10.3390/molecules26061664

PepFun: Open Source Protocols for Peptide-Related Computational Analysis
Cited by: 11
Author(s): Rodrigo Ochoa, Pilar Cossio
Software Mentions: 2
Published: over 5 years ago

10.1016/j.eclinm.2021.100968

HIV-1 Transmission linkages among persons with incident infection to inform public health surveillance
Cited by: 7
Author(s): Ann M. Dennis, Simon D. W. Frost, Kimberly Enders, Andrew Cressman, Erik Volz, Nicole Adams, William C. Miller, Myron S. Cohen, Victoria Mobley, Erika Samoff, Joseph J. Eron
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pone.0007441

Stability of Metabolic Correlations under Changing Environmental Conditions in Escherichia coli – A Systems Approach
Cited by: 34
Author(s): Jędrzej Szymański, Szymon Józefczuk, Zoran Nikoloski, Joachim Selbig, Victoria J. Nikiforova, Gareth Catchpole, Lothar Willmitzer
Software Mentions: 2
Published: almost 17 years ago

10.1038/s41598-018-28375-0

Assessment of the key regulatory genes and their Interologs for Turner Syndrome employing network approach
Cited by: 25
Author(s): Anam Farooqui, Safia Tazyeen, Mohd Murshad Ahmed, Aftab Alam, Shahnawaz Ali, Md. Zubbair Malik, Romana Ishrat
Software Mentions: 2
Published: about 8 years ago

10.1155/2014/487069

An Improved<i>Physarum polycephalum</i>Algorithm for the Shortest Path Problem
Cited by: 10
Author(s): Xiaoge Zhang, Qing Wang, Andrew Adamatzky, Felix T.S. Chan, Sankaran Mahadevan, Yong Deng
Software Mentions: 2
Published: over 12 years ago

10.1242/dmm.042101

Integrated lipidomic and transcriptomic analyses identify altered nerve triglycerides in mouse models of prediabetes and type 2 diabetes
Cited by: 40
Author(s): Phillipe D. O’Brien, Kai Guo, Stéphanie Eid, Amy E. Rumora, Lucy M. Hinder, John M. Hayes, Faye E. Mendelson, Junguk Hur, Eva L. Feldman
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0110088

Active Semi-Supervised Community Detection Based on Must-Link and Cannot-Link Constraints
Cited by: 23
Author(s): Jianjun Cheng, Mingwei Leng, Longjie Li, Hanhai Zhou, Xiaoyun Chen
Software Mentions: 2
Published: almost 12 years ago

10.3389/fcimb.2021.641174

Trypanosome KKIP1 Dynamically Links the Inner Kinetochore to a Kinetoplastid Outer Kinetochore Complex
Cited by: 10
Author(s): Lorenzo Brusini, Simon D’Archivio, Jennifer McDonald, Bill Wickstead
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0125725

Using Graph Components Derived from an Associative Concept Dictionary to Predict fMRI Neural Activation Patterns that Represent the Meaning of Nouns
Cited by: 5
Author(s): Hiroyuki Akama, Masakazu Miyake, Jason J. Jung, Brian Murphy
Software Mentions: 2
Published: about 11 years ago

10.1038/s41598-018-31110-4

Computational characterization and identification of human polycystic ovary syndrome genes
Cited by: 14
Author(s): Xingzhong Zhang, Yanli Pang, Xian Wang, Yanhui Li
Software Mentions: 2
Published: almost 8 years ago

10.1371/journal.pone.0238626

Do economic shocks spread randomly?: A topological study of the global contagion network
Cited by: 4
Author(s): Tamás Sebestyén, Zita Iloskics
Software Mentions: 2
Published: almost 6 years ago

10.3390/diagnostics10080586

Identifying the Salient Genes in Microarray Data: A Novel Game Theoretic Model for the Co-Expression Network
Cited by: 2
Author(s): Papori Neog Bora, Vishwa Jyoti Baruah, Surajit Borkotokey, Loyimee Gogoi, Priyakshi Mahanta, Ankumon Sarmah, Rajnish Kumar, Stefano Moretti
Software Mentions: 2
Published: almost 6 years ago

10.1093/database/baaa018

Integrated querying and version control of context-specific biological networks
Cited by: 4
Author(s): Tyler Cowman, Mustafa Coşkun, Ananth Grama, Mehmet Koyutürk
Software Mentions: 2
Published: over 6 years ago

10.1016/j.dib.2020.105629

A dataset of eco-evidence tools to inform early-stage environmental impact assessments of hydropower development
Cited by: 0
Author(s): Ryan A. McManamay, Esther S. Parish, Christopher R. DeRolph
Software Mentions: 2
Published: about 6 years ago

10.3389/fgene.2015.00307

Biological networks: the microscope of the twenty-first century?
Cited by: 0
Author(s): Frank Emmert‐Streib, Matthias Dehmer
Software Mentions: 2
Published: almost 11 years ago

10.1111/cobi.13580

Assessing the current state of ecological connectivity in a large marine protected area system
Cited by: 18
Author(s): Kimberly A. Roberts, Carly N. Cook, Jutta Beher, Eric A. Treml
Software Mentions: 2
Published: almost 6 years ago

10.1186/s40649-016-0029-8

Factorization threshold models for scale-free networks generation
Cited by: 2
Author(s): Akmal Artikov, Aleksandr Dorodnykh, Yana Kashinskaya, Egor Samosvat
Software Mentions: 2
Published: almost 10 years ago

10.1038/s42003-019-0440-4

Combined network analysis and machine learning allows the prediction of metabolic pathways from tomato metabolomics data
Cited by: 52
Author(s): David Toubiana, Rami Puzis, Lingling Wen, Noga Sikron, Assylay Kurmanbayeva, Aigerim Soltabayeva, María del Mar Rubio Wilhelmi, Nir Sade, Aaron Fait, Moshe Sagi, Eduardo Blumwald, Yuval Elovici
Software Mentions: 2
Published: about 7 years ago

10.1002/mgg3.659

Prioritization and comprehensive analysis of genes related to major depressive disorder
Cited by: 12
Author(s): Yi Liu, Ping Fan, Shiyuan Zhang, Yidan Wang, Dan Liŭ
Software Mentions: 2
Published: over 7 years ago

10.1002/humu.22906

Network-Informed Gene Ranking Tackles Genetic Heterogeneity in Exome-Sequencing Studies of Monogenic Disease
Cited by: 5
Author(s): Nick Dand, Reiner Schulz, Michael E. Weale, Laura Southgate, Rebecca J. Oakey, Michael A. Simpson, Thomas Schlitt
Software Mentions: 2
Published: almost 11 years ago

10.1186/2042-5783-2-8

Analysis of evolutionary patterns of genes in Campylobacter jejuni and C. coli
Cited by: 8
Author(s): Lars Snipen, Trudy M. Wassenaar, Eric Altermann, Jonathan W. Olson, Sophia Kathariou, Karin Lagesen, Mónica Takamiya, Susanne Knøchel, David W. Ussery, Richard J. Meinersmann
Software Mentions: 2
Published: almost 14 years ago

10.1186/s12913-018-3038-5

On designing of a low leakage patient-centric provider network
Cited by: 5
Author(s): Yuchen Zheng, Lin Kang, Thomas White, Jeremy Pickreign, Gigi Yuen-Reed
Software Mentions: 2
Published: over 8 years ago

10.15252/msb.20188594

High‐resolution mapping of cancer cell networks using co‐functional interactions
Cited by: 61
Author(s): Evan A. Boyle, Jonathan K. Pritchard, William J. Greenleaf
Software Mentions: 2
Published: over 7 years ago

10.1099/mgen.0.000203

Extended-spectrum β-lactamase-encoding genes are spreading on a wide range of Escherichia coli plasmids existing prior to the use of third-generation cephalosporins
Cited by: 25
Author(s): Catherine Branger, Alice Ledda, Typhaine Billard-Pomarès, Benoît Doublet, Stéphanie Fouteau, Valérie Barbe, David Roche, Stéphane Cruveiller, Claudine Médigue, Miguel Sautié Castellanos, Dominique Decré, Laurence Drieux-Rouze, Olivier Clermont, Jérémy Glodt, Olivier Tenaillon, Axel Cloeckaert, Guillaume Arlet, Erick Denamur
Software Mentions: 2
Published: almost 8 years ago

10.3389/fgene.2019.00064

Mouse Skull Mean Shape and Shape Robustness Rely on Different Genetic Architectures and Different Loci
Cited by: 11
Author(s): Ceferino Varón‐González, Luisa F. Pallares, Vincent Debat, Nicolas Navarro
Software Mentions: 2
Published: over 7 years ago

10.1038/s42003-021-02260-5

Serotonin signaling modulates aging-associated metabolic network integrity in response to nutrient choice in Drosophila melanogaster
Cited by: 3
Author(s): Yang Lyu, Daniel Promislow, Scott D. Pletcher
Software Mentions: 2
Published: about 5 years ago

10.1099/mgen.0.000157

Dynamic sporulation gene co-expression networks for Bacillus subtilis 168 and the food-borne isolate Bacillus amyloliquefaciens: a transcriptomic model
Cited by: 4
Author(s): Jimmy Omony, Anne de Jong, Antonina O. Krawczyk, Robyn T. Eijlander, Oscar P. Kuipers
Software Mentions: 2
Published: over 8 years ago

10.1038/s42003-020-01190-y

Network pharmacology suggests biochemical rationale for treating COVID-19 symptoms with a Traditional Chinese Medicine
Cited by: 15
Author(s): Denghai Zhang, Xue Zhang, Bin Peng, Shengqiong Deng, Yufang Wang, Lin Yang, Kai-zheng Zhang, Changquan Ling, Wu Kunlun
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0152123

Who Is Spreading Avian Influenza in the Moving Duck Flock Farming Network of Indonesia?
Cited by: 18
Author(s): Joerg Henning, Dirk U. Pfeiffer, M.A. Stevenson, Didik Yulianto, W. Priyono, J. Meers
Software Mentions: 2
Published: over 10 years ago

10.15252/msb.20156484

An inter‐species protein–protein interaction network across vast evolutionary distance
Cited by: 42
Author(s): Quan Zhong, Samuel Pevzner, Tong Hao, Yang Wang, Roberto Mosca, Jörg Menche, Mikko Taipale, Murat Taşan, Changyu Fan, Xinping Yang, Patrick J. Haley, Ryan R. Murray, Flora Mer, Fana Gebreab, Stanley Tam, Andrew MacWilliams, Amélie Dricot, Patrick Reichert, S. Balaji, Lila Ghamsari, Michael A. Calderwood, Thomas Rolland, Benoît Charloteaux, Susan Lindquist, Albert‐László-L. Barabási, David E. Hill, Patrick Aloy, Michael E. Cusick, Yu Xia, Frederick P. Roth, Marc Vidal
Software Mentions: 2
Published: over 10 years ago

10.1093/cercor/bhz244

Ketamine Restores Thalamic-Prefrontal Cortex Functional Connectivity in a Mouse Model of Neurodevelopmental Disorder-Associated 2p16.3 Deletion
Cited by: 11
Author(s): Rebecca Hughes, Jayde Whittingham-Dowd, Rachel E Simmons, Steven J. Clapcote, Susan Broughton, Neil Dawson
Software Mentions: 2
Published: over 6 years ago

10.1186/s12864-017-3777-4

Functional regression method for whole genome eQTL epistasis analysis with sequencing data
Cited by: 3
Author(s): Kelin Xu, Li Jin, Momiao Xiong
Software Mentions: 2
Published: about 9 years ago

10.3389/fgene.2020.00659

Comprehensive Network Analysis Reveals Alternative Splicing-Related lncRNAs in Hepatocellular Carcinoma
Cited by: 8
Author(s): Junqing Wang, Xiuquan Wang, Akshay Bhat, Yixin Chen, Keli Xu, Yin‐Yuan Mo, S. Stephen Yi, Yunyun Zhou
Software Mentions: 2
Published: about 6 years ago

10.3389/fgene.2021.597983

Identification of the Key Regulators of Spina Bifida Through Graph-Theoretical Approach
Cited by: 2
Author(s): Naaila Tamkeen, Suliman Yousef Alomar, Saeed Awad M Alqahtani, Abdullah Al-jurayyan, Anam Farooqui, Safia Tazyeen, Nadeem Ahmad, Romana Ishrat
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0237471

Diffusing science through social networks: The case of breastfeeding communication on Twitter
Cited by: 9
Author(s): Sara Moukarzel, Martin Rehm, Miguel del Fresno, Alan J. Daly
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pcbi.1003549

Within-Host Bacterial Diversity Hinders Accurate Reconstruction of Transmission Networks from Genomic Distance Data
Cited by: 146
Author(s): Colin J. Worby, Marc Lipsitch, William P. Hanage
Software Mentions: 2
Published: over 12 years ago

10.1038/s41598-018-34846-1

Brain structural connectivity and neuroticism in healthy adults
Cited by: 14
Author(s): Issei Ueda, Shingo Kakeda, Keita Watanabe, Katsuhisa Sugimoto, Natsuki Igata, Junji Moriya, Kazuhiro Takemoto, Asuka Katsuki, Reiji Yoshimura, Osamu Abe, Yukunori Korogi
Software Mentions: 2
Published: over 7 years ago

10.1007/s11252-017-0724-8

The application of graph theory and percolation analysis for assessing change in the spatial configuration of pond networks
Cited by: 10
Author(s): Ian Thornhill, Lesley Batty, Matthew J. Hewitt, Nikolai Friberg, Mark E. Ledger
Software Mentions: 2
Published: over 8 years ago

10.1155/2021/8708023

Tear Film Proteome of Healthy Domestic Cats
Cited by: 2
Author(s): Jéssica Fontes Veloso, Paula Elisa Brandão Guedes, Luciana Carvalho Lacerda, Juliano Oliveira Santana, Irma Yuliana Mora-Ocampo, Carlos Priminho Pirovani, Arianne Pontes Oriá, Alexandre Dias Munhoz, Renata Santiago Alberto Carlos
Software Mentions: 2
Published: about 5 years ago

10.1186/s13567-014-0110-y

Not all cows are epidemiologically equal: quantifying the risks of bovine viral diarrhoea virus (BVDV) transmission through cattle movements
Cited by: 31
Author(s): M. Carolyn Gates, R.W. Humphry, George J. Gunn, Mark Woolhouse
Software Mentions: 2
Published: almost 12 years ago

10.1371/journal.pone.0095049

The Potential Connectivity of Waterhole Networks and the Effectiveness of a Protected Area under Various Drought Scenarios
Cited by: 22
Author(s): Georgina O’Farrill, Kim Gauthier Schampaert, Bronwyn Rayfield, Örjan Bodin, Sophie Calmé, Raja Sengupta, Andrew Gonzalez
Software Mentions: 2
Published: about 12 years ago

10.3389/fimmu.2020.01887

FcRn Overexpression Expands Diversity of the Humoral Immune Response in bFcRn Transgenic Mice
Cited by: 2
Author(s): Bence Szikora, Anita Marx, Péter K. Jani, Orsolya Pipek, Viktor Müller, István Csabai, Imre Kacskovıcs
Software Mentions: 2
Published: almost 6 years ago

10.1186/s12864-019-6302-0

A novel algorithm for alignment of multiple PPI networks based on simulated annealing
Cited by: 2
Author(s): Jialu Hu, Junhao He, Jing Li, Yiqun Gao, Yanyan Zheng, Xuequn Shang
Software Mentions: 2
Published: over 6 years ago

10.3390/v4123625

A Systems Biology Starter Kit for Arenaviruses
Cited by: 0
Author(s): Magali E. Droniou-Bonzom, Paula M. Cannon
Software Mentions: 2
Published: over 13 years ago

10.1038/s41598-018-37208-z

Characterizing both bacteria and fungi improves understanding of the Arabidopsis root microbiome
Cited by: 116
Author(s): Joy Bergelson, Jana Mittelstrass, Matthew Horton
Software Mentions: 2
Published: over 7 years ago

10.3389/fimmu.2021.644548

Delineating the Association Between Soluble CD26 and Autoantibodies Against G-Protein Coupled Receptors, Immunological and Cardiovascular Parameters Identifies Distinct Patterns in Post-Infectious vs. Non-Infection-Triggered Myalgic Encephalomyelitis/Chronic Fatigue Syndrome
Cited by: 12
Author(s): Marvin Szklarski, Helma Freitag, Siegfried Lorenz, S Becker, Franziska Sotzny, Sandra Bauer, Jelka Hartwig, Harald Heidecke, Kirsten Wittke, Claudia Kedor, Leif G. Hanitsch, Patricia Grabowski, Nuno Sepúlveda, Carmen Scheibenbogen
Software Mentions: 2
Published: over 5 years ago

10.3390/v12101087

Network Controllability-Based Prioritization of Candidates for SARS-CoV-2 Drug Repositioning
Cited by: 4
Author(s): Emily E. Ackerman, Jason E. Shoemaker
Software Mentions: 2
Published: almost 6 years ago

10.3389/fimmu.2018.01785

Simulation of the Dynamics of Primary Immunodeficiencies in B Cells
Cited by: 2
Author(s): Gabriel Teku, Mauno Vihinen
Software Mentions: 2
Published: almost 8 years ago

10.12688/wellcomeopenres.15268.2

Study design and protocol for investigating social network patterns in rural and urban schools and households in a coastal setting in Kenya using wearable proximity sensors
Cited by: 5
Author(s): Moses Chapa Kiti, Alessia Melegaro, Ciro Cattuto, D. James Nokes
Software Mentions: 2
Published: almost 7 years ago

10.3390/md16100356

Metabolomic Investigations on Nesterenkonia flava Revealed Significant Differences between Marine and Terrestrial Actinomycetes
Cited by: 16
Author(s): Conghua Xie, Jin‐Mei Xia, Junsong Wang, Donghai Lin, Xian‐Wen Yang
Software Mentions: 2
Published: almost 8 years ago

10.1186/s13063-021-05584-z

Improving the continuity and coordination of ambulatory care through feedback and facilitated dialogue—a study protocol for a cluster-randomised trial to evaluate the ACD study (Accountable Care in Germany)
Cited by: 5
Author(s): Leonie Sundmacher, Ronja Flemming, Verena Leve, Isabel Geiger, Sebastian Franke, Thomas Czihal, Clemens Krause, Birgitt Wiese, Frank Meyer, Matthias Brittner, Johannes Pollmanns, Johannes J. Martin, Paul Brandenburg, Annemarie Schultz, Emmanuelle Brua, Udo Schneider, Olga Dortmann, Christoph Rupprecht, Stefan Wilm, Wiebke Schüttig
Software Mentions: 2
Published: almost 5 years ago

10.1186/1471-2164-13-438

Exploration of the core metabolism of symbiotic bacteria
Cited by: 12
Author(s): Cecília C. Klein, Ludovic Cottret, Janice Kielbassa, Hubert Charles, Christian Gautier, Ana Tereza Ribeiro de Vasconcelos, Vincent Lacroix, Marie‐France Sagot
Software Mentions: 2
Published: over 14 years ago

10.1186/1475-2875-12-397

The demographics of human and malaria movement and migration patterns in East Africa
Cited by: 56
Author(s): Deepa Pindolia, Andrés J. García, Zhengjing Huang, David L. Smith, Victor A. Alegana, Abdisalan M. Noor, Robert W. Snow, Andrew J. Tatem
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0205122

Social network properties predict chronic aggression in commercial pig systems
Cited by: 38
Author(s): Simone Foister, Andrea Doeschl‐Wilson, R. Roehe, Gareth Arnott, Laura Boyle, Simon P. Turner
Software Mentions: 2
Published: almost 8 years ago

10.1371/journal.pone.0195161

In vitro co-cultures of human gut bacterial species as predicted from co-occurrence network analysis
Cited by: 39
Author(s): Dás P, Boyang Ji, Petia Kovatcheva‐Datchary, Fredrik Bäckhed, Jens Nielsen
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-38329-1

Inferring pathogen-host interactions between Leptospira interrogans and Homo sapiens using network theory
Cited by: 18
Author(s): Swapnil Kumar, Kumari Snehkant Lata, Priyanka Sharma, Shivarudrappa B. Bhairappanavar, Subhash Soni, Jayashankar Das
Software Mentions: 2
Published: over 7 years ago

10.1186/s12933-021-01349-9

A molecular signature for the metabolic syndrome by urine metabolomics
Cited by: 21
Author(s): Chiara Bruzzone, Rubén Gil‐Redondo, Marisa Seco, Rocío Barragán, Laura de la Cruz, Claire Cannet, Hartmut Schäfer, Fang Fang, Tammo Diercks, Maider Bizkarguenaga, Beatriz González-Valle, Ana Laín, Arantza Sanz-Parra, Óscar Coltell, Ander López de Letona, Manfred Spraul, Shelly C. Lu, Elisabetta Buguianesi, Nieves Embade, Quentin M. Anstee, Dolores Corella, José M. Mato, Óscar Millet
Software Mentions: 2
Published: about 5 years ago

10.1002/cam4.1821

Surgeon peer network characteristics and adoption of new imaging techniques in breast cancer: A study of perioperative MRI
Cited by: 12
Author(s): Sara Tannenbaum, Pamela R. Soulos, Jeph Herrin, Craig Evan Pollack, Xiao Xu, Nicholas A. Christakis, Howard P. Forman, James B. Yu, Brigid K. Killelea, Shi Yi Wang, Cary P. Gross
Software Mentions: 2
Published: over 7 years ago

10.1186/s40695-020-00060-1

Racial differences in lifestyle, demographic, and health factors associated with quality of life (QoL) in midlife women
Cited by: 4
Author(s): Brandi Patrice Smith, Esmeralda Cardoso-Mendoza, Jodi A. Flaws, Zeynep Madak-Erdoğan
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-018-37976-8

Unique skull network complexity of Tyrannosaurus rex among land vertebrates
Cited by: 19
Author(s): Ingmar Werneburg, Borja Esteve‐Altava, Joana Bruno, Marta Torres Ladeira, Rui Diogo
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0196211

Social network analysis of stakeholder networks from two community-based obesity prevention interventions
Cited by: 28
Author(s): Jaimie McGlashan, Melanie Nichols, Ariella R. Korn, Lynne Millar, Jennifer B. Marks, Andrew Sanigorski, Mark C. Pachucki, Boyd Swinburn, Steven Allender, Christina D. Economos
Software Mentions: 2
Published: over 8 years ago

10.3389/fmicb.2019.00234

Sperm Microbiota and Its Impact on Semen Parameters
Cited by: 110
Author(s): David Baud, Céline Pattaroni, Nicolas Vulliemoz, Vincent Castella, Benjamin J. Marsland, Miloš Stojanov
Software Mentions: 2
Published: over 7 years ago

10.1038/s41598-019-38658-9

Validation and quality assessment of macromolecular structures using complex network analysis
Cited by: 21
Author(s): Jure Pražnikar, Miloš Tomić, Dušan Turk
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0198525

Exploring novel key regulators in breast cancer network
Cited by: 18
Author(s): Shahnawaz Ali, Md. Zubbair Malik, Keilash Chirom, Romana Ishrat
Software Mentions: 2
Published: about 8 years ago

10.1371/journal.pone.0208227

The geographic evolution of political cleavages in Switzerland: A network approach to assessing levels and dynamics of polarization between local populations
Cited by: 3
Author(s): Shin Alexandre Koseki
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0141420

A Network Approach to Bipolar Symptomatology in Patients with Different Course Types
Cited by: 29
Author(s): M.A. Koenders, Roy de Kleijn, Erik J. Giltay, Bernet M. Elzinga, Philip Spinhoven, Annet T. Spijker
Software Mentions: 2
Published: almost 11 years ago

10.1371/journal.pone.0140085

Seasonal Influenza Vaccination amongst Medical Students: A Social Network Analysis Based on a Cross-Sectional Study
Cited by: 19
Author(s): Rhiannon Edge, Joseph J. Heath, Barry Rowlingson, Thomas Keegan, Rachel Isba
Software Mentions: 2
Published: almost 11 years ago

10.1038/s41396-018-0232-8

Genetic correlation network prediction of forest soil microbial functional organization
Cited by: 56
Author(s): Bin Ma, Kankan Zhao, Xiaofei Lv, Weiqin Su, Zhongmin Dai, Jack A. Gilbert, Philip C. Brookes, Karoline Faust, Jianming Xu
Software Mentions: 2
Published: about 8 years ago

10.1371/journal.pone.0014673

Controlling the Response: Predictive Modeling of a Highly Central, Pathogen-Targeted Core Response Module in Macrophage Activation
Cited by: 33
Author(s): Jason McDermott, Michelle Archuleta, Brian D. Thrall, Joshua N. Adkins, Katrina M. Waters
Software Mentions: 2
Published: over 15 years ago

10.1371/journal.pone.0210148

Validation of modified radio-frequency identification tag firmware, using an equine population case study
Cited by: 4
Author(s): Rachael M. Milwid, Terri L. O’Sullivan, Zvonimir Poljak, Marek Laskowski, Amy L. Greer
Software Mentions: 2
Published: over 7 years ago

10.1038/s41598-019-43596-7

The impact of rare but severe vaccine adverse events on behaviour-disease dynamics: a network model
Cited by: 28
Author(s): S.K. Bhattacharyya, Amit Vutha, Chris T. Bauch
Software Mentions: 2
Published: about 7 years ago

10.1371/journal.pone.0161474

BRIDES: A New Fast Algorithm and Software for Characterizing Evolving Similarity Networks Using Breakthroughs, Roadblocks, Impasses, Detours, Equals and Shortcuts
Cited by: 4
Author(s): Étienne Lord, Margaux Le Cam, Éric Bapteste, Raphaël Méheust, Vladimir Makarenkov, François‐Joseph Lapointe
Software Mentions: 2
Published: almost 10 years ago

10.1093/braincomms/fcaa216

Retrospective analysis of hemispheric structural network change as a function of location and size of glioma
Cited by: 8
Author(s): Shawn D’Souza, Lisa Hirt, D. Ryan Ormond, John A. Thompson
Software Mentions: 2
Published: over 5 years ago

10.3389/fvets.2016.00048

Impact of Network Activity on the Spread of Infectious Diseases through the German Pig Trade Network
Cited by: 20
Author(s): Karin Lebl, Hartmut H. K. Lentz, Beate Pinior, Thomas Selhorst
Software Mentions: 2
Published: about 10 years ago

10.1038/s41598-019-44314-z

First use of anatomical networks to study modularity and integration of heads, forelimbs and hindlimbs in abnormal anencephalic and cyclopic vs normal human development
Cited by: 14
Author(s): Rui Diogo, Janine M. Ziermann, Christopher M. Smith, Malak Alghamdi, Jose S. M. Fuentes, André J. Duerinckx
Software Mentions: 2
Published: about 7 years ago

10.1371/journal.pone.0060982

Autistic Traits in Neurotypical Adults: Correlates of Graph Theoretical Functional Network Topology and White Matter Anisotropy Patterns
Cited by: 30
Author(s): András Jakab, Miklós Emri, Tamás Spisák, Anita Szemán-Nagy, Mónika Béres, Sándor Attila Kis, Péter Molnár, Ervin Berényi
Software Mentions: 2
Published: over 13 years ago

10.1038/s41396-021-00957-3

Light exposure mediates circadian rhythms of rhizosphere microbial communities
Cited by: 32
Author(s): Kankan Zhao, Bin Ma, Yan Xu, Erinne Stirling, Jianming Xu
Software Mentions: 2
Published: over 5 years ago

10.1038/s41416-020-01257-x

Comparative analysis of drug response and gene profiling of HER2-targeted tyrosine kinase inhibitors
Cited by: 27
Author(s): Neil T. Conlon, Jeffrey J. Kooijman, Suzanne J.C. van Gerwen, Winfried R. Mulder, Guido J.R. Zaman, Irmina Diala, Lisa DeFazio-Eli, Alshad S. Lalani, John Crown, Denis M. Collins
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0064317

An Open-Access Modeled Passenger Flow Matrix for the Global Air Network in 2010
Cited by: 37
Author(s): Zhengjing Huang, Wu Xiao, Andrés J. García, Timothy J. Fik, Andrew J. Tatem
Software Mentions: 2
Published: about 13 years ago

10.3389/fvets.2019.00071

Equine Rhinitis A Virus Infection at a Standardbred Training Facility: Incidence, Clinical Signs, and Risk Factors for Clinical Disease
Cited by: 3
Author(s): T. M. Rossi, Alison Moore, Terri L. O’Sullivan, Amy L. Greer
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0172867

Network analysis of wildfire transmission and implications for risk governance
Cited by: 71
Author(s): Alan A. Ager, Cody Evers, Michelle A. Day, Haiganoush K. Preisler, Ana M. G. Barros, Max Nielsen-Pincus
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0016365

Detecting Instability in Animal Social Networks: Genetic Fragmentation Is Associated with Social Instability in Rhesus Macaques
Cited by: 53
Author(s): Brianne A. Beisner, Megan E. Jackson, Ashley Cameron, Brenda McCowan
Software Mentions: 2
Published: over 15 years ago

10.1534/g3.118.200260

A<i>Cyclin E</i>Centered Genetic Network Contributes to Alcohol-Induced Variation in Drosophila Development
Cited by: 14
Author(s): Tatiana V. Morozova, Yasmeen N. Hussain, Lenovia J. McCoy, Eugenea V Zhirnov, Morgan R. Davis, Victoria A. Pray, Rachel A Lyman, Laura Duncan, Anna McMillen, Aiden Jones, Trudy F. C. Mackay, Robert R. H. Anholt
Software Mentions: 2
Published: almost 8 years ago

10.1186/s12864-016-2364-4

Pangenome-wide and molecular evolution analyses of the Pseudomonas aeruginosa species
Cited by: 72
Author(s): Jeanneth Mosquera-Rendón, Ana Mercedes Rada, Sonia Cárdenas-Brito, Mauricio Corredor, Eliana Restrepo-Pineda, Alfonso Benı́tez-Páez
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0213741

Movements of scalloped hammerhead sharks (Sphyrna lewini) at Cocos Island, Costa Rica and between oceanic islands in the Eastern Tropical Pacific
Cited by: 37
Author(s): Elena Nalesso, Alex Hearn, Óscar Sosa-Nishizaki, Todd Steiner, Alex Antoniou, Andrew Reid, Sandra Bessudo, Germán Soler, A. Peter Klimley, Frida Lara, James T. Ketchum, Rándall Arauz
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0199530

A cytokine protein-protein interaction network for identifying key molecules in rheumatoid arthritis
Cited by: 10
Author(s): Venugopal Panga, Srivatsan Raghunathan
Software Mentions: 2
Published: about 8 years ago

10.1093/g3journal/jkab131

Effects of kinship correction on inflation of genetic interaction statistics in commonly used mouse populations
Cited by: 4
Author(s): Anna L. Tyler, Bahá El Kassaby, Georgi Kolishovski, J. J. Emerson, Ann Wells, James Mahoney, Gregory W. Carter
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-90171-0

Network-based analysis of key regulatory genes implicated in Type 2 Diabetes Mellitus and Recurrent Miscarriages in Turner Syndrome
Cited by: 3
Author(s): Anam Farooqui, Alaa Alhazmi, Shafiul Haque, Naaila Tamkeen, Mahboubeh Mehmankhah, Safia Tazyeen, Sher Ali, Romana Ishrat
Software Mentions: 2
Published: about 5 years ago

10.1093/biosci/biv122

Ecological Networks in Stored Grain: Key Postharvest Nodes for Emerging Pests, Pathogens, and Mycotoxins
Cited by: 67
Author(s): John Fredy Hernández Nopsa, Gregory J. Daglish, David W. Hagstrum, John F. Leslie, Thomas W. Phillips, Caterina Scoglio, Sara Thomas-Sharma, Gimme H. Walter, Karen A. Garrett
Software Mentions: 2
Published: almost 11 years ago

10.1186/1471-2105-8-88

Regulation of metabolic networks by small molecule metabolites
Cited by: 28
Author(s): Alex Gutteridge, Minoru Kanehisa, Susumu Goto
Software Mentions: 2
Published: over 19 years ago

10.3390/genes10100776

Patterns and Constraints in the Evolution of Sperm Individualization Genes in Insects, with an Emphasis on Beetles
Cited by: 1
Author(s): Helena I. Vizán‐Rico, Christoph Mayer, Malte Petersen, Duane D. McKenna, Xin Zhou, Jesús Gómez‐Zurita
Software Mentions: 2
Published: almost 7 years ago

10.1371/journal.pone.0213039

GenomeGraphR: A user-friendly open-source web application for foodborne pathogen whole genome sequencing data integration, analysis, and visualization
Cited by: 20
Author(s): Moez Sanaa, Régis Pouillot, Francisco Garcés Vega, Errol Strain, Jane M. Van Doren
Software Mentions: 2
Published: over 7 years ago

10.3390/genes11030247

Network Properties of Cancer Prognostic Gene Signatures in the Human Protein Interactome
Cited by: 0
Author(s): Jifeng Zhang, Shoubao Yan, Cheng Jiang, Zhicheng Ji, Chenrun Wang, Weidong Tian
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0248126

Topological indexes and community structure for urban mobility networks: Variations in a business day
Cited by: 3
Author(s): Jéssica D. Lamosa, Lívia Rodrigues Tomás, Marcos G. Quiles, Luciana de Resende Londe, Leonardo B. L. Santos, Elbert E. N. Macau
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pcbi.1004372

Do Brain Networks Evolve by Maximizing Their Information Flow Capacity?
Cited by: 33
Author(s): Chris G. Antonopoulos, Suraj Srivastava, Sandro Ely de Souza Pinto, Murilo S. Baptista
Software Mentions: 2
Published: almost 11 years ago

10.1371/journal.pone.0140030

Anatomical Network Comparison of Human Upper and Lower, Newborn and Adult, and Normal and Abnormal Limbs, with Notes on Development, Pathology and Limb Serial Homology vs. Homoplasy
Cited by: 28
Author(s): Rui Diogo, Borja Esteve‐Altava, Christopher M. Smith, Julia C. Boughner, Diego Rasskin‐Gutman
Software Mentions: 2
Published: almost 11 years ago

10.1371/journal.pone.0252152

Social network analysis and whole-genome sequencing to evaluate disease transmission in a large, dynamic population: A study of avian mycobacteriosis in zoo birds
Cited by: 2
Author(s): Carmel Witte, James H. Fowler, Wayne Pfeiffer, Laura L. Hungerford, Joséphine Braun, Jennifer Burchell, Rebecca Papendick, Bruce A. Rideout
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pone.0191604

Resolution of ranking hierarchies in directed networks
Cited by: 12
Author(s): Elisa Letizia, Paolo Barucca, Fabrizio Lillo
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0121002

Fast Approximate Quadratic Programming for Graph Matching
Cited by: 115
Author(s): Joshua T. Vogelstein, John M. Conroy, Vince Lyzinski, Louis J. Podrazik, Steven G. Kratzer, Eric T. Harley, Donniell E. Fishkind, R. Jacob Vogelstein, Carey E. Priebe
Software Mentions: 2
Published: over 11 years ago

10.3390/genes12050740

Evolution of Reproductive Life History in Mammals and the Associated Change of Functional Constraints
Cited by: 6
Author(s): Jiaqi Wu, Takahiro Yonezawa, Hirohisa Kishino
Software Mentions: 2
Published: about 5 years ago