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.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: over 6 years ago

10.1371/journal.pone.0254514

Reaching to inhibit a prepotent response: A wearable 3-axis accelerometer kinematic analysis
Cited by: 2
Author(s): Alessia Angeli, Irene Valori, Teresa Farroni, Gustavo Marfia
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pgen.1008687

Conserved nuclear hormone receptors controlling a novel plastic trait target fast-evolving genes expressed in a single cell
Cited by: 35
Author(s): Bogdan Sieriebriennikov, Shuai Sun, James W. Lightfoot, Hanh Witte, Eduardo Moreno, Christian Rödelsperger, Ralf J. Sommer
Software Mentions: 5
Published: over 6 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.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 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.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 5 years ago

10.1371/journal.pgen.1009140

Drosophila Caliban preserves intestinal homeostasis and lifespan through regulating mitochondrial dynamics and redox state in enterocytes
Cited by: 12
Author(s): Zhaoxia Dai, Dong Liu, Xiao Du, Ying Ge, Deborah A. Hursh, Xiaolin Bi
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pcbi.1008735

From heterogeneous healthcare data to disease-specific biomarker networks: A hierarchical Bayesian network approach
Cited by: 9
Author(s): Ann‐Kristin Becker, Marcus Dörr, Stephan B. Felix, Fabian Frost, Hans J. Grabe, Markus M. Lerch, Matthias Nauck, Uwe Völker, Henry Völzke, Lars Kaderali
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pntd.0007876

Microsatellite analysis reveals connectivity among geographically distant transmission zones of Plasmodium vivax in the Peruvian Amazon: A critical barrier to regional malaria elimination
Cited by: 11
Author(s): Paulo Manrique, Julio Miranda-Alban, Jhonatan Alarcon-Baldeon, Roberson Ramirez, Gabriel Carrasco-Escobar, Henry Herrera, Mitchel Guzmán-Guzmán, Ángel Rosas Aguirre, Alejandro Llanos‐Cuentas, Joseph M. Vinetz, Ananías A. Escalante, Dionicia Gamboa
Software Mentions: 5
Published: almost 7 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: over 6 years ago

10.1371/journal.pntd.0008046

Genomic epidemiology of Vibrio cholerae reveals the regional and global spread of two epidemic non-toxigenic lineages
Cited by: 15
Author(s): Haoqiu Wang, Chao Yang, Sun Zhou, Wei Zheng, Wei Zhang, Hua Yu, Yarong Wu, Xavier Didelot, Ruifu Yang, Jinren Pan, Yu‐Jun Cui
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0234552

Multiple measures derived from 3D photonic body scans improve predictions of fat and muscle mass in young Swiss men
Cited by: 8
Author(s): Roman Sager, Sabine Güsewell, Frank J Rühli, Nicole Bender, Kaspar Staub
Software Mentions: 5
Published: about 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.0228098

How to use frailtypack for validating failure-time surrogate endpoints using individual patient data from meta-analyses of randomized controlled trials
Cited by: 2
Author(s): Casimir Ledoux Sofeu, Virginie Rondeau
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pntd.0009397

Global patterns of aegyptism without arbovirus
Cited by: 10
Author(s): Mark F. Olson, José G. Juárez, Moritz U. G. Kraemer, Jane P. Messina, Gabriel L. Hamer
Software Mentions: 5
Published: over 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: almost 7 years ago

10.1371/journal.pone.0236827

Extraction of radiographic findings from unstructured thoracoabdominal computed tomography reports using convolutional neural network based natural language processing
Cited by: 12
Author(s): Mohit Pandey, Zhuoran Xu, Evan Sholle, Gabriel Maliakal, Gurpreet Singh, Zahra Fatima, Daria Larine, Benjamin C. Lee, Jing Wang, Alexander R. van Rosendael, Leslee J. Shaw, James K. Min, Subhi J. Al’Aref
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pgen.1008511

JMJD6 participates in the maintenance of ribosomal DNA integrity in response to DNA damage
Cited by: 11
Author(s): Jérémie Fages, Catherine Chailleux, Jonathan Humbert, Suk-Min Jang, Jérémy Loehr, Jean-Philippe Lambert, Jacques Côté, Didier Trouche, Yvan Canitrot
Software Mentions: 5
Published: about 6 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: about 5 years ago

10.1371/journal.pgen.1009260

TDP-43 mutations link Amyotrophic Lateral Sclerosis with R-loop homeostasis and R loop-mediated DNA damage
Cited by: 43
Author(s): Marta Gianini, Aleix Bayona-Feliú, Daisy Sproviero, Sónia Barroso, Cristina Cereda, Andrés Aguilera
Software Mentions: 5
Published: over 5 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 5 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.pcbi.1007866

Learning clinical networks from medical records based on information estimates in mixed-type data
Cited by: 8
Author(s): Vincent Cabeli, Louis Verny, Nadir Sella, Guido Uguzzoni, Marc Verny, Hervé Isambert
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0256503

PyPlutchik: Visualising and comparing emotion-annotated corpora
Cited by: 16
Author(s): Alfonso Semeraro, Salvatore Vilella, Giancarlo Ruffo
Software Mentions: 5
Published: about 5 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 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.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.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.pone.0229052

Combined impact of pesticides and other environmental stressors on animal diversity in irrigation ponds
Cited by: 16
Author(s): Hiroshi C. Ito, Hiroaki Shiraishi, Megumi Nakagawa, Noriko Takamura
Software Mentions: 5
Published: about 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.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.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.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 6 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.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 6 years ago

10.1371/journal.ppat.1007926

Trickle infection and immunity to Trichuris muris
Cited by: 33
Author(s): Maya Glover, Stefano A. P. Colombo, David J. Thornton, Richard K. Grencis
Software Mentions: 5
Published: almost 7 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 6 years ago

10.1371/journal.ppat.1008444

Surfing motility is a complex adaptation dependent on the stringent stress response in Pseudomonas aeruginosa LESB58
Cited by: 16
Author(s): Daniel Pletzer, Evelyn Sun, Caleb Ritchie, Lauren Wilkinson, Leo T. Liu, Michael J. Trimble, Heidi Wolfmeier, Travis M. Blimkie, Robert E. W. Hancock
Software Mentions: 5
Published: over 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: about 5 years ago

10.1371/journal.pcbi.1008819

Boosting GWAS using biological networks: A study on susceptibility to familial breast cancer
Cited by: 3
Author(s): Héctor Climente-González, Christine Lonjou, Fabienne Lesueur, Dominique Stoppa‐Lyonnet, Nadine Andrieu, Chloé-Agathe Azencott
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.ppat.1008477

Immunosuppressive FK506 treatment leads to more frequent EBV-associated lymphoproliferative disease in humanized mice
Cited by: 15
Author(s): Nicole Caduff, Donal McHugh, Anita Murer, Patrick C. Rämer, Ana Raykova, Vanessa Landtwing, Lisa Rieble, Christian W. Keller, Michael Prummer, Laurent Hoffmann, Janice K. P. Lam, Aks Chiang, Friedrich Raulf, Tarik Azzi, Christoph Berger, Tina Rubic-Schneider, Elisabetta Traggiai, Jan D. Lünemann, Michael Kammüller, Christian Münz
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0252457

Lack of parent-of-origin effects in Nasonia jewel wasp: A replication and extension study
Cited by: 1
Author(s): Kimberly C. Olney, Joshua D. Gibson, Heini M. Natri, Avery Underwood, Juergen Gadau, Melissa A. Wilson
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0242339

Shifts in methanogenic archaea communities and methane dynamics along a subtropical estuarine land use gradient
Cited by: 9
Author(s): Sebastian Euler, Luke C. Jeffrey, Damien T. Maher, Derek Mackenzie, Douglas R. Tait
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pone.0248224

Real-life evaluation of histologic scores for Ulcerative Colitis in remission
Cited by: 8
Author(s): Christian Børde Arkteg, Sveinung Wergeland Sørbye, Lene Riis, Stig Manfred Dalen, Jon Florholmen, Rasmus Goll
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: about 6 years ago

10.1371/journal.pgen.1009697

A fast and robust Bayesian nonparametric method for prediction of complex traits using summary statistics
Cited by: 27
Author(s): Geyu Zhou, Hongyu Zhao
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pcbi.1009274

Validation and tuning of in situ transcriptomics image processing workflows with crowdsourced annotations
Cited by: 0
Author(s): Jenny M. Vo-Phamhi, Kevin A. Yamauchi, Rafael Gómez-Sjöberg
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0243609

MANTA, an integrative database and analysis platform that relates microbiome and phenotypic data
Cited by: 6
Author(s): Yi An Chen, Jonguk Park, Yayoi Natsume-Kitatani, Hitoshi Kawashima, Attayeb Mohsen, Koji Hosomi, Kumpei Tanisawa, Harumi Ohno, Kana Konishi, Haruka Murakami, Motohiko Miyachi, Jun Kunisawa, Kenji Mizuguchi
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pcbi.1008806

VolPy: Automated and scalable analysis pipelines for voltage imaging datasets
Cited by: 17
Author(s): Changjia Cai, Johannes Friedrich, Amrita Singh, M. Hossein Eybposh, Eftychios A. Pnevmatikakis, Kaspar Podgorski, Andrea Giovannucci
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pgen.1009018

The causal effect of obesity on prediabetes and insulin resistance reveals the important role of adipose tissue in insulin resistance
Cited by: 24
Author(s): Min‐Hua Zong, Marcus Alvarez, Arthur Ko, Yash V. Bhagat, Elior Rahmani, Brandon Jew, Sini Heinonen, Liliana Muñóz-Hernández, Miguel Francisco Herrera-Hernández, Carlos A. Aguilar-Salinas, Teresa Tusié-Luna, Karen L. Mohlke, Markku Laakso, Kirsi H. Pietiläinen, Eran Halperin, Päivi Pajukanta
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pone.0243205

Neuropeptide S receptor gene Asn107 polymorphism in obese male individuals in Pakistan
Cited by: 3
Author(s): Aftab Ahmad, Fahad Almsned, Pasha Ghazal, Malik Waqar Ahmed, M. Saleet Jafri, Habib Bokhari
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0224882

Trait self-control does not predict attentional control: Evidence from a novel attention capture paradigm
Cited by: 2
Author(s): Michael Dieciuc, Heather M. Maranges, Walter R. Boot
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0226575

Neuronal and glial DNA methylation and gene expression changes in early epileptogenesis
Cited by: 17
Author(s): Toni Berger, Magnus Dehli Vigeland, Hanne Sagsveen Hjorthaug, Lars Etholm, Cecilie G. Nome, Erik Taubøll, Kjell Heuser, Kaja Kristine Selmer
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0233077

Comparative transcriptomics of Diuraphis noxia and Schizaphis graminum fed wheat plants containing different aphid-resistance genes
Cited by: 2
Author(s): Lina Aguirre Rojas, Erin D. Scully, Laramy Enders, Alicia E. Timm, Deepak K. Sinha, C. Michael Smith
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pgen.1009784

R-loops and regulatory changes in chronologically ageing fission yeast cells drive non-random patterns of genome rearrangements
Cited by: 1
Author(s): D. S. Ellis, Félix Reyes-Martín, María Rodríguez-López, Cristina Cotobal, Xi‐Ming Sun, Quentin Saintain, Daniel C. Jeffares, Samuel Marguerat, Juan Jiménez, Jürg Bähler
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0243265

Genomic variation and epidemiology of SARS-CoV-2 importation and early circulation in Israel
Cited by: 4
Author(s): Neta S. Zuckerman, Efrat Bucris, Yaron Drori, Oran Erster, Danit Sofer, Rakefet Pando, Ella Mendelson, Orna Mor, Michal Mandelboim
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0245958

Testing the causal mechanism of the peninsular effect in passerine birds from South Korea
Cited by: 2
Author(s): Jin–Yong Kim, Man‐Seok Shin, Chang Ho Seo, Soo Hyung Eo, Seungbum Hong
Software Mentions: 5
Published: over 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.0246297

Rhabdomyolysis related to acute recreational drug toxicity—A Euro-DEN study
Cited by: 9
Author(s): W. James Waldman, Piotr Maciej Kabata, Alison Dines, David M. Wood, Chris Yates, Fridtjof Heyerdahl, Knut Erik Hovda, Isabelle Giraudon, Jacek Sein Anand
Software Mentions: 5
Published: over 5 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.0255411

Citizen science reveals unexpected solute patterns in semiarid river networks
Cited by: 3
Author(s): Erin Jones, Rebecca J. Frei, Raymond M. Lee, Jordan D. Maxwell, Rhetta Shoemaker, Andrew Follett, Gabriella M. Lawson, Madeleine Malmfeldt, Rachel Watts, Zachary T. Aanderud, Carter Allred, Allison Tuttle Asay, Madeline Buhman, Hunter C Burbidge, Amber Call, Trevor Crandall, Isabella M. Errigo, Natasha A. Griffin, Neil C. Hansen, Jansen C. Howe, Emily L. Meadows, Elizabeth Kujanpää, Leslie A. Lange, Monterey L. Nelson, Adam J. Norris, Elysse Ostlund, Nicholas J. Suiter, Kaylee Brook Tanner, Joseph Tolworthy, Maria Camila Vargas, Benjamin W. Abbott
Software Mentions: 5
Published: about 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.0254556

Simple mapping-based quantification of a mock microbial community using total RNA-seq data
Cited by: 4
Author(s): Shigeharu Moriya
Software Mentions: 5
Published: about 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.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.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: almost 6 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: about 6 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.1007564

Regulatory context drives conservation of glycine riboswitch aptamers
Cited by: 6
Author(s): Matt Crum, Nikhil Ram-Mohan, Michelle M. Meyer
Software Mentions: 5
Published: over 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.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: about 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: over 5 years ago

10.1371/journal.pone.0245444

The relationship between social support, stressful events, and menopause symptoms
Cited by: 20
Author(s): Megan Arnot, Emily H Emmott, Ruth Mace
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0236668

When to use one-dimensional, two-dimensional, and Shifted Transversal Design pooling in mycotoxin screening
Cited by: 4
Author(s): Xianbin Cheng, Ruben A. Chavez, Matthew J. Stasiewicz
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pone.0231068

Effects of a blend of essential oils in milk replacer on performance, rumen fermentation, blood parameters, and health scores of dairy heifers
Cited by: 7
Author(s): Joana Palhares Campolina, Sandra Gesteira Coelho, Anna Luiza Belli, F. S. Machado, L. G. R. Pereira, T. R. Tomich, Wanessa A. Carvalho, Rodrigo Silva, Alessandra L. Voorsluys, David Vanni Jacob, M. M. Campos
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0237412

The impact of different negative training data on regulatory sequence predictions
Cited by: 3
Author(s): Louisa-Marie Krützfeldt, Max Schubach, Martin Kircher
Software Mentions: 5
Published: almost 6 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.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.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: about 5 years ago

10.1371/journal.pone.0239711

Reproducibility across single-cell RNA-seq protocols for spatial ordering analysis
Cited by: 5
Author(s): Morten Seirup, Li‐Fang Chu, Srikumar Sengupta, Ning Leng, Hadley Browder, Kevin Kapadia, Christina M. Shafer, Bret Duffin, Angela L. Elwell, Jennifer M. Bolin, Scott Swanson, Ron Stewart, Christina Kendziorski, James A. Thomson, Rhonda Bacher
Software Mentions: 5
Published: almost 6 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: about 6 years ago

10.1371/journal.pone.0237066

Lack of TLR4 modifies the miRNAs profile and attenuates inflammatory signaling pathways
Cited by: 12
Author(s): Juan R. Ureña‐Peralta, Raúl Pérez-Moraga, Francisco García‐García, Consuelo Guerri
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pone.0222937

Forecasting the impact of population ageing on tuberculosis incidence
Cited by: 16
Author(s): Chu-Chang Ku, Peter J Dodd
Software Mentions: 5
Published: almost 7 years ago

10.1371/journal.pone.0248485

16S rRNA gene amplicon-based metagenomic analysis of bacterial communities in the rhizospheres of selected mangrove species from Mida Creek and Gazi Bay, Kenya
Cited by: 21
Author(s): Edith M. Muwawa, Chinedu Christopher Obieze, Huxley Mae Makonde, Joyce Jefwa, James H. P. Kahindi, Damase Khasa
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0231695

Genetic algorithm-based personalized models of human cardiac action potential
Cited by: 18
Author(s): Dmitrii Smirnov, Andrey Pikunov, Roman Syunyaev, Ruslan Deviatiiarov, Oleg Gusev, Kedar Aras, Anna Gams, Aaron C. Koppel, Igor R. Efimov
Software Mentions: 5
Published: over 6 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: almost 7 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: about 5 years ago

10.1371/journal.pone.0236165

Diversity and structure of soil microbiota of the Jinsha earthen relic
Cited by: 4
Author(s): Sheng Yang, Linfeng Wu, Bin Wu, Yizheng Zhang, Haiyan Wang, Xuemei Tan
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.ppat.1009701

Control of SARS-CoV-2 infection after Spike DNA or Spike DNA+Protein co-immunization in rhesus macaques
Cited by: 11
Author(s): Margherita Rosati, Mahesh Agarwal, Xintao Hu, Santhi Devasundaram, Dimitris Stellas, Bhabadeb Chowdhury, Jenifer Bear, Robert T. Burns, Duncan Donohue, Laurent Pessaint, Hanné Andersen, Mark G. Lewis, Evangelos Terpos, Meletios A. Dimopoulos, Alexander Wlodawer, James I. Mullins, David Venzon, George N. Pavlakis, Barbara K. Felber
Software Mentions: 5
Published: almost 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: almost 5 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.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: over 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: about 6 years ago

10.1371/journal.pone.0240932

Bridging of nucleosome-proximal DNA double-strand breaks by PARP2 enhances its interaction with HPF1
Cited by: 27
Author(s): Guillaume Gaullier, Genevieve Roberts, Uma M. Muthurajan, Samuel Bowerman, Johannes Rudolph, Jyothi Mahadevan, Asmita Jha, Purushka S. Rae, Karolin Luger
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pone.0225805

Food from faeces: Evaluating the efficacy of scat DNA metabarcoding in dietary analyses
Cited by: 25
Author(s): David Thuo, Elise M. Furlan, Femke Broekhuis, Joseph Kamau, Kyle Macdonald, Dianne Gleeson
Software Mentions: 5
Published: over 6 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: over 6 years ago

10.1371/journal.pone.0255304

Coral reefs in the Gilbert Islands of Kiribati: Resistance, resilience, and recovery after more than a decade of multiple stressors
Cited by: 22
Author(s): Sara E. Cannon, Erietera Aram, Toaea Beiateuea, A. Kiareti, Max Peter, Simon D. Donner
Software Mentions: 5
Published: about 5 years ago