10.1371/journal.pone.0248337

Extra base hits: Widespread empirical support for instantaneous multiple-nucleotide changes
Cited by: 12
Author(s): Alexander G Lucaci, Sadie Wisotsky, Stephen D Shank, Steven Weaver, Sergei L. Kosakovsky Pond
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pcbi.1007849

A mechanistic model of the BLADE platform predicts performance characteristics of 256 different synthetic DNA recombination circuits
Cited by: 2
Author(s): Jack Bowyer, Chloe Ding, Benjamin H. Weinberg, Wilson Wong, Declan G. Bates
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0240062

Phylogenomics from transcriptomic “bycatch” clarify the origins and diversity of avian trypanosomes in North America
Cited by: 7
Author(s): Spencer C. Galen, Janus Borner, Susan L. Perkins, Jason D. Weckstein
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pone.0255799

Substance use disorders and suicidality in youth: A systematic review and meta-analysis with a focus on the direction of the association
Cited by: 16
Author(s): Charlie Rioux, Anne-Sophie Huet, Natalie Castellanos‐Ryan, Laurianne Fortier, Marie-Ève Blanc, Stéphanie Hamaoui, Marie‐Claude Geoffroy, Johanne Renaud, Jean R. Séguin
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0253219

Identify specific gene pairs for subarachnoid hemorrhage based on wavelet analysis and genetic algorithm
Cited by: 0
Author(s): Pengcheng Zhao, Shaonian Xu, Zhenshan Huang, Peng Deng, Yongming Zhang
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pcbi.1008749

Comprehensive analysis of cancer breakpoints reveals signatures of genetic and epigenetic contribution to cancer genome rearrangements
Cited by: 10
Author(s): Kseniia Cheloshkina, Maria Poptsova
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pcbi.1009335

Ankyrin repeats in context with human population variation
Cited by: 4
Author(s): Javier S. Utgés, Maxim I. Tsenkov, Noah J. M. Dietrich, Stuart A. MacGowan, Geoffrey J. Barton
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pcbi.1007455

A computational study on the role of glutamate and NMDA receptors on cortical spreading depression using a multidomain electrodiffusion model
Cited by: 18
Author(s): Austin Tuttle, Jorge J. Riera, Yoichiro Mori
Software Mentions: 3
Published: almost 7 years ago

10.1371/journal.pone.0230458

Cultivar-specific nutritional status of potato (Solanum tuberosum L.) crops
Cited by: 12
Author(s): Zonlehoua Coulibali, Athyna N. Cambouris, Léon‐Étienne Parent
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0253340

Placental DNA methylation changes and the early prediction of autism in full-term newborns
Cited by: 11
Author(s): Ray O. Bahado‐Singh, Sangeetha Vishweswaraiah, Buket Aydas, Uppala Radhakrishna
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0232644

TargetDB: A target information aggregation tool and tractability predictor
Cited by: 9
Author(s): Stéphane De Cesco, John B. Davis, P.E. Brennan
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pone.0246719

Interactive effects of discharge reduction and fine sediments on stream biofilm metabolism
Cited by: 3
Author(s): Ana Victoria Pérez-Calpe, Aitor Larrañaga, Daniel von Schiller
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pcbi.1007722

Insight into the protein solubility driving forces with neural attention
Cited by: 25
Author(s): Daniele Raimondi, Gabriele Orlando, Piero Fariselli, Yves Moreau
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0234714

Prostatic hyperplasia: Vascularization, hemodynamic and hormonal analysis of dogs treated with finasteride or orchiectomy
Cited by: 4
Author(s): Daniel de Souza Ramos Angrimani, Maria Claudia Pereda Francischini, Maíra Morales Brito, Camila Infantosi Vannucchi
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pcbi.1008939

How multisite phosphorylation impacts the conformations of intrinsically disordered proteins
Cited by: 22
Author(s): Fan Jin, Frauke Gräter
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pcbi.1009146

OpenABM-Covid19—An agent-based model for non-pharmaceutical interventions against COVID-19 including contact tracing
Cited by: 94
Author(s): Robert Hinch, William J. M. Probert, Anel Nurtay, Michaela Kendall, Chris Wymant, Matthew Hall, Katrina A. Lythgoe, Ana Bulas Cruz, Lele Zhao, Andrea Stewart, Luca Ferretti, Daniel Montero, James R. Warren, Nicole Mather, Matthew Abueg, Neo Wu, Olivier Legat, Katie Bentley, Thomas Mead, Kelvin Van-Vuuren, Dylan Feldner-Busztin, Tommaso Ristori, Anthony Finkelstein, David Bonsall, Lucie Abeler-Dörner, Christophe Fraser
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0234104

Emojis influence autobiographical memory retrieval from reading words: An fMRI-based study
Cited by: 14
Author(s): Christos Chatzichristos, Manuel Morante, Nikolaos Andreadis, Eleftherios Kofidis, Yiannis Kopsinis, Sergios Theodoridis
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pcbi.1007970

Real time structural search of the Protein Data Bank
Cited by: 36
Author(s): Dmytro Guzenko, S.K. Burley, José M. Duarte
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pone.0240178

Occurrence of Brucella ceti in striped dolphins from Italian Seas
Cited by: 14
Author(s): Giuliano Garofolo, A. Petrella, Giuseppe Lucifora, Gabriella Di Francesco, Giovanni Di Guardo, Alessandra Pautasso, Barbara Iulini, Katia Varello, Federica Giorda, Maria Goria, Alessandro Dondo, Simona Zoppi, Cristina Esmeralda Di Francesco, Stefania Giglio, Furio Ferringo, Luigina Serrecchia, Mattia Anna Rita Ferrantino, Katiuscia Zilli, Anna Janowicz, Manuela Tittarelli, Walter Mignone, Cristina Casalone, Carla Grattarola
Software Mentions: 3
Published: almost 6 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: over 5 years ago

10.1371/journal.pone.0223346

The Walloon farmers position differently their ideal dairy production system between a global-based intensive and a local-based extensive model of farm
Cited by: 3
Author(s): Anne-Catherine Dalcq, Thomas Dogot, Yves Beckers, Yves Brostaux, Éric Froidmont, Frédéric Vanwindekens, Hélène Soyeurt
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pone.0221606

Predicting 30-day hospital readmissions using artificial neural networks with medical code embedding
Cited by: 24
Author(s): Wenshuo Liu, Cooper Stansbury, Karandeep Singh, Andrew M. Ryan, Devraj Sukul, Elham Mahmoudi, Akbar K. Waljee, Ji Zhu, Brahmajee K. Nallamothu
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pcbi.1009157

Data integration uncovers the metabolic bases of phenotypic variation in yeast
Cited by: 2
Author(s): Marianyela Petrizzelli, Dominique de Vienne, Thibault Nidelet, Camille Noûs, Christine Dillmann
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pcbi.1008655

When to wake up? The optimal waking-up strategies for starvation-induced persistence
Cited by: 7
Author(s): Yusuke Himeoka, Namiko Mitarai
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pcbi.1008308

OpenAWSEM with Open3SPN2: A fast, flexible, and accessible framework for large-scale coarse-grained biomolecular simulations
Cited by: 31
Author(s): Wei Lu, Carlos Bueno, Nicholas P. Schafer, Joshua Moller, Shuang Jin, Xun Chen, Mingchen Chen, Xinyu Gu, Aram Davtyan, Juan J. de Pablo, Peter G. Wolynes
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0224030

Hippocampal subfield volumes and pre-clinical Alzheimer’s disease in 408 cognitively normal adults born in 1946
Cited by: 20
Author(s): Thomas D. Parker, David M. Cash, Christopher A. Lane, Kirsty Lu, Ian B. Malone, Jennifer M. Nicholas, Sarah‐Naomi James, Ashvini Keshavan, Heidi Murray‐Smith, Andrew Wong, Sarah M Buchanan, Sarah E Keuss, Carole H. Sudre, Marc Modat, David L. Thomas, Sebastian J. Crutch, Marcus Richards, Nick C. Fox, Jonathan M. Schott
Software Mentions: 3
Published: almost 7 years ago

10.1371/journal.pone.0229334

Age-related modulations of alpha and gamma brain activities underlying anticipation and distraction
Cited by: 20
Author(s): Hesham A. ElShafei, Lesly Fornoni, Rémy Masson, Olivier Bertrand, Aurélie Bidet-Caulet
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0225980

Choosing important health outcomes for comparative effectiveness research: 5th annual update to a systematic review of core outcome sets for research
Cited by: 78
Author(s): Elizabeth Gargon, Sarah L Gorst, Paula Williamson
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0251765

Targeting neovascularization and respiration of tumor grafts grown on chick embryo chorioallantoic membranes
Cited by: 5
Author(s): Hyrije Ademi, Dheeraj Shinde, Max Gassmann, Daniela Gerst, Hassan Chaachouay, Johannes Vogel, Thomas A. Gorr
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0226224

A geographically weighted random forest approach for evaluate forest change drivers in the Northern Ecuadorian Amazon
Cited by: 19
Author(s): Fabián Santos, Valerie Graw, Santiago Bonilla
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pcbi.1008140

A steady-state model of microbial acclimation to substrate limitation
Cited by: 13
Author(s): John R. Casey, Michael J. Follows
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pone.0253859

Position effects of 22q13 rearrangements on candidate genes in Phelan-McDermid syndrome
Cited by: 8
Author(s): Sujata Srikanth, Lavanya Jain, Cinthya J. Zepeda-Mendoza, Lauren Cascio, Kelly A. Jones, Rini Pauly, Barb DuPont, Curtis Rogers, Sara M. Sarasua, Katy Phelan, Cynthia C. Morton, Luigi Boccuto
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pcbi.1008561

Sampling bias and model choice in continuous phylogeography: Getting lost on a random walk
Cited by: 40
Author(s): Antanas Kalkauskas, Umberto Perron, Yuxuan Sun, Nick Goldman, Guy Baele, Stéphane Guindon, Nicola De Maio
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0245026

Estimating pulse wave velocity from the radial pressure wave using machine learning algorithms
Cited by: 17
Author(s): Wen Jin, Philip Chowienczyk, Jordi Alastruey
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pntd.0009813

Morphological, molecular and MALDI-TOF MS identification of ticks and tick-associated pathogens in Vietnam
Cited by: 9
Author(s): Ly Na Huynh, Adama Zan Diarra, Quang Luan Pham, Nhiem Le-Viet, Jean-Michel Bérenger, Van Hoang Ho, Xuan Quang Nguyen, Philippe Parola
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pone.0233920

Smooth operator: Modifying the Anhøj rules to improve runs analysis in statistical process control
Cited by: 3
Author(s): Jacob Anhøj, Tore Wentzel‐Larsen
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0249521

Effects of supplemental feeding on the fecal bacterial communities of Rocky Mountain elk in the Greater Yellowstone Ecosystem
Cited by: 9
Author(s): Claire E. Couch, Benjamin L. Wise, Brandon M. Scurlock, Jared D. Rogerson, Rebecca K. Fuda, Eric K. Cole, Kimberly E. Szcodronski, Adam J. Sepulveda, Patrick R. Hutchins, Paul C. Cross
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0226985

What nature separated, and human joined together: About a spontaneous hybridization between two allopatric dogwood species (Cornus controversa and C. alternifolia)
Cited by: 3
Author(s): Barbara Gawrońska, Maria Morozowska, Katarzyna Nuc, Piotr Kosiński, Ryszard Słomski
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0219832

The role of inoculum dispersal and plant species identity in the assembly of leaf endophytic fungal communities
Cited by: 18
Author(s): Kevin D. Ricks, Roger T. Koide
Software Mentions: 3
Published: about 7 years ago

10.1371/journal.pcbi.1008697

FastTrack: An open-source software for tracking varying numbers of deformable objects
Cited by: 25
Author(s): Benjamin Gallois, Raphaël Candelier
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pcbi.1009174

Spatial and temporal invasion dynamics of the 2014–2017 Zika and chikungunya epidemics in Colombia
Cited by: 5
Author(s): Kelly Charniga, Zulma M. Cucunubá, Marcela Mercado, Franklyn Prieto, Martha Ospina, Pierre Nouvellet, Christl A. Donnelly
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pcbi.1008198

A comparison of neuronal population dynamics measured with calcium imaging and electrophysiology
Cited by: 85
Author(s): Ziqiang Wei, Bei Jung Lin, Tsai Wen Chen, Kayvon Daie, Karel Svoboda, Shaul Druckmann
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pone.0237356

DESS deconstructed: Is EDTA solely responsible for protection of high molecular weight DNA in this common tissue preservative?
Cited by: 7
Author(s): Amy Sharpe, S. Barrios, Sarah Gayer, Elisha Allan-Perkins, David Stein, Hannah J Appiah-Madson, Rosalia Falco, Daniel L. Distel
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pcbi.1009094

Topological data analysis distinguishes parameter regimes in the Anderson-Chaplain model of angiogenesis
Cited by: 12
Author(s): John T. Nardini, Bernadette J. Stolz, Kevin Flores, Heather A. Harrington, Helen M. Byrne
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0241238

Specific ablation of the NCoR corepressor δ splice variant reveals alternative RNA splicing as a key regulator of hepatic metabolism
Cited by: 2
Author(s): Michael L. Goodson, Trina A. Knotts, Emily Campbell, Chelsea Snyder, Benjamin E. Young, Martin L. Privalsky
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pone.0247966

Relationships between topographic factors, soil and plant communities in a dry Afromontane forest patches of Northwestern Ethiopia
Cited by: 12
Author(s): Liyew Birhanu, Tamrat Bekele, Binyam Tesfaw, Sebsebe Demissew
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0243785

Systematic review and meta-analysis of late auditory evoked potentials as a candidate biomarker in the assessment of tinnitus
Cited by: 16
Author(s): Emilie Cardon, Iris Joossen, Hanne Vermeersch, Laure Jacquemin, Griet Mertens, Olivier M. Vanderveken, Vedat Topsakal, Paul Van de Heyning, Vincent Van Rompaey, Annick Gilles
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0239847

The suitability of native flowers as pollen sources for Chrysoperla lucasina (Neuroptera: Chrysopidae)
Cited by: 6
Author(s): R. Herrera, María Luisa Fernández Sierra, Francisca Ruano
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pone.0225684

The opportunities and risks of mobile phones for refugees’ experience: A scoping review
Cited by: 31
Author(s): Tiziana Mancini, Federica Sibilla, Dimitris Argiropoulos, Michele Rossi, Marina Everri
Software Mentions: 3
Published: almost 7 years ago

10.1371/journal.pntd.0009602

Rate-of-Kill (RoK) assays to triage large compound sets for Chagas disease drug discovery: Application to GSK Chagas Box
Cited by: 3
Author(s): Juan Cantizani, Pablo Gamallo, Ignacio Cotillo, Raquel Álvarez-Velilla, Julio Martín
Software Mentions: 3
Published: about 5 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: almost 6 years ago

10.1371/journal.pone.0253848

Predictors of mortality in patients with drug-resistant tuberculosis: A systematic review and meta-analysis
Cited by: 10
Author(s): Ayinalem Alemu, Zebenay Workneh Bitew, Teshager Worku, Dinka Fikadu Gamtesa, Animut Alebel
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0242503

Training intensity and improvements in exercise capacity in elderly patients undergoing European cardiac rehabilitation – the EU-CaRE multicenter cohort study
Cited by: 11
Author(s): Thimo Marcin, Prisca Eser, Eva Prescott, Leonie F Prins, Evelien Kolkman, Wendy Bruins, Astrid E van der Velde, Carlos Peña-Gil, Marie‐Christine Iliou, Diego Ardissino, Uwe Zeymer, Esther P. Meindersma, Arnoud W J van 't Hof, Ed P de Kluiver, Matthias Wilhelm
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pcbi.1008022

Depth in convolutional neural networks solves scene segmentation
Cited by: 15
Author(s): Noor Seijdel, Nikos Tsakmakidis, E.H.F. de Haan, Sander M. Bohté, H. Steven Scholte
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pntd.0009795

Variants of MIRNA146A rs2910164 and MIRNA499 rs3746444 are associated with the development of cutaneous leishmaniasis caused by Leishmania guyanensis and with plasma chemokine IL-8
Cited by: 7
Author(s): Tirza Gabrielle Ramos de Mesquita, José do Espírito Santo, Thaís Carneiro de Lacerda, Krys Layane Guimarães Duarte Queiroz, Cláudio Marcello da Silveira Júnior, José Pereira de Moura Neto, Lissianne Augusta Matos Gomes, Mara Lúcia Gomes de Souza, Marcus Vinítius de Farias Guerra, Rajendranath Ramasawmy
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pntd.0009635

The influence of leprosy-related clinical and epidemiological variables in the occurrence and severity of COVID-19: A prospective real-world cohort study
Cited by: 14
Author(s): Selma Regina Penha Silva Cerqueira, Patrícia Duarte Deps, Débora Rosilei Miquini de Freitas Cunha, Natanael Victor Furtunato Bezerra, Daniel Holanda Barroso, Ana Bárbara Sapienza Pinheiro, Gecilmara Salviato Pillegi, Taynah Alves Rocha Repsold, Patrícia Shu Kurizky, Simon M Collin, Ciro Martins Gomes
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0231738

mmannot: How to improve small–RNA annotation?
Cited by: 1
Author(s): Matthias Zytnicki, Christine Gaspin
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pcbi.1008835

Choice of method of place cell classification determines the population of cells identified
Cited by: 6
Author(s): D. M. Grijseels, Kira Shaw, Caswell Barry, Catherine N. Hall
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pcbi.1009086

Mixture-of-Experts Variational Autoencoder for clustering and generating from similarity-based representations on single cell data
Cited by: 11
Author(s): Andreas Köpf, Vincent Fortuin, Vignesh Ram Somnath, Manfred Claassen
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pntd.0008234

Whole genome sequencing of Plasmodium vivax isolates reveals frequent sequence and structural polymorphisms in erythrocyte binding genes
Cited by: 20
Author(s): Anthony M. Ford, Daniel Kepple, Beka Raya Abagero, Jordan Connors, Richard D. Pearson, Sarah Auburn, Sisay Getachew, Colby T. Ford, Karthigayan Gunalan, Louis H. Miller, Daniel Janies, Julian C. Rayner, Guiyun Yan, Delenasaw Yewhalaw, Eugenia Lo
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pcbi.1009384

Characterization of the NiRAN domain from RNA-dependent RNA polymerase provides insights into a potential therapeutic target against SARS-CoV-2
Cited by: 15
Author(s): Abhisek Dwivedy, Richard Mariadasse, Mohammed Ahmad, Sanjoy Chakraborty, Deepsikha Kar, Satish Tiwari, Sankar Bhattacharyya, Sudipta Sonar, Shailendra Mani, Prafullakumar Tailor, Tanmay Majumdar, Jeyaraman Jeyakanthan, B.K. Biswal
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pone.0256975

Lens fluorescence and skin fluorescence in the Copenhagen Twin Cohort Eye Study: Covariates and heritability
Cited by: 0
Author(s): Jakob Bjerager, Sami Dabbah, Mohamed Belmouhand, S. P. Rothenbuehler, Birgit Sander, Michael Larsen
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pntd.0009081

Potential impacts of climate change on geographical distribution of three primary vectors of African Trypanosomiasis in Tanzania’s Maasai Steppe: G. m. morsitans, G. pallidipes and G. swynnertoni
Cited by: 12
Author(s): Happiness J. Nnko, Paul Gwakisa, Anibariki Ngonyoka, Calvin Sindato, Anna B. Estes
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0245220

Development of spontaneous vegetation on reclaimed land in Singapore measured by NDVI
Cited by: 6
Author(s): Leon Yan-Feng Gaw, Daniel R. Richards
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0229661

Measuring childhood maltreatment: Psychometric properties of the Norwegian version of the Maltreatment and Abuse Chronology of Exposure (MACE) scale
Cited by: 11
Author(s): Roar Fosse, Dag Vegard Skjelstad, Inga Schalinski, Dorothea Thekkumthala, Thomas Elbert, Chris Margaret Aanondsen, Hanne Klæboe Greger, Thomas Jozefiak
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pcbi.1008287

An analysis of tissue-specific alternative splicing at the protein level
Cited by: 49
Author(s): José Manuel Rodriguez, Fernando Campo del Pozo, Tomàs Di Domenico, Jesús Vázquez, Michael L. Tress
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pcbi.1008630

Rapid 3D phenotypic analysis of neurons and organoids using data-driven cell segmentation-free machine learning
Cited by: 11
Author(s): Philipp Mergenthaler, Santosh Hariharan, James M Pemberton, Corey Lourenco, Linda Z. Penn, David W. Andrews
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pntd.0009579

Effect of habitat fragmentation on rural house invasion by sylvatic triatomines: A multiple landscape-scale approach
Cited by: 11
Author(s): Miriam Cardozo, Federico Gastón Fiad, Liliana Crocco, David Eladio Gorla
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0258515

How does individualised physiotherapy work for people with low back pain? A Bayesian Network analysis using randomised controlled trial data
Cited by: 3
Author(s): Bernard X. W. Liew, Jon Ford, Marco Scutari, Andrew J. Hahne
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pone.0239483

The health benefits and cost-effectiveness of complete healthy vending
Cited by: 6
Author(s): Melda Lois Griffiths, Eryl Powell, L. H. Usher, Jacky Boivin, Lewis Bott
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pone.0223203

Unexpected predicted length variation for the coding sequence of the sleep related gene, BHLHE41 in gorilla amidst strong purifying selection across mammals
Cited by: 0
Author(s): Krishna Unadkat, Justen B. Whittall
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0221826

Genome wide genetic dissection of wheat quality and yield related traits and their relationship with grain shape and size traits in an elite × non-adapted bread wheat cross
Cited by: 36
Author(s): Ajay Kumar, Éder Eduardo Mantovani, Şenay Şimşek, Shalu Jain, Elias M. Elias, Maryati Mohamed
Software Mentions: 3
Published: almost 7 years ago

10.1371/journal.pone.0242880

A shotgun metagenomic investigation of the microbiota of udder cleft dermatitis in comparison to healthy skin in dairy cows
Cited by: 7
Author(s): Lisa Ekman, Elisabeth Bagge, Ann-Kristin Nyman, Karin Persson Waller, Märit Pringle, Bo Segerman
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pcbi.1008568

Rosetta design with co-evolutionary information retains protein function
Cited by: 10
Author(s): Samuel Schmitz, Moritz Ertelt, Rainer Merkl, Jens Meiler
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pcbi.1009261

Interspike interval correlations in neuron models with adaptation and correlated noise
Cited by: 4
Author(s): Lukas Ramlow, Benjamin Lindner
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pcbi.1009448

dGPredictor: Automated fragmentation method for metabolic reaction free energy prediction and de novo pathway design
Cited by: 4
Author(s): Lin Wang, Vikas Upadhyay, Costas D. Maranas
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pone.0256319

Transcriptomic analysis of a wild and a cultivated varieties of Capsicum annuum over fruit development and ripening
Cited by: 4
Author(s): Fernando G. Razo-Mendivil, Fernando Hernández-Godínez, Corina Hayano-Kanashiro, Octavio Martínez
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0254015

Multiple configurations and fluctuating trophic control in the Barents Sea food-web
Cited by: 5
Author(s): Elliot Sivel, Benjamin Planque, Ulf Lindstrøm, Nigel G. Yoccoz
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0246441

The adverse effects of bisphosphonates in breast cancer: A systematic review and network meta-analysis
Cited by: 14
Author(s): Christopher Jackson, Alexandra L. J. Freeman, Zśofia Szlamka, David Spiegelhalter
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0243336

Bioinformatic analysis linking genomic defects to chemosensitivity and mechanism of action
Cited by: 0
Author(s): David G. Covell
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pcbi.1009304

ZWA: Viral genome assembly and characterization hindrances from virus-host chimeric reads; a refining approach
Cited by: 1
Author(s): Nikolas Dovrolis, Katerina Kassela, Konstantinos Konstantinidis, Adamantia Kouvela, Stavroula Veletza, Ioannis Karakasiliotis
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pmed.1003100

Metabolic risk factors and incident advanced liver disease in non-alcoholic fatty liver disease (NAFLD): A systematic review and meta-analysis of population-based observational studies
Cited by: 177
Author(s): Helen Jarvis, Dawn Craig, Robert Barker, Gemma Spiers, Daniel Stow, Quentin M. Anstee, Barbara Hanratty
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pcbi.1008732

Positive interactions within and between populations decrease the likelihood of evolutionary rescue
Cited by: 4
Author(s): Yaron Goldberg, Jonathan Friedman
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pcbi.1007853

Tracheal branching in ants is area-decreasing, violating a central assumption of network transport models
Cited by: 10
Author(s): Ian J. Aitkenhead, Grant A. Duffy, Citsabehsan Devendran, Michael R. Kearney, Adrian Neild, Steven Loudon Chown
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0258019

Wave-wise comparative genomic study for revealing the complete scenario and dynamic nature of COVID-19 pandemic in Bangladesh
Cited by: 12
Author(s): Ishtiaque Ahammad, Mohammad Uzzal Hossain, Ashikur Rahman, Zeshan Mahmud Chowdhury, Arittra Bhattacharjee, Keshob Chandra Das, Chaman Ara Keya, Md. Salimullah
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pmed.1003778

Effectiveness and costs associated with a lay counselor–delivered, brief problem-solving mental health intervention for adolescents in urban, low-income schools in India: 12-month outcomes of a randomized controlled trial
Cited by: 11
Author(s): Kanika Malik, Daniel Michelson, Aoife Doyle, Helen A. Weiss, Giulia Greco, Rooplata Sahu, Eric James, Sonal Mathur, Paulomi M. Sudhir, Michael King, Pim Cuijpers, Bruce F. Chorpita, Christopher G. Fairburn, Vikram Patel
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pcbi.1008864

Using the antibody-antigen binding interface to train image-based deep neural networks for antibody-epitope classification
Cited by: 17
Author(s): Daniel R. Ripoll, Sidhartha Chaudhury, Anders Wallqvist
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pcbi.1008573

Coincident glutamatergic depolarizations enhance GABAA receptor-dependent Cl- influx in mature and suppress Cl- efflux in immature neurons
Cited by: 12
Author(s): Aniello Lombardi, Paul Jedlicka, Heiko J. Luhmann, Werner Kilb
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0230866

A relationship between Autism-Spectrum Quotient and face viewing behavior in 98 participants
Cited by: 4
Author(s): Kira Wegner-Clemens, Johannes Rennig, Michael S. Beauchamp
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0237304

A fractal kinetics SI model can explain the dynamics of COVID-19 epidemics
Cited by: 13
Author(s): Kosmas Kosmidis, Panos Macheras
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pone.0245465

Factors that determine dependence in daily activities: A cross-sectional study of family practice non-attenders from Slovenia
Cited by: 3
Author(s): Antonija Poplas Susič, Zalika Klemenc–Ketiš, Rok Blagus, Nina Ružić Gorenjec
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0252796

Suicide on YouTube:Factors engaging viewers to a selection of suicide-themed videos
Cited by: 2
Author(s): Eun Ji Jung, Seongcheol Kim
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0245252

Breast self-examination practice and its determinants among women in Ethiopia: A systematic review and meta-analysis
Cited by: 14
Author(s): Yordanos Gizachew Yeshitila, Getachew Mullu Kassa, Selamawit Gebeyehu, Peter Memiah, Melaku Desta
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pcbi.1007643

Heterogeneity coordinates bacterial multi-gene expression in single cells
Cited by: 13
Author(s): Yichao Han, Fuzhong Zhang
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0250518

LPCAT1-TERT fusions are uniquely recurrent in epithelioid trophoblastic tumors and positively regulate cell growth
Cited by: 4
Author(s): Gavin R. Oliver, Sofia Marcano-Bonilla, Jonathan Quist, Ezequiel J. Tolosa, Eriko Iguchi, Amy A. Swanson, Nicole L. Hoppman, Tanya L. Schwab, Ashley N. Sigafoos, Naresh Prodduturi, Jesse S. Voss, Shannon M. Knight, Jin Zhang, Numrah Fadra, Raúl Urrutia, Michael A. Zimmerman, Jan B. Egan, Anthony G. Bilyeu, Jin Jen, Ema Veras, Remaa Al-Safi, Matthew S. Block, Sarah Kerr, Martín E. Fernández-Zapico, John K. Schoolmeester, Eric W. Klee
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0248054

Revealing the high variability on nonconserved core and mobile elements of Austropuccinia psidii and other rust mitochondrial genomes
Cited by: 5
Author(s): Jaqueline Raquel de Almeida, Diego Mauricio Riaño-Pachón, Lívia Maria Franceschini, Isaneli Batista dos Santos, Jessica Aparecida Ferrarezi, Pedro Avelino Maia de Andrade, Cláudia Barros Monteiro-Vitorello, Carlos Alberto Labate, Maria Carolina Quecine
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pcbi.1008391

Using B cell receptor lineage structures to predict affinity
Cited by: 11
Author(s): D. Ralph, F. A. Matsen
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pone.0256133

Can Menzerath’s law be a criterion of complexity in communication?
Cited by: 6
Author(s): Iván G. Torre, Łukasz Dębowski, Antoni Hernández-Fernández
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0225762

Systematic review and meta-analysis comparing Adjustable Transobturator Male System (ATOMS) and Adjustable Continence Therapy (ProACT) for male stress incontinence
Cited by: 19
Author(s): Javier C. Angulo, Sandra Schönburg, Alessandro Giammò, Francisco J. Abellán, I. Arance, David Lora
Software Mentions: 3
Published: almost 7 years ago

10.1371/journal.pcbi.1008380

On the inference of complex phylogenetic networks by Markov Chain Monte-Carlo
Cited by: 10
Author(s): Charles-Elie Rabier, Vincent Berry, Marnus Stoltz, João dos Santos, Wensheng Wang, Jean-Christophe Glaszmann, Fabio Pardi, Céline Scornavacca
Software Mentions: 3
Published: about 5 years ago