10.1371/journal.pone.0252233

A novel method of screening combinations of angiostatics identifies bevacizumab and temsirolimus as synergistic inhibitors of glioma-induced angiogenesis
Cited by: 3
Author(s): Michael I. Dorrell, Heidi R. Kast-Woelbern, Ryan T. Botts, Stephen Bravo, Jacob R. Tremblay, Sarah Giles, Jessica F. Wada, MaryAnn Alexander, Eric Alejandro García, Gabriel Villegas, Caylor B. Booth, Kaitlyn J. Purington, Haylie M. Everett, Erik N. Siles, Michael Wheelock, Jordan A. Silva, Bridget M. Fortin, Connor A. Lowey, Allison L. Hale, Troy L. Kurz, Jack C. Rusing, Dawn M. Goral, Paul Thompson, Alec M. Johnson, Daniel J. Elson, Roujih Tadros, Charisa E. Gillette, Carley Coopwood, Amy L. Rausch, Jeffrey M. Snowbarger
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pone.0249944

Comprehensive profiling of the gut microbiota in patients with chronic obstructive pulmonary disease of varying severity
Cited by: 16
Author(s): Yu-Chi Chiu, Shih‐Wei Lee, Chen‐Wuing Liu, Rebecca Chou-Jui Lin, Yung‐Chia Huang, Tsuo-Hung Lan, Lawrence Shih Hsin Wu
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pone.0243916

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

10.1371/journal.pone.0246172

Blue-wavelength light therapy for post-traumatic brain injury sleepiness, sleep disturbance, depression, and fatigue: A systematic review and network meta-analysis
Cited by: 14
Author(s): Karan Srisurapanont, Yanisa Samakarn, Boonyasit Kamklong, Phichayakan Siratrairat, Arina Bumiputra, Montita Jaikwang, Manit Srisurapanont
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pone.0244175

Rapid detection of fast innovation under the pressure of COVID-19
Cited by: 11
Author(s): Nicola Melluso, Andrea Bonaccorsi, Filippo Chiarello, Gualtiero Fantoni
Software Mentions: 6
Published: almost 5 years ago

10.1371/journal.pone.0236732

Determining mean and standard deviation of the strong gravity prior through simulations
Cited by: 3
Author(s): Björn Jörges, Joan López‐Moliner
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pone.0240995

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

10.1371/journal.pone.0245157

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

10.1371/journal.pone.0254829

Tumor infiltrating lymphocytes associated competitive endogenous RNA networks as predictors of outcome in hepatic carcinoma based on WGCNA analysis
Cited by: 1
Author(s): Ying He, Xu Rui, Li Peng, Xiaoyu Hu
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pone.0236186

Gene co-expression network analysis to identify critical modules and candidate genes of drought-resistance in wheat
Cited by: 16
Author(s): Liangjie Lv, Wenying Zhang, Lijing Sun, Aiju Zhao, Yingjun Zhang, Limei Wang, Yuping Liu, Ziqian Li, Xiyong Chen
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pntd.0008179

Predicting disease risk areas through co-production of spatial models: The example of Kyasanur Forest Disease in India’s forest landscapes
Cited by: 26
Author(s): Bethan V. Purse, Narayanaswamy Darshan, Gudadappa S. Kasabi, F. Gerard, Abhishek Samrat, Charles George, Abi Tamim Vanak, Meera Anna Oommen, Mujeeb Rahman, Sarah J. Burthe, Juliette Young, Prashanth Nuggehalli Srinivas, Stefanie Schäfer, Peter A. Henrys, Vijay K. Sandhya, Mohammed Mudassar Chanda, Manoj Murhekar, S.L. Hoti, Shivani K. Kiran
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pmed.1002984

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

10.1371/journal.pone.0219807

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

10.1371/journal.pone.0244877

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

10.1186/s13717-020-00255-4

Current and near-term advances in Earth observation for ecological applications
Cited by: 75
Author(s): Susan L. Ustin, Elizabeth M. Middleton
Software Mentions: 6
Published: almost 5 years ago

10.1371/journal.pone.0251385

Improving the diagnostic recognition of thoracic endometriosis: Spotlight on a new histo-morphological indicator
Cited by: 1
Author(s): Okechukwu Charles Okafor, N Ezemba, Nnaemeka Thaddeus Onyishi, Kevin Nwabueze Ezike
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pmed.1003084

Quantification of glucose-6-phosphate dehydrogenase activity by spectrophotometry: A systematic review and meta-analysis
Cited by: 29
Author(s): Daniel Pfeffer, Benedikt Ley, Rosalind E. Howes, Patrick Adu, Mohammad Shafiul Alam, Pooja Bansil, Yap Boum, Marcelo Augusto Mota Brito, Pimlak Charoenkwan, Archie Clements, Liwang Cui, Zeshuai Deng, OJ Egesie, Fe Esperanza Espino, Michael E. von Fricken, Muzamil Mahdi Abdel Hamid, Yongshu He, Gisela Henriques, Wasif Ali Khan, Nimol Khim, Saorin Kim, Marcus Lacerda, Chanthap Lon, Asrat Hailu Mekuria, Didier Ménard, Wuelton Marcelo Monteiro, François Nosten, Nwe Nwe Oo, Sampa Pal, Duangdao Palasuwan, Sunil Parikh, Ayodhia Pitaloka Pasaribu, Jeanne Rini Poespoprodjo, David J. Price, Arantxa Roca-Feltrer, Michelle E. Roh, David Saunders, Michele Spring, Inge Sutanto, Kamala Ley-Thriemer, Thomas A. Weppelmann, Lorenz von Seidlein, Ari Winasti Satyagraha, Germana Bancone, Gonzalo J. Domingo, Ric Price
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0250282

Understanding interactions between risk factors, and assessing the utility of the additive and multiplicative models through simulations
Cited by: 5
Author(s): Lina-Marcela Diaz-Gallo, Boel Brynedal, Helga Westerlind, Rickard Sandberg, Daniel Ramsköld
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pgen.1009353

Fitness landscape of a dynamic RNA structure
Cited by: 5
Author(s): Valerie W. C. Soo, Jacob B. Swadling, Aline Faure, Tobias Warnecke
Software Mentions: 6
Published: almost 5 years ago

10.1371/journal.pgen.1008531

ELF5 modulates the estrogen receptor cistrome in breast cancer
Cited by: 16
Author(s): Catherine Piggin, Daniel Roden, Andrew M. K. Law, Mark P. Molloy, Christoph Krisp, Alexander Swarbrick, Matthew J. Naylor, Maria Kalyuga, Warren Kaplan, Samantha Oakes, David Gallego‐Ortega, Susan J. Clark, Jason S. Carroll, Nenad Bartoniček, Christopher J. Ormandy
Software Mentions: 6
Published: almost 6 years ago

10.1371/journal.pgen.1009801

Tramtrack acts during late pupal development to direct ant caste identity
Cited by: 6
Author(s): Karl M. Glastad, Linyang Ju, Shelley L. Berger
Software Mentions: 6
Published: about 4 years ago

10.1371/journal.pntd.0009776

The association between tropical cyclones and dengue fever in the Pearl River Delta, China during 2013-2018: A time-stratified case-crossover study
Cited by: 7
Author(s): Chuanxi Li, Qi Zhao, Zhe Zhao, Qiyong Liu, Wei Ma
Software Mentions: 6
Published: about 4 years ago

10.1371/journal.pone.0236878

Modeling cannabinoids from a large-scale sample of Cannabis sativa chemotypes
Cited by: 12
Author(s): Daniela Vergara, Reggie Gaudino, Thomas Blank, Brian Keegan
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pone.0248756

Veteran trees have divergent effects on beetle diversity and wood decomposition
Cited by: 2
Author(s): Ross Wetherbee, Tone Birkemoe, Ryan C. Burner, Anne Sverdrup‐Thygeson
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pone.0224366

Horizontal seed dispersal by dung beetles reduced seed and seedling clumping, but did not increase short-term seedling establishment
Cited by: 12
Author(s): Lina Adonay Urrea‐Galeano, Ellen Andresen, Rosamond Coates, Francisco Mora Ardila, Alfonso Díaz Rojas, Gabriel Ramos‐Fernández
Software Mentions: 6
Published: about 6 years ago

10.1371/journal.pone.0254366

A clinical prediction model to identify children at risk for revisits with serious illness to the emergency department: A prospective multicentre observational study
Cited by: 5
Author(s): Ruud Nijman, Dorine H. Borensztajn, Joany M Zachariasse, Carine Hajema, Paulo Freitas, Susanne Greber‐Platzer, Frank J Smit, Claudio F. Alves, Johan van der Lei, Ewout W. Steyerberg, Ian Maconochie, Henriëtte A. Moll
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pone.0246464

Is it feasible to detect FLOSS version release events from textual messages? A case study on Stack Overflow
Cited by: 0
Author(s): Artur Sokolovsky, Thomas Groß, Jaume Bacardit
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pone.0235294

Comparative RNA-Seq analyses of Drosophila plasmatocytes reveal gene specific signatures in response to clean injury and septic injury
Cited by: 22
Author(s): Elodie Ramond, Jan Paul Dudzic, Bruno Lemaître
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.ppat.1008408

Integrating GWAS with bulk and single-cell RNA-sequencing reveals a role for LY86 in the anti-Candida host response
Cited by: 16
Author(s): Dylan de Vries, Vasiliki Matzaraki, Olivier B. Bakker, Harm Brugge, Harm-Jan Westra, Mihai G. Netea, Lude Franke, Vinod Kumar, Monique G. P. van der Wijst
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pgen.1009591

RDC complex executes a dynamic piRNA program during Drosophila spermatogenesis to safeguard male fertility
Cited by: 17
Author(s): Peiwei Chen, Yicheng Luo, Alexei A. Aravin
Software Mentions: 6
Published: about 4 years ago

10.1371/journal.pgen.1008864

­­­­­­Widespread conservation and lineage-specific diversification of genome-wide DNA methylation patterns across arthropods
Cited by: 52
Author(s): Samuel H. Lewis, Laura Ross, Stevie A. Bain, Eleni Pahita, Stephen A. Smith, Richard Cordaux, Eric A. Miska, Boris Lenhard, Francis M. Jiggins, Peter Sarkies
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pntd.0009633

Identification of potential biomarkers in dengue via integrated bioinformatic analysis
Cited by: 5
Author(s): Lisha Xie, Xin Yin, Jie Bi, Hongyu Luo, Xun‐Jie Cao, Yu-Wen Ma, Ye-Ling Liu, Jianwen Su, Geng-Ling Lin, Xu‐Guang Guo
Software Mentions: 6
Published: about 4 years ago

10.1371/journal.pone.0251354

Altering mammalian transcription networking with ADAADi: An inhibitor of ATP-dependent chromatin remodeling
Cited by: 3
Author(s): Ramalingam Radhakrishnan, Upasana Bedi Chanana, Saddam Hussain, Soni Sharma, Kaveri Goel, Deepa Bisht, Ketki Patne, Pynskhem Bok Swer, Joel W. Hockensmith, Rohini Muthuswami
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pgen.1008546

Chromatin accessibility established by Pou5f3, Sox19b and Nanog primes genes for activity during zebrafish genome activation
Cited by: 53
Author(s): Máté Pálfy, G Schulze, Eivind Valen, Nadine L. Vastenhouw
Software Mentions: 6
Published: almost 6 years ago

10.1371/journal.pone.0243694

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

10.1371/journal.pone.0229001

Repeated sleep disruption in mice leads to persistent shifts in the fecal microbiome and metabolome
Cited by: 45
Author(s): Samuel J. Bowers, Fernando Vargas, Antonio González, Shannon He, Peng Jiang, Pieter C. Dorrestein, Rob Knight, Kenneth P. Wright, Christopher A. Lowry, Monika Fleshner, Martha Hotz Vitaterna, Fred W. Turek
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0249832

Non-small cell lung cancer microbiota characterization: Prevalence of enteric and potentially pathogenic bacteria in cancer tissues
Cited by: 14
Author(s): Nathan Dumont-Leblond, Marc Veillette, Christine Racine, Philippe Joubert, Caroline Duchaine
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pgen.1009398

MOSTWAS: Multi-Omic Strategies for Transcriptome-Wide Association Studies
Cited by: 37
Author(s): Arjun Bhattacharya, Yun Li, Michael I. Love
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pmed.1003795

Differences in outcomes of mandatory motorcycle helmet legislation by country income level: A systematic review and meta-analysis
Cited by: 9
Author(s): Jacob Lepard, Riccardo Spagiari, Jacquelyn Corley, Ernest J. Barthélemy, Eliana Kim, Rolvix H. Patterson, Sara Venturini, Megan Still, Yu Tung Lo, Gail Rosseau, Rania A. Mekary, Kee B. Park
Software Mentions: 6
Published: about 4 years ago

10.1371/journal.pone.0238396

Comparison between flaming, mowing and tillage weed control in the vineyard: Effects on plant community, diversity and abundance
Cited by: 22
Author(s): Matia Mainardis, Francesco Boscutti, Maria del Mar Rubio Cebolla, Gianfranco Pergher
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pone.0237881

Identification of key odorants in honeysuckle by headspace-solid phase microextraction and solvent-assisted flavour evaporation with gas chromatography-mass spectrometry and gas chromatograph-olfactometry in combination with chemometrics
Cited by: 6
Author(s): Keran Su, Xin Zhang, Shao-Quan Liu, LiHui Jia, Benjamin Lassabliere, Kim Huey Ee, Aileen Pua, Rui Min Vivian Goh, Jingcan Sun, Bin Yu, XiaoXue Hu
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pone.0243746

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

10.1371/journal.pone.0239122

DArTSeq SNP-based markers revealed high genetic diversity and structured population in Ethiopian cowpea [Vigna unguiculata (L.) Walp] germplasms
Cited by: 26
Author(s): Selamawit Ketema, Bizuayehu Tesfaye, Gemechu Keneni, Berhanu Amsalu Fenta, Ermias Assefa, Nicolas Greliche, Eunice Machuka, Nasser Yao
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pone.0234805

Erythrocyte sedimentation rate and hemoglobin-binding protein in free-living box turtles (Terrapene spp.)
Cited by: 6
Author(s): Laura Adamovicz, Sarah J. Baker, Ethan J. Kessler, Marta Kelly, Samantha Johnson, Janet Winter, Christopher A. Phillips, Matthew C. Allender
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0239518

Peer review and preprint policies are unclear at most major journals
Cited by: 26
Author(s): Thomas Klebel, Stefan Reichmann, Jessica Polka, Gary S. McDowell, Naomi Penfold, Samantha Hindle, Tony Ross-Hellauer
Software Mentions: 6
Published: about 5 years ago

10.1371/journal.pgen.1008804

Activation of cryptic splicing in bovine WDR19 is associated with reduced semen quality and male fertility
Cited by: 24
Author(s): Maya Hiltpold, Guanglin Niu, Naveen Kumar Kadri, Danang Crysnanto, Zih-Hua Fang, Mirjam Spengeler, F. Schmitz‐Hsu, Christian Fuerst, Hermann Schwarzenbacher, Franz R. Seefried, Frauke Seehusen, Ulrich Witschi, Angelika Schnieke, R. Fries, Heinrich Bollwein, Krzysztof Flisikowski, Hubert Pausch
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0246695

Analysis of lung transcriptome in calves infected with Bovine Respiratory Syncytial Virus and treated with antiviral and/or cyclooxygenase inhibitor
Cited by: 5
Author(s): Maxim Lebedev, Heather McEligot, Victoria Mutua, Paul Walsh, Francisco R. Carvallo Chaigneau, Laurel J. Gershwin
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pone.0248560

Interpreting blood GLUcose data with R package iglu
Cited by: 25
Author(s): Steven Broll, Jacek Urbanek, D. S. Buchanan, Elizabeth Chun, John Muschelli, Naresh M. Punjabi, Irina Gaynanova
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pone.0246663

An open-sourced, web-based application to analyze weekly excess mortality based on the Short-term Mortality Fluctuations data series
Cited by: 38
Author(s): László Németh, Dmitri A. Jdanov, Vladimir M. Shkolnikov
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pone.0239541

Genetic structure of a germplasm for hybrid breeding in rye (Secale cereale L.)
Cited by: 14
Author(s): Nikolaj Vendelbo, Pernille Sarup, Jihad Orabi, Peter Skov Kristensen, A. Jahoor
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0256902

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

10.1371/journal.pone.0233731

Eyebrow position in grammatical and emotional expressions in Kazakh-Russian Sign Language: A quantitative study
Cited by: 8
Author(s): Vadim Kimmelman, Alfarabi Imashev, Medet Mukushev, Anara Sandygulova
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pntd.0009504

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

10.1371/journal.pntd.0009306

The transcriptional landscape of Venezuelan equine encephalitis virus (TC-83) infection
Cited by: 4
Author(s): Zhiyuan Yao, Fabio Zanini, Sathish Kumar, Marwah Karim, Sirle Saul, Nishank Bhalla, Nuttada Panpradist, Avery Muniz, Aarthi Narayanan, Stephen R. Quake, Shirit Einav
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0255477

Changes and prognostic value of cardiopulmonary exercise testing parameters in elderly patients undergoing cardiac rehabilitation: The EU-CaRE observational study
Cited by: 2
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: 5
Published: about 4 years ago

10.1371/journal.pone.0244377

A methodology and theoretical taxonomy for centrality measures: What are the best centrality indicators for student networks?
Cited by: 7
Author(s): Kristel Vignery, Wim Laurier
Software Mentions: 5
Published: almost 5 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: almost 5 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 4 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 5 years ago

10.1371/journal.pone.0220165

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

10.1371/journal.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: over 5 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: over 4 years ago

10.1371/journal.pone.0247037

A new perspective and assessment measure for common dissociative experiences: ‘Felt Sense of Anomaly’
Cited by: 10
Author(s): Emma Černis, Esther T. Beierl, Andrew Molodynski, Anke Ehlers, Daniel Freeman
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0243310

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

10.1371/journal.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 5 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: 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: about 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 5 years ago

10.1371/journal.pone.0249633

Climatic change and extinction risk of two globally threatened Ethiopian endemic bird species
Cited by: 13
Author(s): Andrew J. Bladon, Paul F. Donald, Nigel Collar, Jarso Denge, Galgalo Dadacha, Mengistu Wondafrash, Rhys E. Green
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pntd.0009165

Heterogeneity in response to serological exposure markers of recent Plasmodium vivax infections in contrasting epidemiological contexts
Cited by: 14
Author(s): Jason Rosado, Michael White, Rhea J. Longley, Marcus Vinícius Guimarães Lacerda, Wuelton Marcelo Monteiro, Jessica Brewster, Jetsumon Sattabongkot, Mitchel Guzmán-Guzmán, Alejandro Llanos-Cuentas, Joseph M. Vinetz, Dionicia Gamboa, Ivo Müeller
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0222737

Annual replication is essential in evaluating the response of the soil microbiome to the genetic modification of maize in different biogeographical regions
Cited by: 6
Author(s): Márton Szoboszlay, Astrid Näther, Ewen Mullins, Christoph C. Tebbe
Software Mentions: 5
Published: almost 6 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: over 5 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 4 years ago

10.1371/journal.pone.0257343

Analysis of potential genetic biomarkers and molecular mechanism of smoking-related postmenopausal osteoporosis using weighted gene co-expression network analysis and machine learning
Cited by: 7
Author(s): Shaoshuo Li, Baixing Chen, Hao Chen, Zhen Hua, Yang Shao, Heng Yin, Jianwei Wang
Software Mentions: 5
Published: about 4 years ago

10.1371/journal.pone.0244363

Backbone: An R package for extracting the backbone of bipartite projections
Cited by: 20
Author(s): Rachel Domagalski, Zachary P. Neal, Bruce E. Sagan
Software Mentions: 5
Published: almost 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: about 5 years ago

10.1371/journal.pone.0226435

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

10.1371/journal.pone.0252036

Age-related changes in diffuse optical tomography sensitivity profiles in infancy
Cited by: 5
Author(s): Xiaoxue Fu, John E. Richards
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0238972

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

10.1371/journal.pone.0230571

Using medical claims database to develop a population disease progression model for leuprorelin-treated subjects with hormone-sensitive prostate cancer
Cited by: 1
Author(s): Yixuan Zou, Fei Tang, Jeffery Talbert, Chee M. Ng
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0253656

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

10.1371/journal.pone.0230492

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

10.1371/journal.pone.0243857

Network preservation reveals shared and unique biological processes associated with chronic alcohol abuse in NAc and PFC
Cited by: 7
Author(s): Eric Vornholt, John W. Drake, Mohammed Mamdani, Gowon O. McMichael, Zachary N. Taylor, Silviu‐Alin Bacanu, Michael F. Miles, Vladimir I. Vladimirov
Software Mentions: 5
Published: almost 5 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: about 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 5 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: over 5 years ago

10.1371/journal.pone.0250831

Environmentally triggered shifts in steelhead migration behavior and consequences for survival in the mid-Columbia River
Cited by: 5
Author(s): Jared E. Siegel, Lisa G. Crozier, Lauren E. Wiesebron, Daniel L. Widener
Software Mentions: 5
Published: over 4 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 6 years ago

10.1371/journal.pone.0245824

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

10.1371/journal.pmed.1003076

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

10.1371/journal.pone.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 5 years ago

10.1371/journal.pone.0232963

Identifying the key regulators that promote cell-cycle activity in the hearts of early neonatal pigs after myocardial injury
Cited by: 11
Author(s): Eric Zhang, Thanh Nguyen, Meng Zhao, Son Do Hai Dang, Jake Y. Chen, Weihua Bian, Gregory P. Walcott
Software Mentions: 5
Published: over 5 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 4 years ago

10.1371/journal.pone.0230594

A Zipf-plot based normalization method for high-throughput RNA-seq data
Cited by: 6
Author(s): Bin Wang
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0238689

Assessment of transcriptomic constraint-based methods for central carbon flux inference
Cited by: 3
Author(s): Siddharth Bhadra-Lobo, Min Kyung Kim, Desmond S. Lun
Software Mentions: 5
Published: about 5 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: almost 6 years ago

10.1371/journal.pone.0238304

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

10.1371/journal.pone.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 5 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 4 years ago

10.1371/journal.pone.0239486

BioPETsurv: Methodology and open source software to evaluate biomarkers for prognostic enrichment of time-to-event clinical trials
Cited by: 3
Author(s): Siyuan Cheng, Kathleen F. Kerr, Heather Thiessen-Philbrook, Steven G. Coca, Chirag R. Parikh
Software Mentions: 5
Published: about 5 years ago