10.1371/journal.pone.0220165

PS-SiZer map to investigate significant features of body-weight profile changes in HIV infected patients in the IeDEA Collaboration
Cited by: 0
Author(s): Jaroslaw Harezlak, Samiha Sarwat, Kara Wools‐Kaloustian, Michael Schomaker, Eric Balestre, Matthew Law, Sasisopin Kiertiburanakul, Matthew P. Fox, Diana Huis in ʼt Veld, Beverly Musick, Constantin T. Yiannoutsos
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pcbi.1007786

Minimizing the number of optimizations for efficient community dynamic flux balance analysis
Cited by: 12
Author(s): James D. Brunner, Nicholas Chia
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pgen.1008770

Multiple mechanisms regulate H3 acetylation of enhancers in response to thyroid hormone
Cited by: 19
Author(s): Stine M. Præstholm, Majken Siersbæk, Ronni Nielsen, Xuguang Zhu, Anthony N. Hollenberg, Sheue-yann Cheng, Lars Grøntved
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pcbi.1008182

MONET: Multi-omic module discovery by omic selection
Cited by: 9
Author(s): Nimrod Rappoport, Roy Safra, Ron Shamir
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0255838

Optimal distribution-preserving downsampling of large biomedical data sets (opdisDownsampling)
Cited by: 9
Author(s): Jörn Lötsch, Sebastian Malkusch, Alfred Ultsch
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0252154

Hydrological and topographic determinants of biomass and species richness in a Mediterranean-climate shrubland
Cited by: 1
Author(s): Samantha Díaz de León-Guerrero, Rodrigo Méndez‐Alonzo, Stephen H. Bullock, Enrique R. Vivoni
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0229277

Habitat selection in natural and human-modified landscapes by capybaras (Hydrochoerus hydrochaeris), an important host for Amblyomma sculptum ticks
Cited by: 12
Author(s): Thiago C. Dias, Jared A. Stabach, Qiongyu Huang, Marcelo B. Labruna, Peter Leimgruber, Kátia Maria Paschoaletto Micchi de Barros Ferraz, Beatriz Lopes, Hermes Ribeiro Luz, Francisco Borges Costa, Hector Ribeiro Benatti, Lucas Ribeiro Correa, Ana Maria Nievas, Patrícia Ferreira Monticelli, Ubiratan Piovezan, Matias Pablo Juán Szabó, Daniel Moura de Aguiar, José Brites-Neto, Márcio Port-Carvalho, Vlamir José Rocha
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0257151

Replicating the Disease framing problem during the 2020 COVID-19 pandemic: A study of stress, worry, trust, and choice under risk
Cited by: 11
Author(s): Nikolay R. Rachev, Hyemin Han, David Lacko, Rebekah Gelpí, Yuki Yamada, Andreas Lieberoth
Software Mentions: 5
Published: about 4 years ago

10.1371/journal.pone.0248967

The pulmonary mycobiome—A study of subjects with and without chronic obstructive pulmonary disease
Cited by: 13
Author(s): Einar Marius Hjellestad Martinsen, Tomas Mikal Eagan, Elise Orvedal Leiten, Ingvild Haaland, Gunnar Reksten Husebø, Kristel Svalland Knudsen, Christine Drengenes, Walter Sanseverino, Andreu Paytuví-Gallart, Rune Nielsen
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0255391

Not just trash birds: Quantifying avian diversity at landfills using community science data
Cited by: 9
Author(s): Zachary J. Arnold, Seth J. Wenger, Richard J. Hall
Software Mentions: 5
Published: about 4 years ago

10.1371/journal.pone.0236717

Genetic diversity, relatedness and inbreeding of ranched and fragmented Cape buffalo populations in southern Africa
Cited by: 6
Author(s): Deon de Jager, Cindy Kim Harper, Paulette Bloomer
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pgen.1009820

Genomic population structure associated with repeated escape of Salmonella enterica ATCC14028s from the laboratory into nature
Cited by: 7
Author(s): Mark Achtman, Frederik Van den Broeck, Kerry K. Cooper, Philippe Lemey, Craig T. Parker, Zhemin Zhou
Software Mentions: 5
Published: about 4 years ago

10.1371/journal.pcbi.1007663

RAINBOW: Haplotype-based genome-wide association study using a novel SNP-set method
Cited by: 36
Author(s): Kosuke Hamazaki, Hiroyoshi Iwata
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pcbi.1008893

Computation of the electroencephalogram (EEG) from network models of point neurons
Cited by: 19
Author(s): Pablo Martínez‐Cañada, Torbjørn V. Ness, Gaute T. Einevoll, Tommaso Fellin, Stefano Panzeri
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0245824

MultipleTesting.com: A tool for life science researchers for multiple hypothesis testing correction
Cited by: 51
Author(s): Otília Menyhárt, Boglárka Weltz, Balázs Győrffy
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0228880

Spatio-temporal variation of Cerambycidae-host tree interaction networks
Cited by: 8
Author(s): Michelle Ramos‐Robles, Orthon Ricardo Vargas‐Cardoso, Angélica María Corona‐López, Alejandro Flores‐Palacios, Víctor Hugo Toledo‐Hernández
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pcbi.1008537

Factors influencing estimates of HIV-1 infection timing using BEAST
Cited by: 3
Author(s): Bethany L. Dearlove, Sodsai Tovanabutra, Christopher L. Owen, Éric Lewitus, Yifan Li, Eric Sanders‐Buell, Meera Bose, Anne Marie O’Sullivan, Gustavo H. Kijak, Shana Miller, Kultida Poltavee, Jenica Lee, Lydia Bonar, Elizabeth A. Harbolick, Bahar Ahani, Phuc Pham, Hannah Kibuuka, Lucas Maganga, Sorachai Nitayaphan, Fred Sawe, Jerome H. Kim, Leigh Anne Eller, Sandhya Vasan, Robert A. Gramzinski, Nelson L. Michael, Merlin L. Robb, Morgane Rolland
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0239485

Does behavioral thermal tolerance predict distribution pattern and habitat use in two sympatric Neotropical frogs?
Cited by: 9
Author(s): Juan C. Díaz‐Ricaurte, Filipe C. Serrano, Estefany Carolíne Guevara-Molina, Cybele de Oliveira Araújo, Marcio Roberto Martins
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0257564

Tree species identity and composition shape the epiphytic lichen community of structurally simple boreal forests over vast areas
Cited by: 7
Author(s): Julian Klein, Matthew Low, Göran Thor, Jörgen Sjögren, Eva Lindberg, Sönke Eggers
Software Mentions: 5
Published: about 4 years ago

10.1371/journal.pone.0253284

Landscape structure shapes the diversity of tree seedlings at multiple spatial scales in a fragmented tropical rainforest
Cited by: 4
Author(s): Sergio Nicasio‐Arzeta, Isela Zermeño‐Hernández, Susana Maza‐Villalobos, Julieta Benítez‐Malvido
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0229502

A background correction method to compensate illumination variation in hyperspectral imaging
Cited by: 6
Author(s): Jonghee Yoon, Alexandru Grigoroiu, Sarah E. Bohndiek
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.ppat.1009729

Definition of the immune evasion-replication interface of rabies virus P protein
Cited by: 10
Author(s): Jingyu Zhan, Angela R. Harrison, Stephanie Portelli, Thanh Bình Nguyễn, Isshu Kojima, Siqiong Zheng, Fei Yan, Tsutomu Matsui, Stephen M. Rawlinson, Ashish Sethi, Naoto Ito, David B. Ascher, Gregory W. Moseley, Paul R. Gooley
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.ppat.1009769

Virulence and community dynamics of fungal species with vertical and horizontal transmission on a plant with multiple infections
Cited by: 11
Author(s): Kai Fang, Jie Zhou, Lin Chen, Yuxuan Li, Ai-Ling Yang, Xing-Fan Dong, Hanbo Zhang
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0251963

Factors indicating intention to vaccinate with a COVID-19 vaccine among older U.S. adults
Cited by: 55
Author(s): Janeta Nikolovski, Martin Koldijk, Gerrit Jan Weverling, John A. Spertus, Mintu P. Turakhia, Leslie A. Saxon, C. Michael Gibson, John Whang, Troy C. Sarich, Robert A. Zambon, Nnamdi Ezeanochie, Jennifer Turgiss, Robyn Jones, Jeff Stoddard, Paul R. Burton, Ann Marie Návar
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0249899

A pseudomolecule assembly of the Rocky Mountain elk genome
Cited by: 2
Author(s): Rick E. Masonbrink, David P. Alt, Darrell O. Bayles, Paola M. Boggiatto, William H. Edwards, Fred M. Tatum, Jeffrey T. Williams, Jennifer H. Wilson-Welder, Aleksey V. Zimin, Andrew J. Severin, Steven C. Olsen
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0236631

Citizen science for predicting spatio-temporal patterns in seabird abundance during migration
Cited by: 5
Author(s): Beatriz Martín, Alejandro Onrubia, Julio González-Arias, Juan Antonio Vicente-Virseda
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0241231

A taxonomic and molecular survey of the pteridophytes of the Nectandra Cloud Forest Reserve, Costa Rica
Cited by: 7
Author(s): Joel H. Nitta, Atsushi Ebihara, Alan Р. Smith
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pgen.1009726

The genetic consequences of dog breed formation—Accumulation of deleterious genetic variation and fixation of mutations associated with myxomatous mitral valve disease in cavalier King Charles spaniels
Cited by: 8
Author(s): Erik Axelsson, Ingrid Ljungvall, Priyasma Bhoumik, Laura Bas Conn, Eva Murén, Åsa Ohlsson, Lisbeth H. Olsen, Karolina Engdahl, Ragnvi Hagman, Jeanette Hanson, Dmytro Kryvokhyzha, Mats E. Pettersson, Olivier Grenet, Jonathan G. Moggs, Alberto Del Río-Espínola, Christian Epe, Bruce E. Taillon, Nilesh R. Tawari, Shrinivas Mane, Troy Hawkins, Åke Hedhammar, Philippe Gruet, Jens Häggström, Kerstin Lindblad‐Toh
Software Mentions: 5
Published: about 4 years ago

10.1371/journal.pone.0256568

The absence of fans removes the home advantage associated with penalties called by National Hockey League referees
Cited by: 6
Author(s): Joël Guérette, Caroline Blais, Daniel Fiset
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0239480

Horizontal and vertical movements of starry smooth-hound Mustelus asterias in the northeast Atlantic
Cited by: 4
Author(s): Christopher A. Griffiths, Serena Wright, Joana F. Silva, Jim R. Ellis, David Righton, Sophy R. McCully Phillips
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pcbi.1007520

A novel network control model for identifying personalized driver genes in cancer
Cited by: 39
Author(s): Weifeng Guo, Shao-Wu Zhang, Tao Zeng, Yan Li, Jianxi Gao, Luonan Chen
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pcbi.1007636

Structural diversity of B-cell receptor repertoires along the B-cell differentiation axis in humans and mice
Cited by: 23
Author(s): Aleksandr Kovaltsuk, Matthew I. J. Raybould, Wing Ki Wong, Claire Marks, Sebastian Kelm, James Snowden, Johannes Trück, Charlotte M. Deane
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pcbi.1009316

A probabilistic model for the ultradian timing of REM sleep in mice
Cited by: 6
Author(s): Sung-Ho Park, Justin Baik, June Seok Hong, Hanna Antila, Benjamin Kurland, Shinjae Chung, Franz Weber
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0256902

Classifying patients with depressive and anxiety disorders according to symptom network structures: A Gaussian graphical mixture model-based clustering
Cited by: 1
Author(s): Jun Kashihara, Yoshitake Takebayashi, Yoshihiko Kunisato, Masaya Ito
Software Mentions: 5
Published: about 4 years ago

10.1371/journal.pcbi.1008457

Searching through functional space reveals distributed visual, auditory, and semantic coding in the human brain
Cited by: 4
Author(s): Sreejan Kumar, Cameron T. Ellis, Thomas O’Connell, Marvin M. Chun, Nicholas B. Turk‐Browne
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0238285

Increased risk of adverse events in non-cancer patients with chronic and high-dose opioid use—A health insurance claims analysis
Cited by: 6
Author(s): Jakob M Burgstaller, Ulrike Held, Andri Signorell, Eva Blozik, Johann Steurer, Maria M. Wertli
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pcbi.1009350

Evaluating the effectiveness of ensemble voting in improving the accuracy of consensus signals produced by various DTWA algorithms from step-current signals generated during nanopore sequencing
Cited by: 0
Author(s): M. R. Smith, Rachel Chan, Maaz Khurram, Paul M. Gordon
Software Mentions: 5
Published: about 4 years ago

10.1371/journal.ppat.1009528

Virus shedding kinetics and unconventional virulence tradeoffs
Cited by: 4
Author(s): Andrew R. Wargo, Gael Kurath, Robert J. Scott, Benjamin Kerr
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pcbi.1009256

Computational identification and experimental characterization of preferred downstream positions in human core promoters
Cited by: 2
Author(s): René Dreos, Anna Sloutskin, Nati Malachi, Diana Ideses, Philipp Bücher, Tamar Juven‐Gershon
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pcbi.1009346

The importance of non-pharmaceutical interventions during the COVID-19 vaccine rollout
Cited by: 48
Author(s): Nicolò Gozzi, Paolo Bajardi, Nicola Perra
Software Mentions: 5
Published: about 4 years ago

10.1371/journal.pone.0247037

A new perspective and assessment measure for common dissociative experiences: ‘Felt Sense of Anomaly’
Cited by: 10
Author(s): Emma Černis, Esther T. Beierl, Andrew Molodynski, Anke Ehlers, Daniel Freeman
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0234908

Machine learning and natural language processing methods to identify ischemic stroke, acuity and location from radiology reports
Cited by: 59
Author(s): Charlene Ong, Agni Orfanoudaki, Rebecca Zhang, Francois Pierre M. Caprasse, Meghan R. Hutch, Liang Ma, Darian Fard, Oluwafemi Balogun, Matthew Miller, Margaret A. Minnig, Hanife Saglam, Brenton Prescott, David M. Greer, Stelios M. Smirnakis, Dimitris Bertsimas
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0243310

Genetic and morphometric variability between populations of Betula ×oycoviensis from Poland and Czechia: A revised view of the taxonomic treatment of the Ojców birch
Cited by: 2
Author(s): Rostislav Linda, I. Kuneš, Martin Baláš
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pcbi.1007438

Humans adapt their anticipatory eye movements to the volatility of visual motion properties
Cited by: 8
Author(s): Chloé Pasturel, Anna Montagnini, Laurent Perrinet
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0234505

Comparative genomics of high grade neuroendocrine carcinoma of the cervix
Cited by: 21
Author(s): R. Tyler Hillman, Robert J. Cardnell, Junya Fujimoto, Won Chul Lee, Jianjun Zhang, Lauren A. Byers, Preetha Ramalingam, Mario M. Leitao, Elizabeth M. Swisher, P. Andrew Futreal, Michael Frumovitz
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pcbi.1007904

Restriction of S-adenosylmethionine conformational freedom by knotted protein binding sites
Cited by: 7
Author(s): Agata P. Perlinska, Adam Stasiulewicz, Ewa K. Nawrocka, Krzysztof Kazimierczuk, Piotr Setny, Joanna I. Sułkowska
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0238972

India nudges to contain COVID-19 pandemic: A reactive public policy analysis using machine-learning based topic modelling
Cited by: 58
Author(s): Ramit Debnath, Ronita Bardhan
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0226435

The acute myeloid leukemia associated AML1-ETO fusion protein alters the transcriptome and cellular progression in a single-oncogene expressing in vitro induced pluripotent stem cell based granulocyte differentiation model
Cited by: 15
Author(s): Esther Tijchon, Guoqiang Yi, Amit Mandoli, Jos G. A. Smits, Francesco Ferrari, Branco M. H. Heuts, Falco Wijnen, Bowon Kim, Eva M. Janssen-Megens, Jan Jacob Schuringa, Joost H.A. Martens
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pcbi.1007799

ScalaFlux: A scalable approach to quantify fluxes in metabolic subnetworks
Cited by: 12
Author(s): Pierre Millard, Uwe Schmitt, Patrick Kiefer, Julia A. Vorholt, Stéphanie Heux, Jean‐Charles Portais
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0256876

Temporal partitioning and spatiotemporal avoidance among large carnivores in a human-impacted African landscape
Cited by: 7
Author(s): Charlotte E. Searle, Josephine Smit, Jeremy J. Cusack, Paolo Strampelli, A. Grau, Lameck Mkuburo, David W. Macdonald, Andrew J. Loveridge, Amy Dickman
Software Mentions: 5
Published: about 4 years ago

10.1371/journal.pcbi.1009108

Mass spectrometry and machine learning for the accurate diagnosis of benzylpenicillin and multidrug resistance of Staphylococcus aureus in bovine mastitis
Cited by: 5
Author(s): Necati Esener, Alexandre Maciel-Guerra, Katharina Giebel, Daniel Lea, Martin J. Green, Andrew J. Bradley, Tania Dottorini
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0230492

Image-based metric of invasiveness predicts response to adjuvant temozolomide for primary glioblastoma
Cited by: 11
Author(s): Susan Christine Massey, Haylye White, Paula Whitmire, Tatum E Doyle, Sandra K. Johnston, Kyle Singleton, Pamela Jackson, Andrea Hawkins-Daarud, Bernard R. Bendok, Alyx Porter, Sujay A. Vora, Jann N. Sarkaria, Leland Hu, Maciej M. Mrugala, Kristin R. Swanson
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0255241

Detecting joint attention events in mother-infant dyads: Sharing looks cannot be reliably identified by naïve third-party observers
Cited by: 2
Author(s): Kirsty E. Graham, Joanna C. Buryn-Weitzel, Nicole J Lahiff, Claudia Wilke, Katie E. Slocombe
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0246396

High SARS-CoV-2 load in the nasopharynx of patients with a mild form of COVID-19 is associated with clinical deterioration regardless of the hydroxychloroquine administration
Cited by: 4
Author(s): Alexey A. Komissarov, Ivan Molodtsov, O. Ivanova, Elena Maryukhnich, Svetlana S. Kudryavtseva, А. И. Мазус, E. L. Nikonov, Elena Vasilieva
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0229183

Divorce and adolescent academic achievement: Heterogeneity in the associations by parental education
Cited by: 9
Author(s): Sondre Aasen Nilsen, Kyrre Breivik, Bente Wold, Kristin Gärtner Askeland, Børge Sivertsen, Mari Hysing, Tormod Bøe
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0246809

Resource selection of a nomadic ungulate in a dynamic landscape
Cited by: 4
Author(s): Theresa S. M. Stratmann, Nandintsetseg Dejid, Justin M. Calabrese, William F. Fagan, Christen H. Fleming, Kirk A. Olson, Thomas Mueller
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0238557

eDNA metabarcoding as a biomonitoring tool for marine protected areas
Cited by: 67
Author(s): Zachary Gold, Joshua Sprague, David J. Kushner, Erick Zerecero Marin, Paul H. Barber
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0241993

Association of small, dense LDL-cholesterol concentration and lipoprotein particle characteristics with coronary heart disease: A systematic review and meta-analysis
Cited by: 52
Author(s): Lathan Liou, Stephen Kaptoge
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pntd.0009165

Heterogeneity in response to serological exposure markers of recent Plasmodium vivax infections in contrasting epidemiological contexts
Cited by: 14
Author(s): Jason Rosado, Michael White, Rhea J. Longley, Marcus Vinícius Guimarães Lacerda, Wuelton Marcelo Monteiro, Jessica Brewster, Jetsumon Sattabongkot, Mitchel Guzmán-Guzmán, Alejandro Llanos-Cuentas, Joseph M. Vinetz, Dionicia Gamboa, Ivo Müeller
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0230221

Driving factors of conifer regeneration dynamics in eastern Canadian boreal old-growth forests
Cited by: 22
Author(s): Maxence Martin, Miguel Montoro Girona, Hubert Morin
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0255648

The reciprocal relationships between social media self-control failure, mindfulness and wellbeing: A longitudinal study
Cited by: 13
Author(s): Jie Du, P.C.M. van de Kerkhof, Guido M. van Koningsbruggen
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pntd.0009504

Developmental changes and metabolic reprogramming during establishment of infection and progression of Trypanosoma brucei brucei through its insect host
Cited by: 16
Author(s): Arunasalam Naguleswaran, Paula Fernandes, Shubha Bevkal, Ruth Rehmann, Pamela Nicholson, Isabel Roditi
Software Mentions: 5
Published: about 4 years ago

10.1371/journal.pone.0249831

Association between early viral LRTI and subsequent wheezing development, a meta-analysis and sensitivity analyses for studies comparable for confounding factors
Cited by: 4
Author(s): Sébastien Kenmoe, Arnol Bowo‐Ngandji, Cyprien Kengne‐Nde, Jean Thierry Ebogo‐Belobo, Donatien Serge Mbaga, Gadji Mahamat, Cynthia Paola Demeni Emoh, Richard Njouom
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pcbi.1007764

StanDep: Capturing transcriptomic variability improves context-specific metabolic models
Cited by: 19
Author(s): Chintan Joshi, Song‐Min Schinn, Anne Richelle, Isaac Shamie, Eyleen J. O’Rourke, Nathan E. Lewis
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0224560

Transcriptional analysis of amino acid, metal ion, vitamin and carbohydrate uptake in butanol-producing Clostridium beijerinckii NRRL B-598
Cited by: 13
Author(s): Maryna Vasylkivska, Katerina Jureckova, Barbora Branská, Karel Sedlář, Jan Kolek, Ivo Provazník, Petra Patáková
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pcbi.1009138

Behavioral correlates of cortical semantic representations modeled by word vectors
Cited by: 6
Author(s): Shogo Nishida, Antione Blanc, Naoya Maeda, Masataka Kado, Shinji Nishimoto
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0252074

Development and psychometric evaluation of the CO-PARTNER tool for collaboration and parent participation in neonatal care
Cited by: 8
Author(s): Nicole R. van Veenendaal, Jennifer N. Auxier, Sophie R D van der Schoor, Linda S. Franck, Mireille Stelwagen, Femke de Groof, Johannes B. van Goudoever, Iris Eekhout, Henrica C.W. de Vet, Anna Axelin, Anne A. M. W. van Kempen
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pmed.1003076

Comprehensive infectious disease screening in a cohort of unaccompanied refugee minors in Germany from 2016 to 2017: A cross-sectional study
Cited by: 18
Author(s): Aleš Janda, Kristin Eder, Roland Fressle, Anne Geweniger, Natalie Diffloth, Maximilian Heeg, Nadine Binder, Ana-Gabriela Sitaru, Jan Rohr, Philipp Henneke, Markus Hufnagel, Roland Elling
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0218582

Agricultural impacts on streams near Nitrate Vulnerable Zones: A case study in the Ebro basin, Northern Spain
Cited by: 8
Author(s): Rubén Ladrera, Óscar Belmar, Rafael Tomás, Narcı́s Prat, Miguel Cañedo‐Argüelles
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pone.0238304

Investigation of gene-gene interactions in cardiac traits and serum fatty acid levels in the LURIC Health Study
Cited by: 5
Author(s): Jiayan Zhou, Kristin Passero, Nicole Palmiero, Bertram Müller‐Myhsok, Marcus E. Kleber, Winfried Maerz, Molly A. Hall
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0229881

Impacts of climate change on agro-climatic suitability of major food crops in Ghana
Cited by: 38
Author(s): Abel Chemura, Bernhard Schauberger, Christoph Gornott
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0234489

Application of network analysis and cluster analysis for better prevention and control of swine diseases in Argentina
Cited by: 11
Author(s): Jerome N. Baron, María Natalia Aznar, M. Monterubbianesi, Beatriz Martínez‐López
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0253656

Relative age effect? No “flipping” way! Apparatus dependent inverse relative age effects in elite, women’s artistic gymnastics
Cited by: 4
Author(s): Eleanor Langham-Walsh, Vicky Gottwald, James Hardy
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0236874

What’s all that racket! Soundscapes, phenology, and biodiversity in estuaries
Cited by: 10
Author(s): Agnieszka Monczak, Bradshaw McKinney, Claire Mueller, Eric W. Montie
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pcbi.1008517

Network propagation of rare variants in Alzheimer’s disease reveals tissue-specific hub genes and communities
Cited by: 1
Author(s): Marzia Antonella Scelsi, Valerio Napolioni, Michael D. Greicius, André Altmann
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pcbi.1009182

Sample size calculation for phylogenetic case linkage
Cited by: 7
Author(s): Shirlee Wohl, J. R. Giles, Justin Lessler
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pgen.1008617

Inhibition of the oligosaccharyl transferase in Caenorhabditis elegans that compromises ER proteostasis suppresses p38-dependent protection against pathogenic bacteria
Cited by: 8
Author(s): Dae‐Eun Jeong, Yujin Lee, Seokjin Ham, Dong-Yeop Lee, Sujeong Kwon, Hae‐Eun H. Park, Sunyoung Hwang, Joo‐Yeon Yoo, Tae-Young Roh, Seung-Jae Lee
Software Mentions: 4
Published: over 5 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 5 years ago

10.1371/journal.pgen.1009440

A more accurate method for colocalisation analysis allowing for multiple causal variants
Cited by: 87
Author(s): Chris Wallace
Software Mentions: 4
Published: about 4 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 5 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 5 years ago

10.1371/journal.pgen.1009146

Crumbs and the apical spectrin cytoskeleton regulate R8 cell fate in the Drosophila eye
Cited by: 4
Author(s): Jonathan M. Pojer, Abdul Jabbar Saiful Hilmi, Shu Kondo, Ken Harvey
Software Mentions: 4
Published: over 4 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 5 years ago

10.1371/journal.pcbi.1007924

A validation framework for neuroimaging software: The case of population receptive fields
Cited by: 28
Author(s): Garikoitz Lerma-Usabiaga, Noah C. Benson, Jonathan Winawer, Brian A. Wandell
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 5 years ago

10.1371/journal.pgen.1009221

Short-range template switching in great ape genomes explored using pair hidden Markov models
Cited by: 10
Author(s): Conor R Walker, Aylwyn Scally, Nicola De Maio, Nick Goldman
Software Mentions: 4
Published: over 4 years ago

10.1371/journal.pgen.1009097

Diversified regulation of circadian clock gene expression following whole genome duplication
Cited by: 9
Author(s): Alexander C. West, Marianne Iversen, Even H. Jørgensen, Simen Rød Sandve, David G. Hazlerigg, Shona H. Wood
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 4 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 4 years ago

10.1371/journal.pone.0230276

suddengains: An R package to identify sudden gains in longitudinal data
Cited by: 9
Author(s): Milan Wiedemann, Graham R. Thew, Richard Stott, Anke Ehlers
Software Mentions: 4
Published: over 5 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 5 years ago

10.1371/journal.pone.0239827

Impact of a candidate vaccine on the dynamics of salmon lice (Lepeophtheirus salmonis) infestation and immune response in Atlantic salmon (Salmo salar L.)
Cited by: 16
Author(s): Jaya Kumari Swain, Yamila Carpio, Lill-Heidi Johansen, Janet Velázquez, Liz Hernández, Yeny Leal, Ajey Kumar, Mario Pablo Estrada
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pcbi.1008984

Gene name errors: Lessons not learned
Cited by: 14
Author(s): Mandhri Abeysooriya, Megan Soria, Mary Sravya Kasu, Mark Ziemann
Software Mentions: 4
Published: over 4 years ago

10.1371/journal.pcbi.1008219

A simple, scalable approach to building a cross-platform transcriptome atlas
Cited by: 12
Author(s): Paul W. Angel, Nadia Rajab, Yidi Deng, Chris M. Pacheco, Tyrone Chen, Kim‐Anh Lê Cao, Jarny Choi, Christine A. Wells
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0237288

First evidence for an aposematic function of a very common color pattern in small insects
Cited by: 0
Author(s): Rebeca Mora-Castro, Marcela Alfaro-Córdoba, Marcela Hernández-Jiménez, Mauricio Fernández Otárola, Michael Méndez-Rivera, Didier Ramírez-Morales, Carlos E. Rodríguez-Rodríguez, Andrés Durán-Rodríguez, Paul Hanson
Software Mentions: 4
Published: almost 5 years ago

10.1371/journal.pcbi.1007819

DOT: Gene-set analysis by combining decorrelated association statistics
Cited by: 9
Author(s): Olga A. Vsevolozhskaya, Min Shi, Fengjiao Hu, Dmitri V. Zaykin
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pcbi.1007972

Heterogeneous, delayed-onset killing by multiple-hitting T cells: Stochastic simulations to assess methods for analysis of imaging data
Cited by: 7
Author(s): Richard J. Beck, Dario I. Bijker, Joost B. Beltman
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pcbi.1008926

Sequence deeper without sequencing more: Bayesian resolution of ambiguously mapped reads
Cited by: 6
Author(s): Ramila Shah, Alexander J. Ruthenburg
Software Mentions: 4
Published: over 4 years ago

10.1371/journal.pgen.1009448

Recent loss of the Dim2 DNA methyltransferase decreases mutation rate in repeats and changes evolutionary trajectory in a fungal pathogen
Cited by: 27
Author(s): Mareike Möller, Michael Habig, Cécile Lorrain, Alice Feurtey, Janine Haueisen, Wagner C. Fagundes, A. Alizadeh, Michael Freitag, Eva H. Stukenbrock
Software Mentions: 4
Published: over 4 years ago

10.1371/journal.pcbi.1008870

Apoptosis mapping in space and time of 3D tumor ecosystems reveals transmissibility of cytotoxic cancer death
Cited by: 10
Author(s): Irina Veith, Arianna Mencattini, Valentin Picant, Marco Serra, Marine Leclerc, Maria Colomba Comes, Fathia Mami‐Chouaib, Jacques Camonis, Stéphanie Descroix, Hamasseh Shirvani, Fatima Mechta‐Grigoriou, Gérard Zalcman, Maria Carla Parrini, Eugenio Martinelli
Software Mentions: 4
Published: over 4 years ago