Scientific Papers with Software Mentions

10.3390/plants10081594

RNAi Suppression of LEAFY Gives Stable Floral Sterility, and Reduced Growth Rate and Leaf Size, in Field-Grown Poplars
Cited by: 5
Author(s): Amy L. Klocko, Amanda Goddard, Jeremy R. Jacobson, Anna Magnuson, S. H. Strauss
Software Mentions: 8
Published: almost 5 years ago

10.1371/journal.ppat.1009933

Trypanosoma brucei triggers a broad immune response in the adipose tissue
Cited by: 11
Author(s): Henrique Machado, Tiago Bizarra-Rebelo, Mariana Sequeira, Sandra Trindade, Tãnia Carvalho, Filipa Rijo‐Ferreira, Barbara Rentroia‐Pacheco, Karine Serre, Luísa M. Figueiredo
Software Mentions: 8
Published: almost 5 years ago

10.1038/s41598-020-57612-8

Long-term Proton Pump Inhibitor Administration Caused Physiological and Microbiota Changes in Rats
Cited by: 26
Author(s): Yuxing Yang, Hsuen-Wen Chang, I-Hsuan Lin, Li‐Nien Chien, Min-Ju Wu, Yun‐Ru Liu, Peiguo Chu, Guoxiang Xie, Fangcong Dong, Jia Wang, Vincent H.S. Chang, Yun Yen
Software Mentions: 8
Published: over 6 years ago

10.1186/s12967-021-02981-5

N6-Methyladenosine RNA modification in cerebrospinal fluid as a novel potential diagnostic biomarker for progressive multiple sclerosis
Cited by: 14
Author(s): Fei Ye, Tianzhu Wang, Xiaoxin Wu, Jie Liang, Jiaoxing Li, Wenli Sheng
Software Mentions: 8
Published: almost 5 years ago

10.3389/fnins.2021.689188

Identification of the Potential Gene Regulatory Networks and Therapeutics in Aged Mice With Postoperative Neurocognitive Disorder
Cited by: 9
Author(s): Wensi Wu, Yongbo Peng, Jiaxin Zhou, Xiaojun Zhang, Lin Cao, Wei-Jye Lin, Yanan Lu, Jing Wen, Zhi Wang
Software Mentions: 8
Published: about 5 years ago

10.1186/s12859-019-3105-x

MIENTURNET: an interactive web tool for microRNA-target enrichment and network-based analysis
Cited by: 190
Author(s): Valerio Licursi, Federica Conte, Giulia Fiscon, Paola Paci
Software Mentions: 8
Published: over 6 years ago

10.7717/peerj.11233

Identification of a ferroptosis-related gene signature (FRGS) for predicting clinical outcome in lung adenocarcinoma
Cited by: 11
Author(s): Sheng Wang, Chunlei Wu, Dehua Mao, Quanteng Hu
Software Mentions: 8
Published: about 5 years ago

10.3389/fcell.2021.677697

Single-Cell RNA-Sequencing Portraying Functional Diversity and Clinical Implications of IFI6 in Ovarian Cancer
Cited by: 7
Author(s): Hongyu Zhao, Zhefeng Li, Yan Gao, Jie Li, Xiaoting Zhao, Wentao Yue
Software Mentions: 8
Published: almost 5 years ago

10.1093/jxb/eraa465

Targeted expression of the arsenate reductase HAC1 identifies cell type specificity of arsenic metabolism and transport in plant roots
Cited by: 9
Author(s): Sina Fischer, Eduardo Sánchez-Bermejo, Xuejie Xu, Paulina Flis, Priya Ramakrishna, Mary Lou Guerinot, Fang‐Jie Zhao, David E. Salt
Software Mentions: 8
Published: over 5 years ago

10.1371/journal.pone.0251032

Unsupervised tensor decomposition-based method to extract candidate transcription factors as histone modification bookmarks in post-mitotic transcriptional reactivation
Cited by: 2
Author(s): Y-h. Taguchi, Turki Turki
Software Mentions: 8
Published: about 5 years ago

10.3389/fpls.2020.00706

Climate Change Synchronizes Growth and iWUE Across Species in a Temperate-Submediterranean Mixed Oak Forest
Cited by: 6
Author(s): Isabel Dorado‐Liñán, María Valbuena‐Carabaña, Isabel Cañellas, Luís Gil, Guillermo Gea‐Izquierdo
Software Mentions: 8
Published: about 6 years ago

10.3389/fgene.2019.00182

Detection of Differentially Expressed Cleavage Site Intervals Within 3′ Untranslated Regions Using CSI-UTR Reveals Regulated Interaction Motifs
Cited by: 9
Author(s): Benjamin J. Harrison, Juw Won Park, Cynthia Gomes, Jeffrey C. Petruska, Matthew R. Sapio, Michael J. Iadarola, Julia H. Chariker, Eric C. Rouchka
Software Mentions: 8
Published: over 7 years ago

10.7554/eLife.56980

m6A RNA methylation impacts fate choices during skin morphogenesis
Cited by: 18
Author(s): Linghe Xi, Thomas Carroll, Irina Matos, Ji‐Dung Luo, Lisa Polak, H. Amalia Pasolli, Samie R. Jaffrey, Elaine Fuchs
Software Mentions: 8
Published: almost 6 years ago

10.1002/1878-0261.12139

Transcription instability in high-risk neuroblastoma is associated with a global perturbation of chromatin domains
Cited by: 4
Author(s): Carlo Zanon, Gian Paolo Tonini
Software Mentions: 8
Published: over 8 years ago

10.1186/s12859-016-1235-y

BTR: training asynchronous Boolean models using single-cell expression data
Cited by: 62
Author(s): Chee Lim, Huange Wang, Steven Woodhouse, Nir Piterman, Lorenz Wernisch, Jasmin Fisher, Berthold Göttgens
Software Mentions: 8
Published: almost 10 years ago

10.3389/fonc.2020.01254

Unraveling the Complexity of the Cancer Microenvironment With Multidimensional Genomic and Cytometric Technologies
Cited by: 39
Author(s): Natasja L. de Vries, Ahmed Mahfouz, Frits Koning, Noel F.C.C. de Miranda
Software Mentions: 8
Published: almost 6 years ago

10.7554/eLife.69065

Cross-species analysis defines the conservation of anatomically segregated VMH neuron populations
Cited by: 16
Author(s): Alison H. Affinati, Paul V. Sabatini, Cadence True, Abigail J. Tomlinson, Melissa A. Kirigiti, Sarah R. Lindsley, Chien Li, David P. Olson, Paul Kievit, Martin G. Myers, Alan C. Rupp
Software Mentions: 8
Published: about 5 years ago

10.1371/journal.pone.0051609

Comparative Transcriptome Profiling of the Early Response to Magnaporthe oryzae in Durable Resistant vs Susceptible Rice (Oryza sativa L.) Genotypes
Cited by: 129
Author(s): Paolo Bagnaresi, Chiara Biselli, Luigi Orrù, Simona Urso, Laura Crispino, Pamela Abbruscato, Pietro Piffanelli, Elisabetta Lupotto, Luigi Cattivelli, Giampiero Valè
Software Mentions: 8
Published: over 13 years ago

10.1371/journal.pone.0242730

A comparison of penalised regression methods for informing the selection of predictive markers
Cited by: 14
Author(s): Christopher J Greenwood, George J. Youssef, Primrose Letcher, Jacqui A. Macdonald, Lauryn Hagg, Ann Sanson, Jennifer McIntosh, Delyse Hutchinson, John W. Toumbourou, Matthew Fuller‐Tyszkiewicz, Craig A. Olsson
Software Mentions: 8
Published: over 5 years ago

10.1128/mBio.01018-16

Looking for a Signal in the Noise: Revisiting Obesity and the Microbiome
Cited by: 396
Author(s): Marc A. Sze, Patrick D. Schloss
Software Mentions: 8
Published: almost 10 years ago

10.1098/rstb.2018.0335

Mosquito and primate ecology predict human risk of yellow fever virus spillover in Brazil
Cited by: 41
Author(s): Marissa L. Childs, Nicole Nova, Justine Colvin, Erin A. Mordecai
Software Mentions: 8
Published: almost 7 years ago

10.3390/cells9030786

Systematic Identification of Housekeeping Genes Possibly Used as References in Caenorhabditis elegans by Large-Scale Data Integration
Cited by: 13
Author(s): Jingxin Tao, Youjin Hao, Xudong Li, Huachun Yin, Xiner Nie, Jie Zhang, Bo-Ying Xu, Chen Qiao, Bo Li
Software Mentions: 8
Published: over 6 years ago

10.1186/s40168-019-0630-9

Environmental filtering drives distinct continental atlases of soil archaea between dryland and wetland agricultural ecosystems
Cited by: 103
Author(s): Shuo Jiao, Ye Xu, Jie Zhang, Yahai Lu
Software Mentions: 8
Published: over 7 years ago

10.3390/cancers11101606

A Toolbox for Functional Analysis and the Systematic Identification of Diagnostic and Prognostic Gene Expression Signatures Combining Meta-Analysis and Machine Learning
Cited by: 12
Author(s): Johannes A Vey, Lorenz A. Kapsner, Maximilian Fuchs, Philipp Unberath, Giulia Veronesi, Meik Kunz
Software Mentions: 8
Published: over 6 years ago

10.1371/journal.pone.0203346

Feasibility of developing reliable gene expression modules from FFPE derived RNA profiled on Affymetrix arrays
Cited by: 3
Author(s): Vinu José, Debora Fumagalli, Françoise Rothé, Samira Majjaj, Sherene Loi, Stefan Michiels, Christos Sotiriou
Software Mentions: 8
Published: almost 8 years ago

10.1371/journal.pone.0153782

Using Synthetic Mouse Spike-In Transcripts to Evaluate RNA-Seq Analysis Tools
Cited by: 11
Author(s): Dena Leshkowitz, Ester Feldmesser, Gilgi Friedlander, Ghil Jona, Elena Ainbinder, Yisrael Parmet, Shirley Horn‐Saban
Software Mentions: 8
Published: about 10 years ago

10.1128/mSystems.01153-20

Bacterial Communities in Concrete Reflect Its Composite Nature and Change with Weathering
Cited by: 8
Author(s): E. Anders Kiledal, Jessica L. Keffer, Julia A. Maresca
Software Mentions: 8
Published: almost 5 years ago

10.1186/1471-2164-14-S5-S9

Detection and classification of peaks in 5' cap RNA sequencing data
Cited by: 4
Author(s): Dario Strbenac, Nicola J. Armstrong, Jean Yee Hwa Yang
Software Mentions: 8
Published: over 12 years ago

10.1186/s12884-018-1971-2

Comparison of logistic regression with machine learning methods for the prediction of fetal growth abnormalities: a retrospective cohort study
Cited by: 70
Author(s): Stefan Kuhle, Bryan Maguire, Hongqun Zhang, David C. Hamilton, Alexander C. Allen, K.S. Joseph, Victoria M. Allen
Software Mentions: 8
Published: almost 8 years ago

10.3389/fpls.2019.00382

The Potential of Liming to Improve Drought Tolerance of Norway Spruce [Picea abies (L.) Karst.]
Cited by: 6
Author(s): M. Köhler, Jörg Kunz, Johannes Herrmann, Peter Hartmann, Lelde Jansone, Heike Puhlmann, Klaus von Wilpert, Jürgen Bauhus
Software Mentions: 8
Published: about 7 years ago

10.7554/eLife.59442

Collagen-rich omentum is a premetastatic niche for integrin α2-mediated peritoneal metastasis
Cited by: 33
Author(s): Yen‐Lin Huang, Ching-Yeu Liang, Danilo Ritz, Ruimário Inácio Coelho, Dedy Septiadi, Manuela Estermann, Cécile Cumin, Natalie Rimmer, Andreas Schötzau, Mónica Núñez López, André Fedier, Martina Konantz, Tatjana Vlajnic, Diego Calabrese, Claudia Lengerke, Leonor David, Barbara Rothen‐Rutishauser, Francis Jacob, Viola Heinzelmann‐Schwarz
Software Mentions: 8
Published: over 5 years ago

10.7554/eLife.64000

TRex, a fast multi-animal tracking system with markerless identification, and 2D estimation of posture and visual fields
Cited by: 108
Author(s): Tristan Walter, Iain D. Couzin
Software Mentions: 8
Published: over 5 years ago

10.1186/s12864-018-4772-0

Slingshot: cell lineage and pseudotime inference for single-cell transcriptomics
Cited by: 1,344
Author(s): Kelly Street, Davide Risso, Russell B. Fletcher, Diya Das, John Ngai, Nir Yosef, Elizabeth Purdom, Sandrine Dudoit
Software Mentions: 8
Published: about 8 years ago

10.7554/eLife.38519

Insulin mutations impair beta-cell development in a patient-derived iPSC model of neonatal diabetes
Cited by: 106
Author(s): Diego Balboa, Jonna Saarimäki-Vire, Daniel Borshagovski, Mantas Survila, Päivi Lindholm, Emilia Galli, Solja Eurola, Jarkko Ustinov, Heli Grym, Hanna Huopio, Juha Partanen, Kirmo Wartiovaara, Timo Otonkoski
Software Mentions: 8
Published: over 7 years ago

10.1099/mgen.0.000174

The complete replicons of 16 Ensifer meliloti strains offer insights into intra- and inter-replicon gene transfer, transposon-associated loci, and repeat elements
Cited by: 19
Author(s): Matthew S. Nelson, Joseph Guhlin, Brendan Epstein, Peter Tiffin, Michael J. Sadowsky
Software Mentions: 8
Published: about 8 years ago

10.1186/s12864-020-06977-1

Integrating binding and expression data to predict transcription factors combined function
Cited by: 9
Author(s): Mahmoud Ahmed, Do Sik Min, Deok Ryong Kim
Software Mentions: 8
Published: almost 6 years ago

10.1099/mgen.0.000627

Current population structure and pathogenicity patterns of Ascochyta rabiei in Australia
Cited by: 8
Author(s): Ido Bar, Prabhakaran Thanjavur Sambasivam, Jenny Davidson, Lina M Farfan-Caceres, Robert C. Lee, Kristy Hobson, Kevin Moore, R Ford
Software Mentions: 8
Published: almost 5 years ago

10.3389/fvets.2020.00523

Mind the Queue: A Case Study in Visualizing Heterogeneous Behavioral Patterns in Livestock Sensor Data Using Unsupervised Machine Learning Techniques
Cited by: 11
Author(s): Catherine McVey, Fushing Hsieh, Diego Manríquez, Pablo Pinedo, Kristina Horback
Software Mentions: 8
Published: almost 6 years ago

10.1371/journal.pone.0257471

Deciphering the low abundance microbiota of presumed aseptic hip and knee implants
Cited by: 2
Author(s): Charles Carr, Hannah Wilcox, Jeremy P. Burton, Sharanya Menon, Kait F. Al, David B. O’Gorman, Brent A. Lanting, Edward M. Vasarhelyi, Michael E. Neufeld, Matthew G. Teeter
Software Mentions: 8
Published: almost 5 years ago

10.7554/eLife.52690

Sphingosine 1-phosphate-regulated transcriptomes in heterogenous arterial and lymphatic endothelium of the aorta
Cited by: 28
Author(s): Eric Engelbrecht, Michel V. Levesque, Liqun He, Michael Vanlandewijck, Anja Nitzsche, Hira Niazi, Andrew Kuo, Sasha A Singh, Masamichi Aikawa, Kristina M. Holton, Richard L. Proia, Mari Kono, William T. Pu, Eric Camerer, Christer Betsholtz, Timothy Hla
Software Mentions: 8
Published: over 6 years ago

10.3390/microorganisms7120662

Grapevine Phyllosphere Community Analysis in Response to Elicitor Application against Powdery Mildew
Cited by: 17
Author(s): Luca Nerva, Chiara Pagliarani, Massimo Pugliese, M. Monchiero, Solène Gonthier, M. L. Gullino, Giorgio Gambino, Walter Chitarra
Software Mentions: 8
Published: over 6 years ago

10.1016/j.compbiomed.2021.104556

NFnetFu: A novel workflow for microbiome data fusion
Cited by: 3
Author(s): Vartika Bisht, Animesh Acharjee, Georgios V. Gkoutos
Software Mentions: 8
Published: almost 5 years ago

10.1186/s12967-021-03065-0

Comprehensive analysis of EMT-related genes and lncRNAs in the prognosis, immunity, and drug treatment of colorectal cancer
Cited by: 28
Author(s): Yang Yang, Mingyang Feng, Liangliang Bai, Wei‐Ting Liao, Kaiyu Zhou, Mengxi Zhang, Qiuji Wu, Feng Wen, Wenhua Lei, Pengfei Zhang, Nan Zhang, Jiaxing Huang, Li Qiu
Software Mentions: 8
Published: almost 5 years ago

10.3389/fgene.2020.00041

Normalization Methods on Single-Cell RNA-seq Data: An Empirical Survey
Cited by: 46
Author(s): Nicholas Lytal, Ran Di, Lingling An
Software Mentions: 8
Published: over 6 years ago

10.1038/s41598-020-57622-6

Mainland and island populations of Mussaenda kwangtungensis differ in their phyllosphere fungal community composition and network structure
Cited by: 16
Author(s): Xin Qian, Shengchun Li, Bian Wu, Yong-Long Wang, Niu‐Niu Ji, Hui Yao, Hongyue Cai, Miaomiao Shi, Dianxiang Zhang
Software Mentions: 8
Published: over 6 years ago

10.1155/2015/789516

Differential Expression Analysis in RNA-Seq by a Naive Bayes Classifier with Local Normalization
Cited by: 6
Author(s): Yongchao Dou, Xiaoli Guo, Lingling Yuan, David R. Holding, Chi Zhang
Software Mentions: 8
Published: over 11 years ago

10.1186/s12859-021-04166-9

PTMViz: a tool for analyzing and visualizing histone post translational modification data
Cited by: 4
Author(s): Kevin Chappell, Stefan Graw, Charity L. Washam, Aaron J. Storey, Chris Bolden, Eric C. Peterson, Stephanie D. Byrum
Software Mentions: 8
Published: about 5 years ago

10.1371/journal.pone.0251360

Phenological responses to climate change based on a hundred years of herbarium collections of tropical Melastomataceae
Cited by: 15
Author(s): Duane F. Lima, José Henrique Fortes Mello, Isadora T. Lopes, Rafaela Campostrini Forzza, Renato Goldenberg, Leandro Freitas
Software Mentions: 8
Published: about 5 years ago

10.1371/journal.pone.0076507

North Atlantic Blue and Fin Whales Suspend Their Spring Migration to Forage in Middle Latitudes: Building up Energy Reserves for the Journey?
Cited by: 120
Author(s): Mónica Silva, Rui Prieto, Ian D. Jonsen, Mark F. Baumgartner, Ricardo S. Santos
Software Mentions: 8
Published: over 12 years ago

10.3758/s13428-019-01236-y

formr: A study framework allowing for automated feedback generation and complex longitudinal experience-sampling studies using R
Cited by: 120
Author(s): Rana Arslan, Matthias P. Walther, Cyril Tata
Software Mentions: 8
Published: about 7 years ago

10.3389/fimmu.2017.00690

Changes in Host Immune–Endocrine Relationships during Tuberculosis Treatment in Patients with Cured and Failed Treatment Outcomes
Cited by: 7
Author(s): Léanie Kleynhans, Sheena Ruzive, Lizaan Ehlers, Lani Thiart, Novel N. Chegou, Magda Conradie, Magdalena Kriel, Kim Stanley, Gian D. van der Spuy, Martin Kidd, Paul D. van Helden, Gerhard Walzl, Katharina Ronacher
Software Mentions: 8
Published: about 9 years ago

10.1038/s41598-019-50642-x

Transcriptome Sequencing of Peripheral Blood Mononuclear Cells from Elite Controller-Long Term Non Progressors
Cited by: 11
Author(s): Francisco Díez-Fuertes, Humberto Erick De La Torre Tarazona, Esther Calonge, María Pernas, María del Mar Alonso-Socas, Laura Capa, Javier García-Pérez, Anavaj Sakuntabhai, José Alcamı́
Software Mentions: 8
Published: over 6 years ago

10.3389/fneur.2021.615790

Retinal Thickness Analysis in Progressive Multiple Sclerosis Patients Treated With Epigallocatechin Gallate: Optical Coherence Tomography Results From the SUPREMES Study
Cited by: 7
Author(s): Katharina Klumbies, Rebekka Rust, Jan Dörr, Frank Konietschke, Friedemann Paul, Judith Bellmann‐Strobl, Alexander U. Brandt, Hanna Zimmermann
Software Mentions: 8
Published: about 5 years ago

10.1038/srep46658

Metabolism dysregulation induces a specific lipid signature of nonalcoholic steatohepatitis in patients
Cited by: 148
Author(s): Franck Chiappini, Audrey Coilly, Hanane Kadar, Philippe Gual, Albert Tran, Christophe Desterke, Didier Samuel, Jean‐Charles Duclos‐Vallée, David Touboul, Justine Bertrand‐Michel, Alain Brunelle, Catherine Guettier, François Le Naour
Software Mentions: 8
Published: about 9 years ago

10.18632/aging.202157

Development and validation of prognostic nomograms for early-onset locally advanced colon cancer
Cited by: 21
Author(s): Yuqiang Li, Wenxue Liu, Zhongyi Zhou, Heming Ge, Lilan Zhao, Heli Liu, Xiangping Song, Dan Wang, Qian Pei, Fengbo Tan
Software Mentions: 8
Published: over 5 years ago

10.1038/s41418-021-00817-9

Prolonged SARS-CoV-2 RNA virus shedding and lymphopenia are hallmarks of COVID-19 in cancer patients with poor prognosis
Cited by: 27
Author(s): Anne-Gaëlle Goubet, Agathe Dubuisson, Arthur Géraud, F-X. Danlos, Safae Terrisse, Carolina Alves Costa Silva, Damien Drubay, Lea Touri, Marion Picard, Marine Mazzenga, Aymeric Silvin, Garett Dunsmore, Yacine Haddad, Eugénie Pizzato, Pierre Ly, Caroline Flament, Cléa Melenotte, Éric Solary, Michaëla Fontenay, Gabriel Garcia, Corinne Balleyguier, Nathalie Lassau, Markus Maeurer, Claudia Grajeda‐Iglesias, Nitharsshini Nirmalathasan, Fanny Aprahamian, Sylvère Durand, Oliver Kepp, Gladys Ferrere, Cassandra Thelemaque, Imran Lahmar, Jean Eudes Fahrner, Lydia Meziani, Abdelhakim Ahmed–Belkacem, Nadia Saïdani, Bernard La Scola, Didier Raoult, Stéphanie Gentile, Sébastien Cortaredona, Giuseppe Ippolito, Benjamin Lelouvier, Alain Roulet, Fabrice André, Fabrice Barlési, Jean Charles Soria, Caroline Pradon, Emmanuelle Gallois, Fanny Pommeret, Emeline Colomba, Florent Ginhoux, Suzanne Kazandjian, Arielle Elkrief, Bertrand Routy, Makoto Miyara, Guy Gorochov, Éric Deutsch, Laurence Albigès, Annabelle Stoclin, Bertrand Gachot, Anne Florin, Mansouria Merad, Florian Scotté, Souad Assaad, Guido Kroemer, Jean Yves Blay, Aurélien Marabelle, Frank Griscelli, Laurence Zitvogel, Lisa Derosa
Software Mentions: 8
Published: almost 5 years ago

10.12688/f1000research.2-192.v2

Cyrface: An interface from Cytoscape to R that provides a user interface to R packages
Cited by: 3
Author(s): Emanuel Gonçalvès, Franz Mirlach, Julio Sáez-Rodríguez
Software Mentions: 8
Published: almost 12 years ago

10.1155/2021/9920234

Bioinformatic Analysis Reveals Central Role for Tumor-Infiltrating Immune Cells in Uveal Melanoma Progression
Cited by: 6
Author(s): Mieszko Lachota, Anton Lennikov, Karl‐Johan Malmberg, Radosław Zagożdżon
Software Mentions: 8
Published: about 5 years ago

10.1186/s12859-018-2069-6

A gene profiling deconvolution approach to estimating immune cell composition from complex tissues
Cited by: 12
Author(s): Shu Hwa Chen, Wen Yu Kuo, Sheng Su, Wei Chun Chung, Jen Ming Ho, Henry Horng Shing Lu, Chung Yen Lin
Software Mentions: 8
Published: about 8 years ago

10.26508/lsa.202101113

Statistical guidelines for quality control of next-generation sequencing techniques
Cited by: 1
Author(s): Maximilian Sprang, Matteo Krüger, Miguel A. Andrade‐Navarro, Jean-Fred Fontaine
Software Mentions: 8
Published: almost 5 years ago

10.3390/microorganisms9061153

Variation in Human Milk Composition Is Related to Differences in Milk and Infant Fecal Microbial Communities
Cited by: 30
Author(s): Ryan M. Pace, Janet E. Williams, Bianca Robertson, Kimberly A. Lackey, Courtney L. Meehan, William J. Price, James A. Foster, Daniel Sellen, Elizabeth Kamau-Mbuthia, Egidioh W. Kamundia, Samwel Mbugua, Sophie E. Moore, Andrew M. Prentice, Debela G. Kita, Linda J. Kvist, Gloria E. Otoo, Lorena Ruíz, Juan M. Rodríguez, Rossina G. Pareja, Mark A. McGuire, Lars Bode, Michelle K. McGuire
Software Mentions: 8
Published: about 5 years ago

10.3389/fmicb.2021.728479

Cross-Sectional Study on the Gut Microbiome of Parkinson’s Disease Patients in Central China
Cited by: 11
Author(s): Liangwei Mao, Yu Zhang, Jing Tian, Ming Sang, Guimin Zhang, Yiming Zhou, Puqing Wang
Software Mentions: 8
Published: over 4 years ago

10.1097/MD.0000000000025542

Establishment of a clinical diagnostic model for gouty arthritis based on the serum biochemical profile
Cited by: 0
Author(s): Shang Lyu, Ruowen Ding, Shilin Yang, Wanyuan Chen, Yi Rao, Hui Ouyang, Peng Liu, Yulin Feng
Software Mentions: 8
Published: about 5 years ago

10.1002/cam4.4156

Comprehensive analysis of a new prognosis signature based on histone deacetylases in clear cell renal cell carcinoma
Cited by: 6
Author(s): Fajuan Cheng, Bin Zheng, Jianwei Wang, Guiting Zhao, Zhongshun Yao, Zhihong Niu
Software Mentions: 8
Published: almost 5 years ago

10.1042/BSR20204456

A new m6A methylation-related gene signature for prognostic value in patient with urothelial carcinoma of the bladder
Cited by: 9
Author(s): Bin Zheng, Jianwei Wang, Guiting Zhao, Xiaoxu Chen, Zhongshun Yao, Wei He, Wei He
Software Mentions: 8
Published: about 5 years ago

10.3389/fpls.2017.00930

The Influence of Land Use Intensity on the Plant-Associated Microbiome of Dactylis glomerata L.
Cited by: 44
Author(s): Jennifer Estendorfer, Barbara Stempfhuber, Paula Haury, Gisle Vestergaard, Matthias C. Rillig, Jasmin Joshi, Peter Schröder, Michael Schloter
Software Mentions: 8
Published: about 9 years ago

10.1038/s41598-021-98889-7

Productive visualization of high-throughput sequencing data using the SeqCode open portable platform
Cited by: 7
Author(s): Enrique Blanco, Mar González-Ramírez, Luciano Di Croce
Software Mentions: 8
Published: over 4 years ago

10.3390/microorganisms9020378

Differences in the Concentration of the Fecal Neurotransmitters GABA and Glutamate Are Associated with Microbial Composition among Healthy Human Subjects
Cited by: 18
Author(s): Hend Altaib, Kohei Nakamura, Mayuko Abe, Yassien Badr, Emiko Yanase, Izumi Nomura, Tomohiko Suzuki
Software Mentions: 8
Published: over 5 years ago

10.1038/s41598-018-29378-7

Epigenetic and transcriptional dysregulation of VWA2 associated with a MYC-driven oncogenic program in colorectal cancer
Cited by: 7
Author(s): Beatríz González, Ferran Fece de la Cruz, Johanna Samuelsson, Andreu Alibés, Sergio Alonso
Software Mentions: 8
Published: almost 8 years ago

10.3389/fneur.2019.01060

Notification Strategy and Predictors of Outcome in Stroke Ineligible for Reperfusion Therapies
Cited by: 2
Author(s): Ágnes Mirolovics, Magdolna Bokor, Balázs Dobi, Judit Zsuga, Dániel Bereczki
Software Mentions: 8
Published: over 6 years ago

10.3389/fonc.2020.01411

Comparison of Stage 4 and Stage 4s Neuroblastoma Identifies Autophagy-Related Gene and LncRNA Signatures Associated With Prognosis
Cited by: 12
Author(s): Xinyao Meng, Honglin Li, Erhu Fang, Jiexiong Feng, Xiaoli Zhao
Software Mentions: 8
Published: almost 6 years ago

10.1186/s13059-020-02155-4

Estimating the quality of eukaryotic genomes recovered from metagenomic analysis with EukCC
Cited by: 51
Author(s): Paul Saary, Alex L. Mitchell, Alex Bateman
Software Mentions: 8
Published: almost 6 years ago

10.1186/s13059-020-01998-1

Wheat chromatin architecture is organized in genome territories and transcription factories
Cited by: 89
Author(s): Lorenzo Concia, Alaguraj Veluchamy, Juan S. Ramirez-Prado, Azahara Martin-Ramirez, Ying Huang, Magali Perez, Séverine Domenichini, Natalia Y. Rodriguez Granados, Soon-Kap Kim, Thomas Blein, Susan Duncan, Clement Pichot, Deborah Manza‐Mianza, Caroline Juéry, Etienne Paux, Graham Moore, Heribert Hirt, Catherine Bergounioux, Martín Crespi, Magdy M. Mahfouz, Abdelhafid Bendahmane, Chang Liu, Anthony Hall, Cécile Raynaud, David Latrasse, Moussa Benhamed
Software Mentions: 8
Published: about 6 years ago

10.1093/gigascience/giz004

The unique composition of Indian gut microbiome, gene catalogue, and associated fecal metabolome deciphered using multi-omics approaches
Cited by: 103
Author(s): Darshan B. Dhakan, Abhijit Maji, Ashok Sharma, Rituja Saxena, Joby Pulikkan, Tony Grace, Andrés Gómez, Joy Scaria, Katherine R. Amato, Vineet K. Sharma
Software Mentions: 8
Published: over 7 years ago

10.1007/s15010-021-01599-5

COVID-19 symptoms at hospital admission vary with age and sex: results from the ISARIC prospective multinational observational study
Cited by: 56
Author(s): Sheryl Ann Abdukahil, Ryuzo Abe, Laurent Abel, Lara Absil, Andrew Acker, Shingo Adachi, Elisabeth Hannah Adam, Diana Adrião, Kate Ainscough, Ali Ait Hssain, Younes Ait Tamlihat, Takako Akimoto, Tala Al-dabbous, Abdulrahman Al‐Fares, Eman Al Qasim, Razi Alalqam, Beatrice Alex, Kévin Alexandre, Huda Alfoudri, Kazali Enagnon Alidjnou, Jeffrey Aliudin, Clotilde Allavena, Nathalie Allou, João Melo Alves, Rita Vieira Alves, Maria João Amaral, Heidi S. M. Ammerlaan, Phoebe Ampaw, Roberto Andini, Claire Andréjak, Andrea Angheben, François Angoulvant, Séverine Ansart, Massimo Antonelli, Carlos Brito, Yaseen M. Arabi, Irene Aragão, Antonio Arcadipane, Lukas Arenz, Jean‐Benoît Arlet, Christel Arnold-Day, Lovkesh Arora, Élise Artaud-Macari, Ángel Asensio, Jean Baptiste Assié, Anika Atique, Johann Auchabie, Hugues Aumaître, Laurène Azemar, Cécile Azoulay, Benjamin Bach, Delphine Bachelet, J Kenneth Baillie, Erica Bak, Agamemnon Bakakos, Firouzé Bani‐Sadr, Renata Barbalho, William Barclay, Michaela Barnikel, Audrey Barrelet, Cleide Barrigoto, Romain Basmaci, Diego Rincón, Alexandra Bedossa, Sylvie Behilill, Aleksandr Beljantsev, David Bellemare, Anna Beltrame, Marine Beluze, Nicolas Benech, Dehbia Benkerrou, Suzanne Bennett, Luís Bento, Jan-Erik Berdal, Delphine Bergeaud, Lorenzo Bertolino, Simon Bessis, Sybille Bevilcaqua, Krishna Bhavsar, Felwa Bin Humaid, F. Bissuel, Patrick Biston, Laurent Bitker, Pablo Blanco-Schweizer, Mathieu Blot, Filomena Boccia, Debby Bogaert, François Bompart, Gareth Booth, Diogo Borges, R. Borie, Jeannet C. Bos, Hans Martin Bosse, Élisabeth Botelho-Nevers, Lila Bouadma, Olivier Bouchaud, Sabelline Bouchez, Dounia Bouhmani, D. Bouhour, Kévin Bouiller, Laurence Bouillet, Camille Bouisse, Anne Sophie Boureau, Maude Bouscambert, Jason Bouziotis, Bianca Boxma, Marielle Boyer-Besseyre, Maria Boylan, Cynthia Braga, Timo Brandenburger, Luca Brazzi, Dorothy Breen, Patrick J. Breen, Kathy Brickell, Nicolas Brozzi, Nina Buchtele, Christian Buesaquillo, Polina Bugaeva, Marielle Buisson, Erlina Burhan, Ingrid G. Bustos, Denis Butnaru, Sheila Cárcel, André Cabie, Susana Cabral, Eder Cáceres, Mia Callahan, Kate Calligy, José Andrés Calvache, João Camões, Valentine Campana, Paul Campbell, Cecilia Canepa, Mireia Cantero, P. Caraux-Paz, Filipa Cardoso, Filipe S. Cardoso, Sofia Cardoso, Simone Carelli, Nicolas Carlier, Gayle Carney, Chloe Carpenter, Marie-Christine Carret, François Martin Carrier, Gail Carson, Maire-Laure Casanova, Mariana Cascão, José Casimiro, Bailey Cassandra, Silvia Castañeda, Nidyanara Castanheira, Guylaine Castor-Alexandre, Henry Castrillón, Ivo Castro, Ana Catarino, François-Xavier Catherine, Roberta Figueiredo Cavalin, Giulio Giovanni Cavalli, Alexandros Cavayas, Adrián Ceccato, Minerva Cervantes-Gonzalez, Anissa Chair, Catherine Chakveatze, Adrienne Chan, Meera Chand, Julie Chas, Camille Chassin, Anjellica Chen, Yih‐Sharng Chen, Matthew P Cheng, Antoine Chéret, Thibault Chiarabini, Julian Chica, Catherine Chirouze, Davide Chiumello, Hwa Jin Cho, Sung Min Cho, Bernard Cholley, José Pedro Cidade, José Miguel Cisneros Herreros, Barbara Wanjiru Citarella, Anna Ciullo, Jennifer Clarke, Sara Clohisey, Cassidy Codan, Caitriona Cody, Alexandra Coelho, Gwenhaël Colin, Michael Collins, Sebastiano Maria Colombo, Pamela Combs, Jane Connelly, Marie Connor, Anne Conrad, Sofía Contreras, Graham Cooke, Mary Copland, Hugues Cordel, Amanda Corley, Sarah Cormican, Sabine Cornelis, Arianne Joy Corpuz, Grégory Corvaisier, Camille Couffignal, Sandrine Couffin‐Cadiergues, R Courtois, Charles Crepy D’Orleans, Sabine Croonen, Gloria Crowl, Jonathan Crump, Claudina Cruz, Marc Csete, Alberto Cucino, Caroline Cullen, Matthew J. Cummings, Gerard F. Curley, Elodie Curlier, Paula Custódio, Frédérick D’Aragon, Ana da Silva Filipe, Charlène Da Silveira, Éric D’Ortenzio, Al-Awwab M. Dabaliz, Andrew Dagens, Heidi J. Dalton, Jo Ann Dalton, Nick Daneman, Emmanuelle A. Dankwa, Jorge Dantas, Nathalie De Castro, Diego de Mendoza, Rafael Freitas de Oliveira França, Rosanna De Rosa, Thushan I. de Silva, Peter de Vries, David A. Dean, Marie‐Pierre Debray, William Dechert, Lauren Deconninck, Romain Decours, Isabelle Delacroix, K. Delavigne, Ionna Deligiannis, Andrea Dell’Amore, Pierre Delobel, Élisa Demonchy, Emmanuelle Denis, Dominique Deplanque, Pieter Depuydt, Mehul Desai, Diane Descamps, Mathilde Desvallée, Santi Dewayanti, Alpha Diallo, S. Diamantis, André Dias, Juan José Díaz, Rodrigo Díaz, Kévin Didier, Jean‐Luc Diehl, Willem Dieperink, Jérôme Dimet, Vincent Dinot, Alphonsine Diouf, Yael Dishon, Félix Djossou, Annemarie B Docherty, Andy Dong, Christl A. Donnelly, Maria Donnelly, Chloe Donohue, Céline Dorival, James J. Douglas, Renée A. Douma, Nathalie Dournon, Triona Downer, Mark Downing, Tom Drake, Vincent Dubée, François Dubos, Alexandra Ducancelle, Susanne Dudman, Jake Dunning, Emanuele Durante Mangoni, Silvia Duranti, Lucian A. Durham, Bertrand Dussol, Xavier Duval, Anne Margarita Dyrhol-Riise, Carla Eira, José Ernesto Vidal, Mohammed El Sanharawi, Subbarao Elapavaluru, Brigitte Elharrar, Natalie Elkheir, Jacobien Ellerbroek, Rachael Ellis, Philippine Eloy, Tarek Elshazly, Isabelle Enderle, Ilka Engelmann, Vincent Enouf, Olivier Épaulard, Mariano Esperatti, Hélène Espérou, Marina Esposito-Farèse, João Estêvão, Manuel Etienne, Manuel Etienne, Nadia Ettalhaoui, Anna Greti Everding, Mirjam Evers, Isabelle Fabre, Amna Faheem, Arabella Fahy, Cameron J Fairfield, Pedro Faria, Nataly Farshait, Arie Zainul Fatoni, Karine Faure, Mohamed Fayed, Niamh Feely, Jorge Fernandes, Marília Andreia Fernandes, S. Fernandes, Joana Ferrão, Eglantine Ferrand Devouge, Mário Ferraz, Benigno Ferreira, Ricard Ferrer, Claudia Figueiredo-Mello, C. Flateau, Tom Fletcher, Letizia Lucia Florio, Claire Foley, Victоr Fоmin, Cláudio Duarte Fonseca, Tatiana Fonseca, Patricia Fontela, Simon Forsyth, Giuseppe Foti, Erwan Fourn, Rob Fowler, Diego Franch-Llasat, Christophe Fraser, John F. Fraser, Marcela Vieira Freire, Ana Freitas Ribeiro, Caren Friedrich, Stéphane Fry, Nora Fuentes, Masahiro Fukuda, Joan Gómez-Junyent, Valérie Gaborieau, Benoît Gachet, Rostane Gaci, Massimo Gagliardi, Jean-Charles Gagnard, Amandine Gagneux‐Brunon, Sérgio Gaião, Phil Gallagher, Elena Curto, Carrol Gamble, A.R. Garan, Esteban García-Gallo, Rebekha Garcia, Denis Garot, Valérie Garrait, Nathalie Gault, Aisling Gavin, Alexandre Gaymard, Johannes Gebauer, Louis Gerbaud Morlaes, Nuno Germano, Jade Ghosn, Marco Giani, Carlo Giaquinto, Jess Gibson, Tristan Gigante, Morgane Gilg, Guillermo Giordano, Michelle Girvan, Valérie Gissot, Gezy Giwangkancana, Daniel Glikman, Petr Glybochko, Eric Gnall, Geraldine Goco, François Goehringer, Siri Goepel, Jean‐Christophe Goffard, Jonathan L. Golob, Isabelle Gorenne, Cécile Goujard, Tiphaine Goulenok, Margarite Grable, E. Wilson Grandin, Pascal Granier, Giacomo Grasselli, Christopher Green, William Greenhalf, S. Greffe, Domenico Luca Grieco, Matthew Griffee, Fiona Griffiths, Ioana Grigoraş, Albert Groenendijk, Anja Grosse Lordemann, Heidi Gruner, Yusing Gu, Jérémie Guedj, Dewi Guellec, Anne‐Marie Guerguerian, Daniela Guerreiro, Romain Guéry, Anne Guillaumot, Laurent Guilleminault, Thomas Guimard, Daniel A. Haber, Sheeba Hakak, Matthew Hall, Sophie Halpin, Ansley Hamer, Rébecca Hamidfar, Terese Hammond, Hayley Hardwick, Kristen Harley, Ewen M Harrison, Janet Harrison, Leanne Hays, Jan Heerman, Lars Heggelund, Ross Hendry, Martina Hennessy, Aquiles R. Henriquez-Trujillo, Maxime Hentzien, Jaime Hernández-Montfort, Astarini Hidayah, Dawn Higgins, Eibhilin Higgins, S. R. Hinton, Ana Hipólito-Reis, Hiroaki Hiraiwa, Julian A. Hiscox, Antonia Ho, Alexandre Hoctin, Isabelle Hoffmann, Oscar Hoiting, Rebecca Holt, Jan Cato Holter, Peter Horby, Juan Pablo Horcajada, Koji Hoshino, Kota Hoshino, Catherine L. Hough, Jimmy Ming-Yang Hsu, Jean‐Sébastien Hulot, Samreen Ijaz, Hajnal-Gabriela Illes, Hugo Inácio, Carmen Infante Dominguez, Εlias Iosifidis, Lacey Irvine, Sarah Isgett, Tiago Isidoro, Margaux Isnard, Junji Itai, Daniel Ivulich, Salma Jaafoura, Julien Jabot, Clare Jackson, Nina Jamieson, Stéphane Jauréguiberry, Jeffrey Javidfar, Zabbe Jean-Benoît, Florence Jego, Synne Jenum, Ruth Jimbo, Ruth Noemí Jorge García, C. Joseph, Mark Joseph, Philippe Jouvet, Hanna Jung, Ouifiya Kafif, Florentia Kaguelidou, Sabina Kali, Smaragdi Kalomoiri, Darshana Hewa Kandamby, Chris Kandel, Ravi Kant, Christiana Kartsonaki, Daisuke Kasugai, Kevin Katz, Simreen Kaur Johal, Seán Keating, Andrea Kelly, Sadie Kelly, Lisa Kennedy, Kalynn Kennon, Younes Kerroumi, Evelyne Kestelyn, Imrana Khalid, Antoine Khalil, Coralie Khan, Irfan Ullah Khan, Michelle E. Kho, Saye Khoo, Yuri Kida, Peter Kiiza, Anders Benjamin Kildal, Antoine Kimmoun, Detlef Kindgen‐Milles, Nobuya Kitamura, Paul Klenerman, Gry Kloumann Bekken, Stephen R Knight, Robin Kobbe, Malte Kohns Vasconcelos, Volkan Korten, Caroline Kosgei, Karolina Krawczyk, Pavan Kumar Vecham, Deepali Kumar, Ethan Kurtzman, Demetrios J Kutsogiannis, Konstantinos G Kyriakoulis, Erwan L’Her, Marie Lachâtre, Marie Lacoste, John G. Laffey, Marie Lagrange, Fabrice Lainé, Marc Lambert, François Lamontagne, Marie Langelot-Richard, Eka Yudha Lantang, Marina Lanza, Cédric Laouenan, Samira Laribi, Delphine Larivière, Odile Launay, Yoan Lavie‐Badie, Andrew Law, Clément Le Bihan, Cyril Le Bris, Eve Le Coustumier, Georges Le Falher, Sylvie Le Gac, Quentin Le Hingrat, Marion Le Maréchal, Soizic Le Mestre, Vincent Le Moing, Hervé Le Nagard, Paul Le Turnier, Rafael León, Minh Patrick Lê, Marta Leal Santos, Ema Leal, James Lee, Su Hwan Lee, Todd A. Lee, Gary Leeming, Bénédicte Lefebvre, Laurent Lefèbvre, Benjamin Lefèvre, François Lellouche, Adrien Lemaignen, Véronique Lemée, Gretchen Lemmink, Michela Leone, Quentin Lepiller, François-Xavier Lescure, Olivier Lesens, Mathieu Lesouhaitier, Claire Lévy-Marchal, Bruno Lévy, Yves Lévy, Gianluigi Li Bassi, Janet Liang, Wei Shen Lim, Bruno Lina, Andreas Lind, Guillaume Lingas, Sylvie Lion-Daolio, Keibun Liu, Antonio Loforte, Navy Lolong, Diogo Lopes, Dalia Lopez-Colón, Paul Loubet, Jean Christophe Lucet, Carlos M. Luna, Olguța Lungu, Liem Luong, Dominique Luton, Ruth Lyons, Fredrik Müller, Karl Erik Müller, Olavi Maasikas, Sarah MacDonald, Moïse Machado, Gabrielle Macheda, Juan Macías Sánchez, Jai Madhok, Rafaël Mahieu, Sophie Mahy, Lars S. Maier, Mylène Maillet, Thomas Maitre, Maximilian Malfertheiner, Nadia Malik, Fernando Maltêz, Denis Malvy, Marina Mambert, Victoria Manda, Jose M. Mandei, Edmund Manning, Aldric Manuel, Ceila Maria Sant, Ana Malaque, Flávio Marino, Carolline Araujo, Charbel Maroun Eid, Ana Marques, Catherine Marquis, Brian Marsh, Laura Marsh, Marshall John, Celina Maria Turchi Martelli, Guillaume Martin‐Blondel, Ignacio Martín‐Loeches, Alejandro Martín-Quirós, Dori-Ann Martin, Emily T. Martin, M. Martinot, Caroline Martins Rego, Ana Martins, João Martins, Gennaro Martucci, Eva Miranda Marwali, Juan Fernado Masa Jimenez, David Maslove, Sabina Mason, Moshe Matan, Daniel Mathieu, M. Mattéi, Romans Matulevics, Laurence Maulin, Natalie Mc Evoy, Aine McCarthy, Colin McCloskey, Rachael McConnochie, Sherry McDermott, Sarah E. McDonald, Samuel McElwee, Natalie McEvoy, Allison McGeer, Niki McGuinness, Kenneth A McLean, Alistair Nichol, Edel Meaney, Cécile Mear-Passard, Maggie Mechlin, Ferruccio Mele, Kusum Menon, France Mentré, Alexander J. Mentzer, Noémie Mercier, Antoine Merckx, Blake Mergler, Laura Merson, António Mesquita, Agnès Meybeck, Alison Meynert, Vanina Meyssonnier, Amina Meziane, Medhi Mezidi, Céline Michelanglei, Vladislav Mihnovitš, Hugo Miranda Maldonado, Mary C. Mone, Asma Moin, David Molina, Elena Molinos, Agostinho Monteiro, Claudia Montes, Giorgia Montrucchio, Sarah R. Moore, Shona C. Moore, Lina Morales-Cely, Lucía Moro, Diego Rolando Morocho Tutillo, Ana Motos, Hugo Mouquet, Clara Mouton Perrot, Julien Moyet, Jimmy Mullaert, Daniel Munblit, Derek Murphy, Marlène Murris, Dimitra Melia Myrodia, Yohan Nguyen, Nadège Néant, Holger Neb, Nikita A Nekliudov, Raul Neto, Emily Neumann, Bernardo Neves, Pauline Yeung Ng, Wing Yiu Ng, Orna Ní Choileáin, Alistair Nichol, Stephanie Nonas, Marion Noret, Lisa Norman, Alessandra Notari, Mahdad Noursadeghi, Karolina Nowicka, Saad Nseir, Jose I Nunez, Elsa Nyamankolly, Max R OʼDonnell, Katie O’Hearn, Conar R. O’Neil, Giovanna Occhipinti, Tawnya Ogston, Takayuki Ogura, Tak-Hyuk Oh, Shinichiro Ohshimo, Budha Charan Singh Oinam, Ana Pinho Oliveira, João Oliveira, Piero Olliaro, David S. Y. Ong, Wilna Oosthuyzen, Peter Openshaw, Claudia Milena Orozco‐Chamorro, Andrés Orquera, Javier Osatnik, Nadia Ouamara, Rachida Ouissa, Clark Owyang, E. Oziol, Diana Póvoas, Maïder Pagadoy, Justine Pages, Mario Palacios, Massimo Palmarini, Giovanna Panarello, Prasan Kumar Panda, Mauro Panigada, Nathalie Pansu, Aurélie Papadopoulos, Briseida Parra, Jérémie Pasquier, Fabian Patauner, Luís Patrão, Christelle Paul, Mical Paul, Jorge Paulos, William A. Paxton, Jean‐François Payen, India Pearse, Giles J. Peek, Florent Peelman, Nathan Peiffer-Smadja, Vincent Peigne, Mare Pejkovska, Ithan D. Peltan, Rui Pereira, Daniel Pérez, Thomas Perpoint, Antonio Artigas, Lenka Petroušová, Ventzislava Petrov–Sanchez, Gilles Peytavin, Scott Pharand, Michaël Piagnerelli, Walter Picard, Olivier Picone, Marie Piel-Julian, Carola Pierobon, Carlos Pimentel, Lionel Piroth, Riinu Pius, Simone Piva, Laurent Plantier, Daniel Plotkin, Julien Poissy, Maria Pokorska‐Śpiewak, Sergio Poli, Georgios Pollakis, Jolanta Popielska, Douwe F. Postma, Pedro Póvoa, Jeff Powis, Sofia Prapa, Christian Prebensen, Jean‐Charles Preiser, Vincent Prestre, Nicholas Price, Anton Prinssen, Mark G Pritchard, Lúcia Proença, Oriane Puéchal, Gregory Purcell, Luisa Quesada, Else Quist‐Paulsen, Mohammed Quraishi, Indrek Rätsep, Bernhard Rössler, Christian Rabaud, Marie Rafiq, Gabrielle Ragazzo, Fernando Rainieri, Nagarajan Ramakrishnan, Kollengode Ramanathan, Blandine Rammaert, C. Rapp, Menaldi Rasmin, Cornelius Rau, Stanislas Rebaudet, Sarah Redl, Brenda Reeve, Liadain Reid, Renato Barbosa Reis, Jonathan Remppis, Martine Rémy, Hanna Renk, Liliana Resende, Anne-Sophie Resseguier, Matthieu Revest, Oleksa Rewa, Luis Felipe Reyes, David Richardson, Denise Richardson, Laurent Raskine, Jordi Riera, Ana Lúcia Rios, Asgar Rishu, P Rispal, Karine Risso, María Angélica Rivera Núñez, Nicholas Rizer, André Roberto, Stephanie Roberts, David L. Robertson, Olivier Robineau, Ferrán Roche-Campo, Paola Rodari, Simão Rodeia, Julia Rodriguez Abreu, Emmanuel Roilides, Amanda Rojek, Juliette Romaru, Roberto Roncon‐Albuquerque, Mélanie Roriz, Manuel Rosa‐Calatrava, Michael Rose, Dorothea Rosenberger, Andrea Rossanese, Bénédicte Rossignol, Patrick Rossignol, Carine Roy, B. Rozé, Clark D Russell, Steffi Ryckaert, Aleksander Rygh Holten, Xavier Sánchez Choez, Isabela Saba, Musharaf Sadat, Nadia Saïdani, Leonardo Salazar, Gabriele Sales, Stéphane Sallaberry, Hélène Salvator, Ángel Sánchez-Miralles, Olivier Sanchez, Vanessa Sancho‐Shimizu, Gyan Sandhu, Oana Săndulescu, Marlene Santos, Shirley Sarfo-Mensah, Benjamine Sarton, Eglė Savičiūtė, Parthena Savvidou, Joshua Scarsbrook, Tjard Schermer, Arnaud Scherpereel, Marion Schneider, Stephan Schroll, Michael Schwameis, James Scott-Brown, Janet T. Scott, Nicholas Sédillot, Tamara Seitz, Caroline Semaille, Malcolm G Semple, Éric Senneville, Filipa Sequeira, Tânia Sequeira, Ellen Shadowitz, Mohammad Shamsah, Pratima Sharma, Catherine Shaw, Victoria Shaw, Nisreen Shiban, Nobuaki Shime, Hiroaki Shimizu, Keiki Shimizu, Sally Shrapnel, Hoi‐Ping Shum, Nassima Si Mohammed, Louise Sigfrid, Catarina Silva, Maria João Silva, Wai Ching Sin, Vegard Skogen, Sue Smith, Benjamin Smood, Michelle Smyth, Morgane Snacken, Dominic So, Monserrat Solis, Joshua Solomon, Tom Solomon, Emily C. Somers, Agnès Sommet, Myung Jin Song, Rima Song, Tae Jin Song, Michael Sonntagbauer, Edouard Soum, Maria Sousa Uva, Marta Sousa, Vicente Cés de Souza-Dantas, Alexandra Sperry, Shiranee Sriskandan, Thomas Staudinger, Stephanie-Susanne Stecher, Ymkje Stienstra, Birgitte Stiksrud, Adrian Streinu‐Cercel, Anca Streinu‐Cercel, Samantha Strudwick, Ami Stuart, D.I. Stuart, Asfia Sultana, Charlotte Summers, Magdalena Surovcová Andrey A. Svistunov, Konstantinos Syrigos, Jaques Sztajnbok, Konstanty Szułdrzyński, François Téoulé, Shirin Tabrizi, Lysa Tagherset, Ewa Talarek, Sara Taleb, Jelmer Talsma, Le Van Tan, Hiroyuki Tanaka, Taku Tanaka, Hayato Taniguchi, Coralie Tardivon, Pierre Tattevin, M Azhari Taufik, Richard S. Tedder, João M.C. Teixeira, Marie-Capucine Tellier, Pleun Terpstra, B. Terrier, Nicolas Terzi, Hubert Tessier-Grenier, Vincent Thibault, Simon-Djamel Thiberville, Benoît Thill, A. A. Roger Thompson, Shaun Thompson, David Thomson, Emma C. Thomson, Duong Bich Thuy, Ryan S. Thwaites, Peter Timashev, Jean‐François Timsit, Bharath Kumar Tirupakuzhi Vijayaraghavan, Maria Toki, Kristian Tonby, Rosario María Torres Santos-Olmo, Antoni Torres, Margarida Torres, Théo Trioux, Huynh Trung Trieu, Cécile Tromeur, Ioannis Trontzas, Jonathan P. Troost, Tiffany Trouillon, Christelle Tual, Sarah Tubiana, Helen Tuite, Lance Turtle, Paweł Twardowski, Makoto Uchiyama, Roman Ullrich, Alberto Uribe, Asad Usman, Luís Val-Flores, Stijn Van de Velde, Marcel van den Berge, M. van der Feltz, Nicky Van Der Vekens, Peter van der Voort, Sylvie van der Werf, Marlice van Dyk, Laura van Gulik, Jarne Van Hattem, Steven van Lelyveld, Carolien van Netten, Noémie Vanel, Henk Vanoverschelde, Charline Vauchy, Aurélie Veislinger, Jorge Velazco, Sara Ventura, Annelies Verbon, César Vieira, Joy Ann Villanueva, J. Pablo Sáez Villar, Pierre-Marc Villeneuve, Andrea Villoldo, Nguyễn Văn Vĩnh Châu, Benoît Visseaux, Hannah Visser, Aapeli Vuorinen, Fanny Vuotto, Chih‐Hsien Wang, Jia Wei, Katharina Weil, Sanne Wesselius, Murray Wham, Bryan Whelan, Nicole White, Aurélie Wiedemann, Keith Wille, Evert‐Jan Wils, Ioannis Xynogalas, Jacky Y. Suen, Sophie Yacoub, Masaki Yamazaki, Yazdan Yazdanpanah, Cécile Yelnik, Stephanie T. Yerkovich, Toshiki Yokoyama, Hodane Yonis, P. L. Young, Saptadi Yuliarto, Marion Zabbe, Kai Zacharowski, Maram Zahran, Maria Zambon, Alberto Zanella, Konrad Zawadka, Hiba Zayyad, Alexander Zoufaly, David Zucman
Software Mentions: 8
Published: about 5 years ago

10.1002/ctm2.422

Single‐cell analyses reveal suppressive tumor microenvironment of human colorectal cancer
Cited by: 37
Author(s): Mei Yan, Weiwei Xiao, Hao Hu, Guan-Ming Lu, Lingdan Chen, Zhun Sun, Mengdie Lü, Wenhui Ma, Ting Jiang, Yuanhong Gao, LiRen Li, Gong Chen, Zifeng Wang, Hanjie Li, Duojiao Wu, Ping‐Hong Zhou, Qibin Leng, Guangshuai Jia
Software Mentions: 8
Published: about 5 years ago

10.3389/fmicb.2021.654108

Gut Microbiota of Drosophila subobscura Contributes to Its Heat Tolerance and Is Sensitive to Transient Thermal Stress
Cited by: 22
Author(s): Angélica Jaramillo, Luis E. Castañeda
Software Mentions: 8
Published: about 5 years ago

10.1186/s13059-020-02075-3

Single-cell ATAC-seq signal extraction and enhancement with SCATE
Cited by: 29
Author(s): Zhicheng Ji, Weiqiang Zhou, Wenpin Hou, Hongkai Ji
Software Mentions: 8
Published: almost 6 years ago

10.2196/15431

Ensemble Learning Models Based on Noninvasive Features for Type 2 Diabetes Screening: Model Development and Validation
Cited by: 9
Author(s): Tianzhou Yang, Li Zhang, Liwei Yi, Huawei Feng, Shimeng Li, Haoyu Chen, Jü Zhu, Zhao Jian, Yingyue Zeng, Huan Liu
Software Mentions: 8
Published: about 6 years ago

10.3390/e23010072

Unraveling of a Strongly Correlated Dynamical Network of Residues Controlling the Permeation of Potassium in KcsA Ion Channel
Cited by: 2
Author(s): Salvatore M. Cosseddu, Eunju Julia Choe, I. A. Khovanov
Software Mentions: 8
Published: over 5 years ago

10.7554/eLife.60122

Quantifying antibody kinetics and RNA detection during early-phase SARS-CoV-2 infection by time since symptom onset
Cited by: 68
Author(s): Benny Borremans, Amandine Gamble, Katherine C. Prager, Sarah K Helman, Abby M. McClain, Caitlin Cox, Van Savage, James O. Lloyd‐Smith
Software Mentions: 8
Published: almost 6 years ago

10.3390/healthcare8020111

A Comparative Analysis of Breast Cancer Detection and Diagnosis Using Data Visualization and Machine Learning Applications
Cited by: 64
Author(s): Muhammet Fatih Ak
Software Mentions: 8
Published: about 6 years ago

10.12688/f1000research.6767.1

CyREST: Turbocharging Cytoscape Access for External Tools via a RESTful API
Cited by: 77
Author(s): Keiichiro Ono, Tanja Muetze, Georgi Kolishovski, Paul Shannon, Barry Demchak
Software Mentions: 8
Published: almost 11 years ago

10.1111/1365-2656.13065

Host genetics and geography influence microbiome composition in the sponge Ircinia campana
Cited by: 48
Author(s): Sarah M. Griffiths, Rachael E. Antwis, Luca Lenzi, Anita Lucaci, Donald C. Behringer, Mark J. Butler, Richard F. Preziosi
Software Mentions: 8
Published: almost 7 years ago

10.3897/BDJ.8.e47018

Rapid Least Concern: towards automating Red List assessments
Cited by: 25
Author(s): Steven P. Bachman, Barnaby E. Walker, Sara Bárrios, Alison Copeland, Justin Moat
Software Mentions: 8
Published: over 6 years ago

10.1016/j.cell.2017.04.013

The Cohesin Release Factor WAPL Restricts Chromatin Loop Extension
Cited by: 607
Author(s): Judith H.I. Haarhuis, Robin H. van der Weide, Vincent A. Blomen, J. Omar Yáñez-Cuna, Mario Amendola, Marjon S. van Ruiten, Peter H.L. Krijger, Hans Teunissen, René H. Medema, Bas van Steensel, Thijn R. Brummelkamp, Elzo de Wit, Benjamin D. Rowland
Software Mentions: 8
Published: about 9 years ago

10.1371/journal.pone.0250629

Epiphytic diatom community structure and richness is determined by macroalgal host and location in the South Shetland Islands (Antarctica)
Cited by: 3
Author(s): Andrea M. Burfeid-Castellanos, Rafael P. Martín–Martín, Michael Kloster, Carlos Angulo‐Preckler, Conxita Àvila, Bánk Beszteri
Software Mentions: 8
Published: about 5 years ago

10.1128/AEM.02601-17

Assessing Performance of Spore Samplers in Monitoring Aeromycobiota and Fungal Plant Pathogen Diversity in Canada
Cited by: 23
Author(s): Wen Chen, Sarah Hambleton, Keith A. Seifert, Odile Carisse, Moussa S. Diarra, R. D. Peters, Christine Lowe, Julie T. Chapados, C. André Lévesque
Software Mentions: 8
Published: about 8 years ago

10.3389/fmolb.2021.655126

Silencing of the TRIM58 Gene by Aberrant Promoter Methylation is Associated with a Poor Patient Outcome and Promotes Cell Proliferation and Migration in Clear Cell Renal Cell Carcinoma
Cited by: 6
Author(s): Ying Gan, Congcong Cao, Aolin Li, Haifeng Song, Guanyu Kuang, Binglei Ma, Quan Zhang, Qian Zhang
Software Mentions: 8
Published: over 5 years ago

10.7554/eLife.65654

Quantitative control of noise in mammalian gene expression by dynamic histone regulation
Cited by: 2
Author(s): Tan D, Rui Chen, Yuejian Mo, Shu Gu, Jiao Ma, Wei Xu, Xibin Lu, Hongtao He, Fan Jiang, Weimin Fan, Yili Wang, Xi Chen, Wei Huang
Software Mentions: 8
Published: almost 5 years ago

10.1186/s12915-019-0726-5

Multi-species annotation of transcriptome and chromatin structure in domesticated animals
Cited by: 80
Author(s): Sylvain Foissac, Sarah Djebali, Kylie Munyard, Nathalie Vialaneix, Andrea Rau, Kévin Muret, Diane Esquerré, Matthias Zytnicki, Thomas Derrien, Philippe Bardou, Fany Blanc, Cédric Cabau, Elisa Crisci, Sophie Dhorne–Pollet, Françoise Drouet, Thomas Faraut, Ignacio González, Adeline Goubil, Sonia Lacroix‐Lamandé, Fabrice Laurent, Sylvain Marthey, Maria Marti-Marimon, Raphaëlle Momal-Leisenring, Florence Mompart, Pascale Quéré, David Robelin, Magali San Cristobal, Gwenola Tosser‐Klopp, Silvia Vincent‐Naulleau, Stéphane Fabre, Marie-Hélène Pinard van der Laan, Christophe Klopp, Michèle Tixier‐Boichard, Hervé Acloque, Sandrine Lagarrigue, Elisabetta Giuffra
Software Mentions: 8
Published: over 6 years ago

10.1126/sciadv.abd3311

Tumor to normal single-cell mRNA comparisons reveal a pan-neuroblastoma cancer cell
Cited by: 64
Author(s): Gerda Kildisiute, Waleed M. Kholosy, Matthew D. Young, Kenny Roberts, Rasa Elmentaite, Sander R. van Hooff, Clarissa N Pacyna, Eleonora Khabirova, Alice Piapi, Christine Thevanesan, Eva Bugallo-Blanco, Christina Burke, Lira Mamanova, KM Keller, Karin Langenberg-Ververgaert, Philip Lijnzaad, Thanasis Margaritis, Frank C. P. Holstege, Michelle L. Tas, Marc H. W. A. Wijnen, Max M. van Noesel, Ignacio del Valle, Giuseppe Barone, Reinier van der Linden, Catriona Duncan, John Anderson, John C. Achermann, Muzlifah Haniffa, Sarah A. Teichmann, Dyanne Rampling, Neil J. Sebire, Xiaoling He, Ronald R. de Krijger, Roger A. Barker, Kerstin B. Meyer, Ömer Bayraktar, Karin Straathof, Jan J. Molenaar, Sam Behjati
Software Mentions: 8
Published: over 5 years ago

10.3389/fmolb.2021.675683

Targeted Demethylation of the PLOD2 mRNA Inhibits the Proliferation and Migration of Renal Cell Carcinoma
Cited by: 9
Author(s): Congcong Cao, Qian Ma, Xinbo Huang, Aolin Li, Jun Li, Jing Ye, Yaoting Gui
Software Mentions: 8
Published: about 5 years ago

10.15252/msb.202010060

CASB: a concanavalin A‐based sample barcoding strategy for single‐cell sequencing
Cited by: 11
Author(s): Liang Fang, Guipeng Li, Zhiyuan Sun, Qionghua Zhu, Huanhuan Cui, Yunfei Li, Jingwen Zhang, Weizheng Liang, Wencheng Wei, Yuhui Hu, Wei Chen
Software Mentions: 8
Published: about 5 years ago

10.3390/nu11122892

Dietary Determinants of Metabolic Syndrome Parameters Differ by Gender in College Students
Cited by: 4
Author(s): Sara Saltzgiver, Alexander Nielson, Heidi Costello, Adam Baker, Julian Chan, David Aguilar
Software Mentions: 8
Published: over 6 years ago

10.1016/j.idm.2019.12.008

Mathematical epidemiology in a data-rich world
Cited by: 9
Author(s): Julien Arino
Software Mentions: 8
Published: over 6 years ago

10.1107/S2059798317016035

CCP4i2: the new graphical user interface to theCCP4 program suite
Cited by: 353
Author(s): Liz Potterton, Jon Agirre, Charles Ballard, Kevin Cowtan, E.J. Dodson, Phil Evans, Huw T. Jenkins, Ronan Keegan, Eugene Krissinel, Kyle Stevenson, А. А. Лебедев, Stuart McNicholas, Robert A. Nicholls, M.E.M. Noble, Navraj S. Pannu, Christian Roth, George M. Sheldrick, Pavol Skubák, J.P. Turkenburg, Ville Uski, Frank von Delft, David Waterman, K.S. Wilson, Martyn Winn, Marcin Wojdyr
Software Mentions: 8
Published: over 8 years ago

10.3389/fimmu.2018.00462

Analyzing Immunoglobulin Repertoires
Cited by: 77
Author(s): Neha Chaudhary, Duane R. Wesemann
Software Mentions: 8
Published: over 8 years ago

10.1155/2020/5843874

Identification of Biomarkers to Construct a Competing Endogenous RNA Network and Establishment of a Genomic-Clinicopathologic Nomogram to Predict Survival for Children with Rhabdoid Tumors of the Kidney
Cited by: 1
Author(s): Xiaoqing Wang, Xiangyu Wu, Tianyou Li, Meng Cui, Lichao Zhu, Gang Wang, Feng Guo
Software Mentions: 8
Published: almost 6 years ago

10.3389/fmicb.2016.00517

Spatio-Temporal Interdependence of Bacteria and Phytoplankton during a Baltic Sea Spring Bloom
Cited by: 57
Author(s): Carina Bunse, Mireia Bertos‐Fortis, Ingrid Sassenhagen, Sirje Sildever, Conny Sjöqvist, Anna Godhe, Susanna Gross, Anke Kremp, Inga Lips, Nina Lundholm, Karin Rengefors, Josefin Sefbom, Jarone Pinhassi, Catherine Legrand
Software Mentions: 8
Published: about 10 years ago