pypi: ForceAtlas2 | Projects | Ecosyste.ms: Papers

10.15252/msb.20188746

Current best practices in single‐cell RNA‐seq analysis: a tutorial
Cited by: 1,173
Author(s): Malte D. Luecken, Fabian J. Theis
Software Mentions: 20
Published: over 5 years ago

Domestication of Oryza species eco-evolutionarily shapes bacterial and fungal communities in rice seed
Cited by: 80
Author(s): Hyun Kim, Kiseok Keith Lee, Jongbum Jeon, William Harris, Yong-Hwan Lee
Software Mentions: 11
Published: almost 5 years ago

10.1371/journal.pone.0253010

Community evolution on Stack Overflow
Cited by: 11
Author(s): Iraklis Moutidis, Hywel T. P. Williams
Software Mentions: 10
Published: over 3 years ago

10.1016/j.molcel.2020.04.008

Single-Cell Analyses Reveal Megakaryocyte-Biased Hematopoiesis in Myelofibrosis and Identify Mutant Clone-Specific Targets
Cited by: 101
Author(s): Bethan Psaila, Guanlin Wang, Alba Rodríguez-Meira, Rong Li, Elisabeth F. Heuston, Lauren C. Murphy, Daniel Yee, Ian S. Hitchcock, Nikolaos Sousos, Jennifer O’Sullivan, Stacie M. Anderson, Yotis A. Senis, Olga K. Weinberg, Monica L. Calicchio, Deena Iskander, Daniel Royston, Dragana Milojković, Irene Roberts, David M. Bodine, Supat Thongjuea, Adam J. Mead
Software Mentions: 9
Published: over 4 years ago

10.1186/s13045-020-00941-y

A single-cell survey of cellular hierarchy in acute myeloid leukemia
Cited by: 39
Author(s): Jinliang Wu, Yanyu Xiao, Jie Sun, Huiyu Sun, Haide Chen, Yuanyuan Zhu, Haidong Fu, Chengxuan Yu, E Weigao, Shih‐Wei Lai, Lifeng Ma, Jiaqi Li, Lijiang Fei, Mengmeng Jiang, Jingjing Wang, Fang Ye, Renying Wang, Ziyu Zhou, Guodong Zhang, Tingyue Zhang, Qiong Ding, Zou Wang, Sheng Hao, Lizhen Liu, Weiyan Zheng, Jingsong He, Weijia Huang, Yungui Wang, Jin Xie, Tiefeng Li, Tao Cheng, Xiaoping Han, He Huang, Guoji Guo
Software Mentions: 9
Published: about 4 years ago

10.1002/pmic.201400377

Open source libraries and frameworks for biological data visualisation: A guide for developers
Cited by: 37
Author(s): Rui Wang, Yasset Perez‐Riverol, Henning Hermjakob, Juan Antonio Vizcaíno
Software Mentions: 8
Published: almost 10 years ago

10.1016/j.stem.2020.11.015

Integrative Single-Cell RNA-Seq and ATAC-Seq Analysis of Human Developmental Hematopoiesis
Cited by: 152
Author(s): Anna Maria Ranzoni, Andrea Tangherloni, Ivan Berest, Simone G. Riva, Brynelle Myers, Paulina M. Strzelecka, Jiarui Xu, Elisa Panada, Irina Mohorianu, Judith B. Zaugg, Ana Cvejic
Software Mentions: 7
Published: almost 4 years ago

10.15252/embj.2018101220

The interactome of <scp>KRAB</scp> zinc finger proteins reveals the evolutionary history of their functional diversification
Cited by: 58
Author(s): Pierre-Yves Helleboid, Moritz Heusel, Julien Duc, Cécile Piot, Christian W. Thorball, Andrea Coluccio, Julien Pontis, Michaël Imbeault, Priscilla Turelli, Ruedi Aebersold, Didier Trono
Software Mentions: 7
Published: over 5 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

10.3389/fgene.2019.01120

Leveraging User-Friendly Network Approaches to Extract Knowledge From High-Throughput Omics Datasets
Cited by: 12
Author(s): Pablo Ivan Pereira Ramos, Luis Willian Pacheco Arge, Nicholas Costa Barroso Lima, Kiyoshi F. Fukutani, Artur T. L. Queiroz
Software Mentions: 6
Published: about 5 years ago

10.3390/metabo11060361

Opposing Effects of Ceanothus velutinus Phytochemistry on Herbivore Communities at Multiple Scales
Cited by: 2
Author(s): Casey S. Philbin, M. J. Paulsen, Lora A. Richards
Software Mentions: 6
Published: over 3 years ago

10.3389/fcimb.2017.00234

Functional Redundancy and Ecological Innovation Shape the Circulation of Tick-Transmitted Pathogens
Cited by: 10
Author(s): Agustı́n Estrada-Peña, José de la Fuente, Alejandro Cabezas-Cruz
Software Mentions: 5
Published: over 7 years ago

10.1038/srep10361

Interactions between tick and transmitted pathogens evolved to minimise competition through nested and coherent networks
Cited by: 57
Author(s): Agustı́n Estrada-Peña, José de la Fuente, Richard S. Ostfeld, Alejandro Cabezas-Cruz
Software Mentions: 5
Published: over 9 years ago

10.7554/eLife.60225

RUNX1 marks a luminal castration-resistant lineage established at the onset of prostate development
Cited by: 28
Author(s): Renaud Mével, Ivana Steiner, Susan Mason, Laura C.A. Galbraith, Rahima Patel, Muhammad Zaki Hidayatullah Fadlullah, Imran Ahmad, Hing Y. Leung, Pedro Oliveira, Karen Blyth, Esther Baena, Georges Lacaud
Software Mentions: 5
Published: about 4 years ago

10.1371/journal.pone.0171413

Large-scale bioactivity analysis of the small-molecule assayed proteome
Cited by: 4
Author(s): Tyler W. H. Backman, Daniel S. Evans, Thomas Girke
Software Mentions: 5
Published: almost 8 years ago

10.3390/e22121351

Image Hashtag Recommendations Using a Voting Deep Neural Network and Associative Rules Mining Approach
Cited by: 7
Author(s): Tomasz Hachaj, Justyna Miazga
Software Mentions: 4
Published: about 4 years ago

10.1371/journal.pbio.3000705

Vascularized human cortical organoids (vOrganoids) model cortical development in vivo
Cited by: 178
Author(s): Yingchao Shi, Le Sun, Mengdi Wang, Jianwei Liu, Shaobo Zhong, Rui Li, Peng Li, Dadong Guo, Fang Ai, Ruiguo Chen, Woo Ping Ge, Qian Wu, Xiaoqun Wang
Software Mentions: 4
Published: over 4 years ago

10.1186/s40168-017-0328-9

Blood as a route of transmission of uterine pathogens from the gut to the uterus in cows
Cited by: 73
Author(s): Seong-Jeub Jeon, Federico Cunha, A. Vieira-Neto, R.C. Bicalho, Svetlana Lima, M.L.S. Bicalho, Klibs N. Galvão
Software Mentions: 4
Published: over 7 years ago

10.1016/j.xcrm.2020.100078

Systems-Level Immunomonitoring from Acute to Recovery Phase of Severe COVID-19
Cited by: 147
Author(s): Lucie Rodriguez, Pirkka T. Pekkarinen, Tadepally Lakshmikanth, Ziyang Tan, Camila Rosat Consiglio, Christian Pou, Yang Chen, Constantin Habimana Mugabo, Ngoc-anh A. Nguyen, Kirsten Nowlan, Tomas Strandin, Lev Levanov, Jaromír Mikes, Wang Ju, Anu Kantele, Jussi Hepojoki, Olli Vapalahti, Santtu Heinonen, Eliisa Kekäläinen, Petter Brodin
Software Mentions: 3
Published: over 4 years ago

10.1186/s13071-016-1803-z

Nested coevolutionary networks shape the ecological relationships of ticks, hosts, and the Lyme disease bacteria of the Borrelia burgdorferi (s.l.) complex
Cited by: 34
Author(s): Agustı́n Estrada-Peña, Hein Sprong, Alejandro Cabezas-Cruz, José de la Fuente, Ana Ramo, Elena Claudia Coipan
Software Mentions: 3
Published: about 8 years ago

10.1038/ismej.2014.195

Minimum entropy decomposition: Unsupervised oligotyping for sensitive partitioning of high-throughput marker gene sequences
Cited by: 449
Author(s): A. Murat Eren, Hilary G. Morrison, Pamela J. Lescault, Julie Réveillaud, Joseph H. Vineis, Mitchell L. Sogin
Software Mentions: 3
Published: about 10 years ago

10.1371/journal.pbio.2002266

Comparative genomics of the tardigrades Hypsibius dujardini and Ramazzottius varieornatus
Cited by: 156
Author(s): Yuki Yoshida, Georgios Koutsovoulos, Dominik R. Laetsch, Lewis Stevens, Sujai Kumar, Daiki D. Horikawa, Kyoko Ishino, Shiori Komine, Takekazu Kunieda, Masaru Tomita, Mark Blaxter, Kazuharu Arakawa
Software Mentions: 3
Published: over 7 years ago

10.3389/fgene.2020.586658

Cardiac Regeneration and Tumor Growth—What Do They Have in Common?
Cited by: 1
Author(s): Severin Dicks, Lonny Jürgensen, Florian Leuschner, David Hassel, Geoffroy Andrieux, Melanie Boerries
Software Mentions: 3
Published: almost 4 years ago

10.1007/s41109-018-0109-9

From free text to clusters of content in health records: an unsupervised graph partitioning approach
Cited by: 16
Author(s): M. Tarık Altuncu, Erik Mayer, Sophia N. Yaliraki, Mauricio Barahona
Software Mentions: 2
Published: almost 6 years ago

10.1038/s41598-020-75029-1

Automatic construction of molecular similarity networks for visual graph mining in chemical space of bioactive peptides: an unsupervised learning approach
Cited by: 23
Author(s): Longendri Aguilera‐Mendoza, Yovani Marrero‐Ponce, César R. García-Jacas, Edgar Chávez, Jesús A. Beltrán, Hugo A. Guillén-Ramírez, Carlos A. Brizuela
Software Mentions: 2
Published: about 4 years ago

10.1371/journal.pone.0178492

Inferring and analysis of social networks using RFID check-in data in China
Cited by: 8
Author(s): Tao Liu, Lintao Yang, Shouyin Liu, Shuangkui Ge
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pbio.3001275

Intrinsic connectivity reveals functionally distinct cortico-hippocampal networks in the human brain
Cited by: 52
Author(s): Alexander Barnett, Walter Reilly, Halle R. Dimsdale-Zucker, Eda Mızrak, Zachariah M. Reagh, Charan Ranganath
Software Mentions: 2
Published: over 3 years ago

10.1007/s41109-017-0054-z

Generating realistic scaled complex networks
Cited by: 16
Author(s): Christian Staudt, Michael Hamann, Alexander Gutfraind, Ilya Safro, Henning Meyerhenke
Software Mentions: 2
Published: about 7 years ago

10.1038/s41598-021-89467-y

Online hate network spreads malicious COVID-19 content outside the control of individual social media platforms
Cited by: 27
Author(s): N. Velásquez, Rhys Leahy, Nicholas Johnson Restrepo, Yonatan Lupu, Richard Sear, Nicholas Gabriel, O. K. Jha, Beth Goldberg, Neil F. Johnson
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0237073

The Twitter parliamentarian database: Analyzing Twitter politics across 26 countries
Cited by: 25
Author(s): Livia van Vliet, Petter Törnberg, Justus Uitermark
Software Mentions: 2
Published: about 4 years ago

10.3389/fmicb.2018.01291

Disentangling the Drivers of Diversity and Distribution of Fungal Community Composition in Wastewater Treatment Plants Across Spatial Scales
Cited by: 33
Author(s): Haihan Zhang, Ji Feng, Shengnan Chen, Baoqin Li, Raju Sekar, Zhenfang Zhao, Jingyu Jia, Yue Wang, Peng-Liang Kang
Software Mentions: 2
Published: over 6 years ago

10.4049/jimmunol.1801407

Growth Factor–like Gene Regulation Is Separable from Survival and Maturation in Antibody-Secreting Cells
Cited by: 11
Author(s): Sophie Stephenson, Matthew A. Care, Im Fan, Alexandre Zougman, David R. Westhead, Gina M. Doody, Reuben Tooze
Software Mentions: 2
Published: almost 6 years ago

10.2196/publichealth.8145

Predictors of Facebook User Engagement With Health-Related Content for Gay, Bisexual, and Other Men Who Have Sex With Men: Content Analysis
Cited by: 25
Author(s): Kiffer G. Card, Nathan J. Lachowsky, Blake Hawkins, Jody Jollimore, Fahmy Baharuddin, Robert S. Hogg
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0098679

ForceAtlas2, a Continuous Graph Layout Algorithm for Handy Network Visualization Designed for the Gephi Software
Cited by: 1,712
Author(s): Mathieu Jacomy, Tommaso Venturini, Sébastien Heymann, Mathieu Bastian
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0247587

Panacea: Visual exploration system for analyzing trends in annual recruitment using time-varying graphs
Cited by: 2
Author(s): Toshiyuki Yokoyama, Masashi Okada, Tadahiro Taniguchi
Software Mentions: 2
Published: almost 4 years ago

10.3389/fbioe.2020.00018

CALISTA: Clustering and LINEAGE Inference in Single-Cell Transcriptional Analysis
Cited by: 8
Author(s): Nan Gao, Thomas Hartmann, Tao Fang, Rudiyanto Gunawan
Software Mentions: 2
Published: almost 5 years ago

10.1186/s12864-020-6578-0

Genomic insight into the origins and evolution of symbiosis genes in Phaseolus vulgaris microsymbionts
Cited by: 13
Author(s): Wenjun Tong, Xiangchen Li, En Tao Wang, Ying Cao, Weimin Chen, Shiheng Tao, Gehong Wei
Software Mentions: 2
Published: almost 5 years ago

10.2196/jmir.7673

The User Knows What to Call It: Incorporating Patient Voice Through User-Contributed Tags on a Participatory Platform About Health Management
Cited by: 5
Author(s): Annie Chen, Rachel Carriere, Samantha Kaplan
Software Mentions: 2
Published: about 7 years ago

10.1098/rsif.2020.1040

Data-driven identification of complex disease phenotypes
Cited by: 0
Author(s): Markus Strauss, Thomas Niederkrotenthaler, Stefan Thurner, Alexandra Kautzky–Willer, Peter Klimek
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.ppat.1009288

Extrafollicular CD4 T cell-derived IL-10 functions rapidly and transiently to support anti-Plasmodium humoral immunity
Cited by: 9
Author(s): Fionna A. Surette, Jenna J. Guthmiller, Lei Li, Alexandria J. Sturtz, Rahul Vijay, Rosemary L. Pope, Brandon L. McClellan, Angela D. Pack, Ryan Zander, Pengfei Shao, Linda Lan, Daniel Fernandez‐Ruiz, William R. Heath, Patrick C. Wilson, Noah S. Butler
Software Mentions: 2
Published: almost 4 years ago

10.1098/rspb.2019.2736

Global shifts in mammalian population trends reveal key predictors of virus spillover risk
Cited by: 234
Author(s): Christine K. Johnson, Peta L. Hitchens, Pranav Pandit, Julie Rushmore, Tierra Smiley Evans, Caroline Young, Megan Doyle
Software Mentions: 2
Published: over 4 years ago

10.3390/biom9010011

Delineating the Dynamic Transcriptome Response of mRNA and microRNA during Zebrafish Heart Regeneration
Cited by: 11
Author(s): Hagen Klett, Lonny Jürgensen, Patrick Most, Martin Busch, Fabian Günther, Gergana Dobreva, Florian Leuschner, David Hassel, Hauke Busch, Melanie Boerries
Software Mentions: 2
Published: almost 6 years ago

10.1007/s42001-021-00139-3

Characterizing the roles of bots on Twitter during the COVID-19 infodemic
Cited by: 14
Author(s): Wentao Xu, Kazutoshi Sasahara
Software Mentions: 2
Published: over 3 years ago

10.1186/s12870-018-1500-5

Structural diversity across arbuscular mycorrhizal, ectomycorrhizal, and endophytic plant–fungus networks
Cited by: 9
Author(s): Hirokazu Toju, Hirotoshi Sato, Satoshi Yamamoto, Akifumi S. Tanabe
Software Mentions: 2
Published: about 6 years ago

10.3389/frma.2020.00005

Tracing Long-Term Outcomes of Basic Research Using Citation Networks
Cited by: 5
Author(s): James Onken, Andrew C. Miklos, Richard Aragon
Software Mentions: 2
Published: about 4 years ago

10.1523/ENEURO.0247-20.2021

Social Experience Interacts with Serotonin to Affect Functional Connectivity in the Social Behavior Network following Playback of Social Vocalizations in Mice
Cited by: 8
Author(s): Christopher L. Petersen, Sarah E. D. Davis, Bhumi Patel, Laura M. Hurley
Software Mentions: 1
Published: almost 4 years ago

10.3390/a10030093

Post-Processing Partitions to Identify Domains of Modularity Optimization
Cited by: 36
Author(s): William H. Weir, Scott W. Emmons, Ryan Gibson, Dane Taylor, Peter J. Mucha
Software Mentions: 1
Published: over 7 years ago

10.3390/nu13061991

Healthy Food on Instagram Social Network: Vegan, Homemade and Clean Eating
Cited by: 19
Author(s): Ladislav Pilař, Lucie Kvasničková Stanislavská, Roman Kvasnička, Richard T. Hartman, Ivana Tichá
Software Mentions: 1
Published: over 3 years ago

10.1007/s41109-018-0094-z

Multiplex network motifs as building blocks of corporate networks
Cited by: 22
Author(s): Frank W. Takes, Walter A. Kosters, Boyd Witte, Eelke M. Heemskerk
Software Mentions: 1
Published: over 6 years ago

10.1007/s41109-016-0012-1

Social network analysis of the biblical Moses
Cited by: 4
Author(s): Steven E. Massey
Software Mentions: 1
Published: about 8 years ago

10.1007/s41109-018-0099-7

Profiling the EU lobby organizations in Banking and Finance
Cited by: 3
Author(s): Borut Sluban, Mojca Mikac, Petra Kralj Novak, Stefano Battiston, Igor Mozetič
Software Mentions: 1
Published: about 6 years ago

10.1186/s40360-018-0265-7

Potential drug incompatibilities in the neonatal intensive care unit: a network analysis approach
Cited by: 19
Author(s): Ramon Weyler Duarte Leopoldino, Haline Tereza Matias Lima Costa, Tatiana Xavier da Costa, Rand Randall Martins, António Gouveia Oliveira
Software Mentions: 1
Published: about 6 years ago

10.1186/s13104-018-3507-2

GrapHi-C: graph-based visualization of Hi-C datasets
Cited by: 8
Author(s): Kimberly MacKay, Anthony Kusalik, Christopher H. Eskiw
Software Mentions: 1
Published: over 6 years ago

10.1093/bioinformatics/btv460

cyNeo4j: connecting Neo4j and Cytoscape
Cited by: 18
Author(s): Georg Summer, Thomas Kelder, Keiichiro Ono, Marijana Radonjić, Stéphane Heymans, Barry Demchak
Software Mentions: 1
Published: over 9 years ago

10.3390/brainsci11010113

Peripheral Neuropathies Seen by Ultrasound: A Literature Analysis through Lexical Evaluation, Geographical Assessment and Graph Theory
Cited by: 11
Author(s): Daniele Coraci, Claudia Loreti, Augusto Fusco, Silvia Giovannini, Luca Padua
Software Mentions: 1
Published: almost 4 years ago

10.3390/metabo8010003

Constraining Genome-Scale Models to Represent the Bow Tie Structure of Metabolism for 13C Metabolic Flux Analysis
Cited by: 5
Author(s): Tyler W. H. Backman, David Ando, Jaspreet Singh, Jay D. Keasling, Héctor García Martín
Software Mentions: 1
Published: almost 7 years ago

10.7717/peerj.155

Publication trends in neuroimaging of minimally conscious states
Cited by: 8
Author(s): Alex Garnett, Grace Lee, Judy Illes
Software Mentions: 1
Published: about 11 years ago

10.7717/peerj-cs.430

A visual analytic approach for the identification of ICU patient subpopulations using ICD diagnostic codes
Cited by: 3
Author(s): Daniel Alcaide, Jan Aerts
Software Mentions: 1
Published: over 3 years ago

10.1371/journal.pbio.2003663

A novel unsupervised analysis of electrophysiological signals reveals new sleep substages in mice
Cited by: 9
Author(s): Vasiliki-Maria Katsageorgiou, Diego Sona, Matteo Zanotto, Glenda Lassi, Celina García-García, Valter Tucci, Vittorio Murino
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1004472

Functional Basis of Microorganism Classification
Cited by: 32
Author(s): Chengsheng Zhu, Tom O. Delmont, Timothy M. Vogel, Yana Bromberg
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0250656

Ideological biases in social sharing of online information about climate change
Cited by: 14
Author(s): Tristan J. B. Cann, Iain S. Weaver, Hywel T. P. Williams
Software Mentions: 1
Published: over 3 years ago

10.1371/journal.pone.0249241

Ideological differences in engagement in public debate on Twitter
Cited by: 12
Author(s): Felix Gaisbauer, Armin Pournaki, Sven Banisch, Eckehard Olbrich
Software Mentions: 1
Published: over 3 years ago

10.1371/journal.pone.0159354

Social Representations of Hero and Everyday Hero: A Network Study from Representative Samples
Cited by: 17
Author(s): Zsolt Keczer, Bálint File, Gábor Orosz, Philip G. Zimbardo
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0200800

Social interactions in online eating disorder communities: A network perspective
Cited by: 35
Author(s): Tao Wang, Markus Brede, Antonella Ianni, Emmanouil Mentzakis
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0159620

Modes of Large-Scale Brain Network Organization during Threat Processing and Posttraumatic Stress Disorder Symptom Reduction during TF-CBT among Adolescent Girls
Cited by: 30
Author(s): Josh M. Cisler, Benjamin A. Sigel, Teresa L. Kramer, Sonet Smitherman, Karin L. Vanderzee, Joy R. Pemberton, Clinton D. Kilts
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0161113

Social Behaviours and Networks of Vervet Monkeys Are Influenced by Gastrointestinal Parasites
Cited by: 51
Author(s): Colin A. Chapman, Sagan Friant, Kathleen Godfrey, Cynthia Liu, Dipto Sakar, Valérie A. M. Schoof, Raja Sengupta, Dennis Twinomugisha, Kim Valenta, Tony L. Goldberg
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0175368

A systematic identification and analysis of scientists on Twitter
Cited by: 95
Author(s): Qing Ke, Yong‐Yeol Ahn, Cassidy R. Sugimoto
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0128664

The Patterns of Coevolution in Clade B HIV Envelope's N-Glycosylation Sites
Cited by: 2
Author(s): Swetha Garimalla, Thomas Kieber‐Emmons, Anastas Pashov
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0101357

DyCoNet: A Gephi Plugin for Community Detection in Dynamic Complex Networks
Cited by: 41
Author(s): Julie Kauffman, Aristotelis Kittas, Laura Bennett, Sophia Tsoka
Software Mentions: 1
Published: over 10 years ago

10.3390/cancers11030346

Novel Molecular Characterization of Colorectal Primary Tumors Based on miRNAs
Cited by: 21
Author(s): Elisa Conde-Moreno, Alejandro Pascual, Juan Daniel Prieto Cuadra, Val F. Laza, Javier Molina‐Cerrillo, Miren Edurne Ramos-Muñoz, Esperanza Macarena Rodríguez-Serrano, José Luís Soto, Alfredo Carrato, Maria Laura García‐Bermejo, Carmen Guillén‐Ponce
Software Mentions: 1
Published: over 5 years ago

10.3389/fnagi.2021.676618

A Graph Theory Approach to Clarifying Aging and Disease Related Changes in Cognitive Networks
Cited by: 6
Author(s): Laura Wright, Matteo De Marco, Annalena Venneri
Software Mentions: 1
Published: over 3 years ago

10.3389/frai.2021.668163

On Topological Analysis of fs-LIMS Data. Implications for in Situ Planetary Mass Spectrometry
Cited by: 7
Author(s): Rustam Lukmanov, Andreas Riedo, David Wacey, N. F. W. Ligterink, Valentine Grimaudo, Marek Tulej, Coenraad de Koning, Anna Neubeck, Peter Würz
Software Mentions: 1
Published: over 3 years ago

10.3389/fmicb.2018.02379

Insights Into the Bovine Milk Microbiota in Dairy Farms With Different Incidence Rates of Subclinical Mastitis
Cited by: 38
Author(s): Maoda Pang, Xing Xie, Hongduo Bao, Lichang Sun, Tao He, Hang Zhao, Yan Zhou, Lili Zhang, Hui Zhang, Ruicheng Wei, Kaizhou Xie, Ran Wang
Software Mentions: 1
Published: about 6 years ago

10.3389/fmicb.2019.01205

Metabolic Dependencies Underlie Interaction Patterns of Gut Microbiota During Enteropathogenesis
Cited by: 13
Author(s): Die Dai, Teng Wang, Sicheng Wu, Na Gao, Weihua Chen
Software Mentions: 1
Published: over 5 years ago

10.3389/fpubh.2021.649930

Plandemic Revisited: A Product of Planned Disinformation Amplifying the COVID-19 “infodemic”
Cited by: 23
Author(s): Shahin Nazar, Toine Pieters
Software Mentions: 1
Published: over 3 years ago

10.1186/s13059-019-1663-x

PAGA: graph abstraction reconciles clustering with trajectory inference through a topology preserving map of single cells
Cited by: 805
Author(s): F. Alexander Wolf, Fiona Hamey, Mireya Plass, Jordi Solana, Joakim S. Dahlin, Berthold Göttgens, Nikolaus Rajewsky, Lukas M. Simon, Fabian J. Theis
Software Mentions: 1
Published: over 5 years ago

10.1093/gbe/evu168

Extensive Gene Remodeling in the Viral World: New Evidence for Nongradual Evolution in the Mobilome Network
Cited by: 25
Author(s): Pierre-Alain Jachiet, Philippe Colson, Philippe Lopez, Éric Bapteste
Software Mentions: 1
Published: over 10 years ago

10.3390/jcm9124025

Gender Phenotyping of Patients with Obstructive Sleep Apnea Syndrome Using a Network Science Approach
Cited by: 9
Author(s): Alexandru Topîrceanu, Lucreţia Udrescu, Mihai Udrescu, Ştefan Mihăicuţă
Software Mentions: 1
Published: almost 4 years ago

10.1126/sciadv.abd3139

The stem/progenitor landscape is reshaped in a mouse model of essential thrombocythemia and causes excess megakaryocyte production
Cited by: 13
Author(s): Daniel Prins, Hyun Jung Park, Sam Watcham, Juan Li, Michèle Vacca, Hugo Bastos, Alexander Gerbaulet, Antonio Vidal‐Puig, Berthold Göttgens, Anthony Green
Software Mentions: 1
Published: about 4 years ago

10.1038/srep14830

Spillover and pandemic properties of zoonotic viruses with high host plasticity
Cited by: 236
Author(s): Christine K. Johnson, Peta L. Hitchens, Tierra Smiley Evans, Tracey Goldstein, Keith Thomas, Andrew Clements, Damien O. Joly, Nathan Wolfe, Peter Daszak, William B. Karesh, Jonna K. Mazet
Software Mentions: 1
Published: about 9 years ago

10.1038/s41598-018-22027-z

Multiscale dynamical network mechanisms underlying aging of an online organism from birth to death
Cited by: 4
Author(s): Zheng Min, Zhibo Cao, Yulia Vorobyeva, Pedro D. Manrique, Song Ci, Neil F. Johnson
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-019-46380-9

Community Detection on Networks with Ricci Flow
Cited by: 46
Author(s): Chien-Chun Ni, Yu-Chih Lin, Feng Luo, Jie Gao
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-020-80154-y

Single cell RNA sequencing uncovers cellular developmental sequences and novel potential intercellular communications in embryonic kidney
Cited by: 6
Author(s): Isao Matsui, Ayumi Matsumoto, Kazunori Inoue, Yusuke Katsuma, Seiichi Yasuda, Kazuaki Shimada, Yusuke Sakaguchi, Masayuki Mizui, Jun-Ya Kaimori, Yoshitsugu Takabatake, Yoshitaka Isaka
Software Mentions: 1
Published: almost 4 years ago

10.1038/s41598-021-81293-6

Radiolysis generates a complex organosynthetic chemical network
Cited by: 12
Author(s): Zachary R. Adam, Albert C. Fahrenbach, Sofia Marie Jacobson, Betül Kaçar, Dmitry Yu. Zubarev
Software Mentions: 1
Published: almost 4 years ago

10.1038/s41598-021-81704-8

The role of gene to gene interaction in the breast’s genomic signature of pregnancy
Cited by: 3
Author(s): Pedro José Gutiérrez-Diez, Javier Gómez‐Pilar, Roberto Hornero, Julia Martínez‐Rodríguez, M. A. López-Marcos, José Russo
Software Mentions: 1
Published: almost 4 years ago

10.1038/s41598-021-90984-z

Evolution of social relationships between first-year students at middle school: from cliques to circles
Cited by: 6
Author(s): Diego Escribano, Victoria Doldán-Martelli, Francisco J. Lapuente, José A. Cuesta, Ángel Sánchez
Software Mentions: 1
Published: over 3 years ago

10.1007/s13278-021-00779-3

Echo chamber detection and analysis
Cited by: 10
Author(s): G. Villa, Gabriella Pasi, Marco Viviani
Software Mentions: 1
Published: over 3 years ago

10.1177/0894439319858679

Community Analysis of a Crisis Response Network
Cited by: 6
Author(s): Yushim Kim, Jihong Kim, Seong Soo Oh, Sang Wook Kim, Minyoung Ku, Jaehyuk Cha
Software Mentions: 1
Published: over 5 years ago

10.3390/ijerph18073815

Healthy Food on the Twitter Social Network: Vegan, Homemade, and Organic Food
Cited by: 23
Author(s): Ladislav Pilař, Lucie Kvasničková Stanislavská, Roman Kvasnička
Software Mentions: 1
Published: over 3 years ago

10.5195/jmla.2020.775

Building visualization skills through investigating the Journal of the Medical Library Association coauthorship network from 2006–2017
Cited by: 4
Author(s): Rebecca Reznik-Zellen, Alexander J. Carroll, Eileen Harrington, Douglas Joubert, Tyler Nix, Kristine M. Alpi
Software Mentions: 1
Published: over 4 years ago

10.7554/eLife.44431

scRNA-Seq reveals distinct stem cell populations that drive hair cell regeneration after loss of Fgf and Notch signaling
Cited by: 98
Author(s): Mark E. Lush, Daniel C. Diaz, Nina Koenecke, Sungmin Baek, Helena Boldt, Madeleine St. Peter, Tatiana Gaitan-Escudero, Andrés Romero‐Carvajal, Elisabeth M Busch-Nentwich, Anoja Perera, Kathryn Hall, Allison Peak, Jeffrey S. Haug, Tatjana Piotrowski
Software Mentions: 1
Published: almost 6 years ago

10.7554/eLife.66405

Highly contiguous assemblies of 101 drosophilid genomes
Cited by: 91
Author(s): Bernard Kim, Jeremy Wang, Danny E. Miller, Olga Barmina, Emily Delaney, Ammon Thompson, Aaron A. Comeault, David Peede, Emmanuel R. R. D’Agostino, Julianne Peláez, Jessica M Aguilar, Diler Haji, Teruyuki Matsunaga, Ellie E. Armstrong, Molly Zych, Yoshitaka Ogawa, Marina Stamenković‐Radak, Mihailo Jelić, Marija Savić Veselinović, Marija Tanasković, Pavle Erić, Jian‐Jun Gao, Takehiro K. Katoh, Masanori J. Toda, Hideaki Watabe, Masayoshi Watada, Jeremy S Davis, Leonie C. Moyle, Giulia Manoli, Enrico Bertolini, Vladimı́r Košťál, R. Scott Hawley, Aya Takahashi, Corbin D. Jones, Daniel O. Price, Noah K. Whiteman, Artyom Kopp, Daniel R. Matute, Dmitri A. Petrov
Software Mentions: 1
Published: over 3 years ago

Projects: pypi: ForceAtlas2

Papers Mentioning ForceAtlas2 92