Julian M. Catchen, Ph.D. - Publications

Affiliations: 
2009 University of Oregon, Eugene, OR, United States 
Area:
Bioinformatics Biology

29 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Kim BM, Amores A, Kang S, Ahn DH, Kim JH, Kim IC, Lee JH, Lee SG, Lee H, Lee J, Kim HW, Desvignes T, Batzel P, Sydes J, Titus T, ... ... Catchen JM, et al. Antarctic blackfin icefish genome reveals adaptations to extreme environments. Nature Ecology & Evolution. 3: 469-478. PMID 30804520 DOI: 10.1038/S41559-019-0812-7  0.6
2016 Hoffberg SL, Kieran TJ, Catchen JM, Devault A, Faircloth BC, Mauricio R, Glenn TC. RADcap: Sequence Capture of Dual-digest RADseq Libraries with Identifiable Duplicates and Reduced Missing Data. Molecular Ecology Resources. PMID 27416967 DOI: 10.1111/1755-0998.12566  0.64
2016 Braasch I, Gehrke AR, Smith JJ, Kawasaki K, Manousaki T, Pasquier J, Amores A, Desvignes T, Batzel P, Catchen J, Berlin AM, Campbell MS, Barrell D, Martin KJ, Mulley JF, et al. Corrigendum: The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons. Nature Genetics. 48: 700. PMID 27230688 DOI: 10.1038/Ng0616-700C  0.6
2016 Braasch I, Gehrke AR, Smith JJ, Kawasaki K, Manousaki T, Pasquier J, Amores A, Desvignes T, Batzel P, Catchen J, Berlin AM, Campbell MS, Barrell D, Martin KJ, Mulley JF, et al. The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons. Nature Genetics. 48: 427-37. PMID 26950095 DOI: 10.1038/Ng.3526  0.6
2014 Amores A, Catchen J, Nanda I, Warren W, Walter R, Schartl M, Postlethwait JH. A RAD-tag genetic map for the platyfish (Xiphophorus maculatus) reveals mechanisms of karyotype evolution among teleost fish. Genetics. 197: 625-41. PMID 24700104 DOI: 10.1534/Genetics.114.164293  0.64
2013 Rodríguez-Marí A, Cañestro C, BreMiller RA, Catchen JM, Yan YL, Postlethwait JH. Retinoic acid metabolic genes, meiosis, and gonadal sex differentiation in zebrafish. Plos One. 8: e73951. PMID 24040125 DOI: 10.1371/Journal.Pone.0073951  0.64
2013 Merz C, Catchen JM, Hanson-Smith V, Emerson KJ, Bradshaw WE, Holzapfel CM. Replicate phylogenies and post-glacial range expansion of the pitcher-plant mosquito, Wyeomyia smithii, in North America. Plos One. 8: e72262. PMID 24039746 DOI: 10.1371/Journal.Pone.0072262  0.64
2013 Zhang G, Hoersch S, Amsterdam A, Whittaker CA, Beert E, Catchen JM, Farrington S, Postlethwait JH, Legius E, Hopkins N, Lees JA. Comparative oncogenomic analysis of copy number alterations in human and zebrafish tumors enables cancer driver discovery. Plos Genetics. 9: e1003734. PMID 24009526 DOI: 10.1371/Journal.Pgen.1003734  0.64
2013 Catchen J, Hohenlohe PA, Bassham S, Amores A, Cresko WA. Stacks: an analysis tool set for population genomics. Molecular Ecology. 22: 3124-40. PMID 23701397 DOI: 10.1111/Mec.12354  0.64
2013 Schartl M, Walter RB, Shen Y, Garcia T, Catchen J, Amores A, Braasch I, Chalopin D, Volff JN, Lesch KP, Bisazza A, Minx P, Hillier L, Wilson RK, Fuerstenberg S, et al. The genome of the platyfish, Xiphophorus maculatus, provides insights into evolutionary adaptation and several complex traits. Nature Genetics. 45: 567-72. PMID 23542700 DOI: 10.1038/Ng.2604  0.64
2012 Bradshaw WE, Emerson KJ, Catchen JM, Cresko WA, Holzapfel CM. Footprints in time: Comparative quantitative trait loci mapping of the pitcher-plant mosquito, Wyeomyia smithii Proceedings of the Royal Society B: Biological Sciences. 279: 4551-4558. PMID 23015622 DOI: 10.1098/Rspb.2012.1917  0.64
2012 Hohenlohe PA, Catchen J, Cresko WA. Population genomic analysis of model and nonmodel organisms using sequenced RAD tags. Methods in Molecular Biology (Clifton, N.J.). 888: 235-60. PMID 22665285 DOI: 10.1007/978-1-61779-870-2_14  0.64
2012 Garcia TI, Shen Y, Catchen J, Amores A, Schartl M, Postlethwait J, Walter RB. Effects of short read quality and quantity on a de novo vertebrate transcriptome assembly. Comparative Biochemistry and Physiology. Toxicology & Pharmacology : Cbp. 155: 95-101. PMID 21651990 DOI: 10.1016/J.Cbpc.2011.05.012  0.64
2012 Shen Y, Catchen J, Garcia T, Amores A, Beldorth I, Wagner J, Zhang Z, Postlethwait J, Warren W, Schartl M, Walter RB. Identification of transcriptome SNPs between Xiphophorus lines and species for assessing allele specific gene expression within F₁ interspecies hybrids. Comparative Biochemistry and Physiology. Toxicology & Pharmacology : Cbp. 155: 102-8. PMID 21466860 DOI: 10.1016/J.Cbpc.2011.03.012  0.64
2011 Catchen JM, Amores A, Hohenlohe P, Cresko W, Postlethwait JH. Stacks: building and genotyping Loci de novo from short-read sequences. G3 (Bethesda, Md.). 1: 171-82. PMID 22384329 DOI: 10.1534/G3.111.000240  0.64
2011 Catchen JM, Braasch I, Postlethwait JH. Conserved synteny and the zebrafish genome. Methods in Cell Biology. 104: 259-85. PMID 21924168 DOI: 10.1016/B978-0-12-374814-0.00015-X  0.64
2011 Amores A, Catchen J, Ferrara A, Fontenot Q, Postlethwait JH. Genome evolution and meiotic maps by massively parallel DNA sequencing: spotted gar, an outgroup for the teleost genome duplication. Genetics. 188: 799-808. PMID 21828280 DOI: 10.1534/Genetics.111.127324  0.64
2011 Davey JW, Hohenlohe PA, Etter PD, Boone JQ, Catchen JM, Blaxter ML. Genome-wide genetic marker discovery and genotyping using next-generation sequencing. Nature Reviews. Genetics. 12: 499-510. PMID 21681211 DOI: 10.1038/Nrg3012  0.64
2011 Hohenlohe PA, Amish SJ, Catchen JM, Allendorf FW, Luikart G. Next-generation RAD sequencing identifies thousands of SNPs for assessing hybridization between rainbow and westslope cutthroat trout Molecular Ecology Resources. 11: 117-122. PMID 21429168 DOI: 10.1111/J.1755-0998.2010.02967.X  0.64
2010 Emerson KJ, Merz CR, Catchen JM, Hohenlohe PA, Cresko WA, Bradshaw WE, Holzapfel CM. Resolving postglacial phylogeography using high-throughput sequencing Proceedings of the National Academy of Sciences of the United States of America. 107: 16196-16200. PMID 20798348 DOI: 10.1073/Pnas.1006538107  0.64
2010 Eames BF, Singer A, Smith GA, Wood ZA, Yan YL, He X, Polizzi SJ, Catchen JM, Rodriguez-Mari A, Linbo T, Raible DW, Postlethwait JH. UDP xylose synthase 1 is required for morphogenesis and histogenesis of the craniofacial skeleton. Developmental Biology. 341: 400-15. PMID 20226781 DOI: 10.1016/J.Ydbio.2010.02.035  0.64
2010 Jovelin R, Yan YL, He X, Catchen J, Amores A, Canestro C, Yokoi H, Postlethwait JH. Evolution of developmental regulation in the vertebrate FgfD subfamily. Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution. 314: 33-56. PMID 19562753 DOI: 10.1002/Jez.B.21307  0.64
2009 Sullivan C, Charette J, Catchen J, Lage CR, Giasson G, Postlethwait JH, Millard PJ, Kim CH. The gene history of zebrafish tlr4a and tlr4b is predictive of their divergent functions. Journal of Immunology (Baltimore, Md. : 1950). 183: 5896-908. PMID 19812203 DOI: 10.4049/Jimmunol.0803285  0.64
2009 Cañestro C, Catchen JM, Rodríguez-Marí A, Yokoi H, Postlethwait JH. Consequences of lineage-specific gene loss on functional evolution of surviving paralogs: ALDH1A and retinoic acid signaling in vertebrate genomes. Plos Genetics. 5: e1000496. PMID 19478994 DOI: 10.1371/Journal.Pgen.1000496  0.64
2009 Catchen JM, Conery JS, Postlethwait JH. Automated identification of conserved synteny after whole-genome duplication. Genome Research. 19: 1497-505. PMID 19465509 DOI: 10.1101/Gr.090480.108  0.64
2009 Yokoi H, Yan YL, Miller MR, BreMiller RA, Catchen JM, Johnson EA, Postlethwait JH. Expression profiling of zebrafish sox9 mutants reveals that Sox9 is required for retinal differentiation. Developmental Biology. 329: 1-15. PMID 19210963 DOI: 10.1016/J.Ydbio.2009.01.002  0.64
2008 Bridgham JT, Brown JE, Rodríguez-Marí A, Catchen JM, Thornton JW. Evolution of a new function by degenerative mutation in cephalochordate steroid receptors. Plos Genetics. 4: e1000191. PMID 18787702 DOI: 10.1371/Journal.Pgen.1000191  0.64
2008 Catchen JM, Conery JS, Postlethwait JH. Inferring ancestral gene order. Methods in Molecular Biology (Clifton, N.J.). 452: 365-83. PMID 18566773 DOI: 10.1007/978-1-60327-159-2_17  0.64
2005 Conery JS, Catchen JM, Lynch M. Rule-based workflow management for bioinformatics Vldb Journal. 14: 318-329. DOI: 10.1007/s00778-005-0153-9  0.64
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