Corbin D. Jones - Publications

University of North Carolina, Chapel Hill, Chapel Hill, NC 
Evolutionary Genetics and Genomics

67 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 Matute DR, Comeault AA, Earley E, Serrato-Capuchina A, Peede D, Monroy-Eklund A, Huang W, Jones CD, Mackay TFC, Coyne JA. Rapid and Predictable Evolution of Admixed Populations Between Two Species Pairs. Genetics. PMID 31767631 DOI: 10.1534/Genetics.119.302685  0.4
2019 Seidl F, Levis NA, Jones CD, Monroy-Eklund A, Ehrenreich IM, Pfennig KS. Variation in hybrid gene expression: implications for the evolution of genetic incompatibilities in interbreeding species. Molecular Ecology. PMID 31541560 DOI: 10.1111/Mec.15246  0.4
2017 Pan JW, McLaughlin J, Yang H, Leo C, Rambarat P, Okuwa S, Monroy-Eklund A, Clark S, Jones CD, Volkan PC. Comparative analysis of behavioral and transcriptional variation underlying CO2 sensory neuron function and development in Drosophila. Fly. 0. PMID 28644712 DOI: 10.1080/19336934.2017.1344374  0.4
2016 Li Q, Barish S, Okuwa S, Maciejewski A, Brandt AT, Reinhold D, Jones CD, Volkan PC. A Functionally Conserved Gene Regulatory Network Module Governing Olfactory Neuron Diversity. Plos Genetics. 12: e1005780. PMID 26765103 DOI: 10.1371/Journal.Pgen.1005780  1
2015 Boothby TC, Tenlen JR, Smith FW, Wang JR, Patanella KA, Osborne Nishimura E, Tintori SC, Li Q, Jones CD, Yandell M, Messina DN, Glasscock J, Goldstein B. Evidence for extensive horizontal gene transfer from the draft genome of a tardigrade. Proceedings of the National Academy of Sciences of the United States of America. PMID 26598659 DOI: 10.1073/Pnas.1510461112  1
2015 Lebeis SL, Paredes SH, Lundberg DS, Breakfield N, Gehring J, McDonald M, Malfatti S, Glavina Del Rio T, Jones CD, Tringe SG, Dangl JL. Salicylic acid modulates colonization of the root microbiome by specific bacterial taxa. Science (New York, N.Y.). PMID 26184915 DOI: 10.1126/Science.Aaa8764  1
2015 Black JL, Harrell JC, Leisner TM, Fellmeth MJ, George SD, Reinhold D, Baker NM, Jones CD, Der CJ, Perou CM, Parise LV. CIB1 depletion impairs cell survival and tumor growth in triple-negative breast cancer. Breast Cancer Research and Treatment. PMID 26105795 DOI: 10.1007/S10549-015-3458-4  1
2015 Zhou S, Jones C, Mieczkowski P, Swanstrom R. Primer ID Validates Template Sampling Depth and Greatly Reduces the Error Rate of Next-Generation Sequencing of HIV-1 Genomic RNA Populations. Journal of Virology. 89: 8540-55. PMID 26041299 DOI: 10.1128/Jvi.00522-15  1
2015 Dworkin I, Jones CD. Evolutionary genetics: you are what you evolve to eat. Current Biology : Cb. 25: R341-4. PMID 25898107 DOI: 10.1016/j.cub.2015.01.044  1
2015 . Comprehensive genomic characterization of head and neck squamous cell carcinomas. Nature. 517: 576-82. PMID 25631445 DOI: 10.1038/Nature14129  1
2015 Wang JR, Jones CD. Fast alignment filtering of nanopore sequencing reads using locality-sensitive hashing Proceedings - 2015 Ieee International Conference On Bioinformatics and Biomedicine, Bibm 2015. 127-130. DOI: 10.1109/BIBM.2015.7359668  1
2014 Miller CN, Steele SP, Brunton JC, Jenkins RJ, LoVullo ED, Taft-Benz SA, Romanchuk A, Jones CD, Dotson GD, Collins EJ, Kawula TH. Extragenic suppressor mutations in ΔripA disrupt stability and function of LpxA. Bmc Microbiology. 14: 336. PMID 25551578 DOI: 10.1186/S12866-014-0336-X  1
2014 . Integrated genomic characterization of papillary thyroid carcinoma. Cell. 159: 676-90. PMID 25417114 DOI: 10.1016/J.Cell.2014.09.050  1
2014 Yourstone SM, Lundberg DS, Dangl JL, Jones CD. MT-Toolbox: improved amplicon sequencing using molecule tags. Bmc Bioinformatics. 15: 284. PMID 25149069 DOI: 10.1186/1471-2105-15-284  1
2014 Jabara CB, Hu F, Mollan KR, Williford SE, Menezes P, Yang Y, Eron JJ, Fried MW, Hudgens MG, Jones CD, Swanstrom R, Lemon SM. Hepatitis C Virus (HCV) NS3 sequence diversity and antiviral resistance-associated variant frequency in HCV/HIV coinfection. Antimicrobial Agents and Chemotherapy. 58: 6079-92. PMID 25092699 DOI: 10.1128/Aac.03466-14  1
2014 Bartoli C, Berge O, Monteil CL, Guilbaud C, Balestra GM, Varvaro L, Jones C, Dangl JL, Baltrus DA, Sands DC, Morris CE. The Pseudomonas viridiflava phylogroups in the P. syringae species complex are characterized by genetic variability and phenotypic plasticity of pathogenicity-related traits. Environmental Microbiology. 16: 2301-15. PMID 24612372 DOI: 10.1111/1462-2920.12433  1
2014 Reinhardt JA, Kolaczkowski B, Jones CD, Begun DJ, Kern AD. Parallel geographic variation in Drosophila melanogaster. Genetics. 197: 361-73. PMID 24610860 DOI: 10.1534/Genetics.114.161463  1
2014 Zhao L, Saelao P, Jones CD, Begun DJ. Origin and spread of de novo genes in Drosophila melanogaster populations. Science (New York, N.Y.). 343: 769-72. PMID 24457212 DOI: 10.1126/Science.1248286  1
2014 Mucyn TS, Yourstone S, Lind AL, Biswas S, Nishimura MT, Baltrus DA, Cumbie JS, Chang JH, Jones CD, Dangl JL, Grant SR. Variable suites of non-effector genes are co-regulated in the type III secretion virulence regulon across the Pseudomonas syringae phylogeny. Plos Pathogens. 10: e1003807. PMID 24391493 DOI: 10.1371/Journal.Ppat.1003807  1
2014 Guo X, Zheng S, Dang H, Pace RG, Stonebraker JR, Jones CD, Boellmann F, Yuan G, Haridass P, Fedrigo O, Corcoran DL, Seibold MA, Ranade SS, Knowles MR, O'Neal WK, et al. Genome reference and sequence variation in the large repetitive central exon of human MUC5AC. American Journal of Respiratory Cell and Molecular Biology. 50: 223-32. PMID 24010879 DOI: 10.1165/Rcmb.2013-0235Oc  1
2013 Reinhardt JA, Jones CD. Two rapidly evolving genes contribute to male fitness in Drosophila. Journal of Molecular Evolution. 77: 246-59. PMID 24221639 DOI: 10.1007/S00239-013-9594-8  1
2013 Reinhardt JA, Wanjiru BM, Brant AT, Saelao P, Begun DJ, Jones CD. De novo ORFs in Drosophila are important to organismal fitness and evolved rapidly from previously non-coding sequences. Plos Genetics. 9: e1003860. PMID 24146629 DOI: 10.1371/Journal.Pgen.1003860  1
2013 Hungate EA, Earley EJ, Boussy IA, Turissini DA, Ting CT, Moran JR, Wu ML, Wu CI, Jones CD. A locus in Drosophila sechellia affecting tolerance of a host plant toxin. Genetics. 195: 1063-75. PMID 24037270 DOI: 10.1534/Genetics.113.154773  1
2013 Lundberg DS, Yourstone S, Mieczkowski P, Jones CD, Dangl JL. Practical innovations for high-throughput amplicon sequencing. Nature Methods. 10: 999-1002. PMID 23995388 DOI: 10.1038/Nmeth.2634  1
2013 Ligon LS, Rigel NW, Romanchuk A, Jones CD, Braunstein M. Suppressor analysis reveals a role for SecY in the SecA2-dependent protein export pathway of Mycobacteria. Journal of Bacteriology. 195: 4456-65. PMID 23913320 DOI: 10.1128/Jb.00630-13  1
2013 Kandoth C, Schultz N, Cherniack AD, Akbani R, Liu Y, Shen H, Robertson AG, Pashtan I, Shen R, Benz CC, Yau C, Laird PW, Ding L, Zhang W, et al. Integrated genomic characterization of endometrial carcinoma. Nature. 497: 67-73. PMID 23636398 DOI: 10.1038/Nature12113  1
2013 Sarris PF, Trantas EA, Baltrus DA, Bull CT, Wechter WP, Yan S, Ververidis F, Almeida NF, Jones CD, Dangl JL, Panopoulos NJ, Vinatzer BA, Goumas DE. Comparative genomics of multiple strains of Pseudomonas cannabina pv. alisalensis, a potential model pathogen of both monocots and dicots. Plos One. 8: e59366. PMID 23555661 DOI: 10.1371/Journal.Pone.0059366  1
2013 Huang Y, Hu Y, Jones CD, MacLeod JN, Chiang DY, Liu Y, Prins JF, Liu J. A robust method for transcript quantification with RNA-seq data. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 20: 167-87. PMID 23461570 DOI: 10.1089/Cmb.2012.0230  1
2013 Roach JM, Racioppi L, Jones CD, Masci AM. Phylogeny of Toll-like receptor signaling: adapting the innate response. Plos One. 8: e54156. PMID 23326591 DOI: 10.1371/journal.pone.0054156  1
2013 Hu Y, Huang Y, Du Y, Orellana CF, Singh D, Johnson AR, Monroy A, Kuan PF, Hammond SM, Makowski L, Randell SH, Chiang DY, Hayes DN, Jones C, Liu Y, et al. DiffSplice: the genome-wide detection of differential splicing events with RNA-seq. Nucleic Acids Research. 41: e39. PMID 23155066 DOI: 10.7490/F1000Research.1092167.1  1
2013 Cox CE, Jones CD, Wares JP, Castillo KD, Mcfield MD, Bruno JF. Genetic testing reveals some mislabeling but general compliance with a ban on herbivorous fish harvesting in Belize Conservation Letters. 6: 132-140. DOI: 10.1111/J.1755-263X.2012.00286.X  1
2012 Kohl KP, Jones CD, Sekelsky J. Evolution of an MCM complex in flies that promotes meiotic crossovers by blocking BLM helicase. Science (New York, N.Y.). 338: 1363-5. PMID 23224558 DOI: 10.1126/Science.1228190  1
2012 Pfennig KS, Allenby A, Martin RA, Monroy A, Jones CD. A suite of molecular markers for identifying species, detecting introgression and describing population structure in spadefoot toads (Spea spp.). Molecular Ecology Resources. 12: 909-17. PMID 22564443 DOI: 10.1111/J.1755-0998.2012.03150.X  1
2012 Leichty AR, Pfennig DW, Jones CD, Pfennig KS. Relaxed genetic constraint is ancestral to the evolution of phenotypic plasticity. Integrative and Comparative Biology. 52: 16-30. PMID 22526866 DOI: 10.1093/Icb/Ics049  1
2011 Jabara CB, Jones CD, Roach J, Anderson JA, Swanstrom R. Accurate sampling and deep sequencing of the HIV-1 protease gene using a Primer ID. Proceedings of the National Academy of Sciences of the United States of America. 108: 20166-71. PMID 22135472 DOI: 10.1073/Pnas.1110064108  1
2011 Earley EJ, Jones CD. Next-generation mapping of complex traits with phenotype-based selection and introgression. Genetics. 189: 1203-9. PMID 21940681 DOI: 10.1534/Genetics.111.129445  1
2011 Singh D, Orellana CF, Hu Y, Jones CD, Liu Y, Chiang DY, Liu J, Prins JF. FDM: a graph-based statistical method to detect differential transcription using RNA-seq data. Bioinformatics (Oxford, England). 27: 2633-40. PMID 21824971 DOI: 10.1093/Bioinformatics/Btr458  1
2011 Baltrus DA, Nishimura MT, Romanchuk A, Chang JH, Mukhtar MS, Cherkis K, Roach J, Grant SR, Jones CD, Dangl JL. Dynamic evolution of pathogenicity revealed by sequencing and comparative genomics of 19 Pseudomonas syringae isolates. Plos Pathogens. 7: e1002132. PMID 21799664 DOI: 10.1371/Journal.Ppat.1002132  1
2011 Sawyer JM, Glass S, Li T, Shemer G, White ND, Starostina NG, Kipreos ET, Jones CD, Goldstein B. Overcoming redundancy: an RNAi enhancer screen for morphogenesis genes in Caenorhabditis elegans. Genetics. 188: 549-64. PMID 21527776 DOI: 10.1534/Genetics.111.129486  1
2010 Temple BR, Jones CD, Jones AM. Evolution of a signaling nexus constrained by protein interfaces and conformational States. Plos Computational Biology. 6: e1000962. PMID 20976244 DOI: 10.1371/Journal.Pcbi.1000962  1
2010 Anderson JA, Ping LH, Dibben O, Jabara CB, Arney L, Kincer L, Tang Y, Hobbs M, Hoffman I, Kazembe P, Jones CD, Borrow P, Fiscus S, Cohen MS, Swanstrom R, et al. HIV-1 Populations in Semen Arise through Multiple Mechanisms. Plos Pathogens. 6: e1001053. PMID 20808902 DOI: 10.1371/Journal.Ppat.1001053  1
2009 Friedman EJ, Temple BR, Hicks SN, Sondek J, Jones CD, Jones AM. Prediction of protein-protein interfaces on G-protein beta subunits reveals a novel phospholipase C beta2 binding domain. Journal of Molecular Biology. 392: 1044-54. PMID 19646992 DOI: 10.1016/J.Jmb.2009.07.076  1
2009 Faddah DA, Ganko EW, McCoach C, Pickrell JK, Hanlon SE, Mann FG, Mieczkowska JO, Jones CD, Lieb JD, Vision TJ. Systematic identification of balanced transposition polymorphisms in Saccharomyces cerevisiae. Plos Genetics. 5: e1000502. PMID 19503594 DOI: 10.1371/Journal.Pgen.1000502  1
2009 Dworkin I, Jones CD. Genetic changes accompanying the evolution of host specialization in Drosophila sechellia. Genetics. 181: 721-36. PMID 19033155 DOI: 10.1534/genetics.108.093419  1
2009 Reinhardt JA, Baltrus DA, Nishimura MT, Jeck WR, Jones CD, Dangl JL. De novo assembly using low-coverage short read sequence data from the rice pathogen Pseudomonas syringae pv. oryzae. Genome Research. 19: 294-305. PMID 19015323 DOI: 10.1101/Gr.083311.108  1
2008 Shih HJ, Jones CD. Patterns of amino acid evolution in the Drosophila ananassae chimeric gene, siren, parallel those of other Adh-derived chimeras. Genetics. 180: 1261-3. PMID 18780749 DOI: 10.1534/genetics.108.090068  1
2008 Lawniczak MK, Holloway AK, Begun DJ, Jones CD. Genomic analysis of the relationship between gene expression variation and DNA polymorphism in Drosophila simulans. Genome Biology. 9: R125. PMID 18700012 DOI: 10.1186/Gb-2008-9-8-R125  1
2008 Kopp A, Barmina O, Hamilton AM, Higgins L, McIntyre LM, Jones CD. Evolution of gene expression in the Drosophila olfactory system. Molecular Biology and Evolution. 25: 1081-92. PMID 18296696 DOI: 10.1093/Molbev/Msn055  1
2008 Mezey JG, Nuzhdin SV, Ye F, Jones CD. Coordinated evolution of co-expressed gene clusters in the Drosophila transcriptome. Bmc Evolutionary Biology. 8: 2. PMID 18179715 DOI: 10.1186/1471-2148-8-2  1
2007 Gabriel WN, McNuff R, Patel SK, Gregory TR, Jeck WR, Jones CD, Goldstein B. The tardigrade Hypsibius dujardini, a new model for studying the evolution of development. Developmental Biology. 312: 545-59. PMID 17996863 DOI: 10.1016/J.Ydbio.2007.09.055  1
2007 Begun DJ, Holloway AK, Stevens K, Hillier LW, Poh YP, Hahn MW, Nista PM, Jones CD, Kern AD, Dewey CN, Pachter L, Myers E, Langley CH. Population genomics: whole-genome analysis of polymorphism and divergence in Drosophila simulans. Plos Biology. 5: e310. PMID 17988176 DOI: 10.1371/Journal.Pbio.0050310  1
2007 Holloway AK, Lawniczak MK, Mezey JG, Begun DJ, Jones CD. Adaptive gene expression divergence inferred from population genomics. Plos Genetics. 3: 2007-13. PMID 17967066 DOI: 10.1371/Journal.Pgen.0030187  1
2007 Jeck WR, Reinhardt JA, Baltrus DA, Hickenbotham MT, Magrini V, Mardis ER, Dangl JL, Jones CD. Extending assembly of short DNA sequences to handle error. Bioinformatics (Oxford, England). 23: 2942-4. PMID 17893086 DOI: 10.1093/Bioinformatics/Btm451  1
2007 Jones CD, Bartee JA, Leite-Browning ML, Blackshear MA. Methamphetamine-induced locomotor activity and behavioral sensitization: Are dopamine D3 receptors involved? Cellular and Molecular Biology. 53: 15-22. PMID 17531156 DOI: 10.1170/T803  1
2007 Begun DJ, Lindfors HA, Kern AD, Jones CD. Evidence for de novo evolution of testis-expressed genes in the Drosophila yakuba/Drosophila erecta clade. Genetics. 176: 1131-7. PMID 17435230 DOI: 10.1534/genetics.106.069245  1
2006 Masly JP, Jones CD, Noor MA, Locke J, Orr HA. Gene transposition as a cause of hybrid sterility in Drosophila. Science (New York, N.Y.). 313: 1448-50. PMID 16960009 DOI: 10.1126/Science.1128721  1
2006 Levine MT, Jones CD, Kern AD, Lindfors HA, Begun DJ. Novel genes derived from noncoding DNA in Drosophila melanogaster are frequently X-linked and exhibit testis-biased expression. Proceedings of the National Academy of Sciences of the United States of America. 103: 9935-9. PMID 16777968 DOI: 10.1073/Pnas.0509809103  1
2005 Jones CD, Begun DJ. Parallel evolution of chimeric fusion genes. Proceedings of the National Academy of Sciences of the United States of America. 102: 11373-8. PMID 16076957 DOI: 10.1073/pnas.0503528102  1
2005 Jones CD. The genetics of adaptation in Drosophila sechellia. Genetica. 123: 137-45. PMID 15881686 DOI: 10.1007/s10709-004-2728-6  1
2005 Jones CD, Custer AW, Begun DJ. Origin and evolution of a chimeric fusion gene in Drosophila subobscura, D. madeirensis and D. guanche. Genetics. 170: 207-19. PMID 15781692 DOI: 10.1534/Genetics.104.037283  1
2004 Kern AD, Jones CD, Begun DJ. Molecular population genetics of male accessory gland proteins in the Drosophila simulans complex. Genetics. 167: 725-35. PMID 15238524 DOI: 10.1534/genetics.103.020883  1
2004 Jones CD. Genetics of egg production in Drosophila sechellia Heredity. 92: 235-241. PMID 14710171 DOI: 10.1038/sj.hdy.6800401  1
2002 Kern AD, Jones CD, Begun DJ. Genomic effects of nucleotide substitutions in Drosophila simulans. Genetics. 162: 1753-61. PMID 12524346  1
2001 Jones CD. The genetic basis of larval resistance to a host plant toxin in Drosophila sechellia Genetical Research. 78: 225-233. PMID 11865712 DOI: 10.1017/S0016672301005298  1
2001 Jones CD. Extension of the castle - Wright effective factor estimator to sex linkage and haplodiploidy Journal of Heredity. 92: 274-276. PMID 11447245 DOI: 10.1093/Jhered/92.3.274  1
2000 Otto SP, Jones CD. Detecting the undetected: estimating the total number of loci underlying a quantitative trait. Genetics. 156: 2093-107. PMID 11102398  1
1998 Jones CD. The genetic basis of Drosophila sechellia's resistance to a host plant toxin Genetics. 149: 1899-1908. PMID 9691045  1
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