cran: igraph | Projects | Ecosyste.ms: Papers

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

10.1186/s12866-021-02311-1

Effects of mulberry leaf silage on antioxidant and immunomodulatory activity and rumen bacterial community of lambs
Cited by: 12
Author(s): Bing Wang, Haiwei Luo
Software Mentions: 2
Published: almost 5 years ago

10.1186/s12866-021-02092-7

Comparison and interpretation of characteristics of Rhizosphere microbiomes of three blueberry varieties
Cited by: 10
Author(s): Yan Zhang, Wei Wang, Zuorui Shen, Jingjing Wang, Yajun Chen, Dong Wang, Gang Liu, Maozhen Han
Software Mentions: 2
Published: over 5 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

10.1186/s13073-014-0052-z

Molecularly and clinically related drugs and diseases are enriched in phenotypically similar drug-disease pairs
Cited by: 15
Author(s): Ingo Vogt, Jeanette Prinz, Mónica Campillos
Software Mentions: 2
Published: almost 12 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.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

10.1186/s13073-017-0507-0

Within-host evolution of Enterococcus faecium during longitudinal carriage and transition to bloodstream infection in immunocompromised patients
Cited by: 23
Author(s): Danesh Moradigaravand, Theodore Gouliouris, Beth Blane, Plamena Naydenova, Catherine Ludden, Charles Crawley, Nicholas M. Brown, M. Estée Török, Julian Parkhill, Sharon J. Peacock
Software Mentions: 2
Published: over 8 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.0142108

Network-Based and Binless Frequency Analyses
Cited by: 20
Author(s): Sybil Derrible, Nasir Ahmad
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0187304

Identification of proteins associated with clinical and pathological features of proliferative diabetic retinopathy in vitreous and fibrovascular membranes
Cited by: 46
Author(s): Ingeborg Klaassen, Ewout de Vries, I. M. C. Vogels, Antoine H. C. van Kampen, Machteld I. Bosscha, David Steel, C. J. F. Van Noorden, S.Y. Lesnik–Oberstein, Reinier O. Schlingemann
Software Mentions: 2
Published: over 8 years ago

10.7554/eLife.02863

Buffered Qualitative Stability explains the robustness and evolvability of transcriptional networks
Cited by: 34
Author(s): Luca Albergante, J. Julian Blow, T. J. Newman
Software Mentions: 2
Published: almost 12 years ago

10.1371/journal.pone.0046156

Combining Epidemiological and Genetic Networks Signifies the Importance of Early Treatment in HIV-1 Transmission
Cited by: 16
Author(s): Narges Zarrabi, Mattia Prosperi, R.G. Belleman, Manuela Colafigli, Andrea De Luca, Peter M. A. Sloot
Software Mentions: 2
Published: almost 14 years ago

10.1371/journal.pone.0228613

Tropical marine sciences: Knowledge production in a web of path dependencies
Cited by: 22
Author(s): Stefan Partelow, Anna‐Katharina Hornidge, Paula Sobral, Moritz Stäbler, Achim Schlüter
Software Mentions: 2
Published: over 6 years ago

10.1155/2009/182689

Network Properties for Ranking Predicted miRNA Targets in Breast Cancer
Cited by: 4
Author(s): Jörg Linde, Björn Olsson, Zelmina Lubovac
Software Mentions: 2
Published: over 17 years ago

10.1371/journal.pone.0237864

The dynamics of global R&D collaboration networks in ICT: Does China catch up with the US?
Cited by: 5
Author(s): Thomas Scherngell, Charlotte Rohde, Martina Neuländtner
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0013139

Inference of Surface Membrane Factors of HIV-1 Infection through Functional Interaction Networks
Cited by: 9
Author(s): Samira Jaeger, Gökhan Ertaylan, David van Dijk, Ulf Leser, Peter M. A. Sloot
Software Mentions: 2
Published: almost 16 years ago

10.1186/1755-8794-6-S2-S2

Key genes for modulating information flow play a temporal role as breast tumor coexpression networks are dynamically rewired by letrozole
Cited by: 5
Author(s): Nadia M. Penrod, Jason H. Moore
Software Mentions: 2
Published: over 13 years ago

10.1186/s12879-019-3734-8

Social network analysis and whole genome sequencing in a cohort study to investigate TB transmission in an educational setting
Cited by: 15
Author(s): Simon Packer, Claire Green, Ellen Brooks-Pollock, Katerina Chaintarli, Sarah Harrison, Charles R. Beck
Software Mentions: 2
Published: over 7 years ago

10.1093/gigascience/gix054

iCAVE: an open source tool for visualizing biomolecular networks in 3D, stereoscopic 3D and immersive 3D
Cited by: 20
Author(s): Vaja Liluashvili, Selim Kalayci, Eugene Fluder, Manda Wilson, Aaron Gabow, Zeynep H. Gümüş
Software Mentions: 2
Published: about 9 years ago

10.1371/journal.pone.0099502

Co-Authorship and Bibliographic Coupling Network Effects on Citations
Cited by: 86
Author(s): Claudio Biscaro, Carlo Giupponi
Software Mentions: 2
Published: about 12 years ago

10.1371/journal.pone.0252470

Environmental drivers of reef manta ray (Mobula alfredi) visitation patterns to key aggregation habitats in the Maldives
Cited by: 6
Author(s): Joanna L. Harris, Guy M. W. Stevens
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pone.0157868

Analysis of the Effect of Degree Correlation on the Size of Minimum Dominating Sets in Complex Networks
Cited by: 10
Author(s): Kazuhiro Takemoto, Tatsuya Akutsu
Software Mentions: 2
Published: about 10 years ago

10.1371/journal.pone.0214857

Building the drug-GO function network to screen significant candidate drugs for myasthenia gravis
Cited by: 5
Author(s): Shuang Li, Yuze Cao, Lei Li, Huixue Zhang, Xiaoyu Lu, Chunrui Bo, Xiaotong Kong, Zhaojun Liu, Lixia Chen, Peifang Liu, Yang Jiao, Jianjian Wang, Shangwei Ning, Lihua Wang
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0121368

Changes of Soil Particle Size Distribution in Tidal Flats in the Yellow River Delta
Cited by: 26
Author(s): Xiaofei Lyu, Junbao Yu, Mo Zhou, Ben Ma, Guangmei Wang, Chuanlang Zhan, Guoqi Han, Bo Guan, Huifeng Wu, Yunzhao Li, Wang De
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.pone.0176978

Metabolomic homeostasis shifts after callus formation and shoot regeneration in tomato
Cited by: 14
Author(s): Alka Kumari, Kamalika Ray, Sadhna Sadhna, Arun K. Pandey, Yellamaraju Sreelakshmi, Rameshwar Sharma
Software Mentions: 2
Published: about 9 years ago

10.1093/gigascience/giaa019

Comparative proteomics analysis of Tibetan hull-less barley under osmotic stress via data-independent acquisition mass spectrometry
Cited by: 17
Author(s): Yulin Wang, Zha Sang, Shaohang Xu, Qijun Xu, Xingquan Zeng, Dunzhu Jabu, Hongjun Yuan
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0179281

Quantifying the web browser ecosystem
Cited by: 6
Author(s): Sela Ferdman, Einat Minkov, Ron Bekkerman, David Gefen
Software Mentions: 2
Published: about 9 years ago

10.1186/s41256-018-0067-x

Scientific authorship and collaboration network analysis on malaria research in Benin: papers indexed in the web of science (1996–2016)
Cited by: 15
Author(s): Roseric Azondékon, Zachary J. Harper, Fiacre Agossa, Charles M. Welzig, Susan McRoy
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0234990

The association between patient sharing network structure and healthcare costs
Cited by: 12
Author(s): Kimberley H. Geissler, Benjamin Lubin, Keith M. Marzilli Ericson
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pone.0257449

Biofilm microbiome in extracorporeal membrane oxygenator catheters
Cited by: 6
Author(s): Yeuni Yu, Yun Hak Kim, Woo Hyun Cho, Bong Soo Son, Hye Ju Yeo
Software Mentions: 2
Published: almost 5 years ago

10.1111/hex.13130

A skills network approach to physicians’ competence in shared decision making
Cited by: 4
Author(s): Levente Kriston, Pola Hahlweg, Martin Härter, Isabelle Scholl
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0099424

Human Genome Variation and the Concept of Genotype Networks
Cited by: 18
Author(s): Giovanni Marco Dall’Olio, Jaume Bertranpetit, Andreas Wagner, Hafid Laayouni
Software Mentions: 2
Published: about 12 years ago

10.1186/s12961-021-00774-2

Collaboration on evidence synthesis in Africa: a network study of growing research capacity
Cited by: 2
Author(s): Jiluan Pan, Yongqi Zhong, Sarah Young, Nynke M. D. Niezink
Software Mentions: 2
Published: almost 5 years ago

10.1016/j.heliyon.2020.e05069

Animating inter-organisational resilience communication: A participatory social network analysis of water governance in the UK
Cited by: 6
Author(s): Sarah Ward, Fanlin Meng, Sarah Bunney, Kegong Diao, David Butler
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0048740

Between-Group Variation in Female Dispersal, Kin Composition of Groups, and Proximity Patterns in a Black-and-White Colobus Monkey (Colobus vellerosus)
Cited by: 40
Author(s): Eva C. Wikberg, Pascale Sicotte, Fernando A. Campos, Nelson Ting
Software Mentions: 2
Published: over 13 years ago

10.1371/journal.pone.0221833

Social network analysis and the implications for Pontocaspian biodiversity conservation in Romania and Ukraine: A comparative study
Cited by: 10
Author(s): Aleksandre Gogaladze, Niels Raes, Jacobus C. Biesmeijer, Camelia Ionescu, Ana Bianca Pavel, Mikhail O. Son, Natalia Gozak, Vitaliy V. Anistratenko, Frank P. Wesselingh
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0020284

Gene-Disease Network Analysis Reveals Functional Modules in Mendelian, Complex and Environmental Diseases
Cited by: 161
Author(s): Anna Bauer-Mehren, Markus Bundschus, Michael Rautschka, Miguel Ángel Mayer, Ferrán Sanz, Laura I. Furlong
Software Mentions: 2
Published: about 15 years ago

10.1186/s12879-017-2529-z

Patterns of antimicrobial resistance in intensive care unit patients: a study in Vietnam
Cited by: 31
Author(s): Giang M. Tran, Thao P. Ho-Le, Duc T. Ha, Chau H. Tran-Nguyen, Tuyet S. M. Nguyen, Thao Thi Ngoc Pham, Thao Thi Thu Nguyen, Dung Nguyen, Hoa Q. Hoang, Ngoc Van Tran, Tuan V. Nguyen
Software Mentions: 2
Published: about 9 years ago

10.1371/journal.pone.0091724

The Impact of Movements and Animal Density on Continental Scale Cattle Disease Outbreaks in the United States
Cited by: 57
Author(s): Michael Buhnerkempe, Michael J. Tildesley, Tom Lindström, Daniel A. Grear, Katie Portacci, Ryan S. Miller, Jason E. Lombard, Marleen Werkman, Matthew James Keeling, Uno Wennergren, Colleen T. Webb
Software Mentions: 2
Published: over 12 years ago

10.1186/s13012-017-0611-y

Rapid sociometric mapping of community health workers to identify opinion leaders using an SMS platform: a short report
Cited by: 4
Author(s): Thomas Odeny, Maya Petersen, Charles T. Muga, Jayne Lewis-Kulzer, Elizabeth A. Bukusi, Elvin Geng
Software Mentions: 2
Published: about 9 years ago

10.1186/s13012-021-01150-y

Influence of physician networks on prescribing a new ingredient combination in heart failure: a longitudinal claim data-based study
Cited by: 2
Author(s): Christine Arnold, Jan Koetsenruijter, Johanna Forstner, Frank Peters-Klimm, Michel Wensing
Software Mentions: 2
Published: almost 5 years ago

10.1186/s40249-020-00668-5

Pretreatment HIV drug resistance in adults initiating antiretroviral therapy in China, 2017
Cited by: 19
Author(s): Ran Kang, Shanshan Liang, Yanhui Ma, Shu Liang, Lin Xiao, Xinhui Zhang, Hongzhou Lu, Xun Xu, Suxin Luo, Xiaoguang Sun, Lin Chen, Jianmei He, Guohui Wu, Lingjie Liao, Hui Xing, Yiming Shao, Yuhua Ruan
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pone.0094022

Identification of Thyroid Carcinoma Related Genes with mRMR and Shortest Path Approaches
Cited by: 18
Author(s): Yaping Xu, Yue Deng, Zhenhua Ji, Haibin Liu, Yueyang Liu, Peisong Hu, Jian Wu, Jian‐Gao Fan
Software Mentions: 2
Published: over 12 years ago

10.3390/insects11020081

Allometry and Fighting Behaviour of a Dimorphic Stag Beetle Cyclommatus mniszechi (Coleoptera: Lucanidae)
Cited by: 9
Author(s): Zhen Yi Chen, Yu-Wei Hsu, Chung Ping Lin
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0112928

Marked Microevolution of a Unique Mycobacterium tuberculosis Strain in 17 Years of Ongoing Transmission in a High Risk Population
Cited by: 29
Author(s): Carolina Mehaffy, Jennifer L. Guthrie, David C. Alexander, Rebecca Stuart, Elizabeth Rea, Frances Jamieson
Software Mentions: 2
Published: over 11 years ago

10.1155/2011/238743

Contact Heterogeneity and Phylodynamics: How Contact Networks Shape Parasite Evolutionary Trees
Cited by: 17
Author(s): Eamon B. O’Dea, Claus O. Wilke
Software Mentions: 2
Published: over 15 years ago

10.1371/journal.pone.0068927

Spatial Structures of the Environment and of Dispersal Impact Species Distribution in Competitive Metacommunities
Cited by: 21
Author(s): Dexiecuo Ai, Dominique Gravel, Chengjin Chu, Gang Wang
Software Mentions: 2
Published: about 13 years ago

10.1186/s12913-019-4084-3

Involving end-users in the design of an audit and feedback intervention in the emergency department setting – a mixed methods study
Cited by: 16
Author(s): Welmoed K. van Deen, Edward S. Cho, Kathryn Pustolski, Dennis Wixon, Shona Lamb, Thomas W. Valente, Michael Menchine
Software Mentions: 2
Published: about 7 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

10.1371/journal.pone.0138148

Analysing Local Sparseness in the Macaque Brain Network
Cited by: 0
Author(s): R. V. Singh, Seema Nagar, Amit A. Nanavati
Software Mentions: 2
Published: almost 11 years ago

10.1371/journal.pone.0112821

Community Structure Detection for Overlapping Modules through Mathematical Programming in Protein Interaction Networks
Cited by: 17
Author(s): Laura Bennett, Aristotelis Kittas, Songsong Liu, Lazaros G. Papageorgiou, Sophia Tsoka
Software Mentions: 2
Published: over 11 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

10.1371/journal.pone.0216784

Sexual network and detection of anogenital human papillomavirus in a community cohort of men who have sex with men in Taiwan
Cited by: 4
Author(s): Carol Strong, Yi Fang Yu, Huachun Zou, Wen Wei Ku, Chia Wen Lee, Nai Ying Ko
Software Mentions: 2
Published: about 7 years ago

10.1111/jcmm.14792

Integrative transcriptomic and proteomic analysis reveals CD9/ITGA4/PI3K‐Akt axis mediates trabecular meshwork cell apoptosis in human glaucoma
Cited by: 14
Author(s): Junwei Yan, Xiaofeng Yang, Xuefei Jiao, Xian Yang, Mingzhou Guo, Yunqing Chen, Lu Zhan, Wenshi Chen
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0198166

Novel genetic associations for blood pressure identified via gene-alcohol interaction in up to 570K individuals across multiple ancestries
Cited by: 83
Author(s): Mary F. Feitosa, Aldi T. Kraja, Daniel I. Chasman, Yun Ju Sung, Thomas W. Winkler, Ιωάννα Ντάλλα, Xiuqing Guo, Nora Franceschini, Ching‐Yu Cheng, Xueling Sim, Dina Vojinović, Jonathan Marten, Solomon K. Musani, Changwei Li, Amy R. Bentley, M. R. W. Brown, Karen Schwander, Melissa A. Richard, Raymond Noordam, Hugues Aschard, Traci M. Bartz, Lawrence F. Bielak, Rajkumar Dorajoo, Virginia Fisher, Fernando Pires Hartwig, Andrea R V R Horimoto, Kurt Lohman, Alisa K. Manning, Tuomo Rankinen, Albert V. Smith, Salman M. Tajuddin, Mary K. Wojczynski, Maris Alver, Mathilde Boissel, Qiuyin Cai, Archie Campbell, Jin Chai, Xu Chen, Jasmin Divers, Chuan Gao, Anuj Goel, Yanick Hagemeijer, Sarah E. Harris, Meian He, Fang Chi Hsu, Anne Jackson, Mika Kähönen, Anuradhani Kasturiratne, Pirjo Komulainen, Brigitte Kühnel, Federica Laguzzi, Jian’an Luan, Nana Matoba, Ilja M. Nolte, Sandosh Padmanabhan, Muhammad Riaz, Rico Rueedi, Antonietta Robino, M. Abdullah Said, Robert A. Scott, Tamar Sofer, Alena Stančáková, Fumihiko Takeuchi, Bamidele O. Tayo, Peter J. van der Most, Tibor V. Varga, Véronique Vitart, Yajuan Wang, Erin B. Ware, Helen R. Warren, Stefan Weiß, Wanqing Wen, Lisa R. Yanek, Weihua Zhang, Jing Hua Zhao, Saima Afaq, Najaf Amin, Marzyeh Amini, Dan E. Arking, Tin Aung, Eric Boerwinkle, Ingrid B. Borecki, Ulrich Broeckel, Morris J. Brown, Marco Brumat, Gregory L. Burke, Mickaël Canouil, Aravinda Chakravarti, Charumathi Sabanayagam, Yii Der Ida Chen, John Connell, Adolfo Correa, Lisa de las Fuentes, Renée de Mutsert, H. Janaka De Silva, Xuan Deng, Jingzhong Ding, Qing Duan, Charles B. Eaton, Georg Ehret, Ruben N. Eppinga, Εvangelos Εvangelou, Jessica D. Faul, Stephan B. Felix, Nita G. Forouhi, Terrence Forrester, Oscar H. Franco, Yechiel Friedlander, Ilaria Gandin, He Gao, Mohsen Ghanbari, Bruna Gigante, C. Charles Gu, Dongfeng Gu, Saskia Hagenaars, Göran Hallmans, Tamara B. Harris, Jiang He, Sami Heikkinen, Chew Kiat Heng, Makoto Hirata, Barbara V. Howard, M. Arfan Ikram, Ulrich John, Tomohiro Katsuya, Chiea Chuen Khor, Tuomas O. Kilpeläinen, Woon Puay Koh, José Eduardo Krieger, Stephen B. Kritchevsky, Michiaki Kubo, Johanna Kuusisto, Timo A. Lakka, Carl D. Langefeld, Claudia Langenberg, Lenore J. Launer, Benjamin Lehne, Cora E. Lewis, Yize Li, Shiow J. Lin, Jianjun Li, Jingmin Liu, Marie Loh, Tin Louie, Reedik Mägi, Colin A. McKenzie, Thomas Meitinger, Andres Metspalu, Yuri Milaneschi, Lili Milani, Karen L. Mohlke, Yukihide Momozawa, Mike A. Nalls, Christopher P. Nelson, Nona Sotoodehnia, Jill M. Norris, Jeff O’Connell, Thomas T. Perls, Nancy L. Pedersen, Annette Peters, Patricia A. Peyser, Neil Poulter, Leslie J. Raffel, Olli T. Raitakari, Kathryn Roll, Lynda M. Rose, Frits R. Rosendaal, Jerome I. Rotter, Carsten Oliver Schmidt, Pamela J. Schreiner, Nicole Schupf, William R. Scott, Peter Sever, Yuan Shi, Stephen Sidney, Mario Sims, Colleen M. Sitlani, Jennifer A. Smith, Harold Snieder, John M. Starr, Konstantin Strauch, Heather M. Stringham, Nicholas Tan, Hua Tang, Kent D. Taylor, Yik Ying Teo, Yih Chung Tham, Stephen T. Turner, André G. Uitterlinden, Péter Vollenweider, Mélanie Waldenberger, Lihua Wang, Ya Xing Wang, Wen Bin Wei, Christine A. Williams, Jie Yao, Caizheng Yu, Jian Min Yuan, Wei Zhao, Alan B. Zonderman, Diane M. Becker, Michael Boehnke, Donald W. Bowden, John C. Chambers, Ian J. Deary, Tõnu Esko, Martin Farrall, Paul W. Franks, Barry I. Freedman, Philippe Froguel, Paolo Gasparini, Christian Gieger, Jost B. Jonas, Yoichiro Kamatani, Norihiro Kato, Jaspal S. Kooner, Zoltán Kutalik, Markku Laakso, Cathy C. Laurie, Karin Leander, Terho Lehtimäki, Patrik K. E. Magnusson, Albertine J. Oldehinkel, Brenda W. J. H. Penninx, Ozren Polašek, David J. Porteous, Rainer Rauramaa, Nilesh J. Samani, James G. Scott, Xiao Ou Shu, Pim van der Harst, Lynne E. Wagenknecht, Nicholas J. Wareham, Hugh Watkins, David R. Weir, Ananda R. Wickremasinghe, Tangchun Wu, Wei Zheng, Claude Bouchard, Kaare Christensen, Michele K. Evans, Vilmundur Gudnason, Bernardo Lessa Horta, Sharon L.R. Kardia, Yongmei Liu, Alexandre C. Pereira, Bruce M. Psaty, Paul M. Ridker, Rob M. van Dam, W. James Gauderman, Xiaofeng Zhu, Dennis O. Mook‐Kanamori, Myriam Fornage, Charles N. Rotimi, L. Adrienne Cupples, Tanika N. Kelly, Ervin R. Fox, Caroline Hayward, Cornelia M. van Duijn, E. Shyong Tai, Tien Yin Wong, Charles Kooperberg, Walter Palmas, Kenneth Rice, Alanna C. Morrison, Paul Elliott, Mark J. Caulfield, Patricia B. Munroe, D. C. Rao, Michael A. Province, Daniel Levy
Software Mentions: 2
Published: about 8 years ago

10.1371/journal.pone.0016932

Novel Feature for Catalytic Protein Residues Reflecting Interactions with Other Residues
Cited by: 11
Author(s): Yizhou Li, Gongbing Li, Zhining Wen, Hui Yin, Manman Hu, Jiamin Xiao, Menglong Li
Software Mentions: 2
Published: over 15 years ago

10.1186/s12859-016-1013-x

CompNet: a GUI based tool for comparison of multiple biological interaction networks
Cited by: 29
Author(s): Bhusan K. Kuntal, Anirban Dutta, Sharmila S. Mande
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0160919

Anomaly Detection in Host Signaling Pathways for the Early Prognosis of Acute Infection
Cited by: 12
Author(s): Kun Wang, Stanley Langevin, Corey S. O’Hern, Mark D. Shattuck, Serenity Ogle, Adriana Forero, Juliet Morrison, Richard A. Slayden, Michael G. Katze, Michael Kirby
Software Mentions: 2
Published: almost 10 years ago

10.1371/journal.pone.0158161

How to Study the City on Instagram
Cited by: 54
Author(s): John D. Boy, Justus Uitermark
Software Mentions: 2
Published: about 10 years ago

10.1371/journal.pone.0200079

Urothelial bladder cancer may suppress perforin expression in CD8+ T cells by an ICAM-1/TGFβ2 mediated pathway
Cited by: 14
Author(s): Ciputra Adijaya Hartana, Emma Ahlén Bergman, Ali Zirakzadeh, David H. Krantz, Malin E. Winerdal, Max Winerdal, Markus Johansson, Farhood Alamdari, Tomasz Jakubczyk, Hans Glise, Katrine Riklund, Amir Sherif, Ola Winqvist
Software Mentions: 2
Published: about 8 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

10.1371/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.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

10.1186/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

10.1186/s12859-021-04216-2

Exploring the functional composition of the human microbiome using a hand-curated microbial trait database
Cited by: 8
Author(s): Jake L. Weissman, Sonia Dogra, Keyan Javadi, Samantha Bolten, Rachel Flint, Cyrus Davati, Jess Beattie, Keshav Dixit, Tejasvi Peesay, Shehar Awan, Peter Thielen, Florian P. Breitwieser, Philip L. Johnson, David Karig, William F. Fagan, Sharon Bewick
Software Mentions: 2
Published: about 5 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.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

10.1016/j.prevetmed.2018.09.004

New approaches to pharmacosurveillance for monitoring prescription frequency, diversity, and co-prescription in a large sentinel network of companion animal veterinary practices in the United Kingdom, 2014–2016
Cited by: 24
Author(s): David A. Singleton, Fernando Sánchez‐Vizcaíno, Elena Arsevska, Susan Dawson, Philip H. Jones, P. J. W. Noble, Gina Pinchbeck, Nicola Williams, Alan Radford
Software Mentions: 2
Published: over 7 years ago

10.3390/ijms22031097

In Silico Inference of Synthetic Cytotoxic Interactions from Paclitaxel Responses
Cited by: 0
Author(s): Jeong Hoon Lee, Kye Hwa Lee, Ju Han Kim
Software Mentions: 2
Published: over 5 years ago

10.1098/rspb.2015.2359

The social and ecological costs of an ‘over-extended' phenotype
Cited by: 22
Author(s): Lyndon Alexander Jordan, Sean M. Maguire, Hans A. Hofmann, Masanori Kohda
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0241453

Keystone actors do not act alone: A business ecosystem perspective on sustainability in the global clothing industry
Cited by: 16
Author(s): Jacob Hileman, Ivan Simon Kallstenius, Tiina Häyhä, Celinda Palm, Sarah Cornell
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0170817

Trends of the World Input and Output Network of Global Trade
Cited by: 24
Author(s): R. Maria del Rio-Chanona, Jelena Grujić, Henrik Jeldtoft Jensen
Software Mentions: 2
Published: over 9 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/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

10.3390/ijms22073497

ceRNA Network Regulation of TGF-β, WNT, FOXO, Hedgehog Pathways in the Pharynx of Ciona robusta
Cited by: 4
Author(s): Aiti Vizzini, Angela Bonura, Laura La Paglia, Antonino Fiannaca, Massimo La Rosa, Alfonso Urso, Vincenzo Arizza
Software Mentions: 2
Published: over 5 years ago

10.1098/rspb.2019.0681

Hierarchical social modularity in gorillas
Cited by: 28
Author(s): Robin E. Morrison, Milou Groenenberg, Thomas Breuer, Marie L. Manguette, Peter Walsh
Software Mentions: 2
Published: about 7 years ago

10.1186/1471-2164-11-380

Response of the mosquito protein interaction network to dengue infection
Cited by: 44
Author(s): Xiang Guo, Yao–Zhong Xu, Guowu Bian, Andrew Pike, Yan Xie, Zhiyong Xi
Software Mentions: 2
Published: about 16 years ago

10.1371/journal.pone.0223779

Inhibitory interaction networks among coevolved Streptomyces populations from prairie soils
Cited by: 5
Author(s): Daniel Schlatter, Zewei Song, Patricia Vaz-Jauri, Linda L. Kinkel
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0033799

Hierarchy Measure for Complex Networks
Cited by: 193
Author(s): Enys Mones, Lilla Vicsek, Tamás Vicsek
Software Mentions: 2
Published: over 14 years ago

10.1371/journal.pone.0112775

Time Development in the Early History of Social Networks: Link Stabilization, Group Dynamics, and Segregation
Cited by: 17
Author(s): Jesper Bruun, I. G. Bearden
Software Mentions: 2
Published: over 11 years ago

10.1073/pnas.2013391118

Network hubs cease to be influential in the presence of low levels of advertising
Cited by: 6
Author(s): Gabriel Rossman, Joan M. Fisher
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0087042

Positive Network Assortativity of Influenza Vaccination at a High School: Implications for Outbreak Risk and Herd Immunity
Cited by: 77
Author(s): Victoria C Barclay, Timo Smieszek, Jianping He, Guohong Cao, Jeanette J. Rainey, Hongjiang Gao, Amra Uzicanin, Marcel Salathé
Software Mentions: 2
Published: over 12 years ago

10.1002/prot.25257

Aberrant coordination geometries discovered in the most abundant metalloproteins
Cited by: 8
Author(s): Sen Yao, Robert M. Flight, Eric C. Rouchka, Hunter N. B. Moseley
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0237168

Spatiotemporal network structure among “friends of friends” reveals contagious disease process
Cited by: 2
Author(s): Carmel Witte, Laura L. Hungerford, Bruce A. Rideout, Rebecca Papendick, James H. Fowler
Software Mentions: 2
Published: almost 6 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

10.1371/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

10.1371/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

10.1186/1471-2105-8-88

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

10.1371/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

10.1186/1471-2164-16-S7-S18

Systems analysis of gene ontology and biological pathways involved in post-myocardial infarction responses
Cited by: 10
Author(s): Nguyen T. Nguyen, Merry L. Lindsey, Yu Jin
Software Mentions: 2
Published: about 11 years ago

10.1371/journal.pone.0213221

A meta-analysis of multiple matched aCGH/expression cancer datasets reveals regulatory relationships and pathway enrichment of potential oncogenes
Cited by: 1
Author(s): Richard Newton, Lorenz Wernisch
Software Mentions: 2
Published: about 7 years ago

10.1186/s12864-018-4959-4

Whole genome sequencing and function prediction of 133 gut anaerobes isolated from chicken caecum in pure cultures
Cited by: 85
Author(s): Matej Medvecký, Darina Čejková, Ondřej Polanský, Daniela Karasova, Tereza Kubasová, Alois Čížek, Ivan Rychlı́k
Software Mentions: 2
Published: almost 8 years ago

10.1186/s12862-019-1446-8

Host specialisation and disparate evolution of Pyrenophora teres f. teres on barley and barley grass
Cited by: 7
Author(s): Celeste C. Linde, Leon M. Smith
Software Mentions: 2
Published: about 7 years ago

10.1371/journal.pone.0205295

Combining multi-OMICs information to identify key-regulator genes for pleiotropic effect on fertility and production traits in beef cattle
Cited by: 31
Author(s): Pablo Augusto de Souza Fonseca, Samir Id‐Lahoucine, Antônio Reverter, Juan F. Medrano, M. R. S. Fortes, J. Casellas, F. Miglior, Luiz F. Brito, Maria Raquel Santos Carvalho, F.S. Schenkel, Loan Nguyen, Laércio R. Porto-Neto, M. G. Thomas, Ángela Cánovas
Software Mentions: 2
Published: almost 8 years ago

10.1371/journal.pone.0190001

Graph complexity analysis identifies an ETV5 tumor-specific network in human and murine low-grade glioma
Cited by: 5
Author(s): Yuan Pan, Christina Durón, Erin C. Bush, Yu Ma, Peter A. Sims, David H. Gutmann, Ami Radunskaya, Johanna Hardin
Software Mentions: 2
Published: about 8 years ago

10.2196/12914

Identifying Influence Agents That Promote Physical Activity Through the Simulation of Social Network Interventions: Agent-Based Modeling Study
Cited by: 24
Author(s): Thabo J. van Woudenberg, Bojan Simoski, Eric Fernandes de Mello Araújo, Kirsten E. Bevelander, William J. Burk, Crystal R. Smit, Laura Buijs, Michel Klein, Moniek Buijzen
Software Mentions: 2
Published: almost 7 years ago

Projects: cran: igraph

Science Score: 100/100

Bonuses:

Papers Mentioning igraph 1,555