10.7554/eLife.24836

Minimal-assumption inference from population-genomic data
Cited by: 21
Author(s): Daniel B. Weissman, Oskar Hallatschek
Software Mentions: 4
Published: about 9 years ago

10.1002/bimj.202000112

Nowcasting the COVID‐19 pandemic in Bavaria
Cited by: 54
Author(s): Felix Günther, Andreas Bender, Katharina Katz, Helmut Küchenhoff, Michael Höhle
Software Mentions: 4
Published: over 5 years ago

10.1186/s13030-020-00199-3

Association between polypharmacy and the persistence of delirium: a retrospective cohort study
Cited by: 6
Author(s): Ken Kurisu, Daisuke Miyabe, Yoshiko Furukawa, Osamu Shibayama, Kazuhiro Yoshiuchi
Software Mentions: 4
Published: almost 6 years ago

10.1186/s13059-017-1290-3

A tandem simulation framework for predicting mapping quality
Cited by: 14
Author(s): Ben Langmead
Software Mentions: 4
Published: almost 9 years ago

10.34133/2019/2591849

Easy MPE: Extraction of Quality Microplot Images for UAV-Based High-Throughput Field Phenotyping
Cited by: 24
Author(s): Léa Tresch, Yun Mu, Atsushi Itoh, Akito Kaga, Kazunori Taguchi, Masayuki Hirafuji, S. Ninomiya, Wei Guo
Software Mentions: 4
Published: over 7 years ago

10.1111/acel.13443

The antagonistic pleiotropy of insulin‐like growth factor 1
Cited by: 22
Author(s): William B. Zhang, Kenny Ye, Nir Barzilai, Sofiya Milman
Software Mentions: 4
Published: almost 5 years ago

10.3390/jcm10173943

Targeted Temperature Management after Cardiac Arrest: A Systematic Review and Meta-Analysis with Trial Sequential Analysis
Cited by: 14
Author(s): Filippo Sanfilippo, Luigi La Via, Bruno Lanzafame, Veronica Dezio, Diana Busalacchi, Antonio Messina, Giuseppe Ristagno, Paolo Pelosi, Marinella Astuto
Software Mentions: 4
Published: almost 5 years ago

10.3389/fninf.2014.00015

Data management routines for reproducible research using the G-Node Python Client library
Cited by: 12
Author(s): Andrey Sobolev, Stoewer Adrian, Michael A. Pereira, Christian Johannes Kellner, Christian Garbers, Philipp L. Rautenberg, Thomas Wachtler
Software Mentions: 4
Published: over 12 years ago

10.1534/g3.120.401824

A Novel Mapping Strategy Utilizing Mouse Chromosome Substitution Strains Identifies Multiple Epistatic Interactions That Regulate Complex Traits
Cited by: 3
Author(s): Anna Miller, Anlu Chen, Jacquelaine Bartlett, Li Wang, Scott M. Williams, David A. Buchner
Software Mentions: 4
Published: over 5 years ago

10.1186/s12911-019-0750-y

A visual interactive analytic tool for filtering and summarizing large health data sets coded with hierarchical terminologies (VIADS)
Cited by: 8
Author(s): Xia Jing, Matthew Emerson, David Masters, Matthew L. Brooks, Jacob Buskirk, Nasseef Abukamail, Chang Liu, James J. Cimino, Jay H. Shubrook, Sonsoles de Lacalle, Yuchun Zhou, Vimla L. Patel
Software Mentions: 4
Published: over 7 years ago

10.1136/ard.2008.096172

Is the blood B-cell subset profile diagnostic for Sjögren syndrome?
Cited by: 72
Author(s): Aymeric Binard, Laëtitia Le Pottier, Valérie Devauchelle‐Pensec, Alain Saraux, Pierre Youinou, Jacques‐Olivier Pers
Software Mentions: 4
Published: almost 18 years ago

10.2196/12443

Identifying Key Target Audiences for Public Health Campaigns: Leveraging Machine Learning in the Case of Hookah Tobacco Smoking
Cited by: 14
Author(s): Kar-Hai Chu, Jason B. Colditz, Momin M. Malik, Tabitha Yates, Brian A. Primack
Software Mentions: 4
Published: about 7 years ago

10.1371/journal.pgen.1002984

The Paramecium Germline Genome Provides a Niche for Intragenic Parasitic DNA: Evolutionary Dynamics of Internal Eliminated Sequences
Cited by: 142
Author(s): Olivier Arnaiz, Nathalie Mathy, Céline Baudry, Sophie Malinsky, Jean‐Marc Aury, Cyril Denby Wilkes, Olivier Garnier, Karine Labadie, Benjamin E. Lauderdale, Anne Le Mouël, Antoine Marmignon, Mariusz Nowacki, Julie Poulain, M Prajer, Patrick Wincker, Éric Meyer, Sandra Duharcourt, Laurent Duret, Mireille Bétermier, Linda Sperling
Software Mentions: 4
Published: almost 14 years ago

10.1038/pcan.2016.23

PSA nadir as a predictive factor for biochemical disease-free survival and overall survival following whole-gland salvage HIFU following radiotherapy failure
Cited by: 15
Author(s): Taimur T. Shah, Max Peters, Abi Kanthabalan, Neil McCartan, Y Fatola, J. van der Voort van Zyp, Marco van Vulpen, Alex Freeman, Caroline M. Moore, Manit Arya, Mark Emberton, Hashim U. Ahmed
Software Mentions: 4
Published: about 10 years ago

10.1107/S1600576719012044

<i>DatView</i>: a graphical user interface for visualizing and querying large data sets in serial femtosecond crystallography
Cited by: 1
Author(s): Natasha Stander, Petra Fromme, Nadia A. Zatsepin
Software Mentions: 4
Published: over 6 years ago

10.1038/s41598-019-39773-3

Environmental structure drives resistance to phages and antibiotics during phage therapy and to invading lysogens during colonisation
Cited by: 34
Author(s): Jorge Moura de Sousa, Eduardo P. C. Rocha
Software Mentions: 4
Published: over 7 years ago

10.1186/s12911-016-0306-3

Temporal bone radiology report classification using open source machine learning and natural langue processing libraries
Cited by: 15
Author(s): Aaron J. Masino, Robert W. Grundmeier, Jeffrey W. Pennington, John A. Germiller, E. Bryan Crenshaw
Software Mentions: 4
Published: about 10 years ago

10.1371/journal.pone.0178351

Integrating Tenascin-C protein expression and 1q25 copy number status in pediatric intracranial ependymoma prognostication: A new model for risk stratification
Cited by: 14
Author(s): Felipe Andreiuolo, Gwénaël Le Teuff, Mohamed Amine Bayar, John-Paul Kilday, Torsten Pietsch, André O. von Bueren, Hendrik Witt, Andrey Korshunov, Piergiorgio Modena, Stefan M. Pfister, Mélanie Pagès, David Castel, Felice Giangaspero, Leila Chimelli, Pascale Varlet, Stefan Rutkowski, Didier Frappaz, Maura Massimino, Richard G. Grundy, Jacques Grill, Adolescents
Software Mentions: 4
Published: about 9 years ago

10.1038/s41598-020-80534-4

Clinical characteristics and overall survival nomogram of second primary malignancies after prostate cancer, a SEER population-based study
Cited by: 10
Author(s): Yi Liu, Peipei Zhang, Yinghao Zhang, Lichuan Zheng, Wenbo Xu, Dongtao Hou, Zhengjun Kang
Software Mentions: 4
Published: over 5 years ago

10.1186/1755-8794-7-57

Identification of co-expression gene networks, regulatory genes and pathways for obesity based on adipose tissue RNA Sequencing in a porcine model
Cited by: 79
Author(s): Lisette J. A. Kogelman, Susanna Cirera, Daria V. Zhernakova, Merete Fredholm, Lude Franke, Haja N. Kadarmideen
Software Mentions: 4
Published: almost 12 years ago

10.3389/fpls.2019.01346

Seed Coat Pattern QTL and Development in Cowpea (Vigna unguiculata [L.] Walp.)
Cited by: 30
Author(s): Ira A. Herniter, Ryan Lo, María Muñoz‐Amatriaín, Sassoum Lo, Yi‐Ning Guo, Bao‐Lam Huynh, Mitchell R. Lucas, Zhenyu Jia, Philip A. Roberts, Stefano Lonardi, Timothy J. Close
Software Mentions: 4
Published: almost 7 years ago

10.3390/s21010010

MUP: Simplifying Secure Over-The-Air Update with MQTT for Constrained IoT Devices
Cited by: 4
Author(s): Kristina Sahlmann, Vera Clemens, Michael A. Nowak, Bettina Schnor
Software Mentions: 4
Published: over 5 years ago

10.1093/gigascience/giab042

Mantis: flexible and consensus-driven genome annotation
Cited by: 19
Author(s): Pedro Queirós, Francesco Delogu, Oskar Hickl, Patrick May, Paul Wilmes
Software Mentions: 4
Published: about 5 years ago

10.1186/1471-2105-11-598

Initial steps towards a production platform for DNA sequence analysis on the grid
Cited by: 8
Author(s): Angela C. M. Luyf, Barbera D.C. van Schaik, Michèl de Vries, Frank Baas, Antoine H. C. van Kampen, Sílvia D. Olabarriaga
Software Mentions: 4
Published: over 15 years ago

10.1042/BSR20210583

Identification and validation of <i>ADME</i> genes as prognosis and therapy markers for hepatocellular carcinoma patients
Cited by: 4
Author(s): Jukun Wang, Ke Han, Chao Zhang, Xin Chen, Li Yu, Linzhong Zhu, Tao Luo
Software Mentions: 4
Published: about 5 years ago

10.1186/s12893-020-00969-4

A novel nomogram for predicting liver metastasis in patients with gastrointestinal stromal tumor: a SEER-based study
Cited by: 8
Author(s): Guowei Zhou, Keshuai Xiao, Guanwen Gong, Jiabao Wu, Ya Zhang, Xinxin Liu, Zhiwei Jiang, Chaoqun Ma
Software Mentions: 4
Published: over 5 years ago

10.3389/fpls.2019.01188

Elucidation of Hosts, Native Distribution, and Habitat of the Coffee Berry Borer (Hypothenemus hampei) Using Herbaria and Other Museum Collections
Cited by: 5
Author(s): Fernando E. Vega, Lucy Toulmin Smith, Nina M. Davies, Justin Moat, Tomasz Góral, Robert O’Sullivan, Aaron P. Davis
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.pone.0215465

FDG PET based prediction of response in head and neck cancer treatment: Assessment of new quantitative imaging features
Cited by: 18
Author(s): Reinhard Beichel, Ethan Ulrich, Brian J. Smith, Christian Bauer, Bruce P. Brown, Thomas L. Casavant, John Sunderland, Michael M. Graham, John M. Buatti
Software Mentions: 4
Published: over 7 years ago

10.1186/s12885-020-07022-w

Meeting psychosocial needs to improve health: a prospective cohort study
Cited by: 0
Author(s): Austyn Snowden, Jenny Young, Jan Savinc
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pmed.1003731

Menopausal hormone therapy and women’s health: An umbrella review
Cited by: 63
Author(s): Guo Qiang Zhang, Jin Liang Chen, Ying Luo, Maya B. Mathur, Panagiotis Anagnostis, Ulugbek Nurmatov, Madar Talibov, Jing Zhang, Catherine M. Hawrylowicz, Mary Ann Lumsden, Hilary Critchley, Aziz Sheikh, Bo Lundbäck, Cecilia Lässer, Hannu Kankaanranta, Siew Hwa Lee, Bright I. Nwaru
Software Mentions: 4
Published: almost 5 years ago

10.1371/journal.pone.0247320

Effects of entrepreneurial orientation on social media adoption and SME performance: The moderating role of innovation capabilities
Cited by: 33
Author(s): Mingyue Fan, Sikandar Ali Qalati, Muhammad Aamir Shafique Khan, Syed Mir Muhammad Shah, Muhammad Ramzan, Raza Saleem Khan
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0159888

Prognostic Impact of Time to Ipsilateral Breast Tumor Recurrence after Breast Conserving Surgery
Cited by: 14
Author(s): Marie Gosset, Anne-Sophie Hamy, Peter Mallon, M Deloménie, D. Mouttet, Jean‐Yves Pierga, Marick Laé, A. Fourquet, Roman Rouzier, Fabien Reyal, Jean-Guillaume Féron
Software Mentions: 4
Published: almost 10 years ago

10.1128/mSystems.00299-20

Expanded Phylogenetic Diversity and Metabolic Flexibility of Mercury-Methylating Microorganisms
Cited by: 44
Author(s): Elizabeth A. McDaniel, Brittany F. Peterson, Sarah Stevens, Patricia Q. Tran, Karthik Anantharaman, Katherine D. McMahon
Software Mentions: 4
Published: almost 6 years ago

10.3390/s21186289

BA-MPCUBIC: Bottleneck-Aware Multipath CUBIC for Multipath-TCP
Cited by: 2
Author(s): Imtiaz Mahmud, Tabassum Lubna, Geon-Hwan Kim, You-Ze Cho
Software Mentions: 4
Published: almost 5 years ago

10.3389/fpsyg.2020.02154

HIIT the Road Jack: An Exploratory Study on the Effects of an Acute Bout of Cardiovascular High-Intensity Interval Training on Piano Learning
Cited by: 3
Author(s): Dana Swarbrick, Alex Kiss, Sandra E. Trehub, Luc Tremblay, David A. Alter, Joyce L. Chen
Software Mentions: 4
Published: almost 6 years ago

10.3390/s18124125

Model Driven Development Applied to Complex Event Processing for Near Real-Time Open Data
Cited by: 6
Author(s): Pedro J. Clemente, Adolfo Lozano-Tello
Software Mentions: 4
Published: over 7 years ago

10.3389/fonc.2021.630432

High Expression of microRNA-223 Indicates a Good Prognosis in Triple-Negative Breast Cancer
Cited by: 10
Author(s): Li Chen, Xiao Li Zhu, Bin Han, Lei Ji, Ling Yao, Zhonghua Wang
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0249143

Modeling transmission dynamics and effectiveness of worker screening programs for SARS-CoV-2 in pork processing plants
Cited by: 7
Author(s): Kimberly VanderWaal, Lora Black, Judy Hodge, Addisalem Bedada, Scott Dee
Software Mentions: 4
Published: almost 5 years ago

10.1038/s41597-019-0086-6

Posterior samples of the parameters of binary black holes from Advanced LIGO, Virgo’s second observing run
Cited by: 8
Author(s): S. De, C. Biwer, Collin D. Capano, A. Nitz, D. A. Brown
Software Mentions: 4
Published: about 7 years ago

10.1186/s13059-020-02000-8

Inference of single-cell phylogenies from lineage tracing data using Cassiopeia
Cited by: 54
Author(s): Matthew G. Jones, Alex Khodaverdian, Jeffrey J. Quinn, M.K. Chan, Jeffrey A. Hussmann, Robert Wang, Chenling Xu, Jonathan S. Weissman, Nir Yosef
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pcbi.1003829

eMatchSite: Sequence Order-Independent Structure Alignments of Ligand Binding Pockets in Protein Models
Cited by: 26
Author(s): Michał Bryliński
Software Mentions: 4
Published: almost 12 years ago

10.1534/g3.120.401550

Solyntus, the New Highly Contiguous Reference Genome for Potato (<i>Solanum tuberosum</i>)
Cited by: 34
Author(s): Natascha van Lieshout, Ate van der Burgt, Michiel E. de Vries, Menno ter Maat, David Eickholt, Danny Esselink, Martijn van Kaauwen, Linda Kodde, Richard G. F. Visser, P. Lindhout, Richard Finkers
Software Mentions: 4
Published: almost 6 years ago

10.3389/fmicb.2021.723350

Identification and Molecular Characterization of a Novel Hordeivirus Associated With Yellow Mosaic Disease of Privet (Ligustrum vulgare) in Europe
Cited by: 4
Author(s): Jean-Sébastien Reynard, Silvia Turco, Justine Brodard, Isabelle Kellenberger, François Maclot, Olivier Schumpp, P. Gugerli, Mikhail M. Pooggin
Software Mentions: 4
Published: almost 5 years ago

10.1128/AEM.02343-19

Reintroducing mothur: 10 Years Later
Cited by: 132
Author(s): Patrick D. Schloss
Software Mentions: 4
Published: over 6 years ago

10.7717/peerj.703

A statistical assessment of population trends for data deficient Mexican amphibians
Cited by: 8
Author(s): Esther Quintero, Anne E. Thessen, Paulina Arias-Caballero, Bárbara Ayala-Orozco
Software Mentions: 4
Published: over 11 years ago

10.1186/s12864-016-2896-7

Read-Split-Run: an improved bioinformatics pipeline for identification of genome-wide non-canonical spliced regions using RNA-Seq data
Cited by: 8
Author(s): Yongsheng Bai, Jeff Kinne, Brandon Donham, Feng Jiang, Lizhong Ding, Justin Hassler, Randal J. Kaufman
Software Mentions: 4
Published: almost 10 years ago

10.18632/oncotarget.24468

Artificial neural network approach to predict surgical site infection after free-flap reconstruction in patients receiving surgery for head and neck cancer
Cited by: 31
Author(s): Pao‐Jen Kuo, Shao-Chun Wu, Peng‐Chen Chien, Shu-Shya Chang, Cheng-Shyuan Rau, Hsueh-Ling Tai, Shu-Hui Peng, Yi-Chien Lin, Yi‐Chun Chen, Hsiao-Yun Hsieh, Ching‐Hua Hsieh
Software Mentions: 4
Published: over 8 years ago

10.1093/bioinformatics/bty347

Applying graph theory to protein structures: an Atlas of coiled coils
Cited by: 15
Author(s): Jack W. Heal, Gail J. Bartlett, Christopher W. Wood, Andrew Thomson, Derek N. Woolfson
Software Mentions: 4
Published: about 8 years ago

10.14283/jpad.2020.44

PREDICTING AMYLOID BURDEN TO ACCELERATE RECRUITMENT OF SECONDARY PREVENTION CLINICAL TRIALS
Cited by: 19
Author(s): Oliver Langford, Rema Raman, Reisa A. Sperling, Jeffrey L. Cummings, Chung-Kai Sun, Gustavo Jimenez‐Maggiora, Paul S. Aisen, Michael C. Donohue
Software Mentions: 4
Published: over 6 years ago

10.1093/bioinformatics/btx352

ISAMBARD: an open-source computational environment for biomolecular analysis, modelling and design
Cited by: 39
Author(s): Christopher W. Wood, Jack W. Heal, Andrew Thomson, Gail J. Bartlett, Amaurys Ávila Ibarra, R.L. Brady, Richard B. Sessions, Derek N. Woolfson
Software Mentions: 4
Published: about 9 years ago

10.1038/s41598-018-21917-6

Multimorbidity patterns in relation to polypharmacy and dosage frequency: a nationwide, cross-sectional study in a Japanese population
Cited by: 64
Author(s): Takuya Aoki, Yosuke Yamamoto, Tatsuyoshi Ikenoue, Yoshihiro Ônishi, Shunichi Fukuhara
Software Mentions: 4
Published: over 8 years ago

10.1128/mBio.00916-18

Novel Autotrophic Organisms Contribute Significantly to the Internal Carbon Cycling Potential of a Boreal Lake
Cited by: 13
Author(s): Sari Peura, Moritz Buck, Sanni L. Aalto, Sergio E. Morales, Hannu Nykänen, Alexander Eiler
Software Mentions: 4
Published: almost 8 years ago

10.3389/fmicb.2021.639913

Comparison of Microbial Communities in Colorado Potato Beetles (Leptinotarsa decemlineata Say) Collected From Different Sources in China
Cited by: 6
Author(s): Yanxue Yu, Yuhan Wang, Hongwei Li, Xiubo Yu, Wangpeng Shi, Junfeng Zhai
Software Mentions: 4
Published: over 5 years ago

10.3390/ijerph16193711

Calibration and Validation of the Youth Activity Profile as a Physical Activity and Sedentary Behaviour Surveillance Tool for English Youth
Cited by: 19
Author(s): Stuart J. Fairclough, Danielle Christian, Pedro F. Saint‐Maurice, Paul R. Hibbing, Robert J. Noonan, Greg Welk, Philip M. Dixon, Lynne M. Boddy
Software Mentions: 4
Published: almost 7 years ago

10.1007/s00294-020-01096-6

Comparing the utility of in vivo transposon mutagenesis approaches in yeast species to infer gene essentiality
Cited by: 11
Author(s): Anton Levitan, Andrew N. Gale, Emma Dallon, Darby W. Kozan, Kyle W. Cunningham, Roded Sharan, Judith Berman
Software Mentions: 4
Published: about 6 years ago

10.3389/fmicb.2014.00752

Seasonal dynamics of bacterial and archaeal methanogenic communities in flooded rice fields and effect of drainage
Cited by: 58
Author(s): Björn Breidenbach, Ralf Conrad
Software Mentions: 4
Published: over 11 years ago

10.1371/journal.pone.0245064

Racial and geographic variation in effects of maternal education and neighborhood-level measures of socioeconomic status on gestational age at birth: Findings from the ECHO cohorts
Cited by: 19
Author(s): Anne L. Dunlop, Alicynne Glazier Essalmi, Lyndsay Alvalos, Carrie V. Breton, Carlos A. Camargo, Whitney Cowell, Dana Dabelea, Stephen R. Dager, Cristiane S. Duarte, Amy J. Elliott, Raina N. Fichorova, James E. Gern, Monique M. Hedderson, Elizabeth Hom Thepaksorn, Kathi Huddleston, Margaret R. Karagas, Ken Kleinman, Leslie D. Leve, Ximin Li, Yijun Li, Augusto A. Litonjua, Yunin Ludena-Rodriguez, Juliette C. Madan, Julio Mateus Nino, Cynthia McEvoy, Thomas G. O’Connor, Amy Padula, Nigel Paneth, Frederica P. Perera, Sheela Sathyanarayana, Rebecca J. Schmidt, Robert T. Schultz, Jessica Snowden, Joseph B. Stanford, Leonardo Trasande, Heather E. Volk, William Wheaton, Rosalind J. Wright, Monica McGrath
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0244532

Mortality and other outcomes of patients with coronavirus disease pneumonia admitted to the emergency department: A prospective observational Brazilian study
Cited by: 19
Author(s): Rodrigo Antônio Brandão Neto, Júlio Flávio Meirelles Marchini, Lucas Oliveira Marino, Julio César García de Alencar, Felippe Lazar Neto, Sabrina Corrêa da Costa Ribeiro, Fernando Salvetti Valente, Hassan Rahhal, Luz Marina Gómez Gómez, Cauê Gasparotto Bueno, Carine C. Faria, Valdeci da Cunha, Eduardo Messias Hirano Padrão, Irineu Tadeu Velasco, Heraldo Possolo de Souza
Software Mentions: 4
Published: over 5 years ago

10.1186/1752-153X-2-5

Pybel: a Python wrapper for the OpenBabel cheminformatics toolkit
Cited by: 297
Author(s): Noel M. O’Boyle, Chris Morley, Geoffrey Hutchison
Software Mentions: 4
Published: over 18 years ago

10.1371/journal.pone.0245370

Determinants of the intensity of uremic pruritus in patients receiving maintenance hemodialysis: A cross-sectional study
Cited by: 11
Author(s): Jian-Hui Zhao, Qiqi Zhu, Yiwen Li, Lili Wang
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0235748

Predicting gene regulatory regions with a convolutional neural network for processing double-strand genome sequence information
Cited by: 8
Author(s): Koh Onimaru, Osamu Nishimura, Shigehiro Kuraku
Software Mentions: 4
Published: about 6 years ago

10.1038/s41598-019-44445-3

Epidemiologic evaluation of Nhanes for environmental Factors and periodontal disease
Cited by: 8
Author(s): Pinar Emecen‐Huja, H. F. Li, Jeffrey L. Ebersole, Joshua Lambert, Heather Bush
Software Mentions: 4
Published: about 7 years ago

10.1371/journal.pone.0211827

A new approach to measure the resistance of fabric to liquid and viral penetration
Cited by: 6
Author(s): Min Li, Jennifer L. Furlong, Patrick L. Yorio, Lee Portnoff
Software Mentions: 4
Published: over 7 years ago

10.1002/mbo3.967

Effect of <i>Streptomyces</i> probiotics on the gut microbiota of <i>Litopenaeus vannamei</i> challenged with <i>Vibrio parahaemolyticus</i>
Cited by: 21
Author(s): José Manuel Mazón‐Suástegui, Joan Salas‐Leiva, Ricardo Medina-Marrero, Ricardo Medina-García, Milagro García‐Bernal
Software Mentions: 4
Published: over 6 years ago

10.1093/database/baw063

PGD: a pangolin genome hub for the research community
Cited by: 4
Author(s): Tze King Tan, Ka Yun Tan, Riitta Hari, Aini Mohamed Yusoff, George T.F. Wong, Cheuk Chuen Siow, Naresh V.R. Mutha, Mikhail Rayko, Aleksey Komissarov, Pavel Dobrynin, Ksenia Krasheninnikova, Gaik Tamazian, Ian C. Paterson, Wesley C. Warren, Warren E. Johnson, Stephen J. O’Brien, Siew Woh Choo
Software Mentions: 4
Published: over 10 years ago

10.1038/s41598-020-64570-8

Structure and membership of gut microbial communities in multiple fish cryptic species under potential migratory effects
Cited by: 16
Author(s): My Hanh Le, Daryi Wang
Software Mentions: 4
Published: about 6 years ago

10.7554/eLife.62865

Developmental hourglass and heterochronic shifts in fin and limb development
Cited by: 7
Author(s): Koh Onimaru, Kaori Tatsumi, Chiharu Tanegashima, Mitsutaka Kadota, Osamu Nishimura, Shigehiro Kuraku
Software Mentions: 4
Published: over 5 years ago

10.1186/s12859-020-3427-8

Standard machine learning approaches outperform deep representation learning on phenotype prediction from transcriptomics data
Cited by: 33
Author(s): Aaron Smith, Jonathan R. Walsh, John M. Long, Craig B. Davis, Peter V. Henstock, Martin R. Hodge, Mateusz Maciejewski, Xinmeng Jasmine Mu, Stephen Ra, Shanrong Zhao, Daniel Ziemek, Charles K. Fisher
Software Mentions: 4
Published: over 6 years ago

10.1007/s00384-021-03944-4

Pilonidal sinus disease on the rise: a one-third incidence increase in inpatients in 13 years with substantial regional variation in Germany
Cited by: 17
Author(s): Christina Oetzmann von Sochaczewski, Jan Gödeke
Software Mentions: 4
Published: about 5 years ago

10.1186/s12859-018-2485-7

Purge Haplotigs: allelic contig reassignment for third-gen diploid genome assemblies
Cited by: 590
Author(s): Michael J. Roach, Simon A. Schmidt, Anthony R. Borneman
Software Mentions: 4
Published: over 7 years ago

10.1016/j.celrep.2018.07.026

Fine-Tuning Mybl2 Is Required for Proper Mesenchymal-to-Epithelial Transition during Somatic Reprogramming
Cited by: 16
Author(s): Carl Ward, Giacomo Volpe, Pierre Cauchy, Anetta Ptasińska, Ruba Almaghrabi, Daniel Blakemore, Monica Nafria, Doris Kestner, Jon Frampton, George J. Murphy, Yosef Buganim, Keisuke Kaji, Paloma García
Software Mentions: 4
Published: almost 8 years ago

10.1371/journal.pone.0235741

Changes in infant non-nutritive sucking throughout a suck sample at 3-months of age
Cited by: 6
Author(s): Emily Zimmerman, Thomas Carpenito, Alaina Martens
Software Mentions: 4
Published: about 6 years ago

10.3389/fmicb.2020.01869

Comparative Genomics of Microbacterium Species to Reveal Diversity, Potential for Secondary Metabolites and Heavy Metal Resistance
Cited by: 20
Author(s): Erika Corretto, Livio Antonielli, Angela Sessitsch, Christoph Höfer, Markus Puschenreiter, Siegrid Widhalm, Karivaradharajan Swarnalakshmi, Günter Brader
Software Mentions: 4
Published: almost 6 years ago

10.7717/peerj.5902

Integration of phylogenomics and molecular modeling reveals lineage-specific diversification of toxins in scorpions
Cited by: 21
Author(s): Carlos E. Santibáñez‐López, Ricardo Kriebel, Jesús A. Ballesteros, Nathaniel Rush, Zachary L. Witter, J. R. Williams, Daniel Janies, Prashant P. Sharma
Software Mentions: 4
Published: over 7 years ago

10.1186/s12859-017-1698-5

NaviSE: superenhancer navigator integrating epigenomics signal algebra
Cited by: 5
Author(s): Alex M. Ascensión, Mikel Arrospide-Elgarresta, Ander Izeta, Marcos J. Araúzo-Bravo
Software Mentions: 4
Published: about 9 years ago

10.1038/s41422-020-0281-1

Refined spatial temporal epigenomic profiling reveals intrinsic connection between PRDM9-mediated H3K4me3 and the fate of double-stranded breaks
Cited by: 34
Author(s): Yao Chen, Ruitu Lyu, Bowen Rong, Yuxuan Zheng, Zhen Lin, Ruofei Dai, Xi Zhang, Nannan Xie, Siqing Wang, Fuchou Tang, Fei Lan, Ming-Han Tong
Software Mentions: 4
Published: over 6 years ago

10.1002/1878-0261.12052

A genome-wide siRNA screen for regulators of tumor suppressor p53 activity in human non-small cell lung cancer cells identifies components of the RNA splicing machinery as targets for anticancer treatment
Cited by: 50
Author(s): Ellen Siebring-van Olst, Maxime Blijlevens, Renée X. de Menezes, Ida H. van der Meulen-Muileman, Egbert F. Smit, Victor W. van Beusechem
Software Mentions: 4
Published: over 9 years ago

10.1002/ece3.4360

RAD sequencing resolved phylogenetic relationships in European shrub willows (<i>Salix</i>L. subg.<i>Chamaetia</i>and subg.<i>Vetrix</i>) and revealed multiple evolution of dwarf shrubs
Cited by: 31
Author(s): Natascha D. Wagner, S.M. Gramlich, Elvira Hörandl
Software Mentions: 4
Published: about 8 years ago

10.1534/g3.115.023481

A Major Locus Controls a Genital Shape Difference Involved in Reproductive Isolation Between<i>Drosophila yakuba</i>and<i>Drosophila santomea</i>
Cited by: 28
Author(s): Alexandre E. Peluffo, Isabelle Nuez, Vincent Debat, Rosina Savisaar, David L. Stern, Virginie Orgogozo
Software Mentions: 4
Published: over 10 years ago

10.1371/journal.pone.0032453

Astrocyte-Specific Expression Patterns Associated with the PDGF-Induced Glioma Microenvironment
Cited by: 66
Author(s): Amanda Katz, Nduka Amankulor, Kenneth L. Pitter, Karim Y. Helmy, Massimo Squatrito, Eric C. Holland
Software Mentions: 4
Published: over 14 years ago

10.7554/eLife.59780

On the objectivity, reliability, and validity of deep learning enabled bioimage analyses
Cited by: 25
Author(s): Dennis Segebarth, Matthias Griebel, Nikolai Stein, Cora R. von Collenberg, Corinna Martin, Dominik Fiedler, Lucas B. Comeras, Anupam Sah, Victoria Schoeffler, Teresa M. Lüffe, Alexander Dürr, Rohini Gupta, Manju Sasi, Christina Lillesaar, Maren D. Lange, Ramon Tasan, Nicolas Singewald, Hans‐Christian Pape, Christoph M. Flath, Robert Blum
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0249012

State-level prevalence estimates of latent tuberculosis infection in the United States by medical risk factors, demographic characteristics and nativity
Cited by: 7
Author(s): Ali Mirzazadeh, James G. Kahn, Maryam B. Haddad, Andrew Hill, Suzanne M. Marks, Adam Readhead, Pennan M. Barry, Jennifer Flood, Jonathan Mermin, Priya B. Shete
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pcbi.1008919

Detecting adherence to the recommended childhood vaccination schedule from user-generated content in a US parenting forum
Cited by: 5
Author(s): Lorenzo Betti, Gianmarco De Francisci Morales, Laetitia Gauvin, Kyriaki Kalimeri, Yelena Mejova, Daniela Paolotti, Michele Starnini
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0216366

Cranial deformation and genetic diversity in three adolescent male individuals from the Great Migration Period from Osijek, eastern Croatia
Cited by: 11
Author(s): Daniel Fernandes, Kendra Sirak, Olivia Cheronet, Rachel Howcroft, Mislav Čavka, Dženi Los, Josip Burmaz, Ron Pinhasi, Mario Novak
Software Mentions: 4
Published: almost 7 years ago

10.1038/s41419-021-03649-0

Maheshvara regulates JAK/STAT signaling by interacting and stabilizing hopscotch transcripts which leads to apoptosis in Drosophila melanogaster
Cited by: 0
Author(s): Bhawana Maurya, Satya Surabhi, Rituparna Das, Pranjali Pandey, Ashim Mukherjee, Mousumi Mutsuddi
Software Mentions: 4
Published: over 5 years ago

10.1038/sdata.2017.127

Machine-learned and codified synthesis parameters of oxide materials
Cited by: 118
Author(s): Edward Kim, Kevin Huang, Alex Tomala, Sara Matthews, Emma Strubell, Adam Saunders, Andrew McCallum, Elsa Olivetti
Software Mentions: 4
Published: almost 9 years ago

10.1371/journal.pone.0182539

Disentangling the influence of environmental and anthropogenic factors on the distribution of endemic vascular plants in Sardinia
Cited by: 27
Author(s): Mauro Fois, Giuseppe Fenu, Eva M. Cañadas, Gianluigi Bacchetta
Software Mentions: 4
Published: almost 9 years ago

10.1371/journal.pmed.1002476

Life course socioeconomic position, alcohol drinking patterns in midlife, and cardiovascular mortality: Analysis of Norwegian population-based health surveys
Cited by: 29
Author(s): Eirik Degerud, Inger Ariansen, Eivind Ystrøm, Sidsel Graff-Iversen, Gudrun Høiseth, Jörg Mørland, George Davey Smith, Øyvind Næss
Software Mentions: 4
Published: over 8 years ago

10.1038/s41598-017-13828-9

A generalized simulation development approach for predicting refugee destinations
Cited by: 54
Author(s): Diana Suleimenova, David Bell, Derek Groen
Software Mentions: 4
Published: almost 9 years ago

10.3389/fcell.2021.711253

TLR5 Supports Development of Placental Labyrinthine Zone in Mice
Cited by: 1
Author(s): Jensen H.C. Yiu, Samson Wing Ming Cheung, Jieling Cai, Kam-Suen Chan, Jing Chen, Lai Yee Cheong, Hau-Tak Chau, Aimin Xu, Raymond Li, Connie W. Woo
Software Mentions: 4
Published: about 5 years ago

10.3389/fninf.2014.00006

Equation-oriented specification of neural models for simulations
Cited by: 120
Author(s): Marcel Stimberg, Dan F. M. Goodman, Victor Benichoux, Romain Brette
Software Mentions: 4
Published: over 12 years ago

10.1186/s13059-018-1416-2

Single-cell RNA-seq analysis unveils a prevalent epithelial/mesenchymal hybrid state during mouse organogenesis
Cited by: 135
Author(s): Ji Dong, Yuqiong Hu, Xiaoying Fan, Xinglong Wu, Yunuo Mao, Boqiang Hu, Hongshan Guo, Lu Wen, Fuchou Tang
Software Mentions: 4
Published: over 8 years ago

10.1186/s12864-020-6613-1

Genome-wide analysis reveals molecular convergence underlying domestication in 7 bird and mammals
Cited by: 11
Author(s): Yali Hou, Furong Qi, Xue Bai, Tong Ren, Xu Shen, Qing Chu, Xiquan Zhang, Xuemei Lu
Software Mentions: 4
Published: over 6 years ago

10.1186/1297-9716-42-60

Estimating front-wave velocity of infectious diseases: a simple, efficient method applied to bluetongue
Cited by: 39
Author(s): Maryline Pioz, Hélène Guis, Didier Calavas, Benoı̂t Durand, David Abrial, Christian Ducrot
Software Mentions: 4
Published: over 15 years ago

10.1186/s12864-015-1954-x

Genome-wide analysis reveals the extent of EAV-HP integration in domestic chicken
Cited by: 8
Author(s): David Wragg, Andrew S. Mason, Lejun Yu, Richard Kuo, Raman Akinyanju Lawal, Takele Taye Desta, Joram M. Mwacharo, Chang-Yeon Cho, Stephen J. Kemp, David W. Burt, Olivier Hanotte
Software Mentions: 4
Published: almost 11 years ago

10.1186/s41512-021-00095-6

Diabetes after pregnancy: a study protocol for the derivation and validation of a risk prediction model for 5-year risk of diabetes following pregnancy
Cited by: 4
Author(s): Stephanie H. Read, Laura Rosella, Howard Berger, Denice S. Feig, Karen Fleming, Padma Kaul, Joel G. Ray, Baiju R. Shah, Lorraine Lipscombe
Software Mentions: 4
Published: over 5 years ago

10.1126/sciadv.abh2217

Identification and assessment of cardiolipin interactions with <i>E. coli</i> inner membrane proteins
Cited by: 33
Author(s): Robin A. Corey, Wanling Song, Anna L. Duncan, T. Bertie Ansell, Mark S. P. Sansom, Phillip J. Stansfeld
Software Mentions: 4
Published: almost 5 years ago

10.1186/1471-2105-9-163

OpenMS – An open-source software framework for mass spectrometry
Cited by: 565
Author(s): Marc Sturm, Andreas Bertsch, Clemens Gröpl, Andreas Hildebrandt, René Hussong, Eva Lange, Nico Pfeifer, Ole Schulz-Trieglaff, Alexandra Zerck, Knut Reinert, Oliver Kohlbacher
Software Mentions: 4
Published: over 18 years ago

10.1186/s13062-020-00267-2

AMDock: a versatile graphical tool for assisting molecular docking with Autodock Vina and Autodock4
Cited by: 87
Author(s): Mario S. Valdés-Tresanco, Mario E. Valdés‐Tresanco, Pedro A. Valiente, Ernesto Moreno
Software Mentions: 4
Published: almost 6 years ago

10.1128/mBio.01408-18

Heterosubtypic Protections against Human-Infecting Avian Influenza Viruses Correlate to Biased Cross-T-Cell Responses
Cited by: 23
Author(s): Min Zhao, Kefang Liu, Jiejian Luo, Shuguang Tan, Chuansong Quan, Shuijun Zhang, Yan Chai, Jianxun Qi, Yan Li, Yang Bi, Haixia Xiao, Gary Wong, Jianfang Zhou, Taijiao Jiang, Wenjun Liu, Hongjie Yu, Jinghua Yan, Yingxia Liu, Yuelong Shu, Guizhen Wu, Aiping Wu, George F. Gao, William J. Liu
Software Mentions: 4
Published: almost 8 years ago