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Keith Crandall
Bronze Contributor
8,325 Points

Contributions by role

Author 945
Preprint Author 105
Editor 7,275

Contributions by subject area

Biodiversity
Computational Biology
Genomics
Microbiology
Neurology
Evolutionary Studies
Genetics
Epidemiology
Conservation Biology
Zoology
Public Health
Biogeography
Taxonomy
Marine Biology
Parasitology
Bioinformatics
Virology
Immunology
Infectious Diseases
Oncology
Ophthalmology
Molecular Biology
Agricultural Science
Ecology
Coupled Natural and Human Systems
Entomology
Veterinary Medicine
Computational Science
Data Mining and Machine Learning
Population Biology
Psychiatry and Psychology
Global Health
Health Policy
HIV
Freshwater Biology
Bioengineering
Biochemistry
Statistics
Plant Science
Natural Resource Management
Food Science and Technology
Data Science
Aquaculture, Fisheries and Fish Science
Gastroenterology and Hepatology
Pediatrics
Translational Medicine
Developmental Biology
Mathematical Biology
Biological Oceanography
Respiratory Medicine
Medical Genetics
Bronze Contributor

Keith A Crandall

PeerJ Author

Summary

Keith A. Crandall, PhD is the Founding Director of the Computational Biology Institute at George Washington University. Professor Crandall studies the computational biology, population genetics, and bioinformatics, developing and testing of methods for DNA sequence analysis. He applies such methods to the study of the evolution of both infectious diseases (especially microbiome diversity) and crustaceans (especially decapod crustaceans). Professor Crandall has published over 300 peer reviewed publications, as well as three books. He has been a Fulbright Visiting Scholar to Oxford University and an Allen Wilson Centre Sabbatical Fellow at the University of Auckland. Professor Crandall has received a number of awards for research and teaching, including the American Naturalist Society Young Investigator Award, an NSF CAREER Award, a PhRMA Foundation Faculty Development Award in Bioinformatics, Honors Professor of the Year award at Brigham Young University, ISI Highly Cited Researcher, and the Edward O. Wilson Naturalist Award. He is also an elected Fellow in the American Association for the Advancement of Science (AAAS) and a Fellow of the Linnean Society of London. Professor Crandall earned his BA degree from Kalamazoo College in Biology and Mathematics, an MA degree from Washington University in Statistics, and a PhD from Washington University School of Medicine in Biology and Biomedical Sciences. He also served as a Peace Corps Volunteer in Puyo, Ecuador.

Biodiversity Biogeography Bioinformatics Computational Biology Conservation Biology Data Science Epidemiology Evolutionary Studies Freshwater Biology Genetics Genomics HIV Infectious Diseases Marine Biology Medical Genetics Microbiology Public Health Taxonomy Translational Medicine Zoology

Editing Journals

Past or current institution affiliations

George Washington University

Work details

Professor

George Washington University
November 2017
Department of Biostatistics & Bioinformatics
The vision of the Department of Biostatistics and Bioinformatics is to improve public health through excellence in education and teaching in biostatistics and bioinformatics, transformative scientific research, and dedicated service to the university, profession and community. With Department faculty that have received more research funding than any other department at the university, the Department educates the next generation of leaders in biostatistics and bioinformatics by providing opportunities for close interactions with award winning faculty and practical real-world training opportunities in clinical trials, observational studies, diagnostic studies, and bioinformatics and computational biology. The initiation of the Department of Biostatistics and Bioinformatics highlights the school’s commitment to the quantitative sciences and the university-wide focus on science, technology, engineering and math (STEM).

Director

George Washington University
July 2012
Computational Biology Institute
Keith Crandall is the Founding Director of the Computational Biology Institute at George Washington University. Now more than ever before, the power to turn huge volumes of data into information about our world has put the answers to some of life’s most challenging questions within our grasp. The George Washington University’s Computational Biology Institute (CBI) brings together leading faculty in biology, statistics, public health, medicine, and computing to harness this information, opening new doors of discovery that have the potential to benefit millions. CBI is also maximizing the university’s unique relationships in the nation’s capital to form research partnerships and spotlight cutting‐edge topics that may influence future American and international health. By blending its own skills with the expertise of engineers, mathematicians, statisticians, clinicians and others, CBI is contributing to knowledge and resources that can be used by researchers on a global scale, influencing how the world uses science and technology to solve its most pressing problems. With these truly incomparable resources and expertise, CBI performs cutting‐edge research and helps raise awareness of scientific advancements that improve our health, environment and overall quality of life.

Websites

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  • ORCID

PeerJ Contributions

  • Articles 7
  • Preprints 2
  • Edited 54
August 18, 2021
A synthesis tree of the Copepoda: integrating phylogenetic and taxonomic data reveals multiple origins of parasitism
James P. Bernot, Geoffrey A. Boxshall, Keith A. Crandall
https://doi.org/10.7717/peerj.12034 PubMed 34466296
August 11, 2020
Evaluation of computational methods for human microbiome analysis using simulated data
Matthieu J. Miossec, Sandro L. Valenzuela, Marcos Pérez-Losada, W. Evan Johnson, Keith A. Crandall, Eduardo Castro-Nallar
https://doi.org/10.7717/peerj.9688 PubMed 32864214
July 27, 2020
Epitope-based chimeric peptide vaccine design against S, M and E proteins of SARS-CoV-2, the etiologic agent of COVID-19 pandemic: an in silico approach
M. Shaminur Rahman, M. Nazmul Hoque, M. Rafiul Islam, Salma Akter, A. S. M. Rubayet Ul Alam, Mohammad Anwar Siddique, Otun Saha, Md. Mizanur Rahaman, Munawar Sultana, Keith A. Crandall, M. Anwar Hossain
https://doi.org/10.7717/peerj.9572 PubMed 33194329
August 16, 2019
Towards a barnacle tree of life: integrating diverse phylogenetic efforts into a comprehensive hypothesis of thecostracan evolution
Christine Ewers-Saucedo, Christopher L. Owen, Marcos Pérez-Losada, Jens T. Høeg, Henrik Glenner, Benny K.K. Chan, Keith A. Crandall
https://doi.org/10.7717/peerj.7387 PubMed 31440430
April 25, 2017
DNA Barcoding analysis of seafood accuracy in Washington, D.C. restaurants
David B. Stern, Eduardo Castro Nallar, Jason Rathod, Keith A. Crandall
https://doi.org/10.7717/peerj.3234 PubMed 28462038
August 25, 2015
Composition, taxonomy and functional diversity of the oropharynx microbiome in individuals with schizophrenia and controls
Eduardo Castro-Nallar, Matthew L. Bendall, Marcos Pérez-Losada, Sarven Sabuncyan, Emily G. Severance, Faith B. Dickerson, Jennifer R. Schroeder, Robert H. Yolken, Keith A. Crandall
https://doi.org/10.7717/peerj.1140 PubMed 26336637
February 17, 2015
Concordance and discordance of sequence survey methods for molecular epidemiology
Eduardo Castro-Nallar, Nur A. Hasan, Thomas A. Cebula, Rita R. Colwell, Richard A. Robison, W. Evan Johnson, Keith A. Crandall
https://doi.org/10.7717/peerj.761 PubMed 25737810
August 17, 2018 - Version: 2
Research Infrastructures offer capacity to address scientific questions never attempted before: Are all taxa equal?
Christos D Arvanitidis, Richard M Warwick, Paul J Somerfield, Christina Pavloudi, Evangelos Pafilis, Anastassis Oulas, Giorgos Chatzigeorgiou, Vasilis Gerovasileiou, Theodoros Patkos, Nicolas Bailly, Francisco Hernandez, Bart Vanhoorne, Leen Vandepitte, Ward Appeltans, Robert Adlard, Peter Adriaens, Ahn Kee-Jeong, Ahyong Shane, Akkari Nesrine, Gary Anderson, Angel Martin, Claudia Arango, Tom Artois, Stephen Atkinson, Ruud Bank, Anthony D Barber, Joao P Barbosa, Ilse Bartsch, Denise Bellan-Santini, Jimmy Bernot, Rüdiger Bieler, Magda Błażewicz, Phil Bock, Ruth Böttger-Schnack, Philippe Bouchet, Nicole Boury-Esnault, Geoff Boxshall, Christopher B Boyko, Simone Nunes Brandão, Rod Bray, Niel L Bruce, Stephen Cairns, Tania N Campinas Bezerra, Paco Cárdenas, Benny KK Chan, Tin-Yam Chan, Lanna Cheng, Morgan Churchill, Laure Corbari, Ralf Cordeiro, Astrid Cornils, Keith A Crandall, Thomas Cribb, Jean-Loup D'hondt, Meg Daly, Mikhail Daneliya, Jean-Claude Dauvin, Peter Davie, Claude De Broyer, Valentin De Mazancourt, Nicole De Voogd, Peter Decker, Danielle Defaye, Henk Dijkstra, Martin Dohrmann, Daryl Domning, Rachel Downey, Inna Drapun, Ursula Eisendle-Flöckner, Christine Ewers-Saucedo, Marien Faber, Diego Figueroa, Julian Finn, Gustavo Fonseca, Ewan Fordyce, William Foster, Hidetaka Furuya, Horia Galea, Oscar Garcia-Alvarez, Rade Garic, Rebeca Gasca, Santiago Gaviria-Melo, Sarah Gerken, David Gibson, João Gil, Arjan Gittenberger, Chris Glasby, Serge Gofas, Samuel E Gómez-Noguera, David González-Solís, Dennis Gordon, Michal Grabowski, Cinzia Gravili, José M Guerra-García, Roberto Guidetti, Katja Guilini, Kerry A Hadfield, Ed Hendrycks, Bachiller Herrera, Ju-Shey Ho, Jens Høeg, Oleksandr Holovachov, Matthew D Hooge, John Hooper, Tammy Horton, Lauren Hughes, Matús Hyžný, Luiz IF Moretti, Tohru Iseto, Viatcheslav N Ivanenko, Gerhard Jarms, Damià Jaume, Krzysztof Jazdzewski, Ivana Karanovic, Young-Hyo Kim, Rachael King, Michelle Klautau, Jürgen Kolb, Alexey Kotov, Traudl Krapp-Schickel, Antonina Kremenetskaia, Reinhardt Kristensen, Andreas Kroh, Sven Kullander, Rafael La Perna, Sara LeCroy, Daniel Leduc, Rafael Lemaitre, Anne-Nina Lörz, Jim Lowry, Enrique Macpherson, Larry Madin, Tomasz Mamos, Renata Manconi, Bruce Marshall, David J Marshall, Patrick Martin, Sandra McInnes, Jan Mees, Tõnu Meidla, Kelly Merrin, Dmitry Miljutin, Claudia Mills, Vadim Mokievsky, Tina Molodtsova, Rich Mooi, André C Morandini, Rosana Moreira Da Rocha, Fabio Moretzsohn, Jonas Mortelmans, Jeanne Mortimer, Luigi Musco, Thomas A Neubauer, Eike Neubert, Peter NG Neuhaus, Anh D Nguyen, Claus Nielsen, Jon Norenburg, Tim O'Hara, Hisayo Okahashi, Dennis Opresko, Masayuki Osawa, Yuzo Ota, Gustav Paulay, Vincent Perrier, William Perrin, Iorgu Petrescu, Bernard Picton, John F Pilger, Andrzej Pisera, Dan Polhemus, Gary Poore, James D Reimer, Hans Reip, Michael Reuscher, Pilar Rios Lopez, Marc Rius, Alexander Rzhavsky, José Saiz-Salinas, André F Sartori, Heinrich Schatz, Bernd Schierwater, Andreas Schmidt-Rhaesa, Simon Schneider, Christine Schönberg, André R Senna, Cristiana Serejo, Shabuddin Shaik, Shokoofeh Shamsi, Jyotsna Sharma, Noa Shenkar, Andrew Shinn, Jacek Sicinski, Volker Siegel, Petra Sierwald, Elizabeth Simmons, Frederic Sinniger, Duncan Sivell, Boris Sket, Harry Smit, Nicole Smol, Jesser F Souza-Filho, Jörg Spelda, Sérgio N Stampar, Eric Stienen, Pavel Stoev, Sabine Stöhr, Malin Strand, Eduardo Suárez-Morales, Mindi Summers, Billie J Swalla, Stefano Taiti, Masaatsu Tanaka, Anne H Tandberg, Danny Tang, Mark Tasker, Harry ten Hove, Jan J ter Poorten, Jim Thomas, Erik V Thuesen, Ben Thuy, Juan T Timi, Antonio Todaro, Xavier Turon, Peter Uetz, Sergiy Utevsky, Jean Vacelet, Risto Väinölä, Sancia ET van der Meij, Ton van Haaren, Virág Venekey, Chris Vos, Genefor Walker-Smith, Chad T Walter, Les Watling, Matthew Wayland, Christopher Whipps, Gary Williams, Robin Wilson, Moriaki Yasuhara, Joana Zanol, Wolfgang Zeidler
https://doi.org/10.7287/peerj.preprints.26819v2
May 12, 2017 - Version: 1
Transcriptomic effects of dispersed oil in a non-model decapod crustacean
Hernan Vazquez-Miranda, Brent P Thoma, Juliet M Wong, Darryl L Felder, Keith A Crandall, Heather D Bracken-Grissom
https://doi.org/10.7287/peerj.preprints.2977v1

Academic Editor on

November 2, 2021
Parallel power posterior analyses for fast computation of marginal likelihoods in phylogenetics
Sebastian Höhna, Michael J. Landis, John P. Huelsenbeck
https://doi.org/10.7717/peerj.12438 PubMed 34760401
September 7, 2021
Probabilistically sampled and spectrally clustered plant species using phenotypic characteristics
Aditya A. Shastri, Kapil Ahuja, Milind B. Ratnaparkhe, Yann Busnel
https://doi.org/10.7717/peerj.11927 PubMed 34589292
July 8, 2021
Flatfoot in Africa, the cirripede Chthamalus in the west Indian Ocean
Noa Simon-Blecher, Avi Jacob, Oren Levy, Lior Appelbaum, Shiran Elbaz-Ifrah, Yair Achituv
https://doi.org/10.7717/peerj.11710 PubMed 34285832
January 20, 2021
Identification of an immune prognostic 11-gene signature for lung adenocarcinoma
Tao Yang, Lizheng Hao, Renyun Cui, Huanyu Liu, Jian Chen, Jiongjun An, Shuo Qi, Zhong Li
https://doi.org/10.7717/peerj.10749 PubMed 33552736
September 29, 2020
Computational perspectives revealed prospective vaccine candidates from five structural proteins of novel SARS corona virus 2019 (SARS-CoV-2)
Rajesh Anand, Subham Biswal, Renu Bhatt, Bhupendra N. Tiwary
https://doi.org/10.7717/peerj.9855 PubMed 33062414
November 13, 2019
Identification of genes and functional coexpression modules closely related to ulcerative colitis by gene datasets analysis
Jie Zhu, Zheng Wang, Fengzhe Chen, Changhong Liu
https://doi.org/10.7717/peerj.8061 PubMed 31741804
September 10, 2019
Oceanographic habitat and the coral microbiomes of urban-impacted reefs
Stephanie M. Rosales, Christopher Sinigalliano, Maribeth Gidley, Paul R. Jones, Lewis J. Gramer
https://doi.org/10.7717/peerj.7552 PubMed 31565557
March 26, 2019
Robust and automatic definition of microbiome states
Beatriz García-Jiménez, Mark D. Wilkinson
https://doi.org/10.7717/peerj.6657 PubMed 30941274
November 14, 2018
Integration of phylogenomics and molecular modeling reveals lineage-specific diversification of toxins in scorpions
Carlos E. Santibáñez-López, Ricardo Kriebel, Jesús A. Ballesteros, Nathaniel Rush, Zachary Witter, John Williams, Daniel A. Janies, Prashant P. Sharma
https://doi.org/10.7717/peerj.5902 PubMed 30479892
November 7, 2018
Microbiome differences between river-dwelling and cave-adapted populations of the fish Astyanax mexicanus (De Filippi, 1853)
Patricia Ornelas-García, Silvia Pajares, Víctor M. Sosa-Jiménez, Sylvie Rétaux, Ramsés A. Miranda-Gamboa
https://doi.org/10.7717/peerj.5906 PubMed 30425894
September 28, 2018
Xeno-miRNet: a comprehensive database and analytics platform to explore xeno-miRNAs and their potential targets
Yannan Fan, Maria Habib, Jianguo Xia
https://doi.org/10.7717/peerj.5650 PubMed 30280028
September 19, 2018
A phylogenetic taxonomy of the Cyrtodactylus peguensis group (Reptilia: Squamata: Gekkonidae) with descriptions of two new species from Myanmar
L. Lee Grismer, Perry L. Wood, Evan S.H. Quah, Matthew L. Murdoch, Marta S. Grismer, Mark W. Herr, Robert E. Espinoza, Rafe M. Brown, Aung Lin
https://doi.org/10.7717/peerj.5575 PubMed 30258710
June 15, 2018
MLSTar: automatic multilocus sequence typing of bacterial genomes in R
Ignacio Ferrés, Gregorio Iraola
https://doi.org/10.7717/peerj.5098 PubMed 29922519
May 30, 2018
Applying fecal microbiota transplantation (FMT) to treat recurrent Clostridium difficile infections (rCDI) in children
Shaaz Fareed, Neha Sarode, Frank J. Stewart, Aneeq Malik, Elham Laghaie, Saadia Khizer, Fengxia Yan, Zoe Pratte, Jeffery Lewis, Lilly Cheng Immergluck
https://doi.org/10.7717/peerj.4663 PubMed 29868248
May 28, 2018
BLAST-based validation of metagenomic sequence assignments
Adam L. Bazinet, Brian D. Ondov, Daniel D. Sommer, Shashikala Ratnayake
https://doi.org/10.7717/peerj.4892 PubMed 29868286
October 6, 2017
Cryptic biodiversity and phylogeographic patterns of Seychellois Ligia isopods
Carlos A. Santamaria, Joanna K. Bluemel, Nancy Bunbury, Melinda Curran
https://doi.org/10.7717/peerj.3894 PubMed 29018626
October 6, 2017
Benchmark datasets for phylogenomic pipeline validation, applications for foodborne pathogen surveillance
Ruth E. Timme, Hugh Rand, Martin Shumway, Eija K. Trees, Mustafa Simmons, Richa Agarwala, Steven Davis, Glenn E. Tillman, Stephanie Defibaugh-Chavez, Heather A. Carleton, William A. Klimke, Lee S. Katz
https://doi.org/10.7717/peerj.3893 PubMed 29372115
September 1, 2017
A practical guide to build de-novo assemblies for single tissues of non-model organisms: the example of a Neotropical frog
Santiago Montero-Mendieta, Manfred Grabherr, Henrik Lantz, Ignacio De la Riva, Jennifer A. Leonard, Matthew T. Webster, Carles Vilà
https://doi.org/10.7717/peerj.3702 PubMed 28879061
August 14, 2017
Microbial communities in the reef water at Kham Island, lower Gulf of Thailand
Naraporn Somboonna, Alisa Wilantho, Somchai Monanunsap, Suchana Chavanich, Sithichoke Tangphatsornruang, Sissades Tongsima
https://doi.org/10.7717/peerj.3625 PubMed 28828243
July 25, 2017
Targeted NGS for species level phylogenomics: “made to measure” or “one size fits all”?
Malvina Kadlec, Dirk U. Bellstedt, Nicholas C. Le Maitre, Michael D. Pirie
https://doi.org/10.7717/peerj.3569 PubMed 28761782
May 30, 2017
MitoSuite: a graphical tool for human mitochondrial genome profiling in massive parallel sequencing
Koji Ishiya, Shintaroh Ueda
https://doi.org/10.7717/peerj.3406 PubMed 28584729
May 24, 2017
A novel genus and cryptic species harboured within the monotypic freshwater crayfish genus Tenuibranchiurus Riek, 1951 (Decapoda: Parastacidae)
Kathryn L. Dawkins, James M. Furse, Clyde H. Wild, Jane M. Hughes
https://doi.org/10.7717/peerj.3310 PubMed 28560095
April 27, 2017
Whole genome sequencing of group A Streptococcus: development and evaluation of an automated pipeline for emmgene typing
Georgia Kapatai, Juliana Coelho, Steven Platt, Victoria J. Chalker
https://doi.org/10.7717/peerj.3226 PubMed 28462035
March 30, 2017
Metagenomic analysis exploring taxonomic and functional diversity of soil microbial communities in Chilean vineyards and surrounding native forests
Luis E. Castañeda, Olga Barbosa
https://doi.org/10.7717/peerj.3098 PubMed 28382231
February 28, 2017
How conserved are the conserved 16S-rRNA regions?
Marcel Martinez-Porchas, Enrique Villalpando-Canchola, Luis Enrique Ortiz Suarez, Francisco Vargas-Albores
https://doi.org/10.7717/peerj.3036 PubMed 28265511
January 24, 2017
Three new karst-dwelling Cnemaspis Strauch, 1887 (Squamata; Gekkoniade) from Peninsular Thailand and the phylogenetic placement of C. punctatonuchalis and C. vandeventeri
Perry Lee Wood Jr, L. Lee Grismer, Anchalee Aowphol, César A. Aguilar, Micheal Cota, Marta S. Grismer, Matthew L. Murdoch, Jack W. Sites Jr
https://doi.org/10.7717/peerj.2884 PubMed 28149678
November 8, 2016
Deconvoluting simulated metagenomes: the performance of hard- and soft- clustering algorithms applied to metagenomic chromosome conformation capture (3C)
Matthew Z. DeMaere, Aaron E. Darling
https://doi.org/10.7717/peerj.2676 PubMed 27843713
October 18, 2016
The single-species metagenome: subtyping Staphylococcus aureus core genome sequences from shotgun metagenomic data
Sandeep J. Joseph, Ben Li, Robert A. Petit III, Zhaohui S. Qin, Lyndsey Darrow, Timothy D. Read
https://doi.org/10.7717/peerj.2571 PubMed 27781166
October 5, 2016
A transcriptomic scan for potential candidate genes involved in osmoregulation in an obligate freshwater palaemonid prawn (Macrobrachium australiense)
Azam Moshtaghi, Md. Lifat Rahi, Viet Tuan Nguyen, Peter B. Mather, David A. Hurwood
https://doi.org/10.7717/peerj.2520 PubMed 27761323
September 14, 2016
Whole genome sequencing of Streptococcus pneumoniae: development, evaluation and verification of targets for serogroup and serotype prediction using an automated pipeline
Georgia Kapatai, Carmen L. Sheppard, Ali Al-Shahib, David J. Litt, Anthony P. Underwood, Timothy G. Harrison, Norman K. Fry
https://doi.org/10.7717/peerj.2477 PubMed 27672516
August 10, 2016
Changes in segmentation and setation along the anterior/posterior axis of the homonomous trunk limbs of a remipede (Crustacea, Arthropoda)
Viacheslav N. Ivanenko, Ekaterina A. Antonenko, Mikhail S. Gelfand, Jill Yager, Frank D. Ferrari
https://doi.org/10.7717/peerj.2305 PubMed 27602276
July 19, 2016
Effects of 16S rDNA sampling on estimates of the number of endosymbiont lineages in sucking lice
Julie M. Allen, J. Gordon Burleigh, Jessica E. Light, David L. Reed
https://doi.org/10.7717/peerj.2187 PubMed 27547523
May 5, 2016
Genetic structure of the crown-of-thorns seastar in the Pacific Ocean, with focus on Guam
Sergio Tusso, Kerstin Morcinek, Catherine Vogler, Peter J. Schupp, Ciemon F. Caballes, Sergio Vargas, Gert Wörheide
https://doi.org/10.7717/peerj.1970 PubMed 27168979
April 18, 2016
Phylogenetic species delimitation for crayfishes of the genus Pacifastacus
Eric R. Larson, Magalie Castelin, Bronwyn W. Williams, Julian D. Olden, Cathryn L. Abbott
https://doi.org/10.7717/peerj.1915 PubMed 27114875
March 29, 2016
What doesn’t kill them makes them stronger: an association between elongation factor 1-α overdominance in the sea star Pisaster ochraceus and “sea star wasting disease”
John P. Wares, Lauren M. Schiebelhut
https://doi.org/10.7717/peerj.1876 PubMed 27069810
February 4, 2016
A model for HIV disclosure of a parent’s and/or a child’s illness
Grace Gachanja, Gary J. Burkholder
https://doi.org/10.7717/peerj.1662 PubMed 26870614
December 14, 2015
Emerging semantics to link phenotype and environment
Anne E. Thessen, Daniel E. Bunker, Pier Luigi Buttigieg, Laurel D. Cooper, Wasila M. Dahdul, Sami Domisch, Nico M. Franz, Pankaj Jaiswal, Carolyn J. Lawrence-Dill, Peter E. Midford, Christopher J. Mungall, Martín J. Ramírez, Chelsea D. Specht, Lars Vogt, Rutger Aldo Vos, Ramona L. Walls, Jeffrey W. White, Guanyang Zhang, Andrew R. Deans, Eva Huala, Suzanna E. Lewis, Paula M. Mabee
https://doi.org/10.7717/peerj.1470 PubMed 26713234
August 13, 2015
To beat or not to beat a tick: comparison of DNA extraction methods for ticks (Ixodes scapularis)
Alyssa D. Ammazzalorso, Christine P. Zolnik, Thomas J. Daniels, Sergios-Orestis Kolokotronis
https://doi.org/10.7717/peerj.1147 PubMed 26290800
June 24, 2015
Pylogeny: an open-source Python framework for phylogenetic tree reconstruction and search space heuristics
Alexander Safatli, Christian Blouin
https://doi.org/10.7717/peerj-cs.9
March 12, 2015
The effect of listening to music on human transcriptome
Chakravarthi Kanduri, Pirre Raijas, Minna Ahvenainen, Anju K. Philips, Liisa Ukkola-Vuoti, Harri Lähdesmäki, Irma Järvelä
https://doi.org/10.7717/peerj.830 PubMed 25789207
October 30, 2014
A global phylogenetic analysis in order to determine the host species and geography dependent features present in the evolution of avian H9N2 influenza hemagglutinin
Andrew R. Dalby, Munir Iqbal
https://doi.org/10.7717/peerj.655 PubMed 25374791
October 14, 2014
An evaluation of alternative methods for constructing phylogenies from whole genome sequence data: a case study with Salmonella
James B. Pettengill, Yan Luo, Steven Davis, Yi Chen, Narjol Gonzalez-Escalona, Andrea Ottesen, Hugh Rand, Marc W. Allard, Errol Strain
https://doi.org/10.7717/peerj.620 PubMed 25332847
September 25, 2014
Shared phylogeographic patterns between the ectocommensal flatworm Temnosewellia albata and its host, the endangered freshwater crayfish Euastacus robertsi
Charlotte R. Hurry, Daniel J. Schmidt, Mark Ponniah, Giovannella Carini, David Blair, Jane M. Hughes
https://doi.org/10.7717/peerj.552 PubMed 25279257
July 10, 2014
HIV-positive parents, HIV-positive children, and HIV-negative children’s perspectives on disclosure of a parent’s and child’s illness in Kenya
Grace Gachanja, Gary J. Burkholder, Aimee Ferraro
https://doi.org/10.7717/peerj.486 PubMed 25071999
May 27, 2014
Strain- and plasmid-level deconvolution of a synthetic metagenome by sequencing proximity ligation products
Christopher W. Beitel, Lutz Froenicke, Jenna M. Lang, Ian F. Korf, Richard W. Michelmore, Jonathan A. Eisen, Aaron E. Darling
https://doi.org/10.7717/peerj.415 PubMed 24918035
April 22, 2014
Does more sequence data improve estimates of galliform phylogeny? Analyses of a rapid radiation using a complete data matrix
Rebecca T. Kimball, Edward L. Braun
https://doi.org/10.7717/peerj.361 PubMed 24795852
January 2, 2014
Composable languages for bioinformatics: the NYoSh experiment
Manuele Simi, Fabien Campagne
https://doi.org/10.7717/peerj.241 PubMed 24482760
December 23, 2013
Whole genome phylogeny for 21 Drosophila species using predicted 2b-RAD fragments
Arun S. Seetharam, Gary W. Stuart
https://doi.org/10.7717/peerj.226 PubMed 24432193
October 29, 2013
BioNames: linking taxonomy, texts, and trees
Roderic D.M. Page
https://doi.org/10.7717/peerj.190 PubMed 24244913
August 15, 2013
Augmenting transcriptome assembly by combining de novo and genome-guided tools
Prachi Jain, Neeraja M. Krishnan, Binay Panda
https://doi.org/10.7717/peerj.133 PubMed 24024083
June 25, 2013
PTree: pattern-based, stochastic search for maximum parsimony phylogenies
Ivan Gregor, Lars Steinbrück, Alice C. McHardy
https://doi.org/10.7717/peerj.89 PubMed 23825794
April 16, 2013
Genome-wide association study of HLA-DQB1*06:02 negative essential hypersomnia
Seik-Soon Khor, Taku Miyagawa, Hiromi Toyoda, Maria Yamasaki, Yoshiya Kawamura, Hisashi Tanii, Yuji Okazaki, Tsukasa Sasaki, Ling Lin, Juliette Faraco, Tom Rico, Yutaka Honda, Makoto Honda, Emmanuel Mignot, Katsushi Tokunaga
https://doi.org/10.7717/peerj.66 PubMed 23646285
April 9, 2013
Conservation genetics of extremely isolated urban populations of the northern dusky salamander (Desmognathus fuscus) in New York City
Jason Munshi-South, Yana Zak, Ellen Pehek
https://doi.org/10.7717/peerj.64 PubMed 23646283
April 2, 2013
Multiple global radiations in tadpole shrimps challenge the concept of ‘living fossils’
Thomas C. Mathers, Robert L. Hammond, Ronald A. Jenner, Bernd Hänfling, Africa Gómez
https://doi.org/10.7717/peerj.62 PubMed 23638400