10.1371/journal.pone.0247378

Stool metabolome-microbiota evaluation among children and adolescents with obesity, overweight, and normal-weight using 1H NMR and 16S rRNA gene profiling
Cited by: 11
Author(s): José Diógenes Jaimes, Andrea Slavíčková, Jakub Hurych, Ondřej Cinek, Ben Nichols, Lucie Vodolánová, K. Černý, Jaroslav Havlík
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pgen.1009734

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

10.1371/journal.pone.0251130

Aerial survey estimates of polar bears and their tracks in the Chukchi Sea
Cited by: 9
Author(s): Paul B. Conn, Vladimir I. Chernook, Erin E. Moreland, Irina S. Trukhanova, Eric V. Regehr, A. N. Vasiliev, Ryan R. Wilson, Stanislav Belikov, Peter L. Boveng
Software Mentions: 4
Published: over 5 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 6 years ago

10.1371/journal.pcbi.1009298

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

10.1371/journal.pone.0245589

Efficient neural spike sorting using data subdivision and unification
Cited by: 3
Author(s): Masood Hassan, Rakesh Veerabhadrappa, Asim Bhatti
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0236548

Techno-functional and 3D shape analysis applied for investigating the variability of backed tools in the Late Middle Paleolithic of Central Europe
Cited by: 16
Author(s): Davide Delpiano, Thorsten Uthmeier
Software Mentions: 4
Published: about 6 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 5 years ago

10.1371/journal.pone.0231037

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

10.1371/journal.pone.0243595

Extreme value theory as a framework for understanding mutation frequency distribution in cancer genomes
Cited by: 2
Author(s): Natsuki Tokutomi, Kenta Nakai, Sumio Sugano
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0227667

Redefining transcriptional regulation of the APOE gene and its association with Alzheimer’s disease
Cited by: 25
Author(s): Eun-Gyung Lee, Jessica Tulloch, Sunny Chen, Lesley Leong, Aleen Saxton, Brian C. Kraemer, Martin Darvas, C. Dirk Keene, Andrew Shutes‐David, Kaitlin Todd, Steve Millard, Chang‐En Yu
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.pone.0251366

Inequality indices to monitor geographic differences in incidence, mortality and fatality rates over time during the COVID-19 pandemic
Cited by: 4
Author(s): Kirsi Manz, Ulrich Mansmann
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0256605

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

10.1371/journal.pone.0239149

Fertilizer profitability for smallholder maize farmers in Tanzania: A spatially-explicit ex ante analysis
Cited by: 5
Author(s): Sebastian Palmas, Jordan Chamberlin
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pcbi.1007847

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

10.1371/journal.pcbi.1007988

Classification and phylogeny for the annotation of novel eukaryotic GNAT acetyltransferases
Cited by: 7
Author(s): Bojan Krtenic, Adrian Drazic, Thomas Arnesen, Nathalie Reuter
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pcbi.1008955

Computational phenotyping of brain-behavior dynamics underlying approach-avoidance conflict in major depressive disorder
Cited by: 12
Author(s): Mads Lund Pedersen, Maria Ironside, Ken‐ichi Amemori, Callie L. McGrath, Min Su Kang, Ann M. Graybiel, Diego A. Pizzagalli, Michael J. Frank
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0252226

Diagnostic accuracy of pelvic magnetic resonance imaging for the assessment of bone marrow involvement in diffuse large B-cell lymphoma
Cited by: 2
Author(s): Qing Ke, Chengcheng Liao, Xiaohong Tan, Baoqiang Guo, Hong Cen, Le‐Qun Li
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pcbi.1008924

Incorporating the speciation process into species delimitation
Cited by: 48
Author(s): Jeet Sukumaran, Mark T. Holder, L. Lacey Knowles
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pcbi.1008377

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

10.1371/journal.pgen.1009164

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

10.1371/journal.pone.0246027

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

10.1371/journal.pone.0238090

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

10.1371/journal.pcbi.1008734

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

10.1371/journal.pcbi.1008837

Pandemic velocity: Forecasting COVID-19 in the US with a machine learning & Bayesian time series compartmental model
Cited by: 36
Author(s): Gregory L. Watson, Dayuan Xiong, Lu Zhang, Joseph A. Zoller, John Shamshoian, Phillip Sundin, Teresa Bufford, Anne W. Rimoin, Marc A. Suchard, Christina M. Ramirez
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0232853

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

10.1371/journal.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 5 years ago

10.1371/journal.pone.0242008

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

10.1371/journal.pcbi.1007770

A framework for integrating directed and undirected annotations to build explanatory models of cis-eQTL data
Cited by: 2
Author(s): David Lamparter, Rajat Bhatnagar, Katja Hebestreit, T. Grant Belgard, Alice Zhang, Victor Hanson-Smith
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0231510

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

10.1371/journal.pcbi.1009127

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

10.1371/journal.pone.0228503

Lumenal calcification and microvasculopathy in fetuin-A-deficient mice lead to multiple organ morbidity
Cited by: 33
Author(s): Marietta Herrmann, Anne Babler, Irina Moshkova, Felix Gremse, Fabian Kießling, Ulrike Kusebauch, Valentin Nelea, Rafael Kramann, Robert L. Moritz, Marc D. McKee, Willi Jahnen‐Dechent
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pcbi.1007982

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

10.1371/journal.pone.0255803

In silico identification of natural product inhibitors against Octamer-binding transcription factor 4 (Oct4) to impede the mechanism of glioma stem cells
Cited by: 5
Author(s): Chirasmita Nayak, Sanjeev Kumar Singh
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0236679

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

10.1371/journal.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 6 years ago

10.1371/journal.pcbi.1008347

Integrating across neuroimaging modalities boosts prediction accuracy of cognitive ability
Cited by: 30
Author(s): Javier Rasero, A. Sentis, Fang‐Cheng Yeh, Timothy Verstynen
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0229873

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

10.1371/journal.pgen.1009713

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

10.1371/journal.pone.0224214

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

10.1371/journal.pcbi.1008904

High-throughput Interpretation of Killer-cell Immunoglobulin-like Receptor Short-read Sequencing Data with PING
Cited by: 15
Author(s): Wesley M. Marin, Ravi Dandekar, Danillo G. Augusto, Tasneem Yusufali, Bianca Heyn, Jan A. Hofmann, Vinzenz Lange, Jürgen Sauter, Paul J. Norman, Jill A. Hollenbach
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0238066

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

10.1371/journal.pone.0244694

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

10.1371/journal.pcbi.1008003

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

10.1371/journal.pcbi.1009078

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

10.1371/journal.pone.0246508

Relationships between fox populations and rabies virus spread in northern Canada
Cited by: 17
Author(s): Susan A. Nadin-Davis, Emilie Falardeau, Alex Flynn, Hugh Whitney, H. Dawn Marshall
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0232144

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

10.1371/journal.pone.0255822

Evaluation of the severity of nonalcoholic fatty liver disease through analysis of serum exosomal miRNA expression
Cited by: 5
Author(s): Jeong‐An Gim, Soo Min Bang, Young‐Sun Lee, Sun Young Yim, Young Kul Jung, Hayeon Kim, Baek-hui Kim, Ji Hoon Kim, Yeon Seok Seo, Hyung Joon Yim, Jong Eun Yeon, Soon Ho Um, Kwan Soo Byun
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 6 years ago

10.1371/journal.pgen.1008466

Paralog buffering contributes to the variable essentiality of genes in cancer cell lines
Cited by: 59
Author(s): Barbara De Kegel, Colm J. Ryan
Software Mentions: 4
Published: about 7 years ago

10.1371/journal.pone.0253989

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

10.1371/journal.pcbi.1009216

Topology-preserving smoothing of retinotopic maps
Cited by: 3
Author(s): Yanshuai Tu, Duyan Ta, Zhong-Lin Lü, Yalin Wang
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0248374

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

10.1371/journal.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 5 years ago

10.1371/journal.pone.0232681

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

10.1371/journal.pone.0257226

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

10.1371/journal.pone.0221498

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

10.1371/journal.pone.0247657

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

10.1371/journal.pcbi.1008476

Hi-C implementation of genome structure for in silico models of radiation-induced DNA damage
Cited by: 7
Author(s): Samuel Ingram, Nicholas Henthorn, John-William Warmenhoven, N.F. Kirkby, Ranald I Mackay, Karen J Kirkby, Michael J Merchant
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0228668

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

10.1371/journal.pone.0225623

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

10.1371/journal.pone.0237919

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

10.1371/journal.pgen.1009770

The genetics and evolution of eye color in domestic pigeons (Columba livia)
Cited by: 5
Author(s): Si Si, Xiao Xu, Yan Zhuang, Xiao‐Dong Gao, Honghai Zhang, Zhengting Zou, Shu‐Jin Luo
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0237950

Individual response to antidepressants for depression in adults-a meta-analysis and simulation study
Cited by: 10
Author(s): Klaus Munkholm, Stephanie Winkelbeiner, Philipp Homan
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0253264

Dietary vitamin E reaches the mitochondria in the flight muscle of zebra finches but only if they exercise
Cited by: 6
Author(s): Clara Cooper-Mullin, Wales A. Carter, Ronald S. Amato, David W. Podlesak, Scott R. McWilliams
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0232120

Corticosterone and testosterone treatment influence expression of gene pathways linked to meiotic segregation in preovulatory follicles of the domestic hen
Cited by: 2
Author(s): E. Wróbel, Alexandra B. Bentz, W. Walter Lorenz, Steven T. Gardner, Mary T. Mendonça, Kristen J. Navara
Software Mentions: 4
Published: over 6 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 6 years ago

10.1371/journal.pcbi.1008018

Visual perception of liquids: Insights from deep neural networks
Cited by: 11
Author(s): Jan Jaap R. van Assen, Shin’ya Nishida, Roland W. Fleming
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0233841

Whole blood transcriptional responses of very preterm infants during late-onset sepsis
Cited by: 16
Author(s): Sherrianne Ng, Tobias Strunk, Ahwon Lee, Erin E. Gill, Reza Falsafi, Tabitha Woodman, Julie Hibbert, Robert E. W. Hancock, Andrew Currie
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pcbi.1009411

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

10.1371/journal.pcbi.1007271

Quantifying the roles of vomiting, diarrhea, and residents vs. staff in norovirus transmission in U.S. nursing home outbreaks
Cited by: 3
Author(s): Carly Adams, D. K. Young, Paul A. Gastañaduy, Prabasaj Paul, Zach Marsh, Aron J. Hall, Benjamin A. Lopman
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0249926

Responsible product design to mitigate excessive gambling: A scoping review and z-curve analysis of replicability
Cited by: 4
Author(s): William H.B. McAuliffe, Timothy C. Edson, Eric R. Louderback, Alexander LaRaja, Debi A. LaPlante
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pntd.0008164

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

10.1371/journal.pone.0248663

Protocol for a reproducible experimental survey on biomedical sentence similarity
Cited by: 2
Author(s): Alicia Lara-Clares, Juan J. Lastra-Díaz, Ana Garcı́a-Serrano
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.ppat.1008277

Structures of immature EIAV Gag lattices reveal a conserved role for IP6 in lentivirus assembly
Cited by: 42
Author(s): Robert A. Dick, Chaoyi Xu, Dustin R. Morado, Vladyslav Kravchuk, C.L. Ricana, Terri D. Lyddon, Arianna M. Broad, J. Ryan Feathers, Marc C. Johnson, Volker M. Vogt, Juan R. Perilla, John Briggs, F.K.M. Schur
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.pone.0225096

Diagnostic accuracy of SOX11 immunohistochemistry in mantle cell lymphoma: A meta-analysis
Cited by: 4
Author(s): Woojoo Lee, Eun Hee Shin, Bo‐Hyung Kim, Hyunchul Kim
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.ppat.1009768

Trichuris muris infection drives cell-intrinsic IL4R alpha independent colonic RELMα+ macrophages
Cited by: 6
Author(s): Ruth Forman, Larisa Logunova, Hannah Smith, Kelly Wemyss, Iris Mair, Louis Boon, Judith E. Allen, Werner Müller, Joanne L. Pennock, Kathryn J. Else
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.ppat.1008401

Role of MPK4 in pathogen-associated molecular pattern-triggered alternative splicing in Arabidopsis
Cited by: 35
Author(s): Jérémie Bazin, Kadarkaraisamy Mariappan, Yunhe Jiang, Thomas Blein, Ronny Völz, Martín Crespi, Heribert Hirt
Software Mentions: 4
Published: over 6 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 5 years ago

10.1371/journal.pone.0230570

A Quality of Experience assessment of haptic and augmented reality feedback modalities in a gait analysis system
Cited by: 17
Author(s): Thiago Braga Rodrigues, Ciarán Ó Catháin, Noel E. O’Connor, Niall Murray
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pgen.1008537

Integrative QTL analysis of gene expression and chromatin accessibility identifies multi-tissue patterns of genetic regulation
Cited by: 33
Author(s): Gregory R. Keele, Bryan C. Quach, Jennifer W. Israel, Grace A. Chappell, Lauren Lewis, Alexias Safi, Jeremy M. Simon, Paul Cotney, Gregory E. Crawford, William Valdar, Ivan Rusyn, Terrence S. Furey
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.ppat.1009734

Divergent metabolism between Trypanosoma congolense and Trypanosoma brucei results in differential sensitivity to metabolic inhibition
Cited by: 10
Author(s): Pieter C. Steketee, Emily A. Dickie, James Iremonger, Kathryn Crouch, Edith Paxton, Siddharth Jayaraman, Omar A. Alfituri, Georgina Awuah‐Mensah, Ryan Ritchie, Achim Schnaufer, T.G. Rowan, Harry P. de Koning, Catarina Gadelha, Bill Wickstead, Michael P. Barrett, Liam J. Morrison
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pcbi.1008580

A new model for simultaneous dimensionality reduction and time-varying functional connectivity estimation
Cited by: 23
Author(s): Diego Vidaurre
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pcbi.1008833

PDKit: A data science toolkit for the digital assessment of Parkinson’s Disease
Cited by: 2
Author(s): Cosmin Stamate, Joan Saez Pons, David Weston, George Roussos
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pcbi.1007453

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

10.1371/journal.pone.0238876

Identification and validation of early genetic biomarkers for apple replant disease
Cited by: 11
Author(s): Annmarie-Deetja Rohr, Jessica Schimmel, Benye Liu, Georg Guggenberger, Traud Winkelmann
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pgen.1009681

Highly conserved and cis-acting lncRNAs produced from paralogous regions in the center of HOXA and HOXB clusters in the endoderm lineage
Cited by: 9
Author(s): Neta Degani, Yoav Lubelsky, Rotem Ben-Tov Perry, Elena Ainbinder, Igor Ulitsky
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pgen.1008476

Photodamage repair pathways contribute to the accurate maintenance of the DNA methylome landscape upon UV exposure
Cited by: 15
Author(s): Stéfanie Graindorge, Valérie Cognat, Philippe Johann to Berens, Jérôme Mutterer, Jean Molinier
Software Mentions: 3
Published: almost 7 years ago

10.1371/journal.pone.0240450

Assessing multiple score functions in Rosetta for drug discovery
Cited by: 18
Author(s): Shannon Toney Smith, Jens Meiler
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pone.0235848

Second-line treatment in advanced gastric cancer: Data from the Spanish AGAMENON registry
Cited by: 13
Author(s): Almudena Cotes Sanchís, Javier Gállego, R Hernández, Virginia Arrazubi, Ana Custodio, Juana María Cano, Gema Aguado, Ismael Macías, Carlos López, Flora López, Laura Visa, Marcelo Garrido, Nieves Martínez Lago, Ana Montes, María Luisa Limón, Aitor Azkárate, Paola Pimentel, Pablo Reguera, Avinash Ramchandani, Juan Diego Cacho, Alfonso Martín Carnicero, Mónica Granja, M Richard, Carolina Hernández Pérez, Alicia Hurtado, Òlbia Serra, Elvira Buxó, R. Vidal Tocino, Paula Jiménez‐Fonseca, Alberto Carmona-Bayonas
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0225246

Genetic and morphological divergence in the warm-water planktonic foraminifera genus Globigerinoides
Cited by: 33
Author(s): Raphaël Morard, Angelina Füllberg, G.J.A. Brummer, Mattia Greco, Lukas Jonkers, André Wizemann, Agnes Weiner, Kate Darling, Michael Siccha, Ronan Ledevin, Hiroshi Kitazato, Thibault de Garidel‐Thoron, Colomban de Vargas, Michal Kučera
Software Mentions: 3
Published: almost 7 years ago

10.1371/journal.pgen.1009778

IGSF11 is required for pericentric heterochromatin dissociation during meiotic diplotene
Cited by: 5
Author(s): Bin Chen, Gengzhen Zhu, An Yan, Jing He, Yang Liu, Lin Li, Xuerui Yang, Dong Chen, Kehkooi Kee
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0253182

Less need for differentiation? Intestinal length of reptiles as compared to mammals
Cited by: 4
Author(s): Monika I. Hoppe, Carlo Meloro, Mark S. Edwards, Daryl Codron, Marcus Clauss, María J. Duque-Correa
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pgen.1009523

Aicardi-Goutières syndrome-associated gene SAMHD1 preserves genome integrity by preventing R-loop formation at transcription–replication conflict regions
Cited by: 25
Author(s): Kiwon Park, Jeongmin Ryoo, Heena Jeong, Minsu Kim, Sungwon Lee, Sung-Yeon Hwang, Ji-Young Ahn, Doyeon Kim, Hyungseok C. Moon, Daehyun Baek, Kwangsoo Kim, Hye Yoon Park, Kwangseog Ahn
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pgen.1008840

The kinase Isr1 negatively regulates hexosamine biosynthesis in S. cerevisiae
Cited by: 3
Author(s): Emma B Alme, Erica Stevenson, Nevan J. Krogan, Danielle L. Swaney, David P. Toczyski
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pmed.1003566

Dynamics of sputum conversion during effective tuberculosis treatment: A systematic review and meta-analysis
Cited by: 9
Author(s): Claire Calderwood, James P. Wilson, Katherine Fielding, Rebecca Harris, Aaron S Karat, Raoul Mansukhani, Jane Falconer, Malin Bergström, S.D. Johnson, Nicky McCreesh, Edward J M Monk, Jasantha Odayar, P. J. Scott, Sarah A. Stokes, Hannah Theodorou, David Moore
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pcbi.1008249

PyOIF: Computational tool for modelling of multi-cell flows in complex geometries
Cited by: 14
Author(s): Iveta Jančigová, Kristína Kovalčíková, Rudolf Weeber, Ivan Cimrák
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pgen.1008648

A kinesin Klp10A mediates cell cycle-dependent shuttling of Piwi between nucleus and nuage
Cited by: 3
Author(s): Zsolt Venkei, Charlotte P Choi, Suhua Feng, Cuie Chen, Steven E. Jacobsen, John K. Kim, Yukiko Yamashita
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pcbi.1008927

Embedding optimization reveals long-lasting history dependence in neural spiking activity
Cited by: 6
Author(s): Lucas Rudelt, D Marx, Michael Wibral, Viola Priesemann
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0244142

The three NADH dehydrogenases of Pseudomonas aeruginosa: Their roles in energy metabolism and links to virulence
Cited by: 8
Author(s): Teri N. Hreha, Sara Foreman, Ana E. Duran-Pinedo, Alexander Morris, Patricia Díaz‐Rodríguez, J. Andrew Jones, Kristina Ferrara, Anaïs Bourges, Lauren Rodriguez, Mattheos Koffas, Mariah S. Hahn, Alan R. Hauser, Blanca Barquera
Software Mentions: 3
Published: almost 6 years ago