10-3-r25 ID - Langmead2009 ER - TY - JOUR AU - Li, H. AU - Durbin, R. PY - 2010 DA - 2010// TI - Fast and accurate long-read alignment with Burrows-Wheeler transform JO - Bioinformatics VL - 26 UR - https://doi.org/10.1093/bioinformatics/btp698 DO - 10.1093/bioinformatics/btp698 ID - Li2010 ER - TY - JOUR AU - Li, H. AU - Handsaker, B. AU - Wysoker, A. AU - Fennell, T. AU - Ruan, J. AU - Homer, N. AU - Marth, G. AU - Abecasis, G. AU - Durbin, R. AU - Proc, G. P. D. PY - 2009 DA - 2009// TI - The Sequence Alignment/Map format and SAMtools JO - Bioinformatics VL - 25 UR - https://doi.org/10.1093/bioinformatics/btp352 DO - 10.1093/bioinformatics/btp352 ID - Li2009 ER - TY - CHAP AU - Wei, Z. AU - Wang, W. AU - Hu, P. Z. AU - Lyon, G. J. AU - Hakonarson, H. PY - 2011 DA - 2011// TI - SNVer: A statistical tool for variant calling in analysis of pooled or individual next-generation sequencing data BT - Nucleic Acids Res ID - Wei2011 ER - TY - BOOK AU - Fisher, R. PY - 1932 DA - 1932// TI - Statistical Methods for Research Workers PB - Oliver and Boyd CY - London ID - Fisher1932 ER - TY - BOOK PY - 2008 DA - 2008// TI - GenomeStudio Genotyping Module v1.0 User Guide: an integrated platform for data visualization and analysis PB - Part # 11319113 (Rev. A) CY - Illumina Inc, San Diego, CA ID - ref80 ER - TY - JOUR AU - Wigginton, J. E. AU - Cutler, D. J. AU - Abecasis, G. R. PY - 2005 DA - 2005// TI - A note on exact tests of Hardy-Weinberg equilibrium JO - Am J Hum Genet VL - 76 UR - https://doi.org/10.1086/429864 DO - 10.1086/429864 ID - Wigginton2005 ER -