Submissions from 2019
ReQTL: Identifying correlations between expressed SNVs and gene expression using RNA-sequencing data, Liam Spurr, Nawaf Alomran, Pavlos Bousounis, Dacian Reece-Stremtan, NM Prashant, Honguy Liu, Piotr Slowinski, Muzi Li, Qianqian Zhang, Justin Sein, Gabriel Asher, Keith A. Crandall, Krasimira Tsaneva-Atanasova, and Anelia Horvath
Modern clinician-initiated clinical trials to determine optimal therapy for multi-drug resistant Gram-negative infections, A G. Stewart, P N A Harris, M Chatfield, S R. Evans, D van Duin, and D L. Paterson
2276. Clinical Epidemiology of the Carbapenem-Resistant Enterobacteriaceae (CRE) Epidemic in Colombia: A Multicenter Prospective Study, Sandra Liliana Valderrama-Beltran, Lauren Komarow, Soraya Salcedo, Laura Mora, Adriana Marin, Karen M. Ordonez Diaz, Edilberto Cristancho Quintero, Beatriz Elena Ariza, Gloria Cortes, De la Hoz Alejandro, Jose Onate, Elsa Yasmin Vente, Viviana Mendez, Jairo Figueroa, Luz Osorio, Carlos Moreno, Jinnethe Reyes, Luis Dulcey, Pallares Christian, Henry Chambers, Vance G. Fowler, Scott R. Evans, Barry Kreiswirth, Maria Virginia Villegas, Robert A. Bonomo, David van Duin, and Cesar A. Arias
Randomization tests for multiarmed randomized clinical trials., Yanying Wang, William F. Rosenberger, and Diane Uschner
Acinetobacter infections, B. M. Wilson, F. Perez, Q. Pan, Y. Jiang, S. Evans, and R. A. Bonomo
A phylogenomic framework, evolutionary timeline and genomic resources for comparative studies of decapod crustaceans, Joanna M. Wolfe, Jesse W. Breinholt, Keith A. Crandall, Alan R. Lemmon, Emily Moriarty Lemmon, Laura E. Timm, Mark E. Siddall, and Heather D. Bracken-Grissom
The Consortium of Metabolomics Studies (COMETS): Metabolomics in 47 Prospective Cohort Studies., Bing Yu, Krista A. Zanetti, Marinella Temprosa, Demetrius Albanes, Nathan Appel, Clara Barrios Barrera, Yoav Ben-Shlomo, Eric Boerwinkle, Juan P. Casas, Clary Clish, Caroline Dale, Abbas Dehghan, Andriy Derkach, A Heather Eliassen, Paul Elliott, Eoin Fahy, Christian Gieger, Marc J. Gunter, Sei Harada, Tamara Harris, Deron R. Herr, David Herrington, Joel N. Hirschhorn, Elise Hoover, Ann W. Hsing, Mattias Johansson, Rachel S. Kelly, Chin Meng Khoo, Mika Kivimäki, Bruce S. Kristal, Claudia Langenberg, Jessica Lasky-Su, Deborah A. Lawlor, Luca A. Lotta, Massimo Mangino, Loïc Le Marchand, Ewy Mathé, Charles E. Matthews, Cristina Menni, Lorelei A. Mucci, Rachel Murphy, Matej Oresic, Eric Orwoll, Jennifer Ose, Alexandre C. Pereira, Mary C. Playdon, Lucilla Poston, Jackie Price, Qibin Qi, Kathryn Rexrode, Adam Risch, Joshua Sampson, Wei Jie Seow, Howard D. Sesso, Svati H. Shah, Xiao-Ou Shu, Gordon C S Smith, Ulla Sovio, Victoria L. Stevens, Rachael Stolzenberg-Solomon, Toru Takebayashi, Therese Tillin, Ruth Travis, Ioanna Tzoulaki, Cornelia M. Ulrich, Ramachandran S. Vasan, Mukesh Verma, Ying Wang, Nick J. Wareham, Andrew Wong, Naji Younes, Hua Zhao, Wei Zheng, and Steven C. Moore
Submissions from 2018
Properties of composite time to first event versus joint marginal analyses of multiple outcomes, Ionut Bebu and John M. Lachin
Long-Term Benefit of Empagliflozin on Life Expectancy in Patients With Type 2 Diabetes Mellitus and Established Cardiovascular Disease., Brian Claggett, John M. Lachin, Stefan Hantel, David Fitchett, Silvio E. Inzucchi, Hans J. Woerle, Jyothis T. George, and Bernard Zinman
Invasion by non-indigenous freshwater decapods of Malta and Sicily, central Mediterranean Sea, Alan Deidun, Arnold Sciberras, Justin Formosa, Bruno Zava, Gianni Insacco, Maria Corsini-Foka, and Keith A. Crandall
Multigene phylogeny reveals two new isolated and relic earthworm genera (Oligochaeta: Lumbricidae), Jorge Dominguez, Manuel Aira, Pablo G. Porto, Dario J. Diaz Cosin, and Marcos Perez-Losada
Benchmark evaluation of true single molecular sequencing to determine cystic fibrosis airway microbiome diversity, Andrea Hahn, Matthew L. Bendall, Keylie M. Gibson, Hollis Chaney, Iman Sami, Geovanny F. Perez, Anastassios C. Koumbourlis, Timothy A. McCaffrey, Robert J. Freishtat, and Keith A. Crandall
Antibiotic multidrug resistance in the cystic fibrosis airway microbiome is associated with decreased diversity, Andrea Hahn, Aszia Burrell, Hani Fanous, Hollis Chaney, Iman Sami, Geovanny F. Perez, Anastassios C. Koumbourlis, Robert J. Freishtat, and Keith A. Crandall
Microbial diversity within the airway microbiome in chronic pediatric lung diseases, Andrea Hahn, Stephanie Warnken, Marcos Pérez-Losada, Robert J. Freishtat, and Keith A. Crandall
De novo transcriptome assembly of Pueraria montana var. lobata and Neustanthus phaseoloides for the development of eSSR and SNP markers: Narrowing the US origin(s) of the invasive kudzu, Matthew S. Haynsen, Mohammad Vatanparast, Gouri Mahadwar, Dennis Zhu, Roy Z. Moger-Reischer, Jeff J. Doyle, Keith A. Crandall, and Ashley N. Egan
Comparing neurodevelopmental outcomes at 30 months by presence of hydrocephalus and shunt status among children enrolled in the MOMS trial, A J. Houtrow, P K. Burrows, and E A. Thom
Seminal simian immunodeficiency virus in chronically infected cynomolgus macaques is dominated by virus originating from multiple genital organs, Laurent Houzet, Marcos Pérez-Losada, Giulia Matusali, Claire Deleage, Nathalie Dereuddre-Bosquet, Anne Pascale Satie, Florence Aubry, Emmanuelle Becker, Bernard Jégou, Roger Le Grand, Brandon F. Keele, Keith A. Crandall, and Nathalie Dejucq-Rainsford
Earth BioGenome Project: Sequencing life for the future of life, Harris A. Lewin, Gene E. Robinson, W. John Kress, William J. Baker, Jonathan Coddington, Keith A. Crandall, Richard Durbin, Scott V. Edwards, Félix Forest, M. Thomas P. Gilbert, Melissa M. Goldstein, Igor V. Grigoriev, Kevin J. Hackett, David Haussler, Erich D. Jarvis, Warren E. Johnson, Aristides Patrinos, Stephen Richards, Juan Carlos Castilla-Rubio, Marie Anne Van Sluys, Pamela S. Soltis, Xun Xu, Huanming Yang, and Guojie Zhang
Identification of Burkholderia fungorum in the urine of an individual with spinal cord injury and augmentation cystoplasty using 16S sequencing: copathogen or innocent bystander?, Emma Nally, Suzanne L. Groah, Marcos Perez-Losada, Ljubica Caldovic, Inger Ljungberg, Neel J. Chandel, Bruce Sprague, Michael H. Hsieh, and Hans G. Pohl
Pediatric asthma comprises different phenotypic clusters with unique nasal microbiotas, Marcos Pérez-Losada, Kayla J. Authelet, Claire E. Hoptay, Christine Kwak, Keith A. Crandall, and Robert J. Freishtat
Systematic pan-cancer analysis of somatic allele frequency, Liam Spurr, Muzi Li, Nawaf Alomran, Qianqian Zhang, Paula Restrepo, Mercedeh Movassagh, Chris Trenkov, Nerissa Tunnessen, Tatiyana Apanasovich, Keith A. Crandall, Nathan Edwards, and Anelia Horvath
Characterization of mucoid and serous middle ear effusions from patients with chronic otitis media: implication of different biological mechanisms?, Val Stephanie, Marian Poley, Anna Krueger, Gustavo Nino, Kristy Brown, Marcos Perez-Losada, Heather Gordish-Dressman, and Diego Preciado
Phototransduction gene expression and evolution in cave and surface crayfishes, David B. Stern and Keith A. Crandall
The evolution of gene expression underlying vision loss in cave animals, David B. Stern and Keith A. Crandall
Kisspeptin/GPR54 System: What Do We Know about Its Role in Human Reproduction?, Camila M. Trevisan, Erik Montagna, Renato De Oliveira, Denise M. Christofolini, Caio P. Barbosa, Keith A. Crandall, and Bianca Bianco
Phylogeography reveals unexpectedly low genetic diversity in a widely distributed species: The case of the freshwater crab Aegla platensis (Decapoda: Anomura), Bianca L. Zimmermann, Marcelo S. Crivellaro, Caroline B. Hauschild, Marlise L. Bartholomei-Santos, Keith A. Crandall, Marcos Pérez-Losada, Federico Giri, Pablo Collins, and Sandro Santos
Submissions from 2017
An updated classification of the freshwater crayfishes (Decapoda: Astacidea) of the world, with a complete species list, Keith A. Crandall and Sammy De Grave
Looks can be deceiving: species delimitation reveals hidden diversity in the freshwater crab Aegla longirostri (Decapoda: Anomura), Marcelo S. Crivellaro, Bianca L. Zimmermann, Marlise L. Bartholomei-Santos, Keith A. Crandall, Marcos Perez-Losada, Georgina Bond-Buckup, and Sandro Santos
Genome polymorphism detection through relaxed de bruijn graph construction, M. Stanley Fujimoto, Cole Lyman, Anton Suvorov, Paul Bodily, Quinn Snell, Keith Crandall, Seth Bybee, and Mark Clement
Whole genome phylogenetic tree reconstruction using colored de bruijn graphs, Cole A. Lyman, M. Stanley Fujimoto, Anton Suvorov, Paul M. Bodily, Quinn Snell, Keith A. Crandall, Seth M. Bybee, and Mark J. Clement
Nasopharyngeal microbiome diversity changes over time in children with asthma, Marcos Pérez-Losada, Lamia Alamri, Keith A. Crandall, and Robert J. Freishtat
Characterization of HIV diversity, phylodynamics and drug resistance in Washington, DC, Marcos Pérez-Losada, Amanda D. Castel, Brittany Lewis, Michael Kharfen, Charles P. Cartwright, Bruce Huang, Taylor Maxwell, Alan E. Greenberg, and Keith A. Crandall
Overexpressed somatic alleles are enriched in functional elements in Breast Cancer, Paula Restrepo, Mercedeh Movassagh, Nawaf Alomran, Christian Miller, Muzi Li, Chris Trenkov, Yulian Manchev, Sonali Bahl, Stephanie Warnken, Liam Spurr, Tatiyana Apanasovich, Keith Crandall, Nathan Edwards, and Anelia Horvath
Images are not and should not ever be type specimens: A rebuttal to Garraffoni & Freitas, D. Christopher Rogers, Shane T. Ahyong, Christopher B. Boyko, Cédric D.Udekem D'Acoz, Akira Asakura, Joanmei An, Bonnie A. Bain, Paul Bartels, Lynda Beladjal, Richard C. Brusca, Stephen D. Cairns, Peter Castro, Caroline Chaboo, Tin Yam Chan, Joel Cracraft, Keith Crandall, Neil Cumberlidge, Peter J.F. Davie, Peter C. Dworschak, Michael S. Engel, Raquel A. Fagundo, Darryl L. Felder, Laszlo Forro, Charles H.J.M. Fransen, Stuart R. Gelder, Sarah Gerken, Chris Glasby, Fredric R. Govedich, Danièle Guinot, Brenda J. Hann, Richard W. Heard, and Eric P. Hoberg
Phylogenetic evidence from freshwater crayfishes that cave adaptation is not an evolutionary dead-end, David B. Stern, Jesse Breinholt, Carlos Pedraza-Lara, Marilú López-Mejía, Christopher L. Owen, Heather Bracken-Grissom, James W. Fetzner, and Keith A. Crandall
DNA Barcoding analysis of seafood accuracy in Washington, D.C. restaurants, David B. Stern, Eduardo Castro Nallar, Jason Rathod, and Keith A. Crandall
Advancing genomics through the Global Invertebrate Genomics Alliance (GIGA), Christian R. Voolstra, Marcin Adamski, Shobhit Agrawal, Agostinho Antunes, Manuel Aranda, Andy Baxevanis, Mark Blaxter, Thomas Bosch, Heather Bracken-Grissom, Jonathan Coddington, Timothy Collins, Keith Crandall, Mikael Dahl, Daniel Distel, Casey Dunn, Michael Eitel, Jean Francois Flot, Gonzalo Giribet, Fabrizio Ghiselli, Steven H.D. Haddock, Kevin Kocot, Yi Jin Liew, Audrey Majeske, Bernhard Misof, Christopher Mungal, Stephen J. O'Brien, Timothy Ravasi, Mauro de Freitas Rebelo, Ana Riesgo, Christine Schnitzler, Anja Schulze, and Billie Swalla
Corrigendum to: Advancing genomics through the Global Invertebrate Genomics Alliance (GIGA) (Invertebrate Systematics (2017) 31: 1 (1-7) DOI: 10.1071/IS16059), Christian R. Voolstra, Marcin Adamski, Shobhit Agrawal, Agostinho Antunes, Manuel Aranda, Andy Baxevanis, Mark Blaxter, Thomas Bosch, Heather Bracken-Grissom, Jonathan Coddington, Timothy Collins, Keith Crandall, Mikael Dahl, Daniel Distel, Casey Dunn, Michael Eitel, Jean Francois Flot, Gonzalo Giribet, Fabrizio Ghiselli, Steven H.D. Haddock, Kevin Kocot, Yi Jin Liew, Audrey Majeske, Bernhard Misof, Christopher Mungal, Stephen J. O'Brien, Timothy Ravasi, Mauro de Freitas Rebelo, Ana Riesgo, Christine Schnitzler, Anja Schulze, and Billie Swalla
Submissions from 2016
Collecting and processing freshwater crayfishes, Keith A. Crandall
Metataxonomic and metagenomic approaches vs. culture-based techniques for clinical pathology, Sarah K. Hilton, Eduardo Castro-Nallar, Marcos Pérez-Losada, Ian Toma, Timothy A. McCaffrey, Eric P. Hoffman, Marc O. Siegel, Gary L. Simon, W. Evan Johnson, and Keith A. Crandall
Global diversity and conservation of freshwater crayfish (Crustacea: Decapoda: Astacoidea), Tadashi Kawai and Keith A. Crandall
Two sampling methods yield distinct microbial signatures in the nasopharynges of asthmatic children, Marcos Pérez-Losada, Keith A. Crandall, and Robert J. Freishtat
Fish-T1K (Transcriptomes of 1,000 Fishes) Project: Large-scale transcriptome data for fish evolution studies, Ying Sun, Yu Huang, Xiaofeng Li, Carole C. Baldwin, Zhuocheng Zhou, Zhixiang Yan, Keith A. Crandall, Yong Zhang, Xiaomeng Zhao, Min Wang, Alex Wong, Chao Fang, Xinhui Zhang, Hai Huang, Jose V. Lopez, Kirk Kilfoyle, Yong Zhang, Guillermo Ortí, Byrappa Venkatesh, and Qiong Shi
Submissions from 2015
Recombination in viruses: mechanisms, methods of study, and evolutionary consequences., Marcos Pérez-Losada, Miguel Arenas, Juan Carlos Galán, Ferran Palero, and Fernando González-Candelas