pypi: igraph | Projects | Ecosyste.ms: Papers

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 5 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 3 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 3 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 12 years ago

10.7717/peerj.8844

Dynamics of ammonia oxidizers and denitrifiers in response to compost addition in black soil, Northeast China
Cited by: 8
Author(s): Zhihui Yang, Yupeng Guan, Ayodeji Bello, Yanxiang Wu, Jiayi Ding, Leiqi Wang, Yuqing Ren, Guangxin Chen, Wei Yang
Software Mentions: 6
Published: over 4 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 3 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 3 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 3 years ago

10.7717/peerj.6674

Epizootic ulcerative syndrome causes cutaneous dysbacteriosis in hybrid snakehead (<i>Channa maculata♀ × Channa argus♂</i>)
Cited by: 6
Author(s): Zhifei Li, Guangjun Wang, Kai Zhang, Wangbao Gong, Ermeng Yu, Jingjing Tian, Jun Xie, Deguang Yu
Software Mentions: 6
Published: over 5 years ago

10.1002/ece3.4061

Simple foraging rules in competitive environments can generate socially structured populations
Cited by: 32
Author(s): Maurício Cantor, Dan Farine
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: about 10 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: almost 11 years ago

10.1002/ece3.2360

Scale dependent drivers of wild bee diversity in tropical heterogeneous agricultural landscapes
Cited by: 32
Author(s): Prasenjit Basu, Arpan Kumar Parui, Sulagna Chatterjee, Arpan Dutta, Pushan Chakraborty, Stuart P. M. Roberts, Barbara Smith
Software Mentions: 6
Published: about 8 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: over 3 years ago

10.3390/pathogens10030258

Q Fever: Seroprevalence, Risk Factors in Slaughter Livestock and Genotypes of Coxiella burnetii in South Africa
Cited by: 11
Author(s): Maruping L. Mangena, Nomakorinte Gcebe, Rian Pierneef, Peter N. Thompson, Abiodun A. Adesiyun
Software Mentions: 6
Published: over 3 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 3 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 4 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: about 6 years ago

10.1038/s42003-021-02044-x

Cooperative root graft networks benefit mangrove trees under stress
Cited by: 2
Author(s): Alejandra G. Vovides, Marie-Christin Wimmler, Flalk Schrewe, Thorsten Balke, Martin Zwanzig, Cyril Piou, Étienne Delay, Jorge López‐Portillo, Uta Berger
Software Mentions: 6
Published: over 3 years ago

10.1093/cid/ciaa1153

Investigating the Meat Pathway as a Source of Human Nontyphoidal <i>Salmonella</i> Bloodstream Infections and Diarrhea in East Africa
Cited by: 18
Author(s): John A. Crump, Kate M. Thomas, Jackie Benschop, Matthew A. Knox, David Wilkinson, Anne C. Midwinter, Peninah Munyua, John B. Ochieng, Godfrey Bigogo, Jennifer R. Verani, Marc‐Alain Widdowson, Gerard Prinsen, Sarah Cleaveland, Esron D. Karimuribo, Rudovick Kazwala, Blandina T. Mmbaga, Emanuel S. Swai, Nigel French, Ruth N. Zadoks
Software Mentions: 6
Published: over 4 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 7 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 4 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 8 years ago

10.1038/s41422-020-00455-9

Discriminating mild from critical COVID-19 by innate and adaptive immune single-cell profiling of bronchoalveolar lavages
Cited by: 203
Author(s): Els Wauters, Pierre Van Mol, Abhishek D. Garg, S.L. Jansen, Yannick Van Herck, Lore Vanderbeke, Ayse Bassez, Bram Boeckx, Bert Malengier‐Devlies, Anna Timmerman, Thomas Van Brussel, Tina Van Buyten, Rogier Schepers, Elisabeth Heylen, Dieter Dauwe, Christophe Dooms, Jan Gunst, Greet Hermans, Philippe Meersseman, Dries Testelmans, Jonas Yserbyt, Sabine Tejpar, Walter De Wever, Patrick Matthys, Maria Bosisio, Michaël P Casaer, Frederik De Smet, Paul De Munter, Stéphanie Humblet-Baron, Adrian Liston, Natalie Lorent, Kim Martinod, Paul Proost, Jeroen Raes, Karin Thevissen, Robin Vos, Birgit Weynand, Carine Wouters, Johan Neyts, Joost Wauters, Junbin Qian, Diether Lambrechts
Software Mentions: 6
Published: almost 4 years ago

10.1016/j.cels.2018.08.001

Machine Learning Predicts the Yeast Metabolome from the Quantitative Proteome of Kinase Knockouts
Cited by: 77
Author(s): Aleksej Zelezniak, Jakob Vowinckel, Floriana Capuano, Christoph B. Messner, Vadim Demichev, Nicole Polowsky, Michael Mülleder, Stephan Kamrad, Bernd Klaus, Markus A. Keller, Markus Ralser
Software Mentions: 6
Published: about 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: almost 5 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 4 years ago

10.1186/s13550-017-0355-3

A novel genomic signature predicting FDG uptake in diverse metastatic tumors
Cited by: 4
Author(s): Aurora Crespo-Jara, Maria Carmen Redal-Peña, E. Martinez-Navarro, Manuel Sureda, Francisco J. Fernández-Morejón, Francisco Javier Garcia-Cases, Ramón González Manzano, Antonio Brugarolas
Software Mentions: 6
Published: almost 7 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 4 years ago

10.1038/s41419-021-03738-0

A KDM4A-PAF1-mediated epigenomic network is essential for acute myeloid leukemia cell self-renewal and survival
Cited by: 18
Author(s): Matthew E. Massett, Laura Monaghan, Shaun Patterson, Niamh Mannion, Roderick P Bunschoten, Alex Hoose, Sandra Marmiroli, Rob M. J. Liskamp, Heather G. Jørgensen, David Vetrie, Alison M. Michie, Xu Huang
Software Mentions: 6
Published: over 3 years ago

10.1016/j.cell.2016.09.007

Functional Metabolomics Describes the Yeast Biosynthetic Regulome
Cited by: 129
Author(s): Michael Mülleder, Enrica Calvani, Mohammad Tauqeer Alam, Richard Kangda Wang, Florian Eckerstorfer, Aleksej Zelezniak, Markus Ralser
Software Mentions: 6
Published: about 8 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 12 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: almost 4 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 3 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 4 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 3 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 3 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: about 9 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: over 5 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: about 6 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 5 years ago

10.1371/journal.pone.0128854

ONION: Functional Approach for Integration of Lipidomics and Transcriptomics Data
Cited by: 5
Author(s): Monika Piwowar, Wiktor Jurkowski
Software Mentions: 6
Published: over 9 years ago

10.1371/journal.pone.0047508

Early Social Networks Predict Survival in Wild Bottlenose Dolphins
Cited by: 177
Author(s): Margaret A. Stanton, Janet Mann
Software Mentions: 6
Published: about 12 years ago

10.1038/s41598-019-47921-y

Metataxonomic analyses reveal differences in aquifer bacterial community as a function of creosote contamination and its potential for contaminant remediation
Cited by: 9
Author(s): Aline Daniela Lopes Júlio, Ubiana de Cássia Mourão Silva, Julliane Dutra Medeiros, Daniel Morais, Vera Lúcia dos Santos
Software Mentions: 6
Published: over 5 years ago

10.1038/s41598-019-50119-x

Tissue-specific mouse mRNA isoform networks
Cited by: 12
Author(s): Gaurav Kandoi, Julie A. Dickerson
Software Mentions: 6
Published: about 5 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 3 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 4 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 4 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: about 4 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 3 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: almost 5 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: about 4 years ago

10.15252/embj.2019101695

Phospho‐RNA‐seq: a modified small RNA‐seq method that reveals circulating mRNA and lncRNA fragments as potential biomarkers in human plasma
Cited by: 61
Author(s): María D. Giraldez, Ryan M Spengler, Alton Etheridge, Annika Jane Goicochea, Missy Tuck, Sung Won Choi, David J. Galas, Muneesh Tewari
Software Mentions: 6
Published: over 5 years ago

10.1016/j.cell.2020.08.013

Cell Types of the Human Retina and Its Organoids at Single-Cell Resolution
Cited by: 302
Author(s): Cameron Cowan, Magdalena Renner, Martina De Gennaro, Brigitte Gross-Scherf, David Goldblum, Yanyan Hou, Martin Munz, Tiago M. Rodrigues, Jacek Król, Tamás Szikra, Rachel Cuttat, Annick Waldt, Panagiotis Papasaikas, Roland Diggelmann, Claudia P. Patino-Alvarez, Patricia Galliker, Stefan Erich Spirig, Dinko Pavlinic, Nadine Gerber-Hollbach, Sven Schuierer, Aldin Srdanovic, Márton Balogh, Riccardo Panero, Ákos Kusnyerik, Arnold Szabó, Michael Stadler, Selim Orgül, Simone Picelli, Pascal W. Hasler, Andreas Hierlemann, Hendrik P. N. Scholl, Guglielmo Roma, Florian Nigsch, Botond Roska
Software Mentions: 6
Published: about 4 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 7 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 3 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 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 3 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 3 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: over 7 years ago

10.1038/s41598-018-33498-5

Distinct co-expression networks using multi-omic data reveal novel interventional targets in HPV-positive and negative head-and-neck squamous cell cancer
Cited by: 28
Author(s): Raquel L. Costa, Mariana Boroni, Marcelo A. Soares
Software Mentions: 6
Published: about 6 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: over 4 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 9 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 4 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 4 years ago

10.1038/s41598-018-20515-w

Exploring coral microbiome assemblages in the South China Sea
Cited by: 24
Author(s): Chunye Lin, Ren Mao Tian, Guowei Zhou, Haoya Tong, Yue Him Wong, Weipeng Zhang, Apple Pui Yi Chui, James Y. Xie, Jian‐Wen Qiu, Put O. Ang, Sheng Liu, Hui Huang, Pei‐Yuan Qian
Software Mentions: 6
Published: almost 7 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 8 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 12 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 8 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: over 10 years ago

10.1038/s41598-018-22488-2

Profiles of miRNA Isoforms and tRNA Fragments in Prostate Cancer
Cited by: 55
Author(s): Rogan Magee, Aristeidis G. Telonis, Phillipe Loher, Eric Londin, Isidore Rigoutsos
Software Mentions: 6
Published: over 6 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 7 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 4 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: over 7 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 3 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: almost 7 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 4 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 3 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 4 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: over 4 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: about 11 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 7 years ago

10.1038/srep33555

The Tara Oceans voyage reveals global diversity and distribution patterns of marine planktonic ciliates
Cited by: 65
Author(s): Anna Gimmler, Ralf Korn, Colomban de Vargas, Stéphane Audic, Thorsten Stoeck
Software Mentions: 6
Published: about 8 years ago

10.1371/journal.pone.0185797

A novel network analysis approach reveals DNA damage, oxidative stress and calcium/cAMP homeostasis-associated biomarkers in frontotemporal dementia
Cited by: 21
Author(s): Fernando Palluzzi, Raffaele Ferrari, Francesca Graziano, Valeria Novelli, Giacomina Rossi, Daniela Galimberti, Innocenzo Rainero, Luisa Benussi, Benedetta Nacmias, Amalia C. Bruni, Daniele Cusi, Erika Salvi, Barbara Borroni, Mario Grassi
Software Mentions: 6
Published: about 7 years ago

10.1126/sciadv.abj1132

Plasma lipids and growth faltering: A longitudinal cohort study in rural Gambian children
Cited by: 2
Author(s): Gerard Bryan Gonzales, Daniëlla Brals, Bakary Sonko, Fatou Sosseh, Andrew M. Prentice, Sophie E. Moore, Albert Koulman
Software Mentions: 6
Published: about 3 years ago

10.1038/sdata.2017.44

Construction of a map-based reference genome sequence for barley, Hordeum vulgare L.
Cited by: 119
Author(s): Sebastian Beier, Axel Himmelbach, Christian Colmsee, Xiao Qi Zhang, Roberto A. Barrero, Qisen Zhang, Lin Li, Micha Bayer, Dan Bolser, Stefan Taudien, Marco Groth, Marius Felder, Alex Hastie, Hana Šimková, Helena Staňková, Jan Vrána, Saki Chan, María Muñoz‐Amatriaín, Rachid Ounit, Steve Wanamaker, Thomas Schmutzer, Lala Aliyeva-Schnorr, Stefano Grasso, Jaakko Tanskanen, Dharanya Sampath, Darren Heavens, Sujie Cao, Brett Chapman, Fei Dai, Yong Han, Hua Li, Xuan Li, Chongyun Lin, John K. McCooke, Cong Tan, Songbo Wang, Shuya Yin, Gaofeng Zhou, Jesse Poland, M. Bellgard, Andreas Houben, Jaroslav Doležel, Sarah Ayling, Stefano Lonardi, Peter Langridge, Gary J. Muehlbauer, Paul J. Kersey, Matthew D. Clark, Mario Cáccamo, Alan H. Schulman, Matthias Platzer, Timothy J. Close, Mats Hansson, Guoping Zhang, Ilka Braumann, Chengdao Li, Robbie Waugh, Uwe Scholz, Nils Stein, Martin Mascher
Software Mentions: 6
Published: over 7 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 9 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 5 years ago

10.1371/journal.pone.0187091

DiffSLC: A graph centrality method to detect essential proteins of a protein-protein interaction network
Cited by: 43
Author(s): Divya Mistry, Roger P. Wise, Julie A. Dickerson
Software Mentions: 6
Published: about 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: over 8 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: about 4 years ago

10.3389/fimmu.2018.00224

Computational Strategies for Dissecting the High-Dimensional Complexity of Adaptive Immune Repertoires
Cited by: 146
Author(s): Enkelejda Miho, Alexander Yermanos, Cédric R. Weber, Christoph T. Berger, Sai T. Reddy, Victor Greiff
Software Mentions: 6
Published: over 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: over 5 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 4 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 4 years ago

10.3389/fmicb.2018.01401

Stoichiometric Shifts in Soil C:N:P Promote Bacterial Taxa Dominance, Maintain Biodiversity, and Deconstruct Community Assemblages
Cited by: 50
Author(s): Zachary T. Aanderud, Sabrina Saurey, Becky A. Ball, Diana H. Wall, John E. Barrett, Mario E. Muscarella, Natasha A. Griffin, Ross A. Virginia, Albert Barberán, Byron J. Adams
Software Mentions: 6
Published: over 6 years ago

10.1038/s41598-017-10930-w

Human hepatic gene expression signature of non-alcoholic fatty liver disease progression, a meta-analysis
Cited by: 69
Author(s): Maria Ryaboshapkina, Mårten Hammar
Software Mentions: 6
Published: about 7 years ago

10.1038/s41598-018-37512-8

Sheathless CE-MS based metabolic profiling of kidney tissue section samples from a mouse model of Polycystic Kidney Disease
Cited by: 22
Author(s): Elena Sánchez-López, Guinevere S. M. Kammeijer, Antonio L. Crego, Marı́a Luisa Marina, Rawi Ramautar, Dorien J.M. Peters, Oleg A. Mayboroda
Software Mentions: 6
Published: almost 6 years ago

10.3389/fgene.2018.00670

The Importance of Biologic Knowledge and Gene Expression Context for Genomic Data Interpretation
Cited by: 5
Author(s): Michael T. Zimmermann
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pone.0242955

Lessons from movement ecology for the return to work: Modeling contacts and the spread of COVID-19
Cited by: 4
Author(s): Allison K. Shaw, Lauren A. White, Matthew Michalska‐Smith, Elizabeth T. Borer, Meggan E. Craft, Eric W. Seabloom, Emilie C. Snell‐Rood, Michael Travisano
Software Mentions: 5
Published: almost 4 years ago

Projects: pypi: igraph

Papers Mentioning igraph 1,555