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Arlin B. Stoltzfus - Publications

Affiliations: 
National Institute of Standards and Technology, Gaithersburg, MD, United States 
Area:
evolution, bioinformatics, population genetics, theory
Website:
https://www.molevol.org/
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36 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
2024 Pillai AN, Toh KB, Perdomo D, Bhargava S, Stoltzfus A, Longini IM, Pearson CAB, Hladish TJ. Agent-based modeling of the COVID-19 pandemic in Florida. Epidemics. 47: 100774. PMID 38852547 DOI: 10.1016/j.epidem.2024.100774  0.683
2024 Hladish TJ, Pillai AN, Pearson CAB, Toh KB, Tamayo AC, Stoltzfus A, Longini IM. Evaluating targeted COVID-19 vaccination strategies with agent-based modeling. Plos Computational Biology. 20: e1012128. PMID 38820570 DOI: 10.1371/journal.pcbi.1012128  0.668
2023 Shea K, Borchering RK, Probert WJM, Howerton E, Bogich TL, Li SL, van Panhuis WG, Viboud C, Aguás R, Belov AA, Bhargava SH, Cavany SM, Chang JC, Chen C, Chen J, ... ... Stoltzfus AB, et al. Multiple models for outbreak decision support in the face of uncertainty. Proceedings of the National Academy of Sciences of the United States of America. 120: e2207537120. PMID 37098064 DOI: 10.1073/pnas.2207537120  0.683
2023 Hladish TJ, Pillai AN, Pearson CAB, Toh KB, Tamayo A, Stoltzfus A, Longini IM. Evaluating targeted COVID-19 vaccination strategies with agent-based modeling. Medrxiv : the Preprint Server For Health Sciences. PMID 36945423 DOI: 10.1101/2023.03.09.23285319  0.669
2020 Shea K, Borchering RK, Probert WJM, Howerton E, Bogich TL, Li S, van Panhuis WG, Viboud C, Aguás R, Belov A, Bhargava SH, Cavany S, Chang JC, Chen C, Chen J, ... ... Stoltzfus AB, et al. COVID-19 reopening strategies at the county level in the face of uncertainty: Multiple Models for Outbreak Decision Support. Medrxiv : the Preprint Server For Health Sciences. PMID 33173914 DOI: 10.1101/2020.11.03.20225409  0.677
2020 Nguyen VD, Nguyen TH, Tayeen ASM, Laughinghouse HD, Sánchez-Reyes LL, Wiggins J, Pontelli E, Mozzherin D, O'Meara B, Stoltzfus A. Phylotastic: Improving Access to Tree-of-Life Knowledge With Flexible, on-the-Fly Delivery of Trees. Evolutionary Bioinformatics Online. 16: 1176934319899384. PMID 32372858 DOI: 10.1177/1176934319899384  0.642
2019 Storz JF, Natarajan C, Signore AV, Witt CC, McCandlish DM, Stoltzfus A. The role of mutation bias in adaptive molecular evolution: insights from convergent changes in protein function. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 374: 20180238. PMID 31154983 DOI: 10.1098/Rstb.2018.0238  0.367
2017 Stoltzfus A. Why we don't want another "Synthesis". Biology Direct. 12: 23. PMID 28969666 DOI: 10.1186/S13062-017-0194-1  0.366
2017 Stoltzfus A, McCandlish DM. Mutational biases influence parallel adaptation. Molecular Biology and Evolution. PMID 28645195 DOI: 10.1093/Molbev/Msx180  0.366
2017 Stoltzfus A, Rosenberg M, Lapp H, Budd A, Cranston K, Pontelli E, Oliver S, Vos RA. Community and Code: Nine Lessons from Nine NESCent Hackathons F1000research. 6: 786. DOI: 10.12688/F1000Research.11429.1  0.306
2016 Stoltzfus A, Norris RW. On the Causes of Evolutionary Transition:Transversion Bias. Molecular Biology and Evolution. 33: 595-602. PMID 26609078 DOI: 10.1093/Molbev/Msv274  0.355
2015 Stoltzfus A, McCandlish DM. Mutation-biased adaptation in Andean house wrens. Proceedings of the National Academy of Sciences of the United States of America. 112: 13753-4. PMID 26489650 DOI: 10.1073/Pnas.1518490112  0.365
2014 McCandlish DM, Stoltzfus A. Modeling evolution using the probability of fixation: history and implications. The Quarterly Review of Biology. 89: 225-52. PMID 25195318 DOI: 10.1086/677571  0.34
2014 Stoltzfus A, Cable K. Mendelian-mutationism: the forgotten evolutionary synthesis. Journal of the History of Biology. 47: 501-46. PMID 24811736 DOI: 10.1007/S10739-014-9383-2  0.353
2013 Stoltzfus A, Lapp H, Matasci N, Deus H, Sidlauskas B, Zmasek CM, Vaidya G, Pontelli E, Cranston K, Vos R, Webb CO, Harmon LJ, Pirrung M, O'Meara B, Pennell MW, et al. Phylotastic! Making tree-of-life knowledge accessible, reusable and convenient. Bmc Bioinformatics. 14: 158. PMID 23668630 DOI: 10.1186/1471-2105-14-158  0.33
2012 Stoltzfus A, O'Meara B, Whitacre J, Mounce R, Gillespie EL, Kumar S, Rosauer DF, Vos RA. Sharing and re-use of phylogenetic trees (and associated data) to facilitate synthesis. Bmc Research Notes. 5: 574. PMID 23088596 DOI: 10.1186/1756-0500-5-574  0.313
2012 Stoltzfus A. Constructive neutral evolution: exploring evolutionary theory's curious disconnect. Biology Direct. 7: 35. PMID 23062217 DOI: 10.1186/1745-6150-7-35  0.358
2012 Yu G, Stoltzfus A. Population diversity of ORFan genes in Escherichia coli. Genome Biology and Evolution. 4: 1176-87. PMID 23034216 DOI: 10.1093/Gbe/Evs081  0.347
2012 Vos RA, Balhoff JP, Caravas JA, Holder MT, Lapp H, Maddison WP, Midford PE, Priyam A, Sukumaran J, Xia X, Stoltzfus A. NeXML: rich, extensible, and verifiable representation of comparative data and metadata. Systematic Biology. 61: 675-89. PMID 22357728 DOI: 10.1093/Sysbio/Sys025  0.336
2011 Stoltzfus A, O'Meara B, Whitacre J, Mounce R, Rosauer D, Vos R. Publishing re-usable phylogenetic trees, in theory and practice Nature Precedings. DOI: 10.1038/Npre.2011.6048.1  0.334
2009 Prosdocimi F, Chisham B, Pontelli E, Thompson JD, Stoltzfus A. Initial implementation of a comparative data analysis ontology. Evolutionary Bioinformatics Online. 5: 47-66. PMID 19812726 DOI: 10.4137/Ebo.S2320  0.359
2009 Stoltzfus A, Yampolsky LY. Climbing mount probable: mutation as a cause of nonrandomness in evolution. The Journal of Heredity. 100: 637-47. PMID 19625453 DOI: 10.1093/Jhered/Esp048  0.672
2008 Stoltzfus A. Evidence for a predominant role of oxidative damage in germline mutation in mammals. Mutation Research. 644: 71-3. PMID 18597793 DOI: 10.1016/J.Mrfmmm.2008.05.003  0.33
2007 Stoltzfus A, Yampolsky LY. Amino acid exchangeability and the adaptive code hypothesis. Journal of Molecular Evolution. 65: 456-62. PMID 17896070 DOI: 10.1007/S00239-007-9026-8  0.649
2007 De Kee DW, Gopalan V, Stoltzfus A. A sequence-based model accounts largely for the relationship of intron positions to protein structural features. Molecular Biology and Evolution. 24: 2158-68. PMID 17646255 DOI: 10.1093/Molbev/Msm151  0.374
2007 Hladish T, Gopalan V, Liang C, Qiu W, Yang P, Stoltzfus A. Bio::NEXUS: a Perl API for the NEXUS format for comparative biological data. Bmc Bioinformatics. 8: 191. PMID 17559666 DOI: 10.1186/1471-2105-8-191  0.703
2006 Gopalan V, Qiu WG, Chen MZ, Stoltzfus A. Nexplorer: phylogeny-based exploration of sequence family data. Bioinformatics (Oxford, England). 22: 120-1. PMID 16267087 DOI: 10.1093/Bioinformatics/Bti747  0.503
2005 Yampolsky LY, Stoltzfus A. The exchangeability of amino acids in proteins. Genetics. 170: 1459-72. PMID 15944362 DOI: 10.1534/Genetics.104.039107  0.661
2005 Yampolsky LY, Stoltzfus A. Untangling the effects of codon mutation and amino acid exchangeability. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 433-44. PMID 15759648  0.655
2004 Qiu WG, Schisler N, Stoltzfus A. The evolutionary gain of spliceosomal introns: Sequence and phase preferences Molecular Biology and Evolution. 21: 1252-1263. PMID 15014153 DOI: 10.1093/Molbev/Msh120  0.515
2001 Yampolsky LY, Stoltzfus A. Bias in the introduction of variation as an orienting factor in evolution. Evolution & Development. 3: 73-83. PMID 11341676 DOI: 10.1046/J.1525-142X.2001.003002073.X  0.661
1998 Logsdon JM, Stoltzfus A, Doolittle WF. Molecular evolution: recent cases of spliceosomal intron gain? Current Biology : Cb. 8: R560-3. PMID 9707398 DOI: 10.1016/S0960-9822(07)00361-2  0.507
1997 Stoltzfus A, Logsdon JM, Palmer JD, Doolittle WF. Intron "sliding" and the diversity of intron positions. Proceedings of the National Academy of Sciences of the United States of America. 94: 10739-44. PMID 9380704 DOI: 10.1073/Pnas.94.20.10739  0.511
1995 Stoltzfus A, Spencer DF, Doolittle WF. Methods for evaluating exon-protein correspondences Bioinformatics. 11: 509-515. PMID 8590174 DOI: 10.1093/Bioinformatics/11.5.509  0.525
1994 Stoltzfus A, Spencer DF, Zuker M, Logsdon JM, Doolittle WF. Testing the exon theory of genes: the evidence from protein structure. Science (New York, N.Y.). 265: 202-7. PMID 8023140 DOI: 10.1126/Science.8023140  0.52
1993 Doolittle WF, Stoltzfus A. Molecular evolution. Genes-in-pieces revisited Nature. 361: 403. PMID 8429878 DOI: 10.1038/361403A0  0.489
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