cran: igraph | Projects | Ecosyste.ms: Papers

10.1371/journal.pcbi.1005316

Inference of Transmission Network Structure from HIV Phylogenetic Trees
Cited by: 31
Author(s): Federica Giardina, Ethan Romero-Severson, Jan Albert, Tom Britton, Thomas Leitner
Software Mentions: 3
Published: over 9 years ago

10.1371/journal.pcbi.1003472

Integrative Computational and Experimental Approaches to Establish a Post-Myocardial Infarction Knowledge Map
Cited by: 9
Author(s): Nguyen T. Nguyen, Xiaolin Zhang, Cathy H. Wu, Richard A. Lange, Robert Chilton, Merry L. Lindsey, Yu Jin
Software Mentions: 3
Published: over 12 years ago

10.1371/journal.pcbi.1004088

Mining Host-Pathogen Protein Interactions to Characterize Burkholderia mallei Infectivity Mechanisms
Cited by: 28
Author(s): Vesna Memišević, Nela Zavaljevski, Seesandra V. Rajagopala, Ki-Ryong Kwon, Rembert Pieper, David DeShazer, Jaques Reifman, Anders Wallqvist
Software Mentions: 3
Published: over 11 years ago

10.1371/journal.pgen.1005413

A Year of Infection in the Intensive Care Unit: Prospective Whole Genome Sequencing of Bacterial Clinical Isolates Reveals Cryptic Transmissions and Novel Microbiota
Cited by: 163
Author(s): David J. Roach, Joshua N. Burton, Choli Lee, Bethany Stackhouse, Susan M. Butler-Wu, Brad T. Cookson, Jay Shendure, Stephen J. Salipante
Software Mentions: 3
Published: about 11 years ago

10.1371/journal.pgen.1008801

Dynamic genetic architecture of yeast response to environmental perturbation shed light on origin of cryptic genetic variation
Cited by: 14
Author(s): Yanjun Zan, Örjan Carlborg
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pgen.1009101

Identity-by-descent with uncertainty characterises connectivity of Plasmodium falciparum populations on the Colombian-Pacific coast
Cited by: 15
Author(s): Aimee R Taylor, Diego F. Echeverry, Timothy J. Anderson, Daniel E. Neafsey, Caroline O. Buckee
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pgen.1006817

Pervasive antagonistic interactions among hybrid incompatibility loci
Cited by: 45
Author(s): Rafael F. Guerrero, Christopher D. Muir, Sarah Josway, Leonie C. Moyle
Software Mentions: 3
Published: over 9 years ago

10.1371/journal.pgen.1006363

Combined Use of Genome-Wide Association Data and Correlation Networks Unravels Key Regulators of Primary Metabolism in Arabidopsis thaliana
Cited by: 63
Author(s): Si Wu, Saleh Alseekh, Álvaro Cuadros-Inostroza, Corina M. Fusari, Marek Mutwil, Rik Kooke, Joost J. B. Keurentjes, Alisdair R. Fernie, Lothar Willmitzer, Yariv Brotman
Software Mentions: 3
Published: almost 10 years ago

10.1371/journal.pgen.1006706

Mapping of 79 loci for 83 plasma protein biomarkers in cardiovascular disease
Cited by: 174
Author(s): Lasse Folkersen, Eric B. Fauman, Maria Sabater‐Lleal, Rona J. Strawbridge, Mattias Frånberg, Bengt Sennblad, Damiano Baldassarre, Fabrizio Veglia, Steve E. Humphries, Rainer Rauramaa, Ulf dé Fairé, Andries J. Smit, Philippe Giral, Sudhir Kurl, Elmo Mannarino, Stefan Enroth, Åsa Johansson, Sofia Bosdotter Enroth, Stefan Gustafsson, Lars Lind, Cecilia M. Lindgren, Andrew P. Morris, Vilmantas Giedraitis, Angela Silveira, Anders Franco‐Cereceda, Elena Tremoli, Ulf Gyllensten, Erik Ingelsson, Søren Brunak, Per Eriksson, Daniel Ziemek, Anders Hamsten, Anders Mälarstig
Software Mentions: 3
Published: over 9 years ago

10.1371/journal.pone.0173548

Characterization of the mechanism of drug-drug interactions from PubMed using MeSH terms
Cited by: 28
Author(s): Ling Yin, Bryan Figler, Hong Huang, Yi-Cheng Tu, Wang Ju, Feng Cheng
Software Mentions: 3
Published: over 9 years ago

10.1371/journal.pone.0129745

'SEEDY' (Simulation of Evolutionary and Epidemiological Dynamics): An R Package to Follow Accumulation of Within-Host Mutation in Pathogens
Cited by: 23
Author(s): Colin J. Worby, Timothy D. Read
Software Mentions: 3
Published: over 11 years ago

10.1371/journal.pone.0248194

Effects of precipitation change and nitrogen addition on the composition, diversity, and molecular ecological network of soil bacterial communities in a desert steppe
Cited by: 24
Author(s): Meiqing Jia, Zhiwei Gao, Huijun Gu, Chenyu Zhao, Meiqi Liu, Fanhui Liu, Lina Xie, Lichun Wang, Guogang Zhang, Yuhua Liu, Guodong Han
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0176500

Simulation of the dynamics of primary immunodeficiencies in CD4+ T-cells
Cited by: 4
Author(s): Gabriel Teku, Mauno Vihinen
Software Mentions: 3
Published: over 9 years ago

10.1371/journal.pone.0246687

Comparison of wild rice (Oryza longistaminata) tissues identifies rhizome-specific bacterial and archaeal endophytic microbiomes communities and network structures
Cited by: 7
Author(s): Xiaojue Peng, Jian Xie, Wenzhuo Li, Haizhu Xie, Yaohui Cai, Xia Ding
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0248340

Analysis of survey on menstrual disorder among teenagers using Gaussian copula model with graphical lasso prior
Cited by: 3
Author(s): Jiali Wang, Anton H. Westveld, A. H. Welsh, Melissa Parker, Bronwyn Loong
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0244839

A scientometric overview of CORD-19
Cited by: 45
Author(s): Giovanni Colavizza, Rodrigo Costas, Vincent Traag, Nees Jan van Eck, Thed N. van Leeuwen, Ludo Waltman
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0193425

Consistent individual differences and population plasticity in network-derived sociality: An experimental manipulation of density in a gregarious ungulate
Cited by: 9
Author(s): Paul Philip O'Brien, Quinn M. R. Webber, Eric Vander Wal
Software Mentions: 3
Published: over 8 years ago

10.1371/journal.pone.0102856

Thermostability of In Vitro Evolved Bacillus subtilis Lipase A: A Network and Dynamics Perspective
Cited by: 23
Author(s): Ashutosh Srivastava, Somdatta Sinha
Software Mentions: 3
Published: about 12 years ago

10.1371/journal.pone.0244299

An avian dominance hierarchy at a supplemental water source in the Patagonian steppe
Cited by: 2
Author(s): Sophie Rabinowicz, Natalia C. García, Tristan Herwood, Amanda Lazar, Benjamin Hein, Eliot T. Miller, Leonardo Campagna
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0148135

Symbiotic Bacteria in Gills and Guts of Chinese Mitten Crab (Eriocheir sinensis) Differ from the Free-Living Bacteria in Water
Cited by: 71
Author(s): Meiling Zhang, Yanfa Sun, Liqiao Chen, Chen Cai, Fang Qiao, Zhen‐Yu Du, Erchao Li
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pone.0111262

Consensus between Pipelines in Structural Brain Networks
Cited by: 20
Author(s): Christopher S. Parker, Fani Deligianni, M. Jorge Cardoso, Pankaj Daga, Marc Modat, Michael Dayan, Chris A. Clark, Sébastien Ourselin, Jonathan D. Clayden
Software Mentions: 3
Published: almost 12 years ago

10.1371/journal.pone.0083167

Structural Propensities of Human Ubiquitination Sites: Accessibility, Centrality and Local Conformation
Cited by: 9
Author(s): Yuan Zhou, Sixue Liu, Jiangning Song, Ziding Zhang
Software Mentions: 3
Published: almost 13 years ago

10.1371/journal.pone.0123545

Characterizing Task-Based OpenMP Programs
Cited by: 7
Author(s): Ananya Muddukrishna, Peter Jönsson, Mats Brorsson
Software Mentions: 3
Published: over 11 years ago

10.1371/journal.pone.0204186

EMT network-based feature selection improves prognosis prediction in lung adenocarcinoma
Cited by: 6
Author(s): Borong Shao, Maria Moksnes Bjaanæs, Åslaug Helland, Christof Schütte, Tim Conrad
Software Mentions: 3
Published: over 7 years ago

10.1371/journal.pone.0106052

Dimensionality of Social Networks Using Motifs and Eigenvalues
Cited by: 30
Author(s): Anthony Bonato, David F. Gleich, Myung‐Hwan Kim, Dieter Mitsche, Paweł Prałat, Yanhua Tian, Stephen J. Young
Software Mentions: 3
Published: about 12 years ago

10.1371/journal.pone.0242621

Victims, offenders and victim-offender overlaps of knife crime: A social network analysis approach using police records
Cited by: 11
Author(s): Louis Bailey, Vincent Harinam, Barak Ariel
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pone.0078059

Perturbation Centrality and Turbine: A Novel Centrality Measure Obtained Using a Versatile Network Dynamics Tool
Cited by: 25
Author(s): Kristóf Z. Szalay, Péter Csermely
Software Mentions: 3
Published: almost 13 years ago

10.1371/journal.pone.0219771

Descriptive analysis of horse movement networks during the 2015 equestrian season in Ontario, Canada
Cited by: 7
Author(s): Kelsey L. Spence, Terri L. O’Sullivan, Zvonimir Poljak, Amy L. Greer
Software Mentions: 3
Published: about 7 years ago

10.1371/journal.pone.0232458

A network analysis of research productivity by country, discipline, and wealth
Cited by: 35
Author(s): Klaus Jaffé, Enrique ter Horst, Laura H Gunn, Juan Diego Zambrano, Germán Molina
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0202615

Tracking a serial killer: Integrating phylogenetic relationships, epidemiology, and geography for two invasive meningococcal disease outbreaks
Cited by: 8
Author(s): Ifeoma Ezeoke, Madeline R. Galac, Ying Lin, Alvin T. Liem, Pierce A. Roth, Andy Kilianski, Henry S. Gibbons, Danielle Bloch, John Kornblum, Paula Del Rosso, Daniel Janies, Don Weiss
Software Mentions: 3
Published: almost 8 years ago

10.1371/journal.pone.0142443

Gene Network Rewiring to Study Melanoma Stage Progression and Elements Essential for Driving Melanoma
Cited by: 9
Author(s): Abhinav Kaushik, Yashuma Bhatia, Shakir Ali, Dinesh Gupta
Software Mentions: 3
Published: almost 11 years ago

10.1371/journal.pone.0027368

Defining the Role of Essential Genes in Human Disease
Cited by: 85
Author(s): Jonathan E. Dickerson, Ana Zhu, David L. Robertson, Kathryn E. Hentges
Software Mentions: 3
Published: almost 15 years ago

10.1371/journal.pone.0153381

Kin-Aggregations Explain Chaotic Genetic Patchiness, a Commonly Observed Genetic Pattern, in a Marine Fish
Cited by: 40
Author(s): Jason D. Selwyn, J. Derek Hogan, Alan M. Downey‐Wall, Lauren Gurski, David S. Portnoy, Daniel D. Heath
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pone.0141191

The Importance of Networking in Autism Gaze Analysis
Cited by: 21
Author(s): Quentin Guillon, Mohammad H. Afzali, Bernadette Rogé, Sophie Baduel, Jeanne Kruck, Nouchine Hadjikhani
Software Mentions: 3
Published: almost 11 years ago

10.1371/journal.pone.0234095

Validity, reliability and cut-offs of the Patient Health Questionnaire-9 as a screening tool for depression among patients living with epilepsy in Rwanda
Cited by: 12
Author(s): Fidèle Sebera, João Ricardo Nickenig Vissoci, Josiane Umwiringirwa, Dirk E. Teuwen, Paul E. Boon, Peter Dedeken
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0224201

MANET 3.0: Hierarchy and modularity in evolving metabolic networks
Cited by: 14
Author(s): Fizza Mughal, Gustavo Caetano‐Anollés
Software Mentions: 3
Published: almost 7 years ago

10.1371/journal.pone.0111681

Taxonomic and Functional Diversity Provides Insight into Microbial Pathways and Stress Responses in the Saline Qinghai Lake, China
Cited by: 12
Author(s): Qiuyuan Huang, Brandon R. Briggs, Hailiang Dong, Hongchen Jiang, Geng Wu, Christian F. Edwardson, Iwijn De Vlaminck, Stephen R. Quake
Software Mentions: 3
Published: almost 12 years ago

10.1371/journal.pone.0088581

High-Throughput Sequence Typing Reveals Genetic Differentiation and Host Specialization among Populations of the Borrelia burgdorferi Species Complex that Infect Rodents
Cited by: 25
Author(s): Maude Jacquot, Maxime Bisseux, David Abrial, Maud Marsot, Elisabeth Ferquel, Jean‐Louis Chapuis, Gwenaël Vourc’H, Xavier Bailly
Software Mentions: 3
Published: over 12 years ago

10.1371/journal.pone.0122477

Mining the Modular Structure of Protein Interaction Networks
Cited by: 6
Author(s): Ariel Berenstein, Janet Piñero, Laura I. Furlong, Ariel Chernomoretz
Software Mentions: 3
Published: over 11 years ago

10.1371/journal.pone.0086973

Tracking Socioeconomic Vulnerability Using Network Analysis: Insights from an Avian Influenza Outbreak in an Ostrich Production Network
Cited by: 19
Author(s): Christine Moore, Graeme S. Cumming, Jasper A. Slingsby, John Grewar
Software Mentions: 3
Published: over 12 years ago

10.1371/journal.pone.0218779

Conversion of monoculture cropland and open grassland to agroforestry alters the abundance of soil bacteria, fungi and soil-N-cycling genes
Cited by: 38
Author(s): Lukas Beule, Marife D. Corre, M. Schmidt, Leonie Göbel, Edzo Veldkamp, Petr Karlovský
Software Mentions: 3
Published: about 7 years ago

10.1371/journal.pone.0022295

Randomizing Genome-Scale Metabolic Networks
Cited by: 16
Author(s): Areejit Samal, O. C. Martin
Software Mentions: 3
Published: about 15 years ago

10.1371/journal.pone.0222611

Social and structural factors associated with substance use within the support network of adults living in precarious housing in a socially marginalized neighborhood of Vancouver, Canada
Cited by: 11
Author(s): Verena Knerich, Andrea A. Jones, Sam Seyedin, Christopher Siu, Louie Dinh, Sara Mostafavi, Alasdair M. Barr, William J. Panenka, Allen E. Thornton, William G. Honer, Alexander R. Rutherford
Software Mentions: 3
Published: almost 7 years ago

10.1371/journal.pone.0189223

Systematic integrative analysis of gene expression identifies HNF4A as the central gene in pathogenesis of non-alcoholic steatohepatitis
Cited by: 47
Author(s): Cristina Baciu, Elisa Pasini, Marc Angeli, Katherine J. P. Schwenger, Jenifar Afrin, Atul Humar, Sandra E. Fischer, Keyur Patel, Johane P. Allard, Mamatha Bhat
Software Mentions: 3
Published: almost 9 years ago

10.1371/journal.pone.0224632

Mitochondrial dysfunction in rheumatoid arthritis: A comprehensive analysis by integrating gene expression, protein-protein interactions and gene ontology data
Cited by: 22
Author(s): Venugopal Panga, Ashwin Adrian Kallor, Arunima Nair, Shilpa Harshan, Srivatsan Raghunathan
Software Mentions: 3
Published: almost 7 years ago

10.1371/journal.pone.0052068

Power-Laws and the Use of Pluripotent Stem Cell Lines
Cited by: 4
Author(s): Bernhard Schuldt, Anke Guhr, Michael Lenz, Sabine Kobold, Ben D. MacArthur, Andreas Schuppert, Peter Löser, Franz‐Josef Müller
Software Mentions: 3
Published: over 13 years ago

10.1371/journal.pone.0119580

Tightly Regulated Expression of Autographa californica Multicapsid Nucleopolyhedrovirus Immediate Early Genes Emerges from Their Interactions and Possible Collective Behaviors
Cited by: 2
Author(s): Chikako Ono, Mitsuru Sato, Hitomi Taka, Sumitada Asano, Yoshiharu Matsuura, Hideaki Bando
Software Mentions: 3
Published: over 11 years ago

10.1371/journal.pone.0156576

BoCluSt: Bootstrap Clustering Stability Algorithm for Community Detection
Cited by: 4
Author(s): Carlos Garcı́a
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pone.0257052

Network assessment and modeling the management of an epidemic on a college campus with testing, contact tracing, and masking
Cited by: 2
Author(s): Gregg Hartvigsen
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0107925

Anomalies in Network Bridges Involved in Bile Acid Metabolism Predict Outcomes of Colorectal Cancer Patients
Cited by: 3
Author(s): Sunjae Lee, Ki Young Lee, Seyeol Yoon, Jae Woo Lee, Doheon Lee
Software Mentions: 3
Published: almost 12 years ago

10.1371/journal.pone.0150812

Highly Predictive Model for a Protective Immune Response to the A(H1N1)pdm2009 Influenza Strain after Seasonal Vaccination
Cited by: 11
Author(s): Karsten Jürchott, Axel Schulz, Cecilia Bozzetti, Dominika Pohlmann, Ulrik Stervbo, Sarah Warth, Julia Nora Mälzer, Julian Marcel Waldner, Brunhilde Schweiger, Sven Olek, Andreas Grützkau, Nina Babel, Andreas Thiel, Avidan U. Neumann
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pone.0159302

Machine Learning of Protein Interactions in Fungal Secretory Pathways
Cited by: 7
Author(s): Jana Kludas, Mikko Arvas, Sandra Castillo, Tiina Pakula, Merja Oja, Céline Brouard, Jussi Jäntti, Merja Penttilä, Juho Rousu
Software Mentions: 3
Published: about 10 years ago

10.1371/journal.pone.0218273

Network analysis to evaluate the impact of research funding on research community consolidation
Cited by: 8
Author(s): Daniel J. Hicks, David A. Coil, Carl Stahmer, Jonathan A. Eisen
Software Mentions: 3
Published: over 7 years ago

10.1371/journal.pone.0177819

Network architecture associated with the highly specialized hindlimb of frogs
Cited by: 17
Author(s): Daniel Andrés Dos Santos, Jéssica Fratani, María Laura Ponssa, Virginia Abdala
Software Mentions: 3
Published: over 9 years ago

10.3390/cells10020330

The microRNA let-7b-5p Is Negatively Associated with Inflammation and Disease Severity in Multiple Sclerosis
Cited by: 20
Author(s): Georgia Mandolesi, Francesca Romana Rizzo, Sara Balletta, Mario Stampanoni Bassi, Luana Gilio, Livia Guadalupi, Monica Nencini, Alessandro Moscatelli, Colleen P. Ryan, Valerio Licursi, Ettore Dolcetti, Alessandra Musella, Antonietta Gentile, Diego Fresegna, Silvia Bullitta, Silvia Caioli, Valentina Vanni, Krizia Sanna, Antonio Bruno, Fabio Buttari, Chiara Castelli, Carlo Presutti, Francesca De Santa, Annamaria Finardi, Roberto Furlan, Diego Centonze, Francesca De Vito
Software Mentions: 3
Published: over 5 years ago

10.1007/s10577-019-09605-1

A centromere satellite concomitant with extensive karyotypic diversity across the Peromyscus genus defies predictions of molecular drive
Cited by: 29
Author(s): Brendan M Smalec, Thomas Heider, Brianna L. Flynn, Rachel J. O’Neill
Software Mentions: 3
Published: over 7 years ago

10.1186/s40169-019-0245-6

Network vulnerability‐based and knowledge‐guided identification of microRNA biomarkers indicating platinum resistance in high‐grade serous ovarian cancer
Cited by: 23
Author(s): Xin Qi, Chunjiang Yu, Yi Wang, Yuxin Lin, Bairong Shen
Software Mentions: 3
Published: almost 7 years ago

10.1038/s42003-020-0823-6

Effect direction meta-analysis of GWAS identifies extreme, prevalent and shared pleiotropy in a large mammal
Cited by: 21
Author(s): Ruidong Xiang, I. van den Berg, Iona M. MacLeod, Hans D. Daetwyler, Michael E. Goddard
Software Mentions: 3
Published: over 6 years ago

10.1038/s42003-019-0333-6

Computational identification of co-evolving multi-gene modules in microbial biosynthetic gene clusters
Cited by: 20
Author(s): Francesco Del Carratore, Konrad Zych, Matthew Cummings, Eriko Takano, Marnix H. Medema, Rainer Breitling
Software Mentions: 3
Published: over 7 years ago

10.1016/j.dib.2020.105684

Dataset on dynamics of Coronavirus on Twitter
Cited by: 23
Author(s): Norman Aguilar-Gallegos, Leticia Elizabeth Romero-García, Enrique Genaro Martínez-González, Edgar Iván García-Sánchez, Jorge Aguilar-Ávila
Software Mentions: 3
Published: over 6 years ago

10.1093/database/bau101

A Web-based database of genetic association studies in cutaneous melanoma enhanced with network-driven data exploration tools
Cited by: 7
Author(s): Emmanouil Athanasiadis, Kyriaki Antonopoulou, Foteini Chatzinasiou, Christina M. Lill, Marilena M. Bourdakou, Αλέξανδρος Σακελλαρίου, Katerina P. Kypreou, Irene Stefanaki, Εvangelos Εvangelou, John P. A. Ioannidis, Lars Bertram, Alexander J. Stratigos, George M. Spyrou
Software Mentions: 3
Published: almost 12 years ago

10.1002/ece3.7274

Temporal patterns in the social network of core units in Rwenzori Angolan colobus monkeys: Effects of food availability and interunit dispersal
Cited by: 2
Author(s): Frances V. Adams, T. Jean M. Arseneau‐Robar, Tyler R. Bonnell, Samantha M. Stead, Julie A. Teichroeb
Software Mentions: 3
Published: over 5 years ago

10.1002/ece3.2983

Geographic characteristics of sable (<i>Martes zibellina</i> ) distribution over time in Northeast China
Cited by: 7
Author(s): Rui Zhang, Li Yang, Li Ai, Yang Qin-ke, Minhao Chen, Jingxi Li, Lei Yang, Xiaofeng Luan
Software Mentions: 3
Published: over 9 years ago

10.1002/ece3.1632

Modeling directional spatio-temporal processes in island biogeography
Cited by: 11
Author(s): José C. Carvalho, Pedro Cardoso, François Rigal, Kostas A. Triantis, Paulo A. V. Borges
Software Mentions: 3
Published: almost 11 years ago

10.1002/ece3.2749

Ecological consequences of colony structure in dynamic ant nest networks
Cited by: 11
Author(s): Stephen Ellis, Daniel W. Franks, Elva J. H. Robinson
Software Mentions: 3
Published: over 9 years ago

10.1002/ece3.7499

Testing for functional significance of traits: Effect of the light environment in tropical tree saplings
Cited by: 6
Author(s): Guilherme Silva Modolo, Victor Alexandre Hardt Ferreira dos Santos, Marciel José Ferreira
Software Mentions: 3
Published: over 5 years ago

10.1002/ece3.5024

Availability of food resources and habitat structure shape the individual‐resource network of a Neotropical marsupial
Cited by: 15
Author(s): Nícholas F. de Camargo, Hernani Oliveira, Juliana Fernandes Ribeiro, A. J. A. de Camargo, Emerson M. Vieira
Software Mentions: 3
Published: over 7 years ago

10.1002/ece3.5473

Vocal networks remain stable after a disturbance in Emei music frogs
Cited by: 3
Author(s): Ke Deng, Jianguo Cui
Software Mentions: 3
Published: about 7 years ago

10.1002/ece3.5269

Spatial differences in genetic diversity and northward migration suggest genetic erosion along the boreal caribou southern range limit and continued range retraction
Cited by: 14
Author(s): Laura M. Thompson, Cornelya F. C. Klütsch, Micheline Manseau, Paul J. Wilson
Software Mentions: 3
Published: over 7 years ago

10.1002/ece3.7128

Chimpanzee identification and social network construction through an online citizen science platform
Cited by: 5
Author(s): Maureen S. McCarthy, Colleen R. Stephens, Paula Dieguez, Liran Samuni, Marie‐Lyne Després‐Einspenner, Briana Harder, Anja Landsmann, Laura Lynn, Nuria Maldonado, Zuzana Ročkaiová, Jane Widness, Roman M. Wittig, Christophe Boesch, Hjalmar S. Kühl, Mimi Arandjelovic
Software Mentions: 3
Published: almost 6 years ago

10.1080/22221751.2019.1595985

Cumulative acquisition of pathogenicity islands has shaped virulence potential and contributed to the emergence of LEE-negative Shiga toxin-producing <i>Escherichia coli</i> strains
Cited by: 34
Author(s): David A. Montero, Felipe Del Canto, Juliana Velasco, Rocío Colello, Nora Lía Padola, Juan Carlos Salazar, Carla San Martin, Ángel Oñate, Jorge Blanco, David A. Rasko, Carmen Contreras, José L. Puente, Flemming Scheutz, Eelco Franz, Roberto Vidal
Software Mentions: 3
Published: over 7 years ago

10.3390/e22091029

Investigating the Influence of Inverse Preferential Attachment on Network Development
Cited by: 9
Author(s): Cynthia S. Q. Siew, Michael S. Vitevitch
Software Mentions: 3
Published: about 6 years ago

10.1111/1462-2920.14800

The global distribution and evolutionary history of the pT26‐2 archaeal plasmid family
Cited by: 4
Author(s): Catherine Badel, Gaël Erauso, Annika L. Gomez, Ryan Catchpole, Mathieu Gonnet, Jacques Oberto, Patrick Forterre, Violette Da Cunha
Software Mentions: 3
Published: almost 7 years ago

10.1017/S0950268820002654

Drawing transmission graphs for COVID-19 in the perspective of network science
Cited by: 4
Author(s): Necmi Gürsakal, Bülent Batmaz, Gamze Aktuna
Software Mentions: 3
Published: over 6 years ago

10.1186/s40001-021-00586-8

NR4A3 and CCL20 clusters dominate the genetic networks in CD146+ blood cells during acute myocardial infarction in humans
Cited by: 3
Author(s): Yanhui Wang, Chen-Xin Li, Jessica M. Stephenson, Sean P. Marrelli, Yanming Kou, Dong Meng, Ting Wu
Software Mentions: 3
Published: almost 5 years ago

10.1155/2020/2948292

Commonality and Specificity of Acupuncture Point Selections
Cited by: 15
Author(s): Ye-Seul Lee, Yeonhee Ryu, Da-Eun Yoon, Cheol-Han Kim, Geesoo Hong, Ye-Chae Hwang, Younbyoung Chae
Software Mentions: 3
Published: about 6 years ago

10.1111/eva.12138

Inferring influenza global transmission networks without complete phylogenetic information
Cited by: 4
Author(s): Stéphane Aris‐Brosou
Software Mentions: 3
Published: over 12 years ago

10.12688/f1000research.2-130.v3

An a posteriori measure of network modularity
Cited by: 5
Author(s): Timothée Poisot
Software Mentions: 3
Published: over 12 years ago

10.3389/fbioe.2018.00121

Metabolite-Centric Reporter Pathway and Tripartite Network Analysis of Arabidopsis Under Cold Stress
Cited by: 15
Author(s): İbrahim Koç, İsa Öner Yüksel, Gustavo Caetano‐Anollés
Software Mentions: 3
Published: about 8 years ago

10.3389/fcell.2021.703489

Reconstruction of the Cytokine Signaling in Lysosomal Storage Diseases by Literature Mining and Network Analysis
Cited by: 3
Author(s): Silvia Parolo, Danilo Tomasoni, Pranami Bora, Alan Ramponi, Chanchala Kaddi, Karim Azer, Enrico Domenici, Susana Neves-Zaph, Rosario Lombardo
Software Mentions: 3
Published: about 5 years ago

10.3389/fcimb.2019.00254

Probiotic Supplementation During Human Pregnancy Affects the Gut Microbiota and Immune Status
Cited by: 19
Author(s): Yuyi Chen, Zhe Li, Kian Deng Tye, Huijuan Luo, Xiaomei Tang, Yu-Chieh Liao, Dongju Wang, Juan Zhou, Ping Yang, Yimi Li, Yingbing Su, Xiaomin Xiao
Software Mentions: 3
Published: about 7 years ago

10.3389/fcimb.2014.00062

To be or not to be associated: power study of four statistical modeling approaches to identify parasite associations in cross-sectional studies
Cited by: 20
Author(s): Elise Vaumourin, GwenaÃ«l Vourc'h, Sandra Telfer, Xavier Lambin, Diaeldin A. Salih, Ulrike Seitzer, Serge Morand, Nathalie Charbonnel, Muriel Vayssier‐Taussat, Patrick Gasqui
Software Mentions: 3
Published: over 12 years ago

10.3389/fcimb.2018.00079

Ecological Restoration of Antibiotic-Disturbed Gastrointestinal Microbiota in Foregut and Hindgut of Cows
Cited by: 25
Author(s): Shoukun Ji, Tao Jiang, Hui Yan, Changhong Guo, Jingjing Liu, Huawei Su, Gibson Maswayi Alugongo, Haitao Shi, Yajing Wang, Zhijun Cao, Shengli Li
Software Mentions: 3
Published: over 8 years ago

10.3389/fgene.2020.604585

Inference of Intercellular Communications and Multilayer Gene-Regulations of Epithelial–Mesenchymal Transition From Single-Cell Transcriptomic Data
Cited by: 15
Author(s): Yutong Sha, Shuxiong Wang, Federico Bocci, Peijie Zhou, Qing Nie
Software Mentions: 3
Published: over 5 years ago

10.3389/fgene.2020.500064

A Machine Learning Approach to Predicting Autism Risk Genes: Validation of Known Genes and Discovery of New Candidates
Cited by: 22
Author(s): Ying Lin, Shiva Afshar, Anjali M. Rajadhyaksha, James B. Potash, Shizhong Han
Software Mentions: 3
Published: about 6 years ago

10.3389/fgene.2019.00932

Identification and Classification of Differentially Expressed Genes and Network Meta-Analysis Reveals Potential Molecular Signatures Associated With Tuberculosis
Cited by: 25
Author(s): Aftab Alam, Nikhat Imam, Mohd Murshad Ahmed, Safiya Tazyeen, Naaial Tamkeen, Anam Farooqui, Md. Zubbair Malik, Romana Ishrat
Software Mentions: 3
Published: almost 7 years ago

10.3389/fgene.2021.701331

Modularity in Biological Networks
Cited by: 17
Author(s): Sergio Antonio Alcalá-Corona, Santiago Sandoval-Motta, Jesús Espinal-Enríquez, Enrique Hernández‐Lemus
Software Mentions: 3
Published: about 5 years ago

10.3389/fgene.2019.00916

An Integrated System Biology Approach Yields Drug Repositioning Candidates for the Treatment of Heart Failure
Cited by: 3
Author(s): Guodong Yang, Aiqun Ma, Zhaohui S. Qin
Software Mentions: 3
Published: almost 7 years ago

10.3389/fgene.2017.00043

Pancreatic Islet Protein Complexes and Their Dysregulation in Type 2 Diabetes
Cited by: 18
Author(s): Helle Pedersen, Valborg Guðmundsdóttir, Søren Brunak
Software Mentions: 3
Published: over 9 years ago

10.3389/fimmu.2017.01726

Shared IgG Infection Signatures vs. Hemorrhage-Restricted IgA Clusters in Human Dengue: A Phenotype of Differential Class-Switch via TGFβ1
Cited by: 4
Author(s): Chung‐Hao Huang, Ya-Hui Chang, Chun‐Yu Lin, Wen‐Hung Wang, Hui-Chung Kuan, Ya-Ju Hsieh, Yuwei Wang, Chung-Hsiang Yang, Jhen-Yan Chiu, Shih‐Feng Tsai, Yen-Hsu Chen, Hong-Hsing Liu
Software Mentions: 3
Published: almost 9 years ago

10.3389/fmicb.2018.00999

Bacterial Communities in Riparian Sediments: A Large-Scale Longitudinal Distribution Pattern and Response to Dam Construction
Cited by: 35
Author(s): Juan Chen, Peifang Wang, Chao Wang, Xun Wang, Lingzhan Miao, Sheng Liu, Qiusheng Yuan
Software Mentions: 3
Published: over 8 years ago

10.3389/fmicb.2016.00645

A Network of Paralogous Stress Response Transcription Factors in the Human Pathogen Candida glabrata
Cited by: 26
Author(s): Jawad Merhej, Antonin Thiébaut, Corinne Blugeon, Juliette Pouch, Mohammed el amine Ali Chaouche, Jean‐Michel Camadro, Stéphane Le Crom, Gaëlle Lelandais, Frédéric Devaux
Software Mentions: 3
Published: over 10 years ago

10.3389/fmicb.2015.00522

Microbial responses to changes in flow status in temporary headwater streams: a cross-system comparison
Cited by: 39
Author(s): Catherine M. Febria, Jacob D. Hosen, Byron C. Crump, Margaret A. Palmer, D. Dudley Williams
Software Mentions: 3
Published: over 11 years ago

10.3389/fmicb.2020.01261

Can We Use Functional Genetics to Predict the Fate of Nitrogen in Estuaries?
Cited by: 20
Author(s): Eric J. Raes, Kristen Karsh, Adam J. Kessler, Perran L. M. Cook, Bronwyn H. Holmes, Jodie van de Kamp, Levente Bodrossy, Andrew Bissett
Software Mentions: 3
Published: over 6 years ago

10.3389/fmicb.2021.704052

Phylogeny of the Varidnaviria Morphogenesis Module: Congruence and Incongruence With the Tree of Life and Viral Taxonomy
Cited by: 13
Author(s): Anthony C. Woo, Morgan Gaïa, Julien Guglielmini, Violette Da Cunha, Patrick Forterre
Software Mentions: 3
Published: about 5 years ago

10.3389/fmicb.2014.00219

Deciphering microbial interactions and detecting keystone species with co-occurrence networks
Cited by: 968
Author(s): David Berry, Stefanie Widder
Software Mentions: 3
Published: over 12 years ago

10.3389/fmicb.2016.00068

Using “Omics” and Integrated Multi-Omics Approaches to Guide Probiotic Selection to Mitigate Chytridiomycosis and Other Emerging Infectious Diseases
Cited by: 105
Author(s): Eria A. Rebollar, Rachael E. Antwis, Matthew H. Becker, Lisa K. Belden, Molly C. Bletz, Robert M. Brucker, Xavier A. Harrison, Myra C. Hughey, Jordan G. Kueneman, Andrew H. Loudon, Valerie J. McKenzie, Daniel Medina, Kevin P. C. Minbiole, Louise A. Rollins‐Smith, Jenifer B. Walke, Sophie Weiss, Douglas C. Woodhams, Reid N. Harris
Software Mentions: 3
Published: over 10 years ago

10.3389/fmicb.2018.03095

Bacterial and Archaeal Viruses of Himalayan Hot Springs at Manikaran Modulate Host Genomes
Cited by: 23
Author(s): Anukriti Sharma, Matthias Schmidt, Bärbel Kiesel, Nitish Kumar Mahato, Lauren Cralle, Yogendra Singh, Hans H. Richnow, Jack A. Gilbert, Wyatt Arnold, Rup Lal
Software Mentions: 3
Published: almost 8 years ago

10.3389/fmicb.2021.654855

Transcriptome Dynamics Underlying Chlamydospore Formation in Trichoderma virens GV29-8
Cited by: 7
Author(s): Xinhong Peng, Beilei Wu, Shuaihu Zhang, Mei Li, Xiliang Jiang
Software Mentions: 3
Published: over 5 years ago

10.3389/fmicb.2020.01471

Warming, but Not Acidification, Restructures Epibacterial Communities of the Baltic Macroalga Fucus vesiculosus With Seasonal Variability
Cited by: 8
Author(s): Birte Mensch, Sven C. Neulinger, Sven Künzel, Martin Wahl, Ruth A. Schmitz
Software Mentions: 3
Published: about 6 years ago

Projects: cran: igraph

Science Score: 100/100

Bonuses:

Papers Mentioning igraph 1,555