10.1371/journal.pone.0227639

Characterization of black patina from the Tiber River embankments using Next-Generation Sequencing
Cited by: 15
Author(s): Federica Antonelli, Alfonso Esposito, Ludovica Calvo, Valerio Licursi, Philippe Tisseyre, Sandra Ricci, Manuela Romagnoli, Silvano Piazza, Francesca Guerrieri
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pntd.0009500

Lay attitudes and misconceptions and their implications for the control of brucellosis in an agro-pastoral community in Kilombero district, Tanzania
Cited by: 6
Author(s): Caroline M. Mburu, Salome A. Bukachi, Kathrin H. Tokpa, Gilbert Fokou, Khamati Shilabukha, Mangi J. Ezekiel, Bassirou Bonfoh, Rudovick Kazwala, Katharina Kreppel
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pgen.1008905

Active transcription and Orc1 drive chromatin association of the AAA+ ATPase Pch2 during meiotic G2/prophase
Cited by: 5
Author(s): Richard Silva, María Ascensión Villar-Fernández, Gerben Vader
Software Mentions: 6
Published: about 6 years ago

10.1371/journal.pone.0243807

Optimised generation of iPSC-derived macrophages and dendritic cells that are functionally and transcriptionally similar to their primary counterparts
Cited by: 17
Author(s): Susan J. Monkley, Jayendra Kumar Krishnaswamy, Melker Göransson, Maryam Clausen, Johan Meuller, Kristofer Thörn, Ryan Hicks, Stephen Delaney, Louise Stjernborg
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0243916

Online biology degree program broadens access for women, first-generation to college, and low-income students, but grade disparities remain
Cited by: 17
Author(s): Chris Mead, K. Supriya, Yi Zheng, Ariel D. Anbar, James P. Collins, Paul C. LePore, Sara E. Brownell
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pgen.1009574

Runx1 shapes the chromatin landscape via a cascade of direct and indirect targets
Cited by: 13
Author(s): Matthew R. Hass, Daniel Brissette, Sreeja Parameswaran, Mario Pujato, Omer Donmez, Leah C. Kottyan, Matthew T. Weirauch, Raphael Kopan
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pone.0252207

Genomic diversity of 39 samples of Pyropia species grown in Japan
Cited by: 4
Author(s): Yukio Nagano, Kei Kimura, Genta Kobayashi, Yoshio Kawamura
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pone.0255667

Towards a better characterisation of deep-diving whales’ distributions by using prey distribution model outputs?
Cited by: 7
Author(s): Auriane Virgili, Laura Hedon, Matthieu Authier, Beatriz Calmettes, Diane Claridge, Timothy V. N. Cole, Peter J. Corkeron, Ghislain Dorémus, Charlotte Dunn, Timothy E. Dunn, Sophie Laran, Patrick Lehodey, Mark Lewis, Maité Louzao, Laura Mannocci, José Martínez‐Cedeira, Pascal Monestiez, Debra L. Palka, Emeline Pettex, Jason J. Roberts, Leire Ruiz, Camilo Saavedra, M.B. Santos, Olivier Van Canneyt, José Antonio Vázquez Bonales, Vincent Ridoux
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pone.0237713

Isn’t high school bad enough already? Rates of gender harassment and institutional betrayal in high school and their association with trauma-related symptoms
Cited by: 9
Author(s): Monika N Lind, Alexis A. Adams-Clark, Jennifer J. Freyd
Software Mentions: 6
Published: about 6 years ago

10.1371/journal.pcbi.1008302

Tensorpac: An open-source Python toolbox for tensor-based phase-amplitude coupling measurement in electrophysiological brain signals
Cited by: 28
Author(s): Etienne Combrisson, Timothy Nest, Andrea Brovelli, Robin A. A. Ince, Juan L.P. Soto, Aymeric Guillot, Karim Jerbi
Software Mentions: 6
Published: almost 6 years ago

10.1371/journal.pone.0240010

Framing COVID-19: How we conceptualize and discuss the pandemic on Twitter
Cited by: 135
Author(s): Philipp Wicke, Marianna Bolognesi
Software Mentions: 6
Published: almost 6 years ago

10.1371/journal.pcbi.1007800

MAGIC: A tool for predicting transcription factors and cofactors driving gene sets using ENCODE data
Cited by: 30
Author(s): Avtar Roopra
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pone.0244877

Towards remote monitoring in pediatric care and clinical trials—Tolerability, repeatability and reference values of candidate digital endpoints derived from physical activity, heart rate and sleep in healthy children
Cited by: 10
Author(s): Matthijs D Kruizinga, N van der Heide, A. C. Moll, Ahnjili Zhuparris, Yalçin Yavuz, Marieke L. de Kam, Frederik E. Stuurman, Adam F. Cohen, Gertjan J. Driessen
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0219807

Resistome metagenomics from plate to farm: The resistome and microbial composition during food waste feeding and composting on a Vermont poultry farm
Cited by: 12
Author(s): Korin Eckstrom, John W. Barlow
Software Mentions: 6
Published: almost 7 years ago

10.1371/journal.pone.0219874

Decision-making flexibility in New Caledonian crows, young children and adult humans in a multi-dimensional tool-use task
Cited by: 7
Author(s): Rachael Miller, Romana Gruber, Anna Frohnwieser, Martina Schiestl, Sarah A. Jelbert, Russell D. Gray, Markus Boeckle, Alexander Taylor, Nicola S. Clayton
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pone.0248756

Veteran trees have divergent effects on beetle diversity and wood decomposition
Cited by: 2
Author(s): Ross Wetherbee, Tone Birkemoe, Ryan C. Burner, Anne Sverdrup‐Thygeson
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0235328

Aptamer based proteomic pilot study reveals a urine signature indicative of pediatric urinary tract infections
Cited by: 10
Author(s): Liang Dong, Joshua R. Watson, Sha Cao, Samuel Arregui, Vijay Saxena, John Ketz, Abduselam K. Awol, Daniel M. Cohen, Jeffrey M. Caterino, David S. Hains, Andrew L. Schwaderer
Software Mentions: 6
Published: about 6 years ago

10.1371/journal.pgen.1009027

Prioritizing sequence variants in conserved non-coding elements in the chicken genome using chCADD
Cited by: 5
Author(s): Christian Groß, Chiara Bortoluzzi, Dick de Ridder, Hendrik‐Jan Megens, Martien A. M. Groenen, Marcel J. T. Reinders, Mirte Bosse
Software Mentions: 6
Published: almost 6 years ago

10.1371/journal.pone.0252069

A machine learning prediction model for waiting time to kidney transplant
Cited by: 7
Author(s): Juliana Feiman Sapiertein Silva, Gustavo Fernandes Ferreira, Marcelo Perosa, Hong Si Nga, Luís Gustavo Modelli de Andrade
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pcbi.1008769

COMSUC: A web server for the identification of consensus molecular subtypes of cancer based on multiple methods and multi-omics data
Cited by: 1
Author(s): Song He, Xinyu Song, Xisheng Yang, Jianyang Yu, Yao Wen, Lianlian Wu, Bowei Yan, Jiannan Feng, Xiaochen Bo
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pgen.1009506

Comparative analysis reveals distinctive epigenetic features of the human cerebellum
Cited by: 11
Author(s): Elaine E. Guevara, William D. Hopkins, Patrick R. Hof, John J. Ely, Brenda J. Bradley, Chet C. Sherwood
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pgen.1009035

The DNA methylome of human sperm is distinct from blood with little evidence for tissue-consistent obesity associations
Cited by: 12
Author(s): Fredrika Åsenius, T.J. Gorrie-Stone, Ama Brew, Yasmin Panchbhaya, Elizabeth Williamson, Leonard C Schalkwyk, Vardhman K. Rakyan, Michelle L. Holland, Sarah Marzi, David Williams
Software Mentions: 6
Published: almost 6 years ago

10.1371/journal.pone.0246172

Blue-wavelength light therapy for post-traumatic brain injury sleepiness, sleep disturbance, depression, and fatigue: A systematic review and network meta-analysis
Cited by: 14
Author(s): Karan Srisurapanont, Yanisa Samakarn, Boonyasit Kamklong, Phichayakan Siratrairat, Arina Bumiputra, Montita Jaikwang, Manit Srisurapanont
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pntd.0009537

Spatio-temporal modelling of the first Chikungunya epidemic in an intra-urban setting: The role of socioeconomic status, environment and temperature
Cited by: 10
Author(s): Laís Picinini Freitas, Alexandra M. Schmidt, William Cossich, Oswaldo Gonçalves Cruz, Marília Sá Carvalho
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pone.0243694

Impact of social isolation due to COVID-19 on the seasonality of pediatric respiratory diseases
Cited by: 50
Author(s): Milena Siciliano Nascimento, Diana Milena Baggio, Linus Pauling Fascina, Cristiane do Prado
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0236732

Determining mean and standard deviation of the strong gravity prior through simulations
Cited by: 3
Author(s): Björn Jörges, Joan López‐Moliner
Software Mentions: 6
Published: about 6 years ago

10.1371/journal.pone.0224438

Do protection gradients explain patterns in herbivore densities? An example with ungulates in Zambia’s Luangwa Valley
Cited by: 9
Author(s): Elias Rosenblatt, Scott Creel, Paul Schuette, Matthew S. Becker, David Christianson, Egil Dröge, Thandiwe Mweetwa, Henry Mwape, Johnathan Merkle, Jassiel M’soka, Jones Masonde, Twakundine Simpamba
Software Mentions: 6
Published: almost 7 years ago

10.1371/journal.pgen.1009645

An enhancer screen identifies new suppressors of small-RNA-mediated epigenetic gene silencing
Cited by: 1
Author(s): Yukiko Shimada, Sarah H. Carl, Merle Skribbe, Valentin Flury, Tahsin Kuzdere, Georg Kempf, Marc Bühler
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pone.0245157

A comparison of machine learning models versus clinical evaluation for mortality prediction in patients with sepsis
Cited by: 38
Author(s): William P T M van Doorn, Patricia M. Stassen, Hella F. Borggreve, Maaike J. Schalkwijk, Judith Stoffers, Otto Bekers, Steven J.R. Meex
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0222898

Bayesian hierarchical models for disease mapping applied to contagious pathologies
Cited by: 7
Author(s): Sylvain Coly, Myriam Garrido, David Abrial, Anne-Françoise Yao
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pcbi.1008277

EventEpi—A natural language processing framework for event-based surveillance
Cited by: 11
Author(s): Auss Abbood, Alexander Ullrich, Rüdiger Busche, Stéphane Ghozzi
Software Mentions: 6
Published: almost 6 years ago

10.1371/journal.pone.0232648

Climatic drivers of Verticillium dahliae occurrence in Mediterranean olive-growing areas of southern Spain
Cited by: 1
Author(s): Juan M. Requena‐Mullor, José Manuel Garcı́a-Garrido, Pilar Garcı́a Garcı́a, Estefanı́a Rodrı́guez
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pcbi.1008315

Leveraging functional annotation to identify genes associated with complex diseases
Cited by: 13
Author(s): Wei Liu, Mo Li, Wenfeng Zhang, Geyu Zhou, Weijie Xing, Jiawei Wang, Qiongshi Lu, Hongyu Zhao
Software Mentions: 6
Published: almost 6 years ago

10.1371/journal.pone.0233645

Freewater estimatoR using iNtErpolated iniTialization (FERNET): Characterizing peritumoral edema using clinically feasible diffusion MRI data
Cited by: 24
Author(s): Drew Parker, Abdol Aziz Ould Ismail, Ronald L. Wolf, Steven Brem, Shelton S. Alexander, Wes Hodges, Ofer Pasternak, Emmanuel Caruyer, Ragini Verma
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pcbi.1007553

Scalable phylogenetic profiling using MinHash uncovers likely eukaryotic sexual reproduction genes
Cited by: 18
Author(s): David Moi, Laurent Kilchoer, Pablo S. Aguilar, Christophe Dessimoz
Software Mentions: 6
Published: about 6 years ago

10.1371/journal.pone.0221543

Insights on aquatic microbiome of the Indian Sundarbans mangrove areas
Cited by: 18
Author(s): Paltu Kumar Dhal, Gérmán A. Kopprio, Astrid Gärdes
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pgen.1009737

Corticosterone pattern-dependent glucocorticoid receptor binding and transcriptional regulation within the liver
Cited by: 9
Author(s): Benjamin P. Flynn, Matthew T. Birnie, Yvonne M. Kershaw, Audrys G Pauža, Sohyoung Kim, Songjoon Baek, Mark F. Rogers, Alex Paterson, Diana A. Stavreva, David Murphy, Gordon L. Hager, Stafford Lightman, Becky Conway-Campbell
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pntd.0008179

Predicting disease risk areas through co-production of spatial models: The example of Kyasanur Forest Disease in India’s forest landscapes
Cited by: 26
Author(s): Bethan V. Purse, Narayanaswamy Darshan, Gudadappa S. Kasabi, F. Gerard, Abhishek Samrat, Charles George, Abi Tamim Vanak, Meera Anna Oommen, Mujeeb Rahman, Sarah J. Burthe, Juliette Young, Prashanth Nuggehalli Srinivas, Stefanie Schäfer, Peter A. Henrys, Vijay K. Sandhya, Mohammed Mudassar Chanda, Manoj Murhekar, S.L. Hoti, Shivani K. Kiran
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pcbi.1009197

Multidimensional analysis of immune responses identified biomarkers of recent Mycobacterium tuberculosis infection
Cited by: 1
Author(s): Tessa Lloyd, Pia Steigler, Cheleka A M Mpande, Virginie Rozot, Boitumelo Mosito, Constance Schreuder, Timothy D. Reid, Mark Hatherill, Thomas J. Scriba, Francesca Little, Elisa Nemes
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pone.0249231

Risk factors for in-hospital mortality in laboratory-confirmed COVID-19 patients in the Netherlands: A competing risk survival analysis
Cited by: 16
Author(s): Gerine Nijman, Maike H M Wientjes, Jordache Ramjith, Nico Janssen, Jacobien J. Hoogerwerf, Evertine J. Abbink, Marc Blaauw, Ton Dofferhoff, Marjan van Apeldoorn, Karin Veerman, Quirijn de Mast, Jaap ten Oever, Wouter Hoefsloot, Monique H. Reijers, Reinout van Crevel, Josephine S. van de Maat
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pntd.0009567

Inequalities of visceral leishmaniasis case-fatality in Brazil: A multilevel modeling considering space, time, individual and contextual factors
Cited by: 18
Author(s): Gláucia Cota, Astrid Erber, Eva Schernhammer, Taynãna César Simões
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pone.0240995

Risk factors for surgical site infections using a data-driven approach
Cited by: 5
Author(s): Johan Magnus van Niekerk, Margreet C. Vos, Alfred Stein, Louise Marie Antoinette Braakman-Jansen, Anne F. Voor in ’t holt, Julia E.W.C. van Gemert-Pijnen
Software Mentions: 6
Published: almost 6 years ago

10.1371/journal.pntd.0008962

Population genomics of Plasmodium vivax in Panama to assess the risk of case importation on malaria elimination
Cited by: 14
Author(s): Lucas E. Buyon, Ana María Santamaría, Angela M. Early, Mario Quijada, Itza Barahona, José Lasso, Mario Ávila, Sarah K. Volkman, Matthias Marti, Daniel E. Neafsey, Nicanor Obaldía
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pmed.1002984

Incidence of maternal peripartum infection: A systematic review and meta-analysis
Cited by: 64
Author(s): Susannah Woodd, Ana Montoya, María Barreix, Li Pi, Clara Calvert, Andrea M. Rehman, Doris Chou, Oona M. R. Campbell
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pone.0243746

Image-based screen capturing misfolding status of Niemann-Pick type C1 identifies potential candidates for chaperone drugs
Cited by: 7
Author(s): Ryuta Shioi, Fumika Karaki, Hirosuke Yoshioka, Tomomi Noguchi‐Yachide, Minoru Ishikawa, Kosuke Dodo, Yuichi Hashimoto, Mikiko Sodeoka, Kenji Ohgane
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0241704

Evaluating the effectiveness of a group-based resilience intervention versus psychoeducation for emergency responders in England: A randomised controlled trial
Cited by: 19
Author(s): Jennifer Wild, Shama El-Salahi, Michelle Degli Esposti, Graham R. Thew
Software Mentions: 6
Published: almost 6 years ago

10.1371/journal.pmed.1003750

The prevalence of mental disorders among homeless people in high-income countries: An updated systematic review and meta-regression analysis
Cited by: 80
Author(s): Stefan Gutwinski, Stefanie Schreiter, Karl Deutscher, Seena Fazel
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pone.0239673

High-throughput, image-based phenotyping reveals nutrient-dependent growth facilitation in a grass-legume mixture
Cited by: 7
Author(s): Kirsten R Ball, Sally A. Power, Chris Brien, Sarah J. Woodin, Nathaniel Jewell, Bettina Berger, Elise Pendall
Software Mentions: 6
Published: almost 6 years ago

10.1371/journal.pone.0231511

Analyses of cancer incidence and other morbidities in neutron irradiated B6CF1 mice
Cited by: 5
Author(s): Alia Zander, Tatjana Paunesku, Gayle E. Woloschak
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0236796

Comparative study of neighboring Holm oak and olive trees-belowground microbial communities subjected to different soil management
Cited by: 9
Author(s): Antonio J. Fernández‐González, Nuria M. Wentzien, Pablo J. Villadas, Antonio Valverde-Corredor, Ana V. Lasa, Carmen Gómez-Lama Cabanás, Jesús Mercado‐Blanco, Manuel Fernández‐López
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pone.0255436

Global distribution of sporadic sapovirus infections: A systematic review and meta-analysis
Cited by: 8
Author(s): Marta Diez‐Valcarce, Anita Kambhampati, Laura Calderwood, Aron J. Hall, Sara Mirza, Jan Vinjé
Software Mentions: 5
Published: about 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: about 5 years ago

10.1371/journal.pgen.1009121

A frog with three sex chromosomes that co-mingle together in nature: Xenopus tropicalis has a degenerate W and a Y that evolved from a Z chromosome
Cited by: 20
Author(s): Benjamin L. S. Furman, Caroline M S Cauret, Martin Knytl, Xuhong Song, Tharindu Premachandra, Caleb Ofori‐Boateng, Danielle C. Jordan, Marko E. Horb, Ben Evans
Software Mentions: 5
Published: almost 6 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: about 5 years ago

10.1371/journal.ppat.1009674

Tissue-specific transcriptional profiling of plasmacytoid dendritic cells reveals a hyperactivated state in chronic SIV infection
Cited by: 5
Author(s): Michelle Y.H. Lee, Amit A. Upadhyay, Hasse Walum, Chi N. Chan, Reem A. Dawoud, Christine Grech, Justin Harper, Kirti A. Karunakaran, Sydney A. Nelson, Ernestine Mahar, Kyndal Goss, Diane G. Carnathan, Barbara Cervasi, Kiran Gill, Gregory K. Tharp, Elizabeth R. Wonderlich, Vijayakumar Velu, Simon M. Barratt‐Boyes, Mirko Paiardini, Guido Silvestri, Jacob D. Estes, Steven E. Bosinger
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0254876

Mapping the probability of forest snow disturbances in Finland
Cited by: 5
Author(s): Susanne Suvanto, Aleksi Lehtonen, Seppo Nevalainen, Ilari Lehtonen, Heli Viiri, Mikael Strandström, Mikko Peltoniemi
Software Mentions: 5
Published: about 5 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: almost 6 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 5 years ago

10.1371/journal.ppat.1009349

PD-1 is imprinted on cytomegalovirus-specific CD4+ T cells and attenuates Th1 cytokine production whilst maintaining cytotoxicity
Cited by: 15
Author(s): Helen Parry, Alexander C. Dowell, Jianmin Zuo, Kriti Verma, Francesca Kinsella, Jusnara Begum, Wayne Croft, Archana Sharma-Oates, Guy Pratt, Paul Moss
Software Mentions: 5
Published: over 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: about 5 years ago

10.1371/journal.pone.0250568

NMR analysis of the correlation of metabolic changes in blood and cerebrospinal fluid in Alzheimer model male and female mice
Cited by: 2
Author(s): Filip Stojanovic, Mariam Taktek, Nam Huan Khieu, Junzhou Huang, Shuxian Jiang, Kerry Rennie, Balu Chakravarthy, Willard J. Costain, Miroslava Čuperlović-Culf
Software Mentions: 5
Published: over 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: almost 5 years ago

10.1371/journal.pcbi.1008889

Building blocks and blueprints for bacterial autolysins
Cited by: 9
Author(s): Spencer J. Mitchell, Deeptak Verma, Karl E. Griswold, Chris Bailey‐Kellogg
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pcbi.1009300

MicrobeTrace: Retooling molecular epidemiology for rapid public health response
Cited by: 17
Author(s): Ellsworth Campbell, Anthony Boyles, Anupama Shankar, Jay Kim, S. P. Knyazev, Roxana Cintrón, William M. Switzer
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0229807

Microhabitat and ectomycorrhizal effects on the establishment, growth and survival of Quercus ilex L. seedlings under drought
Cited by: 20
Author(s): Laura García de Jalón, Jean‐Marc Limousin, Franck Richard, Arthur Geßler, Martina Peter, Stephan Hättenschwiler, Alexandru Milcu
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0227486

The effect of storage conditions on microbial communities in stool
Cited by: 20
Author(s): Kristien Nel Van Zyl, Andrew Whitelaw, Mae Newton-Foot
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pmed.1003229

Maternal dysglycaemia, changes in the infant’s epigenome modified with a diet and physical activity intervention in pregnancy: Secondary analysis of a randomised control trial
Cited by: 52
Author(s): Elie Antoun, Negusse Tadesse Kitaba, Philip Titcombe, Kathryn V. Dalrymple, Emma Garratt, Sheila J. Barton, Robert Murray, Paul Seed, Joanna D. Holbrook, Michael S. Kobor, David T.S. Lin, Julia L. MacIsaac, Graham C. Burdge, Sara L. White, Lucilla Poston, Keith M. Godfrey, Karen A. Lillycrop
Software Mentions: 5
Published: almost 6 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 5 years ago

10.1371/journal.pone.0223549

Quantifying normal and parkinsonian gait features from home movies: Practical application of a deep learning–based 2D pose estimator
Cited by: 46
Author(s): Kenichiro Sato, Yu Nagashima, Tatsuo Mano, Atsushi Iwata, Tatsushi Toda
Software Mentions: 5
Published: almost 7 years ago

10.1371/journal.pcbi.1007481

Bayesian inference of neuronal assemblies
Cited by: 18
Author(s): Giovanni Diana, Thomas T. J. Sainsbury, Martin P. Meyer
Software Mentions: 5
Published: almost 7 years ago

10.1371/journal.pone.0250390

Impact of ecotourism on abundance, diversity and activity patterns of medium-large terrestrial mammals at Brownsberg Nature Park, Suriname
Cited by: 12
Author(s): Dimitri A. Ouboter, Vanessa Kadosoe, Paul E. Ouboter
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0244724

Geography as non-genetic modulation factor of chicken cecal microbiota
Cited by: 8
Author(s): Natalia Daniela Pin Viso, Enzo A. Redondo, Juan María Díaz Carrasco, Leandro M. Redondo, Javier García, Mariano E. Fernández‐Miyakawa, Marisa Diana Farber
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pgen.1009455

MRLocus: Identifying causal genes mediating a trait through Bayesian estimation of allelic heterogeneity
Cited by: 19
Author(s): Anqi Zhu, Nana Matoba, Emmaleigh Wilson, Amanda L. Tapia, Yun Li, Joseph G. Ibrahim, Jason L. Stein, Michael I. Love
Software Mentions: 5
Published: over 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: over 5 years ago

10.1371/journal.pone.0242797

Multiple spawning run contingents and population consequences in migratory striped bass Morone saxatilis
Cited by: 7
Author(s): David H. Secor, Michael H. P. O’Brien, Benjamin I. Gahagan, Dewayne A. Fox, Amanda Higgs, John A. Best
Software Mentions: 5
Published: almost 6 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: almost 6 years ago

10.1371/journal.pone.0247669

Immune gene expression networks in sepsis: A network biology approach
Cited by: 13
Author(s): Kyung Soo Kim, Dong Wook Jekarl, Jaeeun Yoo, Seungok Lee, Myungshin Kim, Yonggoo Kim
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0245324

InsectOR—Webserver for sensitive identification of insect olfactory receptor genes from non-model genomes
Cited by: 10
Author(s): Snehal D. Karpe, Vikas Tiwari, R. Sowdhamini
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0245710

Isolation of the Buchnera aphidicola flagellum basal body complexes from the Buchnera membrane
Cited by: 1
Author(s): Matthew J. Schepers, James N. Yelland, Nancy A. Moran, David W. Taylor
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0246544

Swab pooling: A new method for large-scale RT-qPCR screening of SARS-CoV-2 avoiding sample dilution
Cited by: 21
Author(s): Ana Paula Christoff, Giuliano Netto Flores Cruz, Aline Fernanda Rodrigues Sereia, Dellyana Rodrigues Boberg, Daniela Carolina de Bastiani, Laís Eiko Yamanaka, Gislaine Fongaro, Patrícia Hermes Stoco, Maria Luiza Bazzo, Edmundo C. Grisard, Camila Hernandes, Luiz Felipe Valter de Oliveira
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0242927

Novel methods for epistasis detection in genome-wide association studies
Cited by: 7
Author(s): Lotfi Slim, Clément Chatelain, Chloé-Agathe Azencott, Jean-Philippe Vert
Software Mentions: 5
Published: almost 6 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: almost 5 years ago

10.1371/journal.pone.0251458

Statistical privacy-preserving message broadcast for peer-to-peer networks
Cited by: 1
Author(s): David Mödinger, Jan-Hendrik Lorenz, Franz J. Hauck
Software Mentions: 5
Published: over 5 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: over 5 years ago

10.1371/journal.pone.0252593

Quantifying impacts of stony coral tissue loss disease on corals in Southeast Florida through surveys and 3D photogrammetry
Cited by: 11
Author(s): Ian R. Combs, Michael S. Studivan, Ryan J. Eckert, Joshua D. Voss
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0227303

Transcriptome analysis of Actinidia chinensis in response to Botryosphaeria dothidea infection
Cited by: 8
Author(s): Yuanxiu Wang, Guihong Xiong, Zhe He, Mingfeng Yan, M. Q. Zou, Junxi Jiang
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0229695

Psychometric characteristics and factorial structures of the Defensive Pessimism Questionnaire—Spanish Version (DPQ-SV)
Cited by: 1
Author(s): Carmen Ramírez‐Maestre, Rosa Esteve, Elena R. Serrano‐Ibáñez, Alicia E. López‐Martínez, Gema T. Ruiz‐Párraga, Teresa Rivas Moya
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0242662

Assessing roost disturbance of straw-coloured fruit bats (Eidolon helvum) through tri-axial acceleration
Cited by: 2
Author(s): Tânia Domingues Costa, Carlos David Santos, Ana Rainho, Michael Abedi-Lartey, Jakob Fahr, Martin Wikelski, Dina K. N. Dechmann
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pone.0257976

Prevalence of HER2 overexpression and amplification in cervical cancer: A systematic review and meta-analysis
Cited by: 6
Author(s): Boris Itkin, Agustín Emilio García, Samanta Straminsky, Eduardo Daniel Adelchanow, Matías G. Pereyra, Gabriela Acosta Haab, Ariel Bardach
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0222737

Annual replication is essential in evaluating the response of the soil microbiome to the genetic modification of maize in different biogeographical regions
Cited by: 6
Author(s): Márton Szoboszlay, Astrid Näther, Ewen Mullins, Christoph C. Tebbe
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0236037

Dissecting new genetic components of salinity tolerance in two-row spring barley at the vegetative and reproductive stages
Cited by: 19
Author(s): Stephanie Saadé, Chris Brien, Yveline Pailles, Bettina Berger, Mohammad Shahid, Joanne Russell, Robbie Waugh, Sónia Negrão, Mark Tester
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pone.0244339

The effects of the sex chromosomes on the inheritance of species-specific traits of the copulatory organ shape in Drosophila virilis and Drosophila lummei
Cited by: 1
Author(s): А. М. Куликов, S. Yu. Sorokina, А. И. Мельников, Н. Г. Горностаев, Dmitriy G. Seleznev, O. E. Lazebny
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0240943

Three-gene prognostic biomarkers for seminoma identified by weighted gene co-expression network analysis
Cited by: 2
Author(s): Hualin Chen, Gang Chen, Yang Pan, Xiaoxiang Jin
Software Mentions: 5
Published: almost 6 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 6 years ago

10.1371/journal.pone.0237601

Impact of calculated plasma volume status on all-cause and cardiovascular mortality: 4-year nationwide community-based prospective cohort study
Cited by: 14
Author(s): Yoichiro Otaki, Tetsu Watanabe, Tsuneo Konta, Masafumi Watanabe, Koichi Asahi, Kunihiro Yamagata, Shouichi Fujimoto, Kazuhiko Tsuruya, Ichiei Narita, Masato Kasahara, Yugo Shibagaki, Kunitoshi Iseki, Toshiki Moriyama, Masahide Kondo, Tsuyoshi Watanabe
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pone.0242879

Validation of models using basic parameters to differentiate intestinal tuberculosis from Crohn’s disease: A multicenter study from Asia
Cited by: 9
Author(s): Julajak Limsrivilai, Choon Kin Lee, Piyapan Prueksapanich, Kamin Harinwan, Asawin Sudcharoen, Natcha Cheewasereechon, Satimai Aniwan, Pimsiri Sripongpan, Panu Wetwittayakhlang, Ananya Pongpaibul, Anapat Sanpavat, Nonthalee Pausawasdi, Phunchai Charatcharoenwitthaya, Peter Higgins, Siew C. Ng
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pone.0226253

DNA metabarcoding-based diet survey for the Eurasian otter (Lutra lutra): Development of a Eurasian otter-specific blocking oligonucleotide for 12S rRNA gene sequencing for vertebrates
Cited by: 16
Author(s): Priyanka Kumari, Ke Dong, Kyung-Yeon Eo, Woo-Shin Lee, Junko Kimura, Naomichi Yamamoto
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0239237

Preparing GIS data for analysis of stream monitoring data: The R package openSTARS
Cited by: 4
Author(s): Mira Kattwinkel, Eduard Szöcs, Erin E. Peterson, Ralf B. Schäfer
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pone.0233266

Automatic hoof-on and -off detection in horses using hoof-mounted inertial measurement unit sensors
Cited by: 6
Author(s): Marij Tijssen, Elin Hernlund, Marie Rhodin, Stephan Bosch, J. P. Voskamp, M. Nielen, F. M. Serra Braganςa
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0252685

Expanded transcriptomic view of strawberry fruit ripening through meta-analysis
Cited by: 0
Author(s): Gibum Yi, Hosub Shin, Kyeonglim Min, Eun Jin Lee
Software Mentions: 5
Published: over 5 years ago