Publications

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Select publications

  1. Furstenau TN, Cartwright RA. The effect of the dispersal kernel on isolation-by-distance in a continuous population. PeerJ. 2016 Mar 29;4:e1848. doi: 10.7717/peerj.1848. eCollection 2016.

  2. Lofgren ET, Collins KM, Smith TC, Cartwright RA. Equations of the End: Teaching Mathematical Modeling Using the Zombie Apocalypse. J Microbiol Biol Educ. 2016 Mar 1;17(1):137-42. doi: 10.1128/jmbe.v17i1.1066. eCollection 2016 Mar.

  3. Winter DJ, Pacheco MA, Vallejo AF, Schwartz RS, Arevalo-Herrera M, Herrera S, Cartwright RA, Escalante AA.Whole Genome Sequencing of Field Isolates Reveals Extensive Genetic Diversity in Plasmodium vivax from Colombia. PLoS Negl Trop Dis. 2015 Dec 28;9(12):e0004252. doi: 10.1371/journal.pntd.0004252. eCollection 2015 Dec.

  4. Harkins KM, Schwartz RS, Cartwright RA, Stone AC.Phylogenomic reconstruction supports supercontinent origins for Leishmania.Infect Genet Evol. 2016 Mar;38:101-9. doi: 10.1016/j.meegid.2015.11.030. Epub 2015 Dec 18.

  5. Levy Karin E, Rabin A, Ashkenazy H, Shkedy D, Avram O, Cartwright RA, Pupko T.Inferring Indel Parameters using a Simulation-based Approach.Genome Biol Evol. 2015 Nov 3;7(12):3226-38. doi: 10.1093/gbe/evv212.

  6. Schwartz RS, Harkins KM, Stone AC, Cartwright RA.A composite genome approach to identify phylogenetically informative data from next-generation sequencing. BMC Bioinformatics. 2015 Jun 11;16:193. doi: 10.1186/s12859-015-0632-y.

  7. Emily Thompson, Rachel Schwartz, Reed A. Cartwright. Analyzing the Genome with Statistics. The Pandas Thumb (2014).

  8. Emily Thompson, Rachel Schwartz, Reed A. Cartwright. Phylogenomic Fallacies. The Pandas Thumb (2014).

  9. Emily Thompson, Rachel Schwartz, Reed A. Cartwright. Phylogenomics: Deciphering a Billion-Piece Puzzle. The Pandas Thumb (2014).

  10. Emily Thompson, Rachel Schwartz, Reed A. Cartwright. The Family Tree of Life. The Pandas Thumb (2014).


2013

  1. Ramu A, Noordam MJ, Schwartz RS, Wuster A, Hurles ME, Cartwright RA, and Conrad DF (2013). DeNovoGear: de novo indel and point mutation discovery and phasing. Na-ture Methods, 10:985–987.


2012

  1. Matthew B Hufford, Xun Xu, Joost Van Heerwaarden, Tanja Pyhäjärvi, Jer-Ming Chia, Reed A Cartwright, Robert J Elshire, Jeffrey C Glaubitz, Kate E Guill, Shawn M Kaeppler, Jinsheng Lai, Peter L Morrell, Laura M Shannon, Chi Song, Nathan M Springer, Ruth A Swanson-Wagner, Peter Tiffin, Jun Wang, Gengyun Zhang, John Doebley, Michael D McMullen, Doreen Ware, Edward S Buckler, Shuang Yang, Jeffrey Ross-Ibarra. Comparative population genomics of maize domestication and improvement. Nature Genetics (2012).

  2. Reed A Cartwright, Julie Hussin, Jonathan EM Keebler, Eric A Stone, Philip Awadalla. A Family-Based Probabilistic Method for Capturing De Novo Mutations from High-Throughput Short-Read Sequencing Data. Statistical Applications in Genetics and Molecular Biology (2012).

  3. Reed A. Cartwright. Lab Notes: The Alias Method for Sampling from Discrete Distributions. The Panda's Thumb (2012).

  4. Hufford MB, Xu X, van Heerwaarden J, Pyhäjärvi T, Chia JM, Cartwright RA, Elshire RJ, Glaubitz JC, Guill KE, Kaeppler SM, Lai J, Shannon LM, Song C, Springer NM, Swanson-Wagner RA, Tiffin P, Wang J, Zhang G, Doebley J, McMullen MD, Ware D, Buckler ES, Yang S, and Ross-Ibarra J (2012). Comparative population genomics of maize domestication and improvement. Nature Genetics, 44:808–811.

  5. Cartwright RA, Hussin J, Keebler J, Awadalla P, and Stone EA (2012). A family-based probabilistic method for capturing de novo mutations from high-throughput short-read sequencing data. Statistical Applications in Genetics and Molecular Biology, 11:6.


2011

  1. Conrad DF, Keebler JE, DePristo MA, Lindsay SJ, Zhang Y, Cassals F, Idaghdour Y, Hartl CL, Torroja C, Garimella KV, Zilversmit M, Cartwright RA, Rouleau G, Daly M, Stone EA, Hurles ME, and Awadalla P (2011). Variation in genome-wide mutation rates within and between human families. Nature Genetics, 43:712–714.

  2. Cartwright RA, Lartillot N, and Thorne JL (2011). History can matter: Non-Markovian behavior of ancestral lineages. Systematic Biology, 60:276–290.

  3. Cartwright RA and Graur D (2011). The multiple personalities of Watson and Crick strands. Biology Direct, 6:7.

  4. Price* N, Cartwright RA*, Sabath N, Graur D, and Azevedo RBR (2011). Neutral evolution of robustness in Drosophila microRNA precursors. Molecular Biology and Evolution, 28:2115–2123.

  5. Lücking R, Hodkinson B, Stamatakis A, and Cartwright RA (2011). PICS-Ord: unlim-ited coding of ambiguous regions by pairwise identity and cost scores ordination. BMC Bioinformatics, 12:10.

  6. Cartwright RA (2011). Bards, poets, and cliques: Frequency-dependent selection and the evolution of language genes. Bulletin of Mathematical Biology, 73:2201–2212.


2010

  1. The 1000 Genomes Project Consortium (2010). A map of human genome variation from population-scale sequencing. Nature, 467:1061–1073.


Prior to 2010

  1. Cartwright RA (2009a). Problems and solutions for estimating indel rates and length distributions. Molecular Biology and Evolution, 26:473–480.

  2. Cartwright RA (2009b). Antagonism between local dispersal and self-incompatibility systems in a continuous plant population. Molecular Ecology, 18:2327–2336.

  3. Cartwright RA (2007). Ngila: global pairwise alignments with logarithmic and affine gap costs. Bioinformatics, 23:1427–1428.

  4. Cartwright RA (2006). Logarithmic gap costs decrease alignment accuracy. BMC Bioin-formatics, 7:527.

  5. Comai L and Cartwright RA (2005). A toxic mutator and selection alternative to the non-mendelian, RNA cache hypothesis for hothead reversion. Plant Cell, 17:2856–2858.

  6. Cartwright RA (2005). DNA assembly with gaps (Dawg): simulating sequence evolution. Bioinformatics, 21(Suppl. 3):iii31–iii38.

  7. Asmussen MA, Cartwright RA, and Spencer HG (2004). Frequency-dependent selection with dominance: A window onto the behavior of the mean fitness. Genetics, 167:499–512.

*co-first authors.


Books

Cartwright RA and Zivkovic B, editors (2008). The Open Laboratory: The Best Writing on Science Blogs 2007. Lulu.com, Chapel Hill, NC.