cran: igraph | Projects | Ecosyste.ms: Papers

10.1111/eva.12589

Seascape genetics and biophysical connectivity modelling support conservation of the seagrass<i>Zostera marina</i>in the Skagerrak-Kattegat region of the eastern North Sea
Cited by: 38
Author(s): Marlene Jahnke, Per R. Jonsson, Per‐Olav Moksnes, Lars-Ove Loo, Martin Nilsson Jacobi, Jeanine L. Olsen
Software Mentions: 6
Published: over 8 years ago

10.1371/journal.pone.0143748

Curriculum Mapping with Academic Analytics in Medical and Healthcare Education
Cited by: 38
Author(s): Martin Komenda, Martin Víta, Christos Vaitsis, Daniel Schwarz, Andrea Pokorná, Nabil Zary, Ladislav Dušek
Software Mentions: 6
Published: almost 11 years ago

10.1007/s00421-021-04676-7

Individual cardiovascular responsiveness to work-matched exercise within the moderate- and severe-intensity domains
Cited by: 17
Author(s): Felipe Mattioni Maturana, Philipp Schellhorn, Gunnar Erz, Christof Burgstahler, Manuel Widmann, Barbara Munz, Rogério N. Soares, Juan M. Murias, Ansgar Thiel, Andreas M. Nieß
Software Mentions: 6
Published: over 5 years ago

10.1371/journal.pone.0174035

Exploratory graph analysis: A new approach for estimating the number of dimensions in psychological research
Cited by: 342
Author(s): Hudson Golino, Sacha Epskamp
Software Mentions: 6
Published: over 9 years ago

10.1371/journal.pone.0150495

Network Analysis of Metabolite GWAS Hits: Implication of CPS1 and the Urea Cycle in Weight Maintenance
Cited by: 11
Author(s): Alice Matone, Marie Pier Scott-Boyer, Jérôme Carayol, Parastoo Fazelzadeh, Grégory Lefebvre, Armand Valsesia, Céline Charon, Jacques Vervoort, Arne Astrup, Wim H. M. Saris, Melissa J. Morine, Jörg Hager
Software Mentions: 6
Published: over 10 years ago

10.1017/S0950268821000510

Epidemiology and transmission characteristics of early COVID-19 cases, 20 January–19 March 2020, in Bavaria, Germany
Cited by: 10
Author(s): Stefanie Böhm, Tom Woudenberg, D. Chen, Durdica Marosevic, Merle M. Böhmer, Lisa Hansen, Jacco Wallinga, Andreas Sing, Katharina Katz
Software Mentions: 6
Published: almost 6 years ago

10.1080/22221751.2020.1799723

Dysregulation in Akt/mTOR/HIF-1 signaling identified by proteo-transcriptomics of SARS-CoV-2 infected cells
Cited by: 203
Author(s): Sofia Appelberg, Soham Gupta, Sara Svensson Akusjärvi, Anoop T. Ambikan, Flora Mikaeloff, Elisa Saccon, Ákos Végvári, Rui Benfeitas, Maike Sperk, Marie Ståhlberg, Shuba Krishnan, Kamal Singh, Josef Penninger, Alì Mirazimi, Ujjwal Neogi
Software Mentions: 6
Published: almost 7 years ago

10.1038/s41598-021-94256-8

Proteomics and metabonomics analyses of Covid-19 complications in patients with pulmonary fibrosis
Cited by: 10
Author(s): Jianrong Yang, Chunxia Chen, Wan Chen, Luying Huang, Zhao Fu, Kun Ye, Liwen Lv, Zhihuang Nong, Xing Zhou, Wensheng Lu, Ming Zhong
Software Mentions: 6
Published: about 5 years ago

10.1038/s41598-021-89783-3

Oil palm cultivation critically affects sociality in a threatened Malaysian primate
Cited by: 8
Author(s): Anna Holzner, Krishna N. Balasubramaniam, B. Weiß, Nadine Ruppert, Anja Widdig
Software Mentions: 6
Published: over 5 years ago

10.1038/s41598-021-90733-2

Inferring long-distance connectivity shaped by air-mass movement for improved experimental design in aerobiology
Cited by: 11
Author(s): Maria Choufany, Davide Martinetti, Samuel Soubeyrand, Cindy E. Morris
Software Mentions: 6
Published: over 5 years ago

10.1186/s13068-021-01948-4

Differential expression of starch and sucrose metabolic genes linked to varying biomass yield in Miscanthus hybrids
Cited by: 6
Author(s): Jose J De Vega, Ned Peel, Sarah Purdy, Sarah Hawkins, Iain S. Donnison, Sarah Dyer, Kerrie Farrar
Software Mentions: 6
Published: over 5 years ago

10.1038/s41598-021-86319-7

Screening of osteoarthritis diagnostic markers based on immune-related genes and immune infiltration
Cited by: 15
Author(s): Wenhua Yuan, Qiqi Xie, Ke-Ping Wang, Wei Shen, Xiaofei Feng, Zheng Liu, Jin-Tao Shi, Xiaobo Zhang, Kai Zhang, Yajun Deng, Hai-Yu Zhou
Software Mentions: 6
Published: over 5 years ago

10.1186/s42523-020-00032-w

Oyster hemolymph is a complex and dynamic ecosystem hosting bacteria, protists and viruses
Cited by: 18
Author(s): Samuel Dupont, Ana Lokmer, Erwan Corre, Jean‐Christophe Auguet, Bruno Petton, Ève Toulza, Caroline Montagnani, Gwenn Tanguy, David Pecqueur, Christophe Salmeron, Laure Guillou, Christelle Desnues, Bernard La Scola, Jacques Bou Khalil, Julien de Lorgeril, Guillaume Mitta, Yannick Gueguen, Jean-Michel Escoubas
Software Mentions: 6
Published: over 6 years ago

10.1038/s41598-020-66369-z

High Oscillospira abundance indicates constipation and low BMI in the Guangdong Gut Microbiome Project
Cited by: 66
Author(s): Yi-ran Chen, Huimin Zheng, Guoxia Zhang, Fang-lan Chen, Lidan Chen, Zhaoying Yang
Software Mentions: 6
Published: over 6 years ago

10.1186/s12859-017-1482-6

GSAR: Bioconductor package for Gene Set analysis in R
Cited by: 34
Author(s): Yasir Rahmatallah, Boris Zybailov, Frank Emmert‐Streib, Galina Glazko
Software Mentions: 6
Published: over 9 years ago

10.1371/journal.pone.0226813

An investigation of transportation practices in an Ontario swine system using descriptive network analysis
Cited by: 5
Author(s): Dylan John Melmer, Terri L. O’Sullivan, Amy L. Greer, Zvonimir Poljak
Software Mentions: 6
Published: over 6 years ago

10.1038/s41598-020-66407-w

An understanding of third-party friendships in a tolerant macaque
Cited by: 12
Author(s): Jamie Whitehouse, Hélène Meunier
Software Mentions: 6
Published: over 6 years ago

10.1186/s12864-016-2718-y

Ribosome quality control is a central protection mechanism for yeast exposed to deoxynivalenol and trichothecin
Cited by: 11
Author(s): Karl G. Kugler, Zeljkica Jandric, Reinhard Beyer, Eva Klopf, Walter Glaser, Marc Lemmens, Mehrdad Shams, Klaus Mayer, Gerhard Adam, Christoph Schüller
Software Mentions: 6
Published: over 10 years ago

10.1371/journal.pone.0152686

GUIdock: Using Docker Containers with a Common Graphics User Interface to Address the Reproducibility of Research
Cited by: 42
Author(s): Ling‐Hong Hung, Daniel Kristiyanto, Sung Bong Lee, Ka Yee Yeung
Software Mentions: 6
Published: over 10 years ago

10.1186/1471-2105-12-455

iRefR: an R package to manipulate the iRefIndex consolidated protein interaction database
Cited by: 62
Author(s): Antonio M. Mora, Ian Donaldson
Software Mentions: 6
Published: almost 15 years ago

10.1038/s41598-020-79246-6

Dominance style only partially predicts differences in neophobia and social tolerance over food in four macaque species
Cited by: 14
Author(s): Federica Amici, Anja Widdig, Andrew J. J. MacIntosh, Víctor Beltrán Francés, Alba Castellano-Navarro, Álvaro López Caicoya, Karimullah Karimullah, Risma Illa Maulany, Putu Oka Ngakan, Andi Siady Hamzah, Bonaventura Majolo
Software Mentions: 6
Published: almost 6 years ago

10.1038/s41598-020-57474-0

Rejection of the genetic implications of the “Abundant Centre Hypothesis” in marine mussels
Cited by: 18
Author(s): Noxolo N. Ntuli, Katy R. Nicastro, Gerardo I. Zardi, Jorge Assis, Christopher D. McQuaid, Peter R. Teske
Software Mentions: 6
Published: over 6 years ago

10.1038/s41598-020-66519-3

Interconnection of bacterial and phytoplanktonic communities with hydrochemical parameters from ice and under-ice water in coastal zone of Lake Baikal
Cited by: 10
Author(s): Yu. S. Bukin, Н. А. Бондаренко, Igor I Rusanov, Nikolai V. Pimenov, S. V. Bukin, T. V. Pogodaeva, S. M. Chernitsyna, O. V. Shubenkova, V. G. Ivanov, А. S. Zakharenko, Т. I. Zemskaya
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pone.0111661

How Difficult Is Inference of Mammalian Causal Gene Regulatory Networks?
Cited by: 18
Author(s): Djordje Djordjevic, Andrian Yang, Armella Zadoorian, Kevin Rungrugeecharoen, Joshua W. K. Ho
Software Mentions: 6
Published: almost 12 years ago

10.1098/rspb.2017.1313

Mortality risk and social network position in resident killer whales: sex differences and the importance of resource abundance
Cited by: 68
Author(s): Stephen Ellis, Daniel W. Franks, Stuart Nattrass, Michael A. Cant, Michael N. Weiss, D. K. Giles, Kenneth C. Balcomb, Darren P. Croft
Software Mentions: 6
Published: almost 9 years ago

10.3390/biom10060938

CoRNeA: A Pipeline to Decrypt the Inter-Protein Interfaces from Amino Acid Sequence Information
Cited by: 5
Author(s): Kriti Chopra, Bhawna Burdak, Kaushal Sharma, Ajit Kembhavi, Shekhar C. Mande, Radha Chauhan
Software Mentions: 6
Published: over 6 years ago

10.1038/s41598-020-73083-3

Evolutionary and ontogenetic changes of the anatomical organization and modularity in the skull of archosaurs
Cited by: 12
Author(s): Hiu Wai Lee, Borja Esteve‐Altava, Arhat Abzhanov
Software Mentions: 6
Published: about 6 years ago

10.1098/rspb.2016.2872

Stable producer–scrounger dynamics in wild birds: sociability and learning speed covary with scrounging behaviour
Cited by: 28
Author(s): Lucy M. Aplin, Julie Morand‐Ferron
Software Mentions: 6
Published: over 9 years ago

10.1093/beheco/ary012

Social interactions predict genetic diversification: an experimental manipulation in shorebirds
Cited by: 4
Author(s): Charles Cunningham, Jorge Parra, Lucy Coals, Lucila Marcela Beltrán-Tolosa, Sama Zefania, Tamás Székely
Software Mentions: 6
Published: over 8 years ago

10.3389/fnmol.2020.563091

Isolation and Characterization of Multi-Protein Complexes Enriched in the K-Cl Co-transporter 2 From Brain Plasma Membranes
Cited by: 14
Author(s): Joshua L. Smalley, Georgina Kontou, Catherine Choi, Qiang Ren, David Albrecht, Krithika Abiraman, M. Santos, Christopher E. Bope, Tarek Z. Deeb, Paul Davies, Nicholas J. Brandon, Stephen J. Moss
Software Mentions: 6
Published: almost 6 years ago

10.1186/s12917-014-0282-8

Successional changes in the chicken cecal microbiome during 42 days of growth are independent of organic acid feed additives
Cited by: 115
Author(s): Brian B. Oakley, R. J. Buhr, Casey W. Ritz, Brian H. Kiepper, M. E. Berrang, Bruce S. Seal, N. A. Cox
Software Mentions: 6
Published: almost 12 years ago

10.1371/journal.pone.0035077

Hub-Centered Gene Network Reconstruction Using Automatic Relevance Determination
Cited by: 20
Author(s): M. Bock, Soichi Ogishima, Hiroshi Tanaka, Stefan Krämer, Lars Kaderali
Software Mentions: 6
Published: over 14 years ago

10.3389/fmicb.2021.617949

Compositional Data Analysis of Periodontal Disease Microbial Communities
Cited by: 9
Author(s): Laura Sisk-Hackworth, Adrian Ortiz-Velez, Micheal Reed, Scott T. Kelley
Software Mentions: 6
Published: over 5 years ago

10.3389/fneur.2017.00223

Efficacy of Drug Interventions for Chemotherapy-Induced Chronic Peripheral Neurotoxicity: A Network Meta-analysis
Cited by: 5
Author(s): Xiaohong Fu, Huihui Wu, Jinyao Li, Can Wang, Ming Li, Qianqian Ma, Wei Yang
Software Mentions: 6
Published: over 9 years ago

10.1186/s40104-019-0412-z

Co-expression network analysis predicts a key role of microRNAs in the adaptation of the porcine skeletal muscle to nutrient supply
Cited by: 13
Author(s): Emilio Mármol-Sánchez, Yuliaxis Ramayo-Caldas, Raquel Quintanilla, Tainã Figueiredo Cardoso, Rayner González-Prendes, J. Tibau, Marcel Amills
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pone.0143111

CentiServer: A Comprehensive Resource, Web-Based Application and R Package for Centrality Analysis
Cited by: 85
Author(s): Mahdi Jalili, Ali Salehzadeh‐Yazdi, Yazdan Asgari, Seyed Shahriar Arab, Marjan Yaghmaie, Ardeshir Ghavamzadeh, Kamran Alimoghaddam
Software Mentions: 6
Published: almost 11 years ago

10.1371/journal.pone.0188972

Adiposity QTL Adip20 decomposes into at least four loci when dissected using congenic strains
Cited by: 4
Author(s): Cailu Lin, Brad D. Fesi, Michael Marquis, Natalia P. Bosak, Anna Lysenko, Mohammed Amin Koshnevisan, Fujiko Duke, Maria L. Theodorides, Theodore M. Nelson, Amanda H. McDaniel, Mauricio Avigdor, Charles J. Arayata, Lauren Shaw, Alexander A. Bachmanov, Danielle R. Reed
Software Mentions: 6
Published: almost 9 years ago

10.1186/1752-0509-6-56

Centrality-based pathway enrichment: a systematic approach for finding significant pathways dominated by key genes
Cited by: 62
Author(s): Zuguang Gu, Jialin Liu, Kun-Ming Cao, Junfeng Zhang, Jin Wang
Software Mentions: 6
Published: over 14 years ago

10.3389/fmicb.2014.00358

Demonstrating microbial co-occurrence pattern analyses within and between ecosystems
Cited by: 239
Author(s): Ryan J. Williams, Adina Howe, Kirsten Hofmockel
Software Mentions: 6
Published: about 12 years ago

10.1038/s41598-021-86032-5

A hierarchical regulatory network analysis of the vitamin D induced transcriptome reveals novel regulators and complete VDR dependency in monocytes
Cited by: 18
Author(s): Timothy Warwick, Marcel H. Schulz, Stefan Günther, Ralf Gilsbach, Antonio Neme, Carsten Carlberg, Ralf P. Brandes, Sabine Seuter
Software Mentions: 6
Published: over 5 years ago

10.3389/fmicb.2017.01563

Role of Age-Related Shifts in Rumen Bacteria and Methanogens in Methane Production in Cattle
Cited by: 28
Author(s): Chong Liu, Qinghui Meng, Yongxing Chen, Mengsi Xu, Min Shen, Rui Gao, Shangquan Gan
Software Mentions: 6
Published: about 9 years ago

10.1371/journal.pone.0077776

Extension of Life Span by Impaired Glucose Metabolism in Caenorhabditis elegans Is Accompanied by Structural Rearrangements of the Transcriptomic Network
Cited by: 20
Author(s): Stefan Priebe, Uwe Menzel, Kim Zarse, Marco Groth, Matthias Platzer, Michael Ristow, Reinhard Guthke
Software Mentions: 6
Published: almost 13 years ago

10.3389/fonc.2021.597536

Systems Biomedicine of Primary and Metastatic Colorectal Cancer Reveals Potential Therapeutic Targets
Cited by: 7
Author(s): Mehran Piran, Neda Sepahi, Afagh Moattari, A. M. Rahimi, Ali Ghanbariasad
Software Mentions: 6
Published: over 5 years ago

10.1186/1752-0509-8-17

Identification of core T cell network based on immunome interactome
Cited by: 4
Author(s): Gabriel Teku, Csaba Ortutay, Mauno Vihinen
Software Mentions: 6
Published: over 12 years ago

10.1038/s41598-021-97805-3

Differences and similarities in the conceptualization of COVID-19 and other diseases in the first Italian lockdown
Cited by: 6
Author(s): Claudia María, Ilenia Falcinelli, Arthur-Henri Michalland, Luca Tummolini, Anna M. Borghi
Software Mentions: 6
Published: about 5 years ago

10.3390/pathogens10040396

Nanopore-Sequencing Characterization of the Gut Microbiota of Melolontha melolontha Larvae: Contribution to Protection against Entomopathogenic Nematodes?
Cited by: 4
Author(s): Ewa Sajnaga, Marcin Skowronek, Agnieszka Kalwasińska, Waldemar Kazimierczak, Karolina Ferenc, Magdalena Lis, Adrian Wiater
Software Mentions: 6
Published: over 5 years ago

10.3389/fmicb.2020.01036

Niche Differentiation in the Composition, Predicted Function, and Co-occurrence Networks in Bacterial Communities Associated With Antarctic Vascular Plants
Cited by: 29
Author(s): Qian Zhang, Jacquelinne J. Acuña, Nitza G. Inostroza, Paola Durán, Marı́a de la Luz Mora, Michael J. Sadowsky, Milko A. Jorquera
Software Mentions: 6
Published: over 6 years ago

10.3389/fmicb.2017.01452

Watershed Urbanization Linked to Differences in Stream Bacterial Community Composition
Cited by: 88
Author(s): Jacob D. Hosen, Catherine M. Febria, Byron C. Crump, Margaret A. Palmer
Software Mentions: 6
Published: about 9 years ago

10.12688/wellcomeopenres.14073.3

ANIMA: Association network integration for multiscale analysis
Cited by: 4
Author(s): Armin Deffur, Robert J. Wilkinson, Bongani M. Mayosi, Nicola Mulder
Software Mentions: 6
Published: almost 8 years ago

10.7554/eLife.62939

Social groups buffer maternal loss in mountain gorillas
Cited by: 14
Author(s): Robin E. Morrison, Winnie Eckardt, Fernando Colchero, Veronica Vecellio, Tara S. Stoinski
Software Mentions: 6
Published: over 5 years ago

10.1186/s12885-017-3832-1

Comparative gene co-expression network analysis of epithelial to mesenchymal transition reveals lung cancer progression stages
Cited by: 9
Author(s): Daifeng Wang, John D. Haley, Patricia Thompson
Software Mentions: 6
Published: almost 9 years ago

10.1093/ve/vew029

Reconstructing contact network parameters from viral phylogenies
Cited by: 11
Author(s): Rosemary M. McCloskey, Richard Liang, Art F. Y. Poon
Software Mentions: 6
Published: over 10 years ago

10.1186/s13073-014-0107-1

Complex host genetics influence the microbiome in inflammatory bowel disease
Cited by: 316
Author(s): Dan Knights, Mark S. Silverberg, Rinse K. Weersma, Dirk Gevers, Gerard Dijkstra, Hailiang Huang, Andrea D. Tyler, Suzanne van Sommeren, Floris Imhann, Joanne M. Stempak, Hu Huang, Pajau Vangay, Gabriel A. Al‐Ghalith, Caitlin Russell, Jenny Sauk, Jo Knight, Mark J. Daly, Curtis Huttenhower, Ramnik J. Xavier
Software Mentions: 6
Published: almost 12 years ago

10.3389/fmicb.2021.614957

Genomic Metrics Applied to Rhizobiales (Hyphomicrobiales): Species Reclassification, Identification of Unauthentic Genomes and False Type Strains
Cited by: 34
Author(s): Camila Gazolla Volpiano, Fernando Hayashi Sant’Anna, Adriana Ambrosini, Jackson Freitas Brilhante de São José, Anelise Beneduzi, William B. Whitman, Emanuel Maltempi de Souza, Bruno Brito Lisboa, Luciano Kayser Vargas, Luciane Maria Pereira Passaglia
Software Mentions: 6
Published: over 5 years ago

10.3389/fmicb.2021.689855

Wheat Rhizosphere Metagenome Reveals Newfound Potential Soil Zn-Mobilizing Bacteria Contributing to Cultivars’ Variation in Grain Zn Concentration
Cited by: 5
Author(s): Sen Wang, Zikang Guo, Li Wang, Yan Zhang, Fan Jiang, Xingshu Wang, Lei Yin, Bo Liu, Hangwei Liu, Hengchao Wang, Anqi Wang, Yingxue Ren, Conghui Liu, Wei Fan, Zhaohui Wang
Software Mentions: 6
Published: over 5 years ago

10.3390/ani11030625

RNA-Seq Implies Divergent Regulation Patterns of LincRNA on Spermatogenesis and Testis Growth in Goats
Cited by: 6
Author(s): Dongdong Bo, Xunping Jiang, Guiqiong Liu, Ronggui Hu, Yuqing Chong
Software Mentions: 6
Published: over 5 years ago

10.3390/jintelligence9020032

Bridging Brain and Cognition: A Multilayer Network Analysis of Brain Structural Covariance and General Intelligence in a Developmental Sample of Struggling Learners
Cited by: 11
Author(s): Ivan L. Simpson-Kent, Eiko I. Fried, Danyal Akarca, Silvana Mareva, Edward T. Bullmore, Rogier A. Kievit
Software Mentions: 6
Published: over 5 years ago

10.1186/s12896-019-0540-8

Enhancement of using combined packing materials on the removal of mixed sulfur compounds in a biotrickling filter and analysis of microbial communities
Cited by: 12
Author(s): Xiang Tu, Meiying Xu, Jianjun Li, Enze Li, Rongfang Feng, Gang Zhao, Shaobin Huang, Jun Guo
Software Mentions: 6
Published: about 7 years ago

10.1172/jci.insight.130090

Cytomegalovirus infection is a risk factor for tuberculosis disease in infants
Cited by: 38
Author(s): Julius Müller, Rachel Tanner, Magali Matsumiya, Margaret Ann Snowden, Bernard Landry, Iman Satti, Stephanie A. Harris, Matthew K. O’Shea, Lisa Stockdale, Leanne Marsay, Agnieszka Chomka, Rachel Harrington-Kandt, Zita‐Rose Manjaly Thomas, Vivek Naranbhai, Elena Stylianou, Stanley Kimbung Mbandi, Mark Hatherill, Gregory Hussey, Hassan Mahomed, Michèle Tameris, J. Bruce McClain, Thomas G. Evans, Willem A. Hanekom, Thomas J. Scriba, Helen McShane, Helen A. Fletcher
Software Mentions: 6
Published: almost 7 years ago

10.1111/mec.14893

Geospatial variation in co‐occurrence networks of nitrifying microbial guilds
Cited by: 39
Author(s): Christopher M. Jones, Sara Hallin
Software Mentions: 6
Published: almost 8 years ago

10.1186/s12859-019-2840-3

m6Acomet: large-scale functional prediction of individual m6A RNA methylation sites from an RNA co-methylation network
Cited by: 30
Author(s): Xiangyu Wu, Zhen Wei, Kunqi Chen, Qing Zhang, Jionglong Su, Hui Liu, Lin Zhang, Jia Meng
Software Mentions: 6
Published: over 7 years ago

10.1186/s40594-018-0120-9

Supporting instructional change in mathematics: using social network analysis to understand online support processes following professional development workshops
Cited by: 15
Author(s): Charles N. Hayward, Sandra L. Laursen
Software Mentions: 6
Published: over 8 years ago

10.3390/microorganisms9040699

Configuration of Gut Microbiota Structure and Potential Functionality in Two Teleosts under the Influence of Dietary Insect Meals
Cited by: 26
Author(s): Nikolas Panteli, Maria Mastoraki, Maria Lazarina, Stavros Chatzifotis, Eleni Mente, Konstantinos Ar. Kormas, Efthimia Antonopoulou
Software Mentions: 6
Published: over 5 years ago

10.3390/microorganisms8060883

Linking Shifts in Bacterial Community Composition and Function with Changes in the Dissolved Organic Matter Pool in Ice-Covered Baiyangdian Lake, Northern China
Cited by: 13
Author(s): Shilei Zhou, Yifei Sun, Ming-Hui Yu, Zhenpeng Shi, Hang Zhang, Rui-Zhe Peng, Zaixing Li, Jiansheng Cui, Xiang Liu
Software Mentions: 6
Published: over 6 years ago

10.3390/microorganisms8040509

Contrasting Patterns of the Bacterial Communities in Melting Ponds and Periglacial Rivers of the Zhuxi glacier in the Tibet Plateau
Cited by: 2
Author(s): Yang Hu, Xin Yao, Yuanyuan Wu, Wei Han, Yongqiang Zhou, Xiangming Tang, Kwang‐Tsao Shao, Guang Gao
Software Mentions: 6
Published: over 6 years ago

10.1093/biosci/biw175

Using Social Network Measures in Wildlife Disease Ecology, Epidemiology, and Management
Cited by: 101
Author(s): Matthew J. Silk, Darren P. Croft, Richard J. Delahay, David J. Hodgson, Mike Boots, Nicola Weber, Robbie A. McDonald
Software Mentions: 6
Published: over 9 years ago

10.1186/s42523-020-0022-2

Antibiotic resistance gene sharing networks and the effect of dietary nutritional content on the canine and feline gut resistome
Cited by: 15
Author(s): Younjung Kim, Marcus H. Y. Leung, Wendy Kwok, Guillaume Fournié, Jun Li, Patrick K. H. Lee, Dirk U. Pfeiffer
Software Mentions: 6
Published: over 6 years ago

10.3390/microorganisms8111754

Comparison of the Performance and Microbial Community Structure of Two Outdoor Pilot-Scale Photobioreactors Treating Digestate
Cited by: 9
Author(s): Aïda Bani, Katia Parati, Anna Pozzi, Cristina Previtali, Graziella Bongioni, Andrea Pizzera, Elena Ficara, Micol Bellucci
Software Mentions: 6
Published: almost 6 years ago

10.3389/fmicb.2019.01637

Characterization of Distinct CyanoHABs-Related Modules in Microbial Recurrent Association Network
Cited by: 30
Author(s): Seong-Jun Chun, Yingshun Cui, Chang‐Soo Lee, A Ra Cho, Kiwoon Baek, Jae‐Suk Choi, So-Ra Ko, Hyung-Gwan Lee, Seungwoo Hwang, Hee‐Mock Oh, Chi‐Yong Ahn
Software Mentions: 6
Published: about 7 years ago

10.1186/s12903-021-01832-5

The effects of removing dead bacteria by propidium monoazide on the profile of salivary microbiome
Cited by: 5
Author(s): Qidi Ren, Fangqiao Wei, Chao Yuan, Ce Zhu, Qian Zhang, Junkang Quan, Xiangyu Sun, Shuguo Zheng
Software Mentions: 6
Published: about 5 years ago

10.1186/s12866-020-01913-5

Deciphering the archaeal communities in tree rhizosphere of the Qinghai-Tibetan plateau
Cited by: 11
Author(s): Mengjun Zhang, Liwei Chai, Muke Huang, Weiqian Jia, Jiabao Guo, Yi Huang
Software Mentions: 6
Published: about 6 years ago

10.3389/fmicb.2019.02887

Soil Microbial Networks Shift Across a High-Elevation Successional Gradient
Cited by: 13
Author(s): Emily C. Farrer, Dorota L. Porazinska, Marko J. Spasojevic, Andrew J. King, Clifton P. Bueno de Mesquita, Samuel A. Sartwell, J. A. Smith, C. T. White, Steven K. Schmidt, Katharine N. Suding
Software Mentions: 6
Published: almost 7 years ago

10.1186/s12866-020-01806-7

Co-occurrence pattern and function prediction of bacterial community in Karst cave
Cited by: 23
Author(s): Yiyi Dong, Jie Gao, Qingshan Wu, Yilang Ai, Yu Feng Huang, Wenzhang Wei, Shiyu Sun, Qingbei Weng
Software Mentions: 6
Published: over 6 years ago

10.1186/s42523-020-00054-4

Microbial co-occurrence networks of gut microbiota reveal community conservation and diet-associated shifts in cichlid fishes
Cited by: 18
Author(s): Joan Lluís Riera, Laura Baldo
Software Mentions: 6
Published: about 6 years ago

10.1186/s40168-016-0218-6

The gut microbiota in conventional and serrated precursors of colorectal cancer
Cited by: 160
Author(s): Brandilyn A. Peters, Christine Dominianni, Jean A. Shapiro, Timothy R. Church, Jing Wu, George Miller, Elizabeth Yuen, Hal Freiman, Ian Lustbader, James Salik, Charles Friedlander, Richard B. Hayes, Jiyoung Ahn
Software Mentions: 6
Published: almost 10 years ago

10.1186/1471-2105-13-76

EpiFire: An open source C++ library and application for contact network epidemiology
Cited by: 34
Author(s): Thomas J. Hladish, Eugene Melamud, Luis Barrera, Alison P. Galvani, Lauren Ancel Meyers
Software Mentions: 6
Published: over 14 years ago

10.1186/s12866-017-1103-6

Ciliate diversity and distribution patterns in the sediments of a seamount and adjacent abyssal plains in the tropical Western Pacific Ocean
Cited by: 12
Author(s): Feng Zhao, Sabine Filker, Thorsten Stoeck, Kuidong Xu
Software Mentions: 6
Published: about 9 years ago

10.1186/s40168-021-01087-w

Microbiomes attached to fresh perennial ryegrass are temporally resilient and adapt to changing ecological niches
Cited by: 5
Author(s): Sharon Huws, Joan E. Edwards, Wen Lin, Francesco Rubino, Mark Alston, David Swarbreck, Shabhonam Caim, Pauline Rees Stevens, Justin A. Pachebat, Mi Young Won, Linda Oyama, Christopher J. Creevey, Alison H. Kingston‐Smith
Software Mentions: 6
Published: over 5 years ago

10.1186/s40168-017-0389-9

Cropping practices manipulate abundance patterns of root and soil microbiome members paving the way to smart farming
Cited by: 340
Author(s): Kyle Hartman, Marcel G. A. van der Heijden, Raphaël Wittwer, Samiran Banerjee, Jean Claude Walser, Klaus Schlaeppi
Software Mentions: 6
Published: over 8 years ago

10.1038/ismej.2017.165

Recurrent patterns of microdiversity in a temperate coastal marine environment
Cited by: 110
Author(s): Meghan Chafee, Antonio Fernández-Guerra, Pier Luigi Buttigieg, Gunnar Gerdts, A. Murat Eren, Hanno Teeling, Rudolf Amann
Software Mentions: 6
Published: almost 9 years ago

10.1186/s40168-020-00822-z

Impact of phages on soil bacterial communities and nitrogen availability under different assembly scenarios
Cited by: 69
Author(s): Lucas Palma Perez Braga, Aymé Spor, Witold Kot, Marie-Christine Breuil, Lars H. Hansen, João Carlos Setúbal, Laurent Philippot
Software Mentions: 6
Published: over 6 years ago

10.1186/s40168-019-0781-8

Metagenomic analysis reveals the microbiome and resistome in migratory birds
Cited by: 96
Author(s): Jintao Cao, Yongfei Hu, Fei Liu, Yanan Wang, Yuhai Bi, Na Lv, Jing Li, Baoli Zhu, George F. Gao
Software Mentions: 6
Published: over 6 years ago

10.1186/s42523-020-00042-8

Survey of rumen microbiota of domestic grazing yak during different growth stages revealed novel maturation patterns of four key microbial groups and their dynamic interactions
Cited by: 31
Author(s): Wei Guo, Mi Zhou, Tao Ma, Sisi Bi, Weiwei Wang, Ying Zhang, Xiaodan Huang, Le Luo Guan, Ruijun Long
Software Mentions: 6
Published: about 6 years ago

10.1128/mSystems.00423-19

Network Analysis of the Papaya Orchard Virome from Two Agroecological Regions of Chiapas, Mexico
Cited by: 25
Author(s): Ricardo I. Alcalá-Briseño, Kena Casarrubias-Castillo, Diana López-Ley, Karen A. Garrett, Laura Silva-Rosales
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pone.0230274

Dengue importation into Europe: A network connectivity-based approach
Cited by: 12
Author(s): Donald Salami, César Capinha, Maria do Rosário Oliveira Martins, Carla A. Sousa
Software Mentions: 6
Published: over 6 years ago

10.1264/jsme2.ME17170

Co-occurrence Network Reveals the Higher Fragmentation of the Bacterial Community in Kaidu River Than Its Tributaries in Northwestern China
Cited by: 22
Author(s): Yang Hu, Chengrong Bai, Jian Cai, Jiangyu Dai, Kwang‐Tsao Shao, Xiangming Tang, Guang Gao
Software Mentions: 6
Published: almost 9 years ago

10.1371/journal.pone.0245867

Reconstructing dynamics of foodborne disease outbreaks in the US cattle market from monitoring data
Cited by: 1
Author(s): Ray Huffaker, Monika Hartmann
Software Mentions: 6
Published: over 5 years ago

10.1186/s12864-015-2266-x

IRES-dependent translated genes in fungi: computational prediction, phylogenetic conservation and functional association
Cited by: 9
Author(s): Esteban Peguero-Sanchez, Liliana Pardo-López, Enrique Merino
Software Mentions: 6
Published: almost 11 years ago

10.1038/s41598-021-98969-8

Rapid transmission of respiratory infections within but not between mountain gorilla groups
Cited by: 11
Author(s): Robin E. Morrison, Yvonne Mushimiyimana, Tara S. Stoinski, Winnie Eckardt
Software Mentions: 6
Published: about 5 years ago

10.1038/s41598-021-98989-4

Avian influenza transmission risk along live poultry trading networks in Bangladesh
Cited by: 8
Author(s): Natalie Moyen, Ahasanul Hoque, Rashed Mahmud, Mahmudul Hasan, Sudipta Sarkar, Paritosh Kumar Biswas, Hossain Mehedi, Joerg Henning, Punam Mangtani, Meerjady Sabrina Flora, Mahmudur Rahman, Nitish Debnath, M Giasuddin, Tony Barnett, Dirk U. Pfeiffer, Guillaume Fournié
Software Mentions: 6
Published: about 5 years ago

10.1186/s13029-019-0072-6

IPCAPS: an R package for iterative pruning to capture population structure
Cited by: 11
Author(s): Kridsadakorn Chaichoompu, Fentaw Abegaz, Sissades Tongsima, Philip Shaw, Anavaj Sakuntabhai, Luı́sa Pereira, Kristel Van Steen
Software Mentions: 6
Published: over 7 years ago

10.1186/s12864-016-2849-1

Deciphering transcriptome profiles of peripheral blood mononuclear cells in response to PRRSV vaccination in pigs
Cited by: 26
Author(s): M. S. Islam, Christine Große‐Brinkhaus, Maren Pröll, Muhammad Jasim Uddin, Sharmin Aqter Rony, Dawit Tesfaye, Ernst Tholen, Michael Hölker, K. Schellander, Christiane Neuhoff
Software Mentions: 6
Published: about 10 years ago

10.1186/s12859-020-03818-6

Calculating the most likely intron splicing orders in S. pombe, fruit fly, Arabidopsis thaliana, and humans
Cited by: 2
Author(s): Meng Li
Software Mentions: 6
Published: almost 6 years ago

10.26508/lsa.201900520

Dynamic changes in the regulatory T-cell heterogeneity and function by murine IL-2 mutein
Cited by: 11
Author(s): Daniel Lu, Hao Wu, Ian Driver, Sarah Ingersoll, Sue J. Sohn, Songli Wang, Chi-Ming Li, Hyewon Phee
Software Mentions: 6
Published: over 6 years ago

10.1371/journal.pone.0193759

Sharing-based social capital associated with harvest production and wealth in the Canadian Arctic
Cited by: 25
Author(s): Elspeth Ready
Software Mentions: 6
Published: over 8 years ago

10.3934/Neuroscience.2021016

ISOMAP and machine learning algorithms for the construction of embedded functional connectivity networks of anatomically separated brain regions from resting state fMRI data of patients with Schizophrenia
Cited by: 11
Author(s): Ioannis Gallos, Kostakis Gkiatis, George K. Matsopoulos, Constantinos Siettos
Software Mentions: 6
Published: almost 6 years ago

10.1007/s10710-018-9328-1

Visualising the global structure of search landscapes: genetic improvement as a case study
Cited by: 12
Author(s): Nadarajen Veerapen, Gabriela Ochoa
Software Mentions: 6
Published: about 8 years ago

10.1016/j.isci.2021.102864

Social bonds provide multiple pathways to reproductive success in wild male chimpanzees
Cited by: 34
Author(s): Joseph T. Feldblum, Christopher Krupenye, Joel Bray, Anne E. Pusey, Ian C. Gilby
Software Mentions: 6
Published: about 5 years ago

10.1038/s41598-021-91399-6

Bacillus amyloliquefaciens FH-1 significantly affects cucumber seedlings and the rhizosphere bacterial community but not soil
Cited by: 15
Author(s): Jingjing Wang, Sheng Xu, Rong Yang, Wei Zhao, Dan Zhu, Xiaoxia Zhang, Zhiyong Huang
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0251458

Statistical privacy-preserving message broadcast for peer-to-peer networks
Cited by: 1
Author(s): David Mödinger, Jan-Hendrik Lorenz, Franz J. Hauck
Software Mentions: 5
Published: over 5 years ago

Projects: cran: igraph

Science Score: 100/100

Bonuses:

Papers Mentioning igraph 1,555