10.1371/journal.pcbi.1008647

Independent component analysis recovers consistent regulatory signals from disparate datasets
Cited by: 24
Author(s): Anand V. Sastry, Alyssa Hu, David Heckmann, Saugat Poudel, Erol Kavvas, Bernhard Ø. Palsson
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0251262

Predictors for inpatient mortality during the first wave of the SARS-CoV-2 pandemic: A retrospective analysis
Cited by: 6
Author(s): Daniel E. Sammartino, Farrukh N Jafri, Brennan Cook, Lisa La, Hye Min Kim, John Cardasis, Joshua P. Raff
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0231510

Analyses of cancer incidence and other morbidities in gamma irradiated B6CF1 mice
Cited by: 7
Author(s): Alia Zander, Tatjana Paunesku, Gayle E. Woloschak
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pgen.1009713

Multitrait GWAS to connect disease variants and biological mechanisms
Cited by: 12
Author(s): Hanna Julienne, Vincent Laville, Zachary R. McCaw, Zihuai He, Vincent Guillemot, Carla Lasry, Andrey Ziyatdinov, Cyril Nerin, Amaury Vaysse, Pierre Lechat, Hervé Ménager, Wilfried Le Goff, Marie‐Pierre Dubé, Peter Kraft, Iuliana Ionita‐Laza, Bjarni J. Vilhjálmsson, Hugues Aschard
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0238090

Simulation of the COVID-19 epidemic on the social network of Slovenia: Estimating the intrinsic forecast uncertainty
Cited by: 22
Author(s): Žiga Zaplotnik, Aleksandar Gavrić, Luka Medic
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0256605

Development of strategic social information seeking: Implications for cumulative culture
Cited by: 2
Author(s): Kirsten H. Blakey, Eva Rafetseder, Mark Atkinson, Elizabeth Renner, Fía Cowan-Forsythe, Shivani J. Sati, Christine A. Caldwell
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pcbi.1008786

Physiologically based pharmacokinetic/pharmacodynamic model for the prediction of morphine brain disposition and analgesia in adults and children
Cited by: 9
Author(s): Laurens F. M. Verscheijden, Carlijn H. C. Litjens, Jan B. Koenderink, Ron H.J. Mathijssen, Marcel M. Verbeek, Saskia N. de Wildt, Frans G. M. Rüssel
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pgen.1009164

The PAX-FOXO1s trigger fast trans-differentiation of chick embryonic neural cells into alveolar rhabdomyosarcoma with tissue invasive properties limited by S phase entry inhibition
Cited by: 7
Author(s): Gloria González Curto, Audrey Der Vartanian, Youcef El-Mokhtar Frarma, Line Manceau, Lorenzo Baldi, Selene Prisco, Nabila Elarouci, Frédéric Causeret, Daniil Korenkov, Muriel Rigolet, Frédéric Auradé, Aurélien de Reyniès, Vincent Contremoulins, Frédéric Relaix, Orestis Faklaris, James Briscoe, Pascale Gilardi-Hebenstreit, Vanessa Ribes
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0233951

Predicting biomass of rice with intermediate traits: Modeling method combining crop growth models and genomic prediction models
Cited by: 14
Author(s): Yusuke Toda, Hitomi Wakatsuki, Toru Aoike, Hiromi Kajiya‐Kanegae, Mariko Yamasaki, Takuma Yoshioka, Kaworu Ebana, Takeshi Hayashi, Hiroshi Nakagawa, Toshihiro Hasegawa, Hiroyoshi Iwata
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0235833

Main and interacting effects of physical activity and sedentary time on older adults’ BMI: The moderating roles of socio-demographic and environmental attributes
Cited by: 5
Author(s): Delfien Van Dyck, Anthony Barnett, Jelle Van Cauwenberg, Casper J. P. Zhang, Cindy H.P. Sit, Ester Cerin
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0232639

Computed tomography-derived radiomic signature of head and neck squamous cell carcinoma (peri)tumoral tissue for the prediction of locoregional recurrence and distant metastasis after concurrent chemo-radiotherapy
Cited by: 27
Author(s): Simon Keek, Sebastian Sanduleanu, Frederik Wesseling, Reinout de Roest, Michiel W. M. van den Brekel, Martijn van der Heijden, Conchita Vens, Giuseppina Calareso, Lisa Licitra, Kathrin Scheckenbach, Marije R. Vergeer, C. René Leemans, Ruud H. Brakenhoff, Irene Nauta, Stefano Cavalieri, Henry C. Woodruff, Tito Poli, Ralph T.H. Leijenaar, Frank Hoebers, Philippe Lambin
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0250510

American crocodiles (Crocodylus acutus) as restoration bioindicators in the Florida Everglades
Cited by: 4
Author(s): Venetia Briggs-González, Mathieu Basille, Michael S. Cherkiss, Frank J. Mazzotti
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0256692

“When will it be over?” U.S. children’s questions and parents’ responses about the COVID-19 pandemic
Cited by: 7
Author(s): David Menéndez, Rebecca E Klapper, Michelle Z Golden, Ava R Mandel, Katrina A Nicholas, Maria H Schapfel, Olivia O Silsby, Kailee A Sowers, Dillanie Sumanthiran, Victoria E Welch, Karl S. Rosengren
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0244532

Mortality and other outcomes of patients with coronavirus disease pneumonia admitted to the emergency department: A prospective observational Brazilian study
Cited by: 19
Author(s): Rodrigo Antônio Brandão Neto, Júlio Flávio Meirelles Marchini, Lucas Oliveira Marino, Julio César García de Alencar, Felippe Lazar Neto, Sabrina Corrêa da Costa Ribeiro, Fernando Salvetti Valente, Hassan Rahhal, Luz Marina Gómez Gómez, Cauê Gasparotto Bueno, Carine C. Faria, Valdeci da Cunha, Eduardo Messias Hirano Padrão, Irineu Tadeu Velasco, Heraldo Possolo de Souza
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0233627

Development syndromes in New World temperate and tropical songbirds
Cited by: 6
Author(s): Suzanne H. Austin, W. Douglas Robinson, Tara Rodden Robinson, Vincenzo A. Ellis, Robert E. Ricklefs
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pcbi.1009078

lra: A long read aligner for sequences and contigs
Cited by: 50
Author(s): Jimin Ren, Mark Chaisson
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pcbi.1007249

Predicting Meridian in Chinese traditional medicine using machine learning approaches
Cited by: 33
Author(s): Yinyin Wang, Mohieddin Jafari, Yun Tang, Jing Tang
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.pone.0249860

The successful reintroduction of African wild dogs (Lycaon pictus) to Gorongosa National Park, Mozambique
Cited by: 15
Author(s): Paola Bouley, António Paulo, Mercia Angela, Cole du Plessis, David G. Marneweck
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0232041

Costs of cannabis testing compliance: Assessing mandatory testing in the California cannabis market
Cited by: 7
Author(s): Pablo Valdes–Donoso, Daniel A. Sumner, Robin S. Goldstein
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pcbi.1008489

A novel virtual screening procedure identifies Pralatrexate as inhibitor of SARS-CoV-2 RdRp and it reduces viral replication in vitro
Cited by: 40
Author(s): Haiping Zhang, Yang Yang, Junxin Li, Min Wang, Konda Mani Saravanan, Jinli Wei, Jiawei Ng, Tofazzal Hossain, Maoxuan Liu, Huiling Zhang, Xiaohu Ren, Yi Pan, Yin Peng, Yi Shi, Xiaochun Wan, Yingxia Liu, Yanjie Wei
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pcbi.1007634

Doubting what you already know: Uncertainty regarding state transitions is associated with obsessive compulsive symptoms
Cited by: 12
Author(s): Isaac Fradkin, Casimir J. H. Ludwig, Eran Eldar, Jonathan D. Huppert
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0243911

The pharmacodynamic and differential gene expression analysis of PPAR α/δ agonist GFT505 in CDAHFD-induced NASH model
Cited by: 12
Author(s): Linfu Liu, Chuang Liu, Menglong Zhao, Qianru Zhang, Ying Lu, Ping Liu, Hua Yang, Jinliang Yang, Xiaoxin Chen, Yuqin Yao
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pgen.1009036

Polygenic risk for autism spectrum disorder associates with anger recognition in a neurodevelopment-focused phenome-wide scan of unaffected youths from a population-based cohort
Cited by: 5
Author(s): Frank R. Wendt, Carolina Muniz Carvalho, Gita A Pathak, Joel Gelernter, Renato Polimanti
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0231037

Shift work and long work hours and their association with chronic health conditions: A systematic review of systematic reviews with meta-analyses
Cited by: 101
Author(s): Adovich S. Rivera, Maxwell O Akanbi, Linda O’Dwyer, Megan McHugh
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0252628

Serological profiles of pan-coronavirus-specific responses in COVID-19 patients using a multiplexed electro-chemiluminescence-based testing platform
Cited by: 10
Author(s): Sidhartha Chaudhury, Jack Hutter, Jessica Bolton, Shilpa Hakre, Evelyn Mose, Amy I Wooten, William O'Connell, Joseph Hudak, Shelly J. Krebs, Janice M. Darden, Jason A. Regules, Clinton K. Murray, Kayvon Modjarrad, Paul T. Scott, Sheila A. Peel, Elke S. Bergmann‐Leitner
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pcbi.1007219

Revisiting the “satisfaction of spatial restraints” approach of MODELLER for protein homology modeling
Cited by: 11
Author(s): Giacomo Janson, Alessandro Grottesi, Marco Pietrosanto, Gabriele Ausiello, Giulia Guarguaglini, Alessandro Paiardini
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.pone.0238057

First field estimation of greenhouse gas release from European soil-dwelling Scarabaeidae larvae targeting the genus Melolontha
Cited by: 2
Author(s): Carolyn-Monika Görres, Claudia Kammann
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0248956

Characterizing COVID-19 clinical phenotypes and associated comorbidities and complication profiles
Cited by: 42
Author(s): Elizabeth R. Lusczek, Nicholas E. Ingraham, Basil S. Karam, Jennifer Proper, Lianne Siegel, Erika S. Helgeson, Sahar Lotfi-Emran, Emily Zolfaghari, Emma Jones, Michael Usher, Jeffrey G. Chipman, R. Adams Dudley, Bradley J. Benson, Genevieve B. Melton, Anthony Charles, Monica I. Lupei, Christopher J. Tignanelli
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pcbi.1007453

TAPES: A tool for assessment and prioritisation in exome studies
Cited by: 15
Author(s): Alexandre Xavier, Rodney J. Scott, Bente A. Talseth‐Palmer
Software Mentions: 4
Published: about 7 years ago

10.1371/journal.pcbi.1009411

ISOTOPE: ISOform-guided prediction of epiTOPEs in cancer
Cited by: 5
Author(s): Juan L. Trincado, Marina Reixachs‐Solé, Judith Pérez-Granado, Tim Fugmann, Ferrán Sanz, Jun Yokota, Eduardo Eyras
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0254200

Contextualizing goal preferences in fear-avoidance models. Looking at fatigue as a disabling symptom in fibromyalgia patients
Cited by: 5
Author(s): Cecilia Peñacoba, Irene López‐Gómez, María Ángeles Pastor-Mira, Sofía López-Roig, Carmen Écija
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pcbi.1007909

Perturbation biology links temporal protein changes to drug responses in a melanoma cell line
Cited by: 14
Author(s): Elin Nyman, Richard R. Stein, Xin Jing, Weiqing Wang, Benjamin Marks, Ioannis K. Zervantonakis, Anil Korkut, Nicholas Paul Gauthier, Chris Sander
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0254827

Habitat selection by wolves and mountain lions during summer in western Montana
Cited by: 5
Author(s): Collin J. Peterson, Michael S. Mitchell, Nicholas J. DeCesare, Chad J. Bishop, Sarah N. Sells
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pgen.1008361

An osteocalcin-deficient mouse strain without endocrine abnormalities
Cited by: 74
Author(s): Cassandra R. Diegel, Steven Hann, Ugur M. Ayturk, Jennifer C. W. Hu, Kyung-Eun Lim, Casey J. Droscha, Zachary Madaj, Gabrielle E. Foxa, Isaac Izaguirre, Vai Vivarium And Transgenics Core, Noorulain Paracha, Bohdan Pidhaynyy, Terry L. Dowd, Alexander G. Robling, Matthew L. Warman, Bart O. Williams
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pcbi.1008422

Systematic clustering algorithm for chromatin accessibility data and its application to hematopoietic cells
Cited by: 2
Author(s): Azusa Tanaka, Yasuhiro Ishitsuka, Hiroki Ohta, Akihiro Fujimoto, Jun-ichirou Yasunaga, Masao Matsuoka
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0229873

Development of a methodology to make individual estimates of the precision of liquid chromatography-tandem mass spectrometry drug assay results for use in population pharmacokinetic modeling and the optimization of dosage regimens
Cited by: 7
Author(s): Gellért Balázs Karvaly, Michael Neely, K Kovács, István Vincze, Barna Vásárhelyi, Roger W. Jelliffe
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0224214

Early succession on slag compared to urban soil: A slower recovery
Cited by: 4
Author(s): Heng-Xing Zou, Alison E. Anastasio, Catherine A. Pfister
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.pgen.1009055

Cis-regulatory differences in isoform expression associate with life history strategy variation in Atlantic salmon
Cited by: 25
Author(s): Jukka‐Pekka Verta, Paul V. Debes, Nikolai Piavchenko, Annukka Ruokolainen, Outi Ovaskainen, Jacqueline Emmanuel Moustakas-Verho, Seija Tillanen, Noora Parre, Tutku Aykanat, Jaakko Erkinaro, Craig R. Primmer
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0244694

Population dynamics of sugarcane borers, Diatraea spp., under different climatic scenarios in Colombia
Cited by: 1
Author(s): Julián Andrés Valencia Arbeláez, Alberto Soto Giraldo, Gabriel Jaime Castaño Villa, Luis Fernando Vallejo Espinosa, Melba Ruth Salazar Gutiérrez, Germán Vargas
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0238066

Urinary markers of oxidative stress respond to infection and late-life in wild chimpanzees
Cited by: 16
Author(s): Nicole Thompson González, Emily Otali, Zarin Machanda, Martin N. Muller, Richard W. Wrangham, Melissa Emery Thompson
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pcbi.1008003

Biological network growth in complex environments: A computational framework
Cited by: 6
Author(s): Torsten Johann Paul, Philip Kollmannsberger
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0232144

Optimization of Hermetia illucens (L.) egg laying under different nutrition and light conditions
Cited by: 24
Author(s): Laura Ioana Macavei, G Benassi, Vlad Stoian, Lara Maistrello
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0257226

Comparing the reliability of relative bird abundance indices from standardized surveys and community science data at finer resolutions
Cited by: 4
Author(s): Mei-Ling E. Feng, Judy Che‐Castaldo
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0248374

Belief in sexism shift: Defining a new form of contemporary sexism and introducing the belief in sexism shift scale (BSS scale)
Cited by: 5
Author(s): Miriam Katharina Zehnter, Francesca Manzi, Patrick E. Shrout, Madeline E. Heilman
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pcbi.1009127

Trip duration drives shift in travel network structure with implications for the predictability of spatial disease spread
Cited by: 2
Author(s): J. R. Giles, Derek A. T. Cummings, Bryan T. Grenfell, Andrew J. Tatem, Elisabeth zu Erbach-Schoenberg, C Jessica E Metcalf, Amy Wesolowski
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0236679

Characterisation of protein isoforms encoded by the Drosophila Glycogen Synthase Kinase 3 gene shaggy
Cited by: 4
Author(s): Dagmara Korona, Daniel J.H. Nightingale, Bertrand Fabre, Michael G. Nelson, Bettina Fischer, Glynnis Johnson, Jonathan G. Lees, Simon J. Hubbard, Kathryn S. Lilley, Steven Russell
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0227161

Assessing trends and vulnerabilities in the mutualism between whitebark pine (Pinus albicaulis) and Clark’s nutcracker (Nucifraga columbiana) in national parks of the Sierra-Cascade region
Cited by: 2
Author(s): Chris Ray, Regina M. Rochefort, Jason I. Ransom, Jonathan C. B. Nesmith, Sylvia Haultain, Taza D. Schaming, John R. Boetsch, Mandy L Holmgren, Robert L. Wilkerson, Rodney B. Siegel
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0228668

Comparing acoustic and radar deterrence methods as mitigation measures to reduce human-bat impacts and conservation conflicts
Cited by: 10
Author(s): Lia R. V. Gilmour, Marc W. Holderied, S. P. C. Pickering, Gareth Jones
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0253989

Evaluating extraction methods to study canine urine microbiota
Cited by: 7
Author(s): Ryan Mrofchak, Christopher Madden, Morgan V. Evans, Vanessa L. Hale
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pgen.1009392

Genome-wide association study of resistance to Mycobacterium tuberculosis infection identifies a locus at 10q26.2 in three distinct populations
Cited by: 14
Author(s): Jocelyn Quistrebert, Marianna Orlova, Gaspard Kerner, Le Thi Ton, Nguyễn Trong Luong, Nguyễn Thanh Danh, Quentin B. Vincent, Fabienne Jabot‐Hanin, Yoann Seeleuthner, Jacinta Bustamante, Stéphanie Boisson‐Dupuis, Nguyễn Thu Hương, Nguyen Ngoc Ba, Jean‐Laurent Casanova, Christophe Delacourt, Eileen G. Hoal, Alexandre Alcaïs, Vu Hong Thai, Lai The Thành, Laurent Abel, Erwin Schurr, Aurélie Cobat
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pcbi.1008377

Active probing to highlight approaching transitions to ictal states in coupled neural mass models
Cited by: 2
Author(s): Vinícius Rezende Carvalho, Márcio Flávio Dutra Moraes, Sydney S. Cash, Eduardo M. A. M. Mendes
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0221498

The effect of overnight consolidation in the perceptual learning of non-native tonal contrasts
Cited by: 14
Author(s): Zhen Qin, Caicai Zhang
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.pcbi.1008734

Evolution of heterogeneous perceptual limits and indifference in competitive foraging
Cited by: 2
Author(s): Richard P. Mann
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pcbi.1007847

Medusa: Software to build and analyze ensembles of genome-scale metabolic network reconstructions
Cited by: 18
Author(s): Gregory L. Medlock, Thomas J. Moutinho, Jason A. Papin
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pgen.1008797

UVR8-mediated inhibition of shade avoidance involves HFR1 stabilization in Arabidopsis
Cited by: 23
Author(s): Eleni Tavridou, Emanuel Schmid‐Siegert, Christian Fankhauser, Roman Ulm
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0247657

Behavioural and antennal responses of Aedes aegypti (l.) (Diptera: Culicidae) gravid females to chemical cues from conspecific larvae
Cited by: 10
Author(s): Antoine Boullis, Margaux Mulatier, Christelle Delannay, Lyza Héry, François Verheggen, Anubis Vega-Rúa
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0232681

Network analysis of regional livestock trade in West Africa
Cited by: 24
Author(s): Valerie C. Valerio, Olivier Walther, M. Eilittä, Brahima Cissé, Rachata Muneepeerakul, Gregory A. Kiker
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pgen.1008935

Horizontal transmission and recombination maintain forever young bacterial symbiont genomes
Cited by: 82
Author(s): Shelbi L. Russell, Evan Pepper-Tunick, Jesper Svedberg, Ashley Byrne, Jennie Ruelas Castillo, Christopher Vollmers, Roxanne A. Beinart, Russell Corbett-Detig
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pgen.1009774

A scalable Drosophila assay for clinical interpretation of human PTEN variants in suppression of PI3K/AKT induced cellular proliferation
Cited by: 4
Author(s): Payel Ganguly, Landiso Madonsela, Jesse T. Chao, Christopher Loewen, Timothy P. O’Connor, Esther M. Verheyen, Douglas W. Allan
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pgen.1008780

Using prior information from humans to prioritize genes and gene-associated variants for complex traits in livestock
Cited by: 10
Author(s): Biaty Raymond, Loïc Yengo, Roy Costilla, C. Schrooten, A.C. Bouwman, Ben J. Hayes, R.F. Veerkamp, Peter M. Visscher
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0237919

The validity and reliability of observational assessment tools available to measure fundamental movement skills in school-age children: A systematic review
Cited by: 29
Author(s): Lucy H. Eddy, Daniel D. Bingham, Kirsty Crossley, Nishaat F. Shahid, Marsha Ellingham-Khan, Ava Otteslev, Natalie S. Figueredo, Mark Mon-Williams, Liam J. B. Hill
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pgen.1009409

Widespread misregulation of inter-species hybrid transcriptomes due to sex-specific and sex-chromosome regulatory evolution
Cited by: 24
Author(s): Santiago Sánchez‐Ramírez, Jörg G Weiss, Cristel G. Thomas, Asher D. Cutter
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pgen.1009477

Drivers of linkage disequilibrium across a species’ geographic range
Cited by: 10
Author(s): Kay Lucek, Yvonne Willi
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pcbi.1008061

Protein sequence optimization with a pairwise decomposable penalty for buried unsatisfied hydrogen bonds
Cited by: 16
Author(s): Brian Coventry, David Baker
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0225623

Is un stylo sharper than une épée? Investigating the interaction of sound symbolism and grammatical gender in English and French speakers
Cited by: 2
Author(s): David M. Sidhu, Penny M. Pexman, Jean Saint‐Aubin
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.pone.0219633

Contributions to human breast milk microbiome and enteromammary transfer of Bifidobacterium breve
Cited by: 72
Author(s): Kattayoun Kordy, Thaidra Gaufin, Martin Mwangi, Ли Фан, Chiara Cerini, Dong Hoon Lee, Helty Adisetiyo, Cora L. Woodward, Pia S. Pannaraj, Nicole H. Tobin, Grace M. Aldrovandi
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.pcbi.1008114

HippoUnit: A software tool for the automated testing and systematic comparison of detailed models of hippocampal neurons based on electrophysiological data
Cited by: 9
Author(s): Sára Saray, Christian Rössert, Shailesh Appukuttan, Rosanna Migliore, Paola Vitale, Carmen Alina Lupaşcu, Luca Bologna, Werner Van Geit, Armando Romani, Andrew Davison, Eilif Müller, Tamás F. Freund, Szabolcs Káli
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0233597

Diversification rate vs. diversification density: Decoupled consequences of plant height for diversification of Alooideae in time and space
Cited by: 9
Author(s): Florian C. Boucher, Anne-Sophie Quatela, Allan G. Ellis, G. Anthony Verboom
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pcbi.1007982

It’s about time: Analysing simplifying assumptions for modelling multi-step pathways in systems biology
Cited by: 17
Author(s): Niklas Korsbo, Henrik Jönsson
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pntd.0009719

Maxicircle architecture and evolutionary insights into Trypanosoma cruzi complex
Cited by: 6
Author(s): Luisa Berná, Gonzalo Greif, Sebastián Pita, Paula Faral-Tello, Florencia Díaz-Viraqué, Rita de Cássia Moreira de Souza, Gustavo Adolfo Vallejo, Fernando Álvarez-Valín, Carlos Robello
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0230931

Motivation to access laparoscopic skills training: Results of a Canadian survey of obstetrics and gynecology residents
Cited by: 4
Author(s): Jocelyn Stairs, Bradley W. Bergey, Finlay Maguire, Stephanie Scott
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pgen.1009466

activin-2 is required for regeneration of polarity on the planarian anterior-posterior axis
Cited by: 13
Author(s): Jennifer Cloutier, Conor L. McMann, Isaac M. Oderberg, Peter W. Reddien
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pntd.0008164

Occupational exposure to Brucella spp.: A systematic review and meta-analysis
Cited by: 37
Author(s): Carine Rodrigues Pereira, João Vitor Fernandes Cotrim de Almeida, Izabela Regina Cardoso de Oliveira, Luciana Faria de Oliveira, Luciano José Pereira, Márcio Gilberto Zangerônimo, Andrey Pereira Lage, Elaine Maria Seles Dorneles
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0223514

Diagnostic accuracy of midkine on hepatocellular carcinoma: A meta-analysis
Cited by: 8
Author(s): Bo-Han Zhang, Bo Li, Lingxiang Kong, Lvnan Yan, Jiayin Yang
Software Mentions: 4
Published: about 7 years ago

10.1371/journal.pcbi.1009041

Ten simple rules for making a vocabulary FAIR
Cited by: 19
Author(s): Simon J. Cox, Alejandra N. González-Beltrán, Barbara Magagna, Maria-Cristina Marinescu
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0238202

Immune and sex-biased gene expression in the threatened Mojave desert tortoise, Gopherus agassizii
Cited by: 2
Author(s): Cindy Xu, Greer A. Dolby, K. Kristina Drake, Todd C. Esque, Kenro Kusumi
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pgen.1009734

Recovery from heat shock requires the microRNA pathway in Caenorhabditis elegans
Cited by: 10
Author(s): Delaney C Pagliuso, Devavrat M Bodas, Amy E. Pasquinelli
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0242087

HemoDownloader: Open source software utility to extract data from HemoCue HbA1c 501 devices in epidemiological studies of diabetes mellitus
Cited by: 0
Author(s): Martin Rune Hassan Hansen, Vivi Schlünssen, Annelli Sandbæk
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pcbi.1008286

Breaking the circularity in circular analyses: Simulations and formal treatment of the flattened average approach
Cited by: 8
Author(s): Howard Bowman, Joseph Brooks, Omid Hajilou, Alexia Zoumpoulaki, Vladimir Litvak
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pgen.1009578

Functional-genomic analysis reveals intraspecies diversification of antiviral receptor transporter proteins in Xenopus laevis
Cited by: 1
Author(s): Ian N. Boys, Katrina B. Mar, John W. Schoggins
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pgen.1009364

A complex genetic architecture in zebrafish relatives Danio quagga and D. kyathit underlies development of stripes and spots
Cited by: 14
Author(s): Braedan M. McCluskey, Susumu Uji, Joseph L. Mancusi, John H. Postlethwait, David M. Parichy
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0250600

Validity concerns with the Revised Study Process Questionnaire (R-SPQ-2F) in undergraduate anatomy & physiology students
Cited by: 5
Author(s): Staci Neas Johnson, Eliza Gallagher, Anna Marie Vagnozzi
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pgen.1009526

Expression of the cancer-associated DNA polymerase ε P286R in fission yeast leads to translesion synthesis polymerase dependent hypermutation and defective DNA replication
Cited by: 5
Author(s): Ignacio Soriano, Enrique Vázquez, Nagore de León, Sibyl Bertrand, Ellen Heitzer, Sophia Toumazou, Zhihan Bo, Claire Palles, Chen-Chun Pai, Timothy C. Humphrey, Ian Tomlinson, Sue Cotterill, Stephen Kearsey
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0232853

An assessment of the impacts of litter treatments on the litter quality and broiler performance: A systematic review and meta-analysis
Cited by: 17
Author(s): Taiani dos Santos de Toledo, Aline Arassiana Piccini Roll, Fernando Rutz, Henrique Müller Dallmann, Marcos Antonio Dai Prá, Fábio Pereira Leivas Leite, Victor Fernando Büttow Roll
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pcbi.1008830

Using Hawkes Processes to model imported and local malaria cases in near-elimination settings
Cited by: 9
Author(s): H. Juliette T. Unwin, Isobel Routledge, Seth Flaxman, Marian-Andrei Rizoiu, Shengjie Lai, Justin M. Cohen, Daniel J. Weiss, Swapnil Mishra, Samir Bhatt
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0246027

Procalcitonin, C-reactive protein, neutrophil gelatinase-associated lipocalin, resistin and the APTT waveform for the early diagnosis of serious bacterial infection and prediction of outcome in critically ill children
Cited by: 5
Author(s): Maryke Nielsen, Paul Baines, Rebecca Jennings, Sarah Siner, Ruwanthi Kolamunnage-Donà, Paul Newland, Matthew Peak, Christine Chesters, Graham Jeffers, Colin Downey, Caroline Broughton, Lynsey McColl, Jennifer Preston, Anthony Mckeever, Stéphane Paulus, Nigel Cunliffe, Enitan D. Carrol
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0242008

Measuring adverse events following hip arthroplasty surgery using administrative data without relying on ICD-codes
Cited by: 5
Author(s): Martin Magnéli, Maria Unbeck, Cecilia Rogmark, Olof Sköldenberg, Max Gordon
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pntd.0009346

Spatiotemporal distribution of cutaneous leishmaniasis in Sri Lanka and future case burden estimates
Cited by: 8
Author(s): Nadira D. Karunaweera, Sanath Senanayake, Samitha Ginige, Hermali Silva, Nuwani Manamperi, Nilakshi Samaranayake, Rajika Dewasurendra, Panduka Karunanayake, Deepa Gamage, Nissanka de Silva, Upul Senarath, Guofa Zhou
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0236771

Transcriptome analysis of sevoflurane exposure effects at the different brain regions
Cited by: 6
Author(s): Hiroto Yamamoto, Yasuzo Uchida, Tomoki Chiba, Ryota Kurimoto, Taijiro Matsushima, Maiko Inotsume, Chihiro Ishikawa, Haiyan Li, Takashi Shiga, Masafumi Muratani, Tatsuo Uchida, Hiroshi Asahara
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0236595

Interactions of Segmented Filamentous Bacteria (Candidatus Savagella) and bacterial drivers in colitis-associated colorectal cancer development
Cited by: 4
Author(s): Annie E. Wolfe, Jacob E. Moskowitz, Craig L. Franklin, Timothy Wiemken, Aaron C. Ericsson
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0244556

Pathways of calcium regulation, electron transport, and mitochondrial protein translation are molecular signatures of susceptibility to recurrent exertional rhabdomyolysis in Thoroughbred racehorses
Cited by: 6
Author(s): Kennedy Aldrich, Deborah Velez‐Irizarry, Clara Fenger, Melissa Schott, Stephanie J. Valberg
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0248320

Plant structural diversity alters sediment retention on and underneath herbaceous vegetation in a flume experiment
Cited by: 6
Author(s): Lena Kretz, Katinka Koll, Carolin Seele‐Dilbat, Fons van der Plas, Alexandra Weigelt, Christian Wirth
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pntd.0008056

Machine learning and dengue forecasting: Comparing random forests and artificial neural networks for predicting dengue burden at national and sub-national scales in Colombia
Cited by: 33
Author(s): Naizhuo Zhao, Katia Charland, Mabel Carabalí, Elaine O. Nsoesie, Mathieu Maheu‐Giroux, Erin E. Rees, Mengru Yuan, César García Balaguera, Gloria Jaramillo Ramirez, Kate Zinszer
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pntd.0007640

Regulation of hepatic microRNAs in response to early stage Echinococcus multilocularis egg infection in C57BL/6 mice
Cited by: 11
Author(s): Ghalia Boubaker, Sebastian Strempel, Andrew Hemphill, Norbert Müller, Junhua Wang, Bruno Gottstein, Markus Spiliotis
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pcbi.1009298

Enhancing oscillations in intracranial electrophysiological recordings with data-driven spatial filters
Cited by: 8
Author(s): Natalie Schaworonkow, Bradley Voytek
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0251745

Genome-wide association mapping reveals race-specific SNP markers associated with anthracnose resistance in carioca common beans
Cited by: 4
Author(s): Caléo Panhoca de Almeida, Jean Fausto de Carvalho Paulino, Caio Cesar Ferrari Barbosa, Gabriel de Moraes Cunha Gonçalves, Roberto Fritsche‐Neto, Sérgio Augusto Morais Carbonell, Alisson Fernando Chiorato, Luciana Lasry Benchimol-Reis
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0252004

Effect of mupirocin for Staphylococcus aureus decolonization on the microbiome of the nose and throat in community and nursing home dwelling adults
Cited by: 4
Author(s): Mary-Claire Roghmann, Alison D. Lydecker, Michelle Shardell, Robert T. DeBoy, J. Kristie Johnson, Long Zhao, Lauren Hittle, Emmanuel F. Mongodin
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0235763

Comparative transcriptome analysis uncovers different heat stress responses in heat-resistant and heat-sensitive jujube cultivars
Cited by: 17
Author(s): Juan Jin, Lei Yang, Dingyu Fan, Xuxin Liu, Qing Hao
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pcbi.1007756

3D mesh processing using GAMer 2 to enable reaction-diffusion simulations in realistic cellular geometries
Cited by: 42
Author(s): Christopher T. Lee, Justin G. Laughlin, Nils Angliviel de La Beaumelle, Rommie E. Amaro, J. Andrew McCammon, Ravi Ramamoorthi, Michael Holst, Padmini Rangamani
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pntd.0008945

Multi-locus genotyping reveals established endemicity of a geographically distinct Plasmodium vivax population in Mauritania, West Africa
Cited by: 7
Author(s): Hampaté Bâ, Sarah Auburn, Christopher G Jacob, Sónia Gonçalves, Craig W. Duffy, Lindsay B. Stewart, Ric N. Price, Yacine Boubou Deh, M. Diallo, Abderahmane Tandia, Dominic Kwiatkowski, David J. Conway
Software Mentions: 4
Published: almost 6 years ago