10.3389/fmolb.2021.635074

Decoding Neuromuscular Disorders Using Phenotypic Clusters Obtained From Co-Occurrence Networks
Cited by: 3
Author(s): Elena Díaz-Santiago, M. Gonzalo Claros, Raquel Yahyaoui, Yolanda de Diego-Otero, Rocío Velasco Calvo, Janet Hoenicka, Francesc Palau, Juan A. G. Ranea, James R. Perkins
Software Mentions: 11
Published: almost 5 years ago

10.3390/ijms21124217

Transcriptome, Spliceosome and Editome Expression Patterns of the Porcine Endometrium in Response to a Single Subclinical Dose of Salmonella Enteritidis Lipopolysaccharide
Cited by: 6
Author(s): Łukasz Paukszto, Anita Mikołajczyk, J Jastrzebski, Marta Majewska, Kamil Dobrzyń, Marta Kieżun, Tadeusz Kamiński
Software Mentions: 11
Published: almost 6 years ago

10.1038/srep44348

Major shifts at the range edge of marine forests: the combined effects of climate changes and limited dispersal
Cited by: 70
Author(s): Jorge Assis, Estíbaliz Berecibar, Bruno Claro, Filipe Alberto, Daniel C. Reed, Peter T. Raimondi, Ester Á. Serrão
Software Mentions: 11
Published: about 9 years ago

10.3390/jfmk6020036

Predicting Adaptations to Resistance Training Plus Overfeeding Using Bayesian Regression: A Preliminary Investigation
Cited by: 4
Author(s): R. Scott Smith, Patrick S. Harty, Matthew T. Stratton, Zad Rafi, Christian Rodriguez, Jacob R. Dellinger, Marqui L. Benavides, Baylor A Johnson, Sarah J. White, Abegale D Williams, Grant M. Tinsley
Software Mentions: 11
Published: almost 5 years ago

10.7554/eLife.49064

Stepwise polarisation of developing bilayered epidermis is mediated by aPKC and E-cadherin in zebrafish
Cited by: 10
Author(s): Prateek Arora, Shivali Dongre, Renuka Raman, Mahendra Sonawane
Software Mentions: 11
Published: about 6 years ago

10.3389/fpsyg.2021.638659

Syllable Complexity and Morphological Synthesis: A Well-Motivated Positive Complexity Correlation Across Subdomains
Cited by: 2
Author(s): Shelece Easterday, Matthew Stave, Marc Allassonnière-Tang, Frank Seifart
Software Mentions: 11
Published: about 5 years ago

10.1002/ece3.7881

Conversion of rainforest into oil palm and rubber plantations affects the functional composition of litter and soil Collembola
Cited by: 4
Author(s): Winda Ika Susanti, Tamara Bartels, Valentyna Krashevska, Rahayu Widyastuti, Louis Deharveng, Stefan Scheu, Anton M. Potapov
Software Mentions: 11
Published: over 4 years ago

10.7717/peerj.10411

Data quantity is more important than its spatial bias for predictive species distribution modelling
Cited by: 10
Author(s): Willson Gaul, Dinara Sadykova, Hannah J. White, Lupe León‐Sánchez, Paul Caplat, Mark Emmerson, Jon Yearsley
Software Mentions: 11
Published: over 5 years ago

10.1186/1471-2105-15-S1-S11

The Risa R/Bioconductor package: integrative data analysis from experimental metadata and back again
Cited by: 19
Author(s): Alejandra N. González-Beltrán, Steffen Neumann, Eamonn Maguire, Susanna-Assunta Sansone, Philippe Rocca-Serra
Software Mentions: 11
Published: about 12 years ago

10.3389/fimmu.2021.599207

Molecular and Clinical Characterization of LAG3 in Breast Cancer Through 2994 Samples
Cited by: 15
Author(s): Qiang Liu, Yihang Qi, Jie Zhai, Xiangyi Kong, Xiangyu Wang, Zhongzhao Wang, Yi Fang, Jing Wang
Software Mentions: 11
Published: over 4 years ago

10.1371/journal.pone.0180791

A validation of 11 body-condition indices in a giant snake species that exhibits positive allometry
Cited by: 29
Author(s): Bryan G. Falk, Ray W. Snow, Robert N. Reed
Software Mentions: 11
Published: over 8 years ago

10.1186/s40168-020-00805-0

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: about 6 years ago

10.3389/fgene.2021.640242

A Survey of Compound Heterozygous Variants in Pediatric Cancers and Structural Birth Defects
Cited by: 7
Author(s): Dustin Miller, Stephen R. Piccolo
Software Mentions: 11
Published: about 5 years ago

10.3389/fnins.2020.00919

HYGRIP: Full-Stack Characterization of Neurobehavioral Signals (fNIRS, EEG, EMG, Force, and Breathing) During a Bimanual Grip Force Control Task
Cited by: 10
Author(s): Pablo Ortega, Tong Zhao, A. Aldo Faisal
Software Mentions: 11
Published: over 5 years ago

10.1111/tpj.14784

Segmental duplications are hot spots of copy number variants affecting barley gene content
Cited by: 4
Author(s): Gianluca Bretani, Laura Rossini, Chiara Ferrandi, Joanne Russell, Robbie Waugh, Benjamin Kilian, Paolo Bagnaresi, Luigi Cattivelli, Agostino Fricano
Software Mentions: 11
Published: almost 6 years ago

10.1155/2021/2291899

Crosstalk between Heart Failure and Cognitive Impairment via hsa-miR-933/RELB/CCL21 Pathway
Cited by: 8
Author(s): Wenxiao Feng, Jie Yang, Wen‐Chao Song, Yi-Tao Xue
Software Mentions: 11
Published: over 4 years ago

10.7554/eLife.58705

Co-expression analysis reveals interpretable gene modules controlled by trans-acting genetic variants
Cited by: 23
Author(s): Liis Kolberg, Nurlan Kerimov, Hedi Peterson, Kaur Alasoo
Software Mentions: 11
Published: over 5 years ago

10.1186/s12935-021-02041-4

Ten-gene signature reveals the significance of clinical prognosis and immuno-correlation of osteosarcoma and study on novel skeleton inhibitors regarding MMP9
Cited by: 17
Author(s): Weihang Li, Ziyi Ding, Dong Wang, Chengfei Li, Yikai Pan, Yingjing Zhao, Hongzhe Zhao, Tianxing Lu, Rui Xu, Shilei Zhang, Bin Yuan, Yunlong Zhao, Yanjiang Yin, Yuan Gao, Jing Li, Ming Yan
Software Mentions: 11
Published: over 4 years ago

10.3389/fgene.2021.620705

Identification of Tumor Microenvironment-Related Prognostic Genes in Sarcoma
Cited by: 6
Author(s): Dongjun Dai, Lanyu Xie, Yongjie Shui, Jinfan Li, Qichun Wei
Software Mentions: 11
Published: about 5 years ago

10.1186/s13104-017-2607-8

NAP: The Network Analysis Profiler, a web tool for easier topological analysis and comparison of medium-scale biological networks
Cited by: 28
Author(s): Θεοδόσιος Θεοδοσίου, Georgios Efstathiou, Nikolas Papanikolaou, Nikos C. Kyrpides, Pantelis G. Bagos, Ioannis Iliopoulos, Georgios A. Pavlopoulos
Software Mentions: 11
Published: over 8 years ago

10.1186/s12942-017-0098-4

GridSample: an R package to generate household survey primary sampling units (PSUs) from gridded population data
Cited by: 38
Author(s): Dana R. Thomson, Forrest R. Stevens, Nick W. Ruktanonchai, Andrew J. Tatem, Márcia C. Castro
Software Mentions: 11
Published: over 8 years ago

10.1371/journal.pone.0256339

Sex-specific spatial use of the winter foraging areas by Magellanic penguins and assessment of potential conflicts with fisheries during winter dispersal
Cited by: 6
Author(s): Samanta Dodino, Nicolás A. Lois, Luciana Riccialdelli, Michael J. Polito, Klemens Pütz, Andrea Raya Rey
Software Mentions: 11
Published: over 4 years ago

10.1038/s41598-020-65015-y

Toffee – a highly efficient, lossless file format for DIA-MS
Cited by: 9
Author(s): Brett Tully
Software Mentions: 11
Published: almost 6 years ago

10.1186/s40246-019-0230-6

Identification and potential mechanisms of a 4-lncRNA signature that predicts prognosis in patients with laryngeal cancer
Cited by: 50
Author(s): Guihai Zhang, Erxi Fan, Qiu‐Yue Zhong, Guangyong Feng, Shuai Yu, Mingna Wu, Qiying Chen, Xiaoxia Gou
Software Mentions: 11
Published: over 6 years ago

10.1371/journal.pcbi.1008585

Preprocessing choices affect RNA velocity results for droplet scRNA-seq data
Cited by: 43
Author(s): Charlotte Soneson, Avi Srivastava, Rob Patro, Michael Stadler
Software Mentions: 11
Published: about 5 years ago

10.1016/j.csbj.2015.08.004

Dynamics in Transcriptomics: Advancements in RNA-seq Time Course and Downstream Analysis
Cited by: 73
Author(s): Daniel Spies, Constance Ciaudo
Software Mentions: 11
Published: about 11 years ago

10.1186/s12864-021-07381-z

Multiple freeze-thaw cycles lead to a loss of consistency in poly(A)-enriched RNA sequencing
Cited by: 11
Author(s): Benjamin P. Kellman, Hratch Baghdassarian, Tiziano Pramparo, Isaac Shamie, Vahid H. Gazestani, Arjana Begzati, Shangzhong Li, Srinivasa Nalabolu, Sarah Murray, Linda Lopez, Karen Pierce, Eric Courchesne, Nathan E. Lewis
Software Mentions: 11
Published: about 5 years ago

10.1371/journal.pcbi.1002276

BeadArray Expression Analysis Using Bioconductor
Cited by: 50
Author(s): Matthew E. Ritchie, Mark J. Dunning, Mike L. Smith, Wei Shi, Andy G. Lynch
Software Mentions: 11
Published: over 14 years ago

10.3389/fpubh.2021.649190

Shifting From Sectoral to Integrated Surveillance by Changing Collaborative Practices: Application to West Nile Virus Surveillance in a Small Island State of the Caribbean
Cited by: 2
Author(s): Mariana Geffroy, Nonito Pagès, David Chavernac, Alexis Dereeper, L. Aubert, Cécile Herrmann-Storck, Anubis Vega-Rúa, Sylvie Lecollinet, Jennifer Pradel
Software Mentions: 11
Published: almost 5 years ago

10.3390/ijerph17031093

Teleconsultations between Patients and Healthcare Professionals in Primary Care in Catalonia: The Evaluation of Text Classification Algorithms Using Supervised Machine Learning
Cited by: 14
Author(s): Francesc López Seguí, Ricardo Ander Egg Aguilar, Gabriel de Maeztu, Anna García‐Altés, Francesc García Cuyàs, Sandra M. Walsh, Marta Sagarra Castro, Josep Vidal-Alaball
Software Mentions: 11
Published: about 6 years ago

10.3389/fmicb.2020.00926

Chromosome Architecture and Gene Content of the Emergent Pathogen Acinetobacter haemolyticus
Cited by: 3
Author(s): Semiramis Castro-Jaimes, Elena Bello-López, Consuelo Velázquez-Acosta, Patricia Volkow-Fernández, Patricia Lozano-Zaraín, Santiago Castillo-Ramírez, Miguel A. Cevallos
Software Mentions: 11
Published: almost 6 years ago

10.3389/fonc.2020.00691

Immunoscore Predicts Survival in Early-Stage Lung Adenocarcinoma Patients
Cited by: 12
Author(s): Zihuan Zhao, Dan Zhao, Jianguo Xia, Yichuan Wang, Buhai Wang
Software Mentions: 11
Published: almost 6 years ago

10.1016/j.eclinm.2021.101118

Unraveling the concepts of distress, burnout, and depression in type 1 diabetes: A scoping review
Cited by: 9
Author(s): Dona A. Kiriella, Sumaiya Islam, Olutobi Oridota, Nancy Sohler, Coralie Dessenne, Carine de Beaufort, Guy Fagherazzi, Gloria Aguayo
Software Mentions: 11
Published: over 4 years ago

10.1038/s41598-021-88698-3

In-depth transcriptomic analysis of human retina reveals molecular mechanisms underlying diabetic retinopathy
Cited by: 23
Author(s): Kolja Becker, H. Klein, Eric J. Simon, Coralie Viollet, Christian Haslinger, Germán Leparc, Christian Schultheis, Victor Chong, Markus H. Kuehn, Francesc Fernández-Albert, Remko A. Bakker
Software Mentions: 11
Published: almost 5 years ago

10.1007/s00431-021-04147-3

Sleep behavior of infants with infantile hemangioma treated with propranolol—a cohort study
Cited by: 6
Author(s): Martin Theiler, Nicole Knöpfel, Susanne Heydt, Agnes Schwieger‐Briel, Isabelle Luchsinger, Alexandra Smith, Kristin Kernland‐Lang, Regula Waelchli, Kathrin Neuhaus, Malcolm Kohler, Ralph Gnannt, Sarah F. Schoch, Lisa Weibel, Salomé Kurth
Software Mentions: 11
Published: almost 5 years ago

10.1016/j.xpro.2021.100397

Protocol for comprehensive RNA sequencing analysis of murine long non-coding RNAs during aging
Cited by: 0
Author(s): Xinyue Lu, Qi Zhou, Jin Liu, Li Sun
Software Mentions: 11
Published: almost 5 years ago

10.3390/jcm9041055

Whole-Genome DNA Methylation Profiling of CD14+ Monocytes Reveals Disease Status and Activity Differences in Crohn’s Disease Patients
Cited by: 12
Author(s): Andrew Y. Li Yim, Nicolette W. Duijvis, Mohammed Ghiboub, Catriona Sharp, Enrico Ferrero, Marcel M.A.M. Mannens, Geert D’Haens, Wouter J. de Jonge, Anje A. te Velde, Peter Henneman
Software Mentions: 11
Published: almost 6 years ago

10.1016/j.ccell.2017.08.017

Integrated Molecular Meta-Analysis of 1,000 Pediatric High-Grade and Diffuse Intrinsic Pontine Glioma
Cited by: 662
Author(s): Alan Mackay, Anna Burford, Diana Carvalho, Elisa Izquierdo, Janat Fazal-Salom, Kathryn R. Taylor, Lynn Bjerke, Matthew Clarke, Maria Vinci, Meera Nandhabalan, Sara Temelso, Sergey Popov, Valeria Molinari, Pichai Raman, Angela J. Waanders, Harry Han, Saumya Gupta, Lynley V. Marshall, Stergios Zacharoulis, Sucheta Vaidya, Henry Mandeville, Leslie Bridges, Andrew Martin, Safa Al‐Sarraj, Christopher Chandler, Ho Keung Ng, Xingang Li, Kun Mu, Saoussen Trabelsi, Dorra H’mida-Ben Brahim, Alexei N. Kisljakov, Д. М. Коновалов, Andrew S. Moore, Ángel M. Carcaboso, Mariona Suñol, Carmen de Torres, Ofelia Cruz, Jaume Mora, Л. И. Шац, João N. Stávale, Lucas Tadeu Bidinotto, Rui Manuel Reis, Natacha Entz‐Werlé, Michael Farrell, Jane Cryan, Darach Crimmins, John Caird, Jane Pears, Michelle Monje, Marie‐Anne Debily, David Castel, Jacques Grill, Cynthia Hawkins, Hamid Nikbakht, Nada Jabado, Suzanne J. Baker, Stefan M. Pfister, David Jones, Maryam Fouladi, André O. von Bueren, Michael Baudis, Adam Resnick, Chris Jones
Software Mentions: 11
Published: over 8 years ago

10.3390/cancers11081104

Differential Expression of DNA Repair Genes in Prognostically-Favorable versus Unfavorable Uveal Melanoma
Cited by: 10
Author(s): Mehmet Doğrusöz, Andrea Ruschel Träsel, Jinfeng Cao, Selҫuk Ҫolak, Sake I. van Pelt, Wilma G. M. Kroes, Amina F.A.S. Teunisse, Samar Alsafadi, Sjoerd G. van Duinen, Gregorius P M Luyten, Pieter A. van der Velden, Adriana Amaro, Ulrich Pfeffer, Aart G. Jochemsen, Martine J. Jager
Software Mentions: 11
Published: over 6 years ago

10.3390/plants8120547

New Insights on Lilium Phylogeny Based on a Comparative Phylogenomic Study Using Complete Plastome Sequences
Cited by: 12
Author(s): Hyoung Tae Kim, Ki-Byung Lim, Jung Sung Kim
Software Mentions: 11
Published: over 6 years ago

10.12688/wellcomeopenres.15477.2

Feasibility of informing syndrome-level empiric antibiotic recommendations using publicly available antibiotic resistance datasets
Cited by: 5
Author(s): Quentin J. Leclerc, Nichola R. Naylor, Alexander M. Aiken, Francesc Español i Coll, Gwenan M. Knight
Software Mentions: 11
Published: almost 6 years ago

10.1016/j.csbj.2021.05.040

Robustness of differential gene expression analysis of RNA-seq
Cited by: 31
Author(s): Alexey Stupnikov, Caitríona E. McInerney, Kienan I. Savage, Stuart McIntosh, Frank Emmert‐Streib, Richard D. Kennedy, Manuel Salto-Tellez, Kevin M. Prise, Darragh G. McArt
Software Mentions: 11
Published: about 5 years ago

10.1038/s41598-021-82043-4

PACIFIC: a lightweight deep-learning classifier of SARS-CoV-2 and co-infecting RNA viruses
Cited by: 10
Author(s): Pablo Acera Mateos, Renzo F. Balboa, Simon Easteal, Eduardo Eyras, Hardip R. Patel
Software Mentions: 11
Published: about 5 years ago

10.3389/fneur.2019.00743

An Introduction to Software Tools, Data, and Services for Geospatial Analysis of Stroke Services
Cited by: 8
Author(s): Mark Padgham, Geoff Boeing, David Cooley, Nicholas Tierney, Michael Sumner, Thanh G. Phan, Richard Beare
Software Mentions: 11
Published: over 6 years ago

10.1128/mSystems.00316-20

Streamlined and Abundant Bacterioplankton Thrive in Functional Cohorts
Cited by: 8
Author(s): Rhiannon Mondav, Stefan Bertilsson, Moritz Buck, Silke Langenheder, Eva S. Lindström, Sarahi L. Garcia
Software Mentions: 11
Published: over 5 years ago

10.1002/ece3.6904

Light might suppress both types of sound‐evoked antipredator flight in moths
Cited by: 2
Author(s): Theresa Hügel, Holger R. Goerlitz
Software Mentions: 11
Published: over 5 years ago

10.1155/2017/7907163

A Multicriteria Approach to Find Predictive and Sparse Models with Stable Feature Selection for High-Dimensional Data
Cited by: 11
Author(s): Andrea Bommert, Jörg Rahnenführer, Michel Lang
Software Mentions: 11
Published: about 9 years ago

10.4178/epih.e2019006

Dose-response meta-analysis: application and practice using the R software
Cited by: 28
Author(s): Sung Ryul Shim, Jong Hoo Lee
Software Mentions: 11
Published: almost 7 years ago

10.1371/journal.pbio.3000595

A role for triglyceride lipase brummer in the regulation of sex differences in Drosophila fat storage and breakdown
Cited by: 69
Author(s): Lianna W Wat, Charlotte Chao, Rachael Bartlett, Justin Buchanan, Jason W Millington, Hui Ju Chih, Zahid Sadek Chowdhury, Puja Biswas, Vivian Huang, Leah J Shin, Lin Chuan Wang, Marie-Pierre Gauthier, Maria Cecilia Barone, Kristi L. Montooth, Michael A. Welte, Elizabeth J. Rideout
Software Mentions: 11
Published: about 6 years ago

10.7717/peerj.9494

Quantifying local ecological knowledge to model historical abundance of long-lived, heavily-exploited fauna
Cited by: 15
Author(s): Michelle María Early Capistrán, Elena Solana‐Arellano, F. Alberto Abreu‐Grobois, Nemer E. Narchi, Gerardo Garibay‐Melo, Jeffrey A. Seminoff, Volker Koch, Andrea Sáenz–Arroyo
Software Mentions: 11
Published: over 5 years ago

10.1093/molbev/msab091

Piggybacking on Niche Adaptation Improves the Maintenance of Multidrug-Resistance Plasmids
Cited by: 20
Author(s): Julia Maria Kloos, João Alves Gama, Joachim Hegstad, Ørjan Samuelsen, Pål Jarle Johnsen
Software Mentions: 11
Published: about 5 years ago

10.1038/s41598-019-41601-7

Characteristics and homogeneity of N6-methylation in human genomes
Cited by: 13
Author(s): Clare Pacini, Charles R. Bradshaw, Nigel Garrett, Magdalena J. Koziol
Software Mentions: 11
Published: almost 7 years ago

10.3758/s13428-020-01385-5

Improving the robustness of infant lexical processing speed measures
Cited by: 7
Author(s): Julia Egger, Caroline F. Rowland, Christina Bergmann
Software Mentions: 11
Published: almost 6 years ago

10.1186/1476-069X-13-57

The identification of complex interactions in epidemiology and toxicology: a simulation study of boosted regression trees
Cited by: 45
Author(s): Erik Lampa, Lars Lind, P. Monica Lind, Anna Bornefalk-Hermansson
Software Mentions: 11
Published: over 11 years ago

10.1371/journal.pcbi.1006207

Network supporting contextual fear learning after dorsal hippocampal damage has increased dependence on retrosplenial cortex
Cited by: 18
Author(s): Cesar A.O. Coelho, Tatiana Lima Ferreira, Juliana Carlota Kramer Soares, João Ricardo Sato, Maria Gabriela Menezes Oliveira
Software Mentions: 11
Published: over 7 years ago

10.1186/1756-0500-3-81

Analysing time course microarray data using Bioconductor: a case study using yeast2 Affymetrix arrays
Cited by: 17
Author(s): Colin S. Gillespie, Guiyuan Lei, Richard J. Boys, Amanda Greenall, Darren J. Wilkinson
Software Mentions: 11
Published: about 16 years ago

10.3389/fimmu.2018.02191

Single Cell RNA Sequencing Identifies HSPG2 and APLNR as Markers of Endothelial Cell Injury in Systemic Sclerosis Skin
Cited by: 48
Author(s): Sokratis A. Apostolidis, Giuseppina Stifano, Tracy Tabib, Lisa Rice, Christina Morse, Bashar Kahaleh, Robert Lafyatis
Software Mentions: 11
Published: over 7 years ago

10.1186/1471-2105-10-74

RGG: A general GUI Framework for R scripts
Cited by: 7
Author(s): Ilhami Visne, Erkan Dilaveroǧlu, Klemens Vierlinger, Martin Lauss, Ahmet Yıldız, Andreas Weinhäusel, Christa Noehammer, Friedrich Leisch, Albert Kriegner
Software Mentions: 11
Published: about 17 years ago

10.1038/s41392-021-00753-7

Single-cell immune profiling reveals distinct immune response in asymptomatic COVID-19 patients
Cited by: 18
Author(s): Xiang-Na Zhao, Yue You, Xiaoming Cui, Han Gao, Guolin Wang, Shengbo Zhang, Lilin Ye, Lei Duan, Ka-Li Zhu, Yuling Wang, Li Li, Jianhua Lu, Haibin Wang, Jingfang Fan, Huanwei Zheng, Erfu Dai, Luyi Tian, Mai‐Juan Ma
Software Mentions: 11
Published: over 4 years ago

10.1128/mSystems.00200-20

High-Throughput Stool Metaproteomics: Method and Application to Human Specimens
Cited by: 14
Author(s): Carlos Gutiérrez González, Hannah C. Wastyk, Madeline Topf, Christopher D. Gardner, Justin L. Sonnenburg, Joshua E. Elias
Software Mentions: 11
Published: over 5 years ago

10.1186/s40168-019-0658-x

Sunbeam: an extensible pipeline for analyzing metagenomic sequencing experiments
Cited by: 124
Author(s): Erik L. Clarke, Louis J. Taylor, Chunyu Zhao, Andrew Jesse Connell, Jung‐Jin Lee, Bryton Fett, Frederic D. Bushman, Kyle Bittinger
Software Mentions: 11
Published: about 7 years ago

10.3389/fonc.2021.626654

Identification of a Novel Four-Gene Signature Correlated With the Prognosis of Patients With Hepatocellular Carcinoma: A Comprehensive Analysis
Cited by: 7
Author(s): Weihua Zhu, Lixin Ru, Zhenchao Ma
Software Mentions: 11
Published: about 5 years ago

10.1186/s42523-020-00045-5

Influences of claywater and greenwater on the skin microbiome of cultured larval sablefish (Anoplopoma fimbria)
Cited by: 4
Author(s): Emily Dodd, Melissa L. Pierce, Jonathan S. F. Lee, Rachel Poretsky
Software Mentions: 11
Published: over 5 years ago

10.1186/s12913-021-06509-x

Importance of patient bed pathways and length of stay differences in predicting COVID-19 hospital bed occupancy in England
Cited by: 20
Author(s): Quentin J. Leclerc, Naomi M. Fuller, Ruth H. Keogh, Karla Díaz-Ordaz, Richard Sekula, Malcolm G Semple, J Kenneth Baillie, Malcolm G Semple, Peter Openshaw, Gail Carson, Beatrice Alex, Benjamin Bach, Wendy S. Barclay, Debby Bogaert, Meera Chand, Graham Cooke, Annemarie B Docherty, Jake Dunning, Ana da Silva Filipe, Tom Fletcher, Christopher Green, Ewen M Harrison, Julian A. Hiscox, Antonia Ho, Peter Horby, Samreen Ijaz, Saye Khoo, Paul Klenerman, Andrew Law, Wei Shen Lim, Alexander J. Mentzer, Laura Merson, Alison Meynert, Mahdad Noursadeghi, Shona C. Moore, Massimo Palmarini, William A. Paxton, Georgios Pollakis, Nicholas Price, Andrew Rambaut, David L. Robertson, Clark D Russell, Vanessa Sancho‐Shimizu, Janet T. Scott, Thushan I. de Silva, Louise Sigfrid, Tom Solomon, Shiranee Sriskandan, D.I. Stuart, Charlotte Summers, Richard S. Tedder, Emma C. Thomson, A. A. Roger Thompson, Ryan S. Thwaites, Lance Turtle, Maria Zambon, Hayley Hardwick, Chloe Donohue, Ruth Lyons, Fiona Griffiths, Wilna Oosthuyzen, Lisa Norman, Riinu Pius, Tom Drake, Cameron J Fairfield, Stephen R Knight, Kenneth A McLean, Derek Murphy, Catherine Shaw, Jo Ann Dalton, James Lee, Daniel Plotkin, Michelle Girvan, Eglė Savičiūtė, Stephanie Roberts, Janet Harrison, Laura Marsh, Marie Connor, Sophie Halpin, Clare Jackson, Carrol Gamble, Claire Petersen, Scott Mullaney, Gary Leeming, Murray Wham, Sara Clohisey, Ross Hendry, James Scott-Brown, William Greenhalf, Victoria Shaw, Sarah E. McDonald, Seán Keating, Katie A. Ahmed, J. A. Armstrong, Milton Ashworth, Innocent G Asiimwe, Siddharth Bakshi, Samantha L. Barlow, Laura Booth, Benjamin Brennan, Katie Bullock, Benjamin W. A. Catterall, Jordan Clark, Emily Clarke, Sarah Cole, Louise Cooper, Helen Cox, Christopher Davis, Oslem Dincarslan, Chris Dunn, Philip Dyer, Angela Elliott, Anthony Evans, Lorna Finch, L. W. Fisher, Terry Foster, Isabel García-Dorival, Philip Gunning, Catherine Hartley, Antonia Ho, Rebecca L. Jensen, Christopher B. Jones, Trevor R. Jones, Shadia Khandaker, Katharine King, Robyn T. Kiy, Chrysa Koukorava, Annette Lake, Suzannah Lant, Diane Latawiec, Lara Lavelle-Langham, Daniella Lefteri, Lauren Lett, Lucia A Livoti, Maria Elisabetta Mancini, Sarah E. McDonald, Laurence McEvoy, John McLauchlan, Soeren Metelmann, Nahida S. Miah, Joanna Middleton, Joyce M. Mitchell, Ellen Murphy, Rebekah Penrice-Randal, Jack Pilgrim, Tessa Prince, Will Reynolds, Paul Ridley, Debby Sales, Victoria Shaw, Rebecca K. Shears, Benjamin Small, Krishanthi Subramaniam, Agnieska Szemiel, Aislynn Taggart, Jolanta Tanianis-Hughes, Jordan Thomas, Erwan Trochu, Libby van Tonder, Eve Wilcock, J. Eunice Zhang, Kayode Adeniji, Daniel Agranoff, Ken Agwuh, Dhiraj Ail, Ana Alegria, Brian Angus, Abdul Ashish, D. Atkinson, Shahedal Bari, Gavin Barlow, Stella Barnass, Nicholas Barrett, Christopher Bassford, David Baxter, Michael Beadsworth, Jolanta Bernatoniene, John C. Berridge, Nicola Best, Pieter Bothma, David Brealey, Robin Brittain-Long, Naomi Bulteel, Tom Burden, Andrew Burtenshaw, Vikki Caruth, David Chadwick, Duncan Chambler, Nigel Chee, Jenny Child, Srikanth Chukkambotla, Tom Clark, Paul Collini, Catherine Cosgrove, Jason Cupitt, Maria-Teresa Cutino-Moguel, Paul Dark, Chris Dawson, Samir Dervisevic, Phil Donnison, Sam Douthwaite, Ingrid DuRand, Ahilanadan Dushianthan, Tristan Dyer, Cariad Evans, Alice C Eziefula, Chrisopher Fegan, Adam Finn, Duncan Fullerton, Sanjeev Garg, Sanjeev Garg, Atul Garg, Effrossyni Gkrania‐Klotsas, Jo Godden, Arthur R. Goldsmith, Clive Graham, Elaine Hardy, Stuart Hartshorn, Daniel Harvey, Peter Havalda, Daniel B. Hawcutt, Maria Hobrok, Luke Hodgson, Anil Hormis, Michael Jacobs, Susan Jain, Paul Jennings, Agilan Kaliappan, Vidya Kasipandian, Stephen Kegg, M.C. Kelsey, Jason Kendall, Caroline Kerrison, Ian Kerslake, Oliver Koch, Gouri Koduri, George Koshy, Shondipon Laha, Steven Laird, Susan Larkin, Tamás Leiner, Patrick Lillie, James Limb, Vanessa Linnett, Jeff Little, Michael MacMahon, Emily Macnaughton, Ravish Mankregod, Huw Masson, Elijah Matovu, Katherine McCullough, Ruth McEwen, Manjula Meda, Gary L. Mills, Jane Minton, Mariyam Mirfenderesky, Kavya Mohandas, Quen Mok, James Moon, Elinoor Moore, Patrick Morgan, Craig C. Morris, Katherine Mortimore, Samuel Moses, Mbiye Mpenge, Rohinton Mulla, Michael V. Murphy, Megan Nagel, Thapas Nagarajan, Mark Nelson, Igor Otahal, Mark Pais, Selva Panchatsharam, Hassan Paraiso, Brij Patel, Natalie Pattison, Justin Pepperell, Mark Peters, Mandeep Phull, Stefania Pintus, Jagtur Singh Pooni, Frank A. Post, David J. Price, Rachel Prout, Nikolas Rae, Henrik Reschreiter, Tim Reynolds, Neil Richardson, Mark Roberts, Devender Roberts, Alistair Rose, Guy Rousseau, Brendan Ryan, Taranprit Saluja, Aarti Shah, Prad Shanmuga, Anil Sharma, Anna Shawcross, Jeremy Sizer, Manu Shankar-Hari, Richard Smith, Catherine Snelson, Nick Spittle, Nikki Staines, Tom Stambach, Richard Stewart, Pradeep Subudhi, Tamás Szakmány, Kate Tatham, Thomas Jo, Chris Thompson, Robert J. Thompson, Ascanio Tridente, Darell Tupper-Carey, Mary Twagira, Andrew Ustianowski, Nick Vallotton, Lisa Vincent-Smith, Shico Visuvanathan, Alan Vuylsteke, Sam Waddy, Rachel Wake, Andrew Walden, Ingeborg Welters, Tony Whitehouse, Paul Whittaker, Ashley Whittington, Meme Wijesinghe, Martin Williams, Lawrence A. Wilson, Sarah Wilson, Stephen Winchester, Martin Wiselka, Adam Wolverson, Daniel G. Wooton, Andrew Workman, Bryan Yates, Peter Young, Matthew Quaife, Christopher Jarvis, Sophie Meakin, Billy J Quilty, Kiesha Prem, C. Julian Villabona-Arenas, Fiona Yueqian Sun, Kaja Abbas, Megan Auzenbergs, Amy Gimma, Damien C. Tully, Katharine Sherratt, Alicia Roselló, Nicholas Davies, Yang Liu, Rachel Lowe, Hamish Gibbs, Naomi R. Waterlow, W. John Edmunds, David Simons, Graham Medley, James D. Munday, Stefan Flasche, Frank Sandmann, Alicia Showering, Rosalind M Eggo, Yung-Wai Desmond Chan, Carl A. B. Pearson, Adam J. Kucharski, Anna M Foss, Timothy Russell, Nikos I. Bosse, Mark Jit, Sam Abbott, Jack Williams, Akira Endo, Samuel Clifford, Georgia R. Gore-Langton, Petra Klepac, Oliver J. Brady, Joel Hellewell, Sebastian Funk, Kevin van Zandvoort, Rosanna C. Barnard, Emily Nightingale, Thibaut Jombart, Katherine E. Atkins, Simon R. Procter, Gwenan M. Knight
Software Mentions: 11
Published: almost 5 years ago

10.1007/s00394-020-02351-9

Gluten intake and metabolic health: conflicting findings from the UK Biobank
Cited by: 13
Author(s): Inken Behrendt, Mathias Faßhauer, Gerrit Eichner
Software Mentions: 11
Published: over 5 years ago

10.3389/fonc.2014.00147

An Integrative Analysis of Meningioma Tumors Reveals the Determinant Genes and Pathways of Malignant Transformation
Cited by: 7
Author(s): José Carlos Iglesias Gómez, Adrián Mosquera Orgueira
Software Mentions: 11
Published: almost 12 years ago

10.3389/fpls.2020.599228

Hormopriming to Mitigate Abiotic Stress Effects: A Case Study of N9-Substituted Cytokinin Derivatives With a Fluorinated Carbohydrate Moiety
Cited by: 17
Author(s): Magdaléna Bryksová, Andrea Hybenová, Alba E. Hernándiz, Ondřej Novák, Aleš Pěnčík, Lukáš Spíchal, Nuria De Diego, Karel Doležal
Software Mentions: 11
Published: over 5 years ago

10.3389/fgene.2021.692426

A Ferroptosis-Related Gene Signature Identified as a Novel Prognostic Biomarker for Colon Cancer
Cited by: 15
Author(s): Xin Qi, Rui Wang, Yuxin Lin, Donghui Yan, Jiachen Zuo, Jiajia Chen, Bairong Shen
Software Mentions: 11
Published: over 4 years ago

10.1038/s41421-021-00314-w

Single-cell RNA-Seq reveals transcriptional heterogeneity and immune subtypes associated with disease activity in human myasthenia gravis
Cited by: 12
Author(s): Jin Wu, Qi Yang, Yuyao Peng, Chengkai Yan, Yi Li, Zhaohui Luo, Bo Xiao, Liqun Xu, Huan Yang
Software Mentions: 11
Published: over 4 years ago

10.3389/fmicb.2019.02291

Reduced Gut Microbiome Diversity and Metabolome Differences in Rhinoceros Species at Risk for Iron Overload Disorder
Cited by: 25
Author(s): Terri L. Roth, Alexandra D. Switzer, Miki Watanabe-Chailland, Elisabeth M. Bik, David A. Relman, Lindsey E. Romick-Rosendale, Nicholas J. Ollberding
Software Mentions: 11
Published: over 6 years ago

10.1016/j.ctro.2021.06.005

Development and internal validation of multivariable prediction models for biochemical failure after MRI-guided focal salvage high-dose-rate brachytherapy for radiorecurrent prostate cancer
Cited by: 4
Author(s): T. Willigenburg, Marieke van Son, Sandrine M.G. van de Pol, Wietse S.C. Eppinga, J J W Lagendijk, Hans C.J. de Boer, Marinus A. Moerland, Jochem R.N. van der Voort van Zyp, Max Peters
Software Mentions: 11
Published: over 4 years ago

10.3389/fonc.2020.584404

In silico Method in CRISPR/Cas System: An Expedite and Powerful Booster
Cited by: 6
Author(s): Yuwei Zhang, Guofang Zhao, Fatma Ahmed, Tianfei Yi, Shiyun Hu, Ting Cai, Qi Liao
Software Mentions: 11
Published: over 5 years ago

10.3390/ijms21218148

Utilizing PacBio Iso-Seq for Novel Transcript and Gene Discovery of Abiotic Stress Responses in Oryza sativa L.
Cited by: 25
Author(s): Stephanie Schaarschmidt, Axel Fischer, Lovely Mae F Lawas, Rejbana Alam, Endang M. Septiningsih, Julia Bailey‐Serres, Krishna Jagadish, Bruno Huettel, Dirk K. Hincha, Ellen Zuther
Software Mentions: 11
Published: over 5 years ago

10.3389/fpsyg.2021.545268

Beholden: The Emotional Effects of Having Eye Contact While Breaking Social Norms
Cited by: 2
Author(s): Ranjit K. Singh, Birgit J. Voggeser, Anja S. Göritz
Software Mentions: 11
Published: almost 5 years ago

10.3897/BDJ.8.e56876

Environmental DNA revealed the fish community of Hokkaido Island, Japan, after invasion by rainbow trout
Cited by: 5
Author(s): Akio Imamura, Kana Hayami, Masato Sakata, Toshifumi Minamoto
Software Mentions: 11
Published: over 5 years ago

10.1186/s41044-019-0043-6

A substrate for modular, extensible data-visualization
Cited by: 6
Author(s): Jordan Matelsky, Joseph Downs, Hannah Cowley, Brock Wester, William Gray-Roncal
Software Mentions: 11
Published: about 6 years ago

10.1007/s11306-016-1090-x

Discovery of A-type procyanidin dimers in yellow raspberries by untargeted metabolomics and correlation based data analysis
Cited by: 6
Author(s): Elisabete Carvalho, Pietro Franceschi, Antje Feller, Lorena Herrera, L. Palmieri, Panagiotis Arapitsas, Samantha Riccadonna, Stefan Martens
Software Mentions: 11
Published: over 9 years ago

10.7554/eLife.62147

Role of matrix metalloproteinase-9 in neurodevelopmental deficits and experience-dependent plasticity in Xenopus laevis
Cited by: 6
Author(s): Sayali V Gore, Eric J. James, Lin-Chien Huang, Jenn J Park, Andrea Berghella, Adrian C. Thompson, Hollis T. Cline, Carlos D. Aizenman
Software Mentions: 11
Published: over 4 years ago

10.1371/journal.pone.0207451

Functional roles and redundancy of demersal Barents Sea fish: Ecological implications of environmental change
Cited by: 16
Author(s): Magnus Aune, Michaela Aschan, Michael Greenacre, Andrey V. Dolgov, Maria Fossheim, Raul Primicerio
Software Mentions: 11
Published: over 7 years ago

10.1371/journal.pone.0242331

Ocean warming affected faunal dynamics of benthic invertebrate assemblages across the Toarcian Oceanic Anoxic Event in the Iberian Basin (Spain)
Cited by: 4
Author(s): Veronica Piazza, Clemens V. Ullmann, Martin Aberhan
Software Mentions: 11
Published: over 5 years ago

10.1155/2021/6664386

Hypoxia Molecular Characterization in Hepatocellular Carcinoma Identifies One Risk Signature and Two Nomograms for Clinical Management
Cited by: 23
Author(s): Xinwei Han, Long Liu, Taoyuan Lu, Libo Wang, Zhaonan Li, Dechao Jiao, Xinwei Han
Software Mentions: 11
Published: about 5 years ago

10.3389/fmolb.2021.611508

CXCL10 is a Tumor Microenvironment and Immune Infiltration Related Prognostic Biomarker in Pancreatic Adenocarcinoma
Cited by: 17
Author(s): Huimin Huang, Wangxiao Zhou, Renpin Chen, Bingfeng Xiang, Shipeng Zhou, Linhua Lan
Software Mentions: 11
Published: about 5 years ago

10.3389/fonc.2021.593587

A Nomogram Combining a Four-Gene Biomarker and Clinical Factors for Predicting Survival of Melanoma
Cited by: 4
Author(s): Chuan Zhang, Dan Dang, Yuqian Wang, Xianling Cong
Software Mentions: 11
Published: almost 5 years ago

10.1534/g3.120.401270

Application of Transcriptional Gene Modules to Analysis of <i>Caenorhabditis elegans</i>’ Gene Expression Data
Cited by: 7
Author(s): Michael Cary, Katie Podshivalova, Cynthia Kenyon
Software Mentions: 11
Published: over 5 years ago

10.1186/s12885-019-5965-x

Distinct signatures of lung cancer types: aberrant mucin O-glycosylation and compromised immune response
Cited by: 32
Author(s): Marta Lucchetta, Isabelle da Piedade, Mohamed Mounir, Marina Vabistsevits, Thilde Terkelsen, Elena Papaleo
Software Mentions: 11
Published: over 6 years ago

10.1002/ece3.6407

Occupancy‐derived thermal affinities reflect known physiological thermal limits of marine species
Cited by: 8
Author(s): Thomas J. Webb, Aaron Lines, Leigh Michael Howarth
Software Mentions: 11
Published: almost 6 years ago

10.1186/s13073-016-0285-0

Long noncoding RNAs expressed in human hepatic stellate cells form networks with extracellular matrix proteins
Cited by: 55
Author(s): Chan Zhou, Samuel R. York, Jennifer Y. Chen, Joshua V. Pondick, Daniel L. Motola, Raymond T. Chung, Alan C. Mullen
Software Mentions: 11
Published: about 10 years ago

10.3390/ijms221910302

The Impact of m1A Methylation Modification Patterns on Tumor Immune Microenvironment and Prognosis in Oral Squamous Cell Carcinoma
Cited by: 17
Author(s): Li Gao, Ru Chen, Masahiro Sugimoto, Masanobu Mizuta, Yo Kishimoto, Koichi Omori
Software Mentions: 11
Published: over 4 years ago

10.2196/jmir.9710

Internet-Based Cognitive Behavioral Therapy for Symptoms of Depression and Anxiety Among Patients With a Recent Myocardial Infarction: The U-CARE Heart Randomized Controlled Trial
Cited by: 66
Author(s): Fredrika Norlund, Emma Wallin, Erik Olsson, John Wallert, Gunilla Burell, Louise von Essén, Claes Held
Software Mentions: 11
Published: about 8 years ago

10.1186/1471-2164-9-419

Transcriptomic responses to 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD) in liver: Comparison of rat and mouse
Cited by: 74
Author(s): Paul C. Boutros, Rui Yan, Ivy D. Moffat, Raimo Pohjanvirta, Allan B. Okey
Software Mentions: 11
Published: about 18 years ago

10.1186/s42523-020-00066-0

Functional plasticity in oyster gut microbiomes along a eutrophication gradient in an urbanized estuary
Cited by: 16
Author(s): Rebecca J. Stevick, Anton F. Post, Marta Gómez-Chiarri
Software Mentions: 11
Published: about 5 years ago

10.1371/journal.pone.0183626

Species distribution models: A comparison of statistical approaches for livestock and disease epidemics
Cited by: 21
Author(s): Tracey Hollings, Andrew P. Robinson, Mary van Andel, Chris Jewell, Mark A. Burgman
Software Mentions: 11
Published: over 8 years ago

10.3389/fonc.2021.640150

Construction of Competitive Endogenous RNA Network and Verification of 3-Key LncRNA Signature Associated With Distant Metastasis and Poor Prognosis in Patients With Clear Cell Renal Cell Carcinoma
Cited by: 19
Author(s): Yang Su, Tianxiang Zhang, Jiapeng Tang, Li Zhang, Song Fan, Jun Zhou, Chaozhao Liang
Software Mentions: 11
Published: about 5 years ago

10.1186/s12918-018-0662-y

Integrating node embeddings and biological annotations for genes to predict disease-gene associations
Cited by: 27
Author(s): Sezin Kircali Ata, Le Ou-Yang, Yuan Fang, Chee-Keong Kwoh, Min Wu, Xiaoli Li
Software Mentions: 11
Published: over 7 years ago

10.7554/eLife.49921

Combinatorial chromatin dynamics foster accurate cardiopharyngeal fate choices
Cited by: 21
Author(s): Claudia Racioppi, Keira A Wiechecki, Lionel Christiaen
Software Mentions: 11
Published: over 6 years ago

10.3389/fgene.2020.00548

Rcirc: An R Package for circRNA Analyses and Visualization
Cited by: 8
Author(s): Peisen Sun, Haoming Wang, Guanglin Li
Software Mentions: 11
Published: almost 6 years ago

10.1002/ece3.7515

Forest <i>Saccharomyces paradoxus</i> are robust to seasonal biotic and abiotic changes
Cited by: 4
Author(s): Primrose J. Boynton, Dominika Wloch‐Salamon, Doreen Landermann, Eva H. Stukenbrock
Software Mentions: 11
Published: almost 5 years ago

10.1186/s12885-021-07924-3

A geospatiotemporal and causal inference epidemiological exploration of substance and cannabinoid exposure as drivers of rising US pediatric cancer rates
Cited by: 26
Author(s): Albert Stuart Reece, Gary Kenneth Hulse
Software Mentions: 11
Published: about 5 years ago

10.1099/mgen.0.000165

Evolution of carbapenem resistance in Acinetobacter baumannii during a prolonged infection
Cited by: 45
Author(s): Jane Hawkey, David B. Ascher, Louise M. Judd, Ryan R. Wick, Xenia Kostoulias, Heather Cleland, Denis Spelman, Alex Padiglione, Anton Y. Peleg, Kathryn E. Holt
Software Mentions: 11
Published: about 8 years ago

10.1111/eva.13274

SNP analyses and acoustic tagging reveal multiple origins and widespread dispersal of invasive brown trout in the Falkland Islands
Cited by: 2
Author(s): Jessica F. Minett, Carlos García de Leániz, Halina Sobolewska, Paul Brickle, Glenn T. Crossin, Sofía Consuegra
Software Mentions: 11
Published: over 4 years ago