cran: plotly | Projects | Ecosyste.ms: Papers

10.2196/28265

Correlation of Population SARS-CoV-2 Cycle Threshold Values to Local Disease Dynamics: Exploratory Observational Study
Cited by: 18
Author(s): Chak Foon Tso, Anurag Garikipati, Abigail Green‐Saxena, Qingqing Mao, Ritankar Das
Software Mentions: 6
Published: over 3 years ago

10.3389/fimmu.2019.03023

Distinct Immunological Landscapes Characterize Inherited and Sporadic Mismatch Repair Deficient Endometrial Cancer
Cited by: 43
Author(s): Neal C Ramchander, Neil Ryan, Thomas D. J. Walker, Lauren J. Harries, James M. Bolton, Tjalling Bosse, D. Gareth Evans, Emma J. Crosbie
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0247824

A classic approach for determining genomic prediction accuracy under terminal drought stress and well-watered conditions in wheat landraces and cultivars
Cited by: 5
Author(s): Morteza Shabannejad, M. R. Bihamta, Eslam Majidi-Hervan, Hadi Alipour, Asa Ebrahimi
Software Mentions: 5
Published: over 3 years ago

10.1186/s12866-019-1545-0

Effects of an over-the-counter lactic-acid containing intra-vaginal douching product on the vaginal microbiota
Cited by: 17
Author(s): Charlotte van der Veer, Sylvia M. Bruisten, Robin van Houdt, Amy Matser, Gilda Tachedjian, Janneke van de Wijgert, Henry J.C. de Vries, Jürgen Helm
Software Mentions: 5
Published: over 5 years ago

10.1590/1678-4685-GMB-2019-0270

Methodological differences can affect sequencing depth with a possible impact on the accuracy of genetic diagnosis
Cited by: 2
Author(s): Murilo Guimarães Borges, Cristiane S. Rocha, Benilton Carvalho, Íscia Lopes‐Cendes
Software Mentions: 5
Published: almost 5 years ago

10.1093/gigascience/giaa046

Global ocean resistome revealed: Exploring antibiotic resistance gene abundance and distribution in TARA Oceans samples
Cited by: 49
Author(s): Rafael R. C. Cuadrat, Maria Sorokina, Bruno de Bezerril Andrade, Tobias Goris, Alberto M. R. Dávila
Software Mentions: 5
Published: over 4 years ago

10.3390/life11010042

Knowledge Network Embedding of Transcriptomic Data from Spaceflown Mice Uncovers Signs and Symptoms Associated with Terrestrial Diseases
Cited by: 8
Author(s): Charlotte Nelson, Ana Uriarte Acuna, Amber M. Paul, Ryan T. Scott, Atul J. Butte, Egle Cekanaviciute, Sergio E. Baranzini, Sylvain V. Costes
Software Mentions: 5
Published: almost 4 years ago

10.3390/ijms21020468

Maternal Obesity Alters Placental Cell Cycle Regulators in the First Trimester of Human Pregnancy: New Insights for BRCA1
Cited by: 9
Author(s): Denise Hoch, Martina Bachbauer, Caroline Pöchlauer, Francisco Algaba-Chueca, Veronika Tandl, Boris Novakovic, Ana Megía, Martin Gauster, Richard Saffery, Andreas Glasner, Gernot Desoyé, Alejandro Majali-Martínez
Software Mentions: 5
Published: almost 5 years ago

10.1186/s12859-021-04161-0

BoardION: real-time monitoring of Oxford Nanopore sequencing instruments
Cited by: 4
Author(s): Aimeric Bruno, Jean‐Marc Aury, Stéfan Engelen
Software Mentions: 5
Published: over 3 years ago

10.7554/eLife.68699

Multi-syndrome, multi-gene risk modeling for individuals with a family history of cancer with the novel R package PanelPRO
Cited by: 9
Author(s): Gavin Lee, Jane W. Liang, Qing Zhang, Theodore Huang, Christine Choirat, Giovanni Parmigani, Danielle Braun
Software Mentions: 5
Published: over 3 years ago

10.7554/eLife.54385

Polyploidy in the adult Drosophila brain
Cited by: 30
Author(s): Shyama Nandakumar, Olga Grushko, Laura Buttitta
Software Mentions: 5
Published: about 4 years ago

10.2196/23530

Cystic Fibrosis Point of Personalized Detection (CFPOPD): An Interactive Web Application
Cited by: 2
Author(s): Christopher Wolfe, Teresa Pestian, Emrah Gecili, Weiji Su, Ruth H. Keogh, John Pestian, Michael Seid, Peter J. Diggle, Assem G. Ziady, John Clancy, Daniel H. Grossoehme, Rhonda Szczesniak, Cole Brokamp
Software Mentions: 5
Published: almost 4 years ago

10.18632/aging.102822

Transcriptomic and metabolomic profiling of long-lived growth hormone releasing hormone knock-out mice: evidence for altered mitochondrial function and amino acid metabolism
Cited by: 13
Author(s): Jessica M. Hoffman, Aliza Poonawalla, Mert Icyuz, William R. Swindell, Landon Wilson, Stephen Barnes, Liou Y. Sun
Software Mentions: 5
Published: over 4 years ago

10.7554/eLife.62529

Journal policies and editors’ opinions on peer review
Cited by: 24
Author(s): Daniel G Hamilton, Hannah Fraser, Rink Hoekstra, Fiona Fidler
Software Mentions: 5
Published: about 4 years ago

10.1093/database/bax080

Edaphostat: interactive ecological analysis of soil organism occurrences and preferences from the Edaphobase data warehouse
Cited by: 0
Author(s): Jonas Hausen, Björn Scholz-Starke, Ulrich Burkhardt, Stephan Lesch, Sebastian Rick, David J. Russell, Martina Roß-Nickoll, Andreas Schäffer
Software Mentions: 5
Published: almost 8 years ago

10.1038/s41598-020-58528-z

Breeding Brown Pelicans Improve Foraging Performance as Energetic Needs Rise
Cited by: 13
Author(s): Brock Geary, Paul L. Leberg, Kevin M. Purcell, Scott T. Walter, Jordan Karubian
Software Mentions: 5
Published: almost 5 years ago

10.1186/s12934-021-01675-3

Automation assisted anaerobic phenotyping for metabolic engineering
Cited by: 3
Author(s): Kaushik Raj, Naveen Venayak, Patrick Diep, Sai Akhil Golla, Alexander F. Yakunin, Radhakrishnan Mahadevan
Software Mentions: 5
Published: about 3 years ago

10.1186/s13059-020-02138-5

Ultrasensitive deletion detection links mitochondrial DNA replication, disease, and aging
Cited by: 40
Author(s): Scott A. Lujan, Matthew J. Longley, Margaret H. Humble, Christopher A. Lavender, Adam Burkholder, Emma L. Blakely, Charlotte L. Alston, Gráinne Gorman, D.M. Turnbull, Robert McFarland, Robert W. Taylor, Thomas A. Kunkel, William C. Copeland
Software Mentions: 4
Published: about 4 years ago

10.1186/s12915-021-01104-2

A novel plant-fungal association reveals fundamental sRNA and gene expression reprogramming at the onset of symbiosis
Cited by: 7
Author(s): Ena Šečić, Silvia Zanini, Daniel Wibberg, Lukas Jelonek, Tobias Busche, Jörn Kalinowski, Sabrine Nasfi, Jennifer Thielmann, Jafargholi Imani, Jens Steinbrenner, Karl‐Heinz Kogel
Software Mentions: 4
Published: about 3 years ago

10.1038/s41598-020-73987-0

The SensorOverlord predicts the accuracy of measurements with ratiometric biosensors
Cited by: 4
Author(s): Julian A Stanley, Sean B Johnsen, Javier Apfeld
Software Mentions: 4
Published: about 4 years ago

10.7554/eLife.57274

Estrogen exacerbates mammary involution through neutrophil-dependent and -independent mechanism
Cited by: 14
Author(s): Chew Leng Lim, Yu Zuan Or, Zoe Ong, Hwa Hwa Chung, Hirohito Hayashi, Smeeta Shrestha, Shunsuke Chiba, Feng Lin, Valerie Chun Ling Lin
Software Mentions: 4
Published: over 4 years ago

10.3389/fneur.2020.00773

Computer Modeling of Clot Retrieval—Circle of Willis
Cited by: 6
Author(s): Thanh G. Phan, Henry Ma, Mayank Goyal, James Hilton, Matthew D. Sinnott, Velandai Srikanth, Richard Beare
Software Mentions: 4
Published: over 4 years ago

10.1038/s41598-021-81269-6

Chronic BDNF simultaneously inhibits and unmasks superficial dorsal horn neuronal activity
Cited by: 4
Author(s): Sascha R.A. Alles, Max A. Odem, Van B. Lu, Ryan M. Cassidy, Peter A. Smith
Software Mentions: 4
Published: almost 4 years ago

10.1038/s41598-021-84173-1

Predictive values, uncertainty, and interpretation of serology tests for the novel coronavirus
Cited by: 19
Author(s): Naomi C. Brownstein, Yian Ann Chen
Software Mentions: 4
Published: over 3 years ago

10.1186/s12916-021-01963-0

Variation in hypertension clinical practice guidelines: a global comparison
Cited by: 15
Author(s): Richu Philip, Thomas Beaney, Nick Appelbaum, Carmen Rodríguez Gonzálvez, Charlotte Koldeweij, Amelia Kataria Golestaneh, Jonathan Clarke
Software Mentions: 4
Published: over 3 years ago

10.1186/s12859-017-1790-x

Bayesian Unidimensional Scaling for visualizing uncertainty in high dimensional datasets with latent ordering of observations
Cited by: 13
Author(s): Linh P. Nguyen, Susan Holmes
Software Mentions: 4
Published: about 7 years ago

10.1038/s41598-020-70582-1

Morphological and genome-wide evidence for natural hybridisation within the genus Stipa (Poaceae)
Cited by: 17
Author(s): Evgenii Baiakhmetov, Arkadiusz Nowak, Polina D. Gudkova, Marcin Nobis
Software Mentions: 4
Published: over 4 years ago

10.3389/fmicb.2017.02223

Modeling Effects of Temperature, Soil, Moisture, Nutrition and Variety As Determinants of Severity of Pythium Damping-Off and Root Disease in Subterranean Clover
Cited by: 17
Author(s): Ming Pei You, Kelly Rensing, Michael Renton, Martin J. Barbetti
Software Mentions: 4
Published: about 7 years ago

10.1098/rspb.2021.0721

Characterizing the modern light environment and its influence on circadian rhythms
Cited by: 5
Author(s): Dennis Khodasevich, Susan Tsui, Darwin Keung, Debra J. Skene, Victoria L. Revell, Micaela E Martinez
Software Mentions: 4
Published: over 3 years ago

10.1371/journal.pcbi.1008554

Ten simple rules for navigating the computational aspect of an interdisciplinary PhD
Cited by: 1
Author(s): Sabrina Islam, Christine A. Wells
Software Mentions: 4
Published: almost 4 years ago

10.3389/fmolb.2021.715215

Decoding Partner Specificity of Opioid Receptor Family
Cited by: 3
Author(s): Carlos Barreto, Salete J. Baptista, António Preto, Daniel Silvério, Rita Melo, Irina S. Moreira
Software Mentions: 4
Published: about 3 years ago

10.1038/s41598-019-40897-9

Extensive epigenetic and transcriptomic variability between genetically identical human B-lymphoblastoid cells with implications in pharmacogenomics research
Cited by: 17
Author(s): Lilla Ozgyin, Attila Horváth, Zsuzsanna Hevessy, Bálint László Bálint
Software Mentions: 4
Published: over 5 years ago

10.1590/1678-4685-GMB-2020-0047

The impact of post-alignment processing procedures on whole-exome sequencing data
Cited by: 0
Author(s): Murilo Guimarães Borges, Helena Tadiello de Moraes, Cristiane S. Rocha, Íscia Lopes‐Cendes
Software Mentions: 4
Published: almost 5 years ago

10.1186/s12711-017-0368-4

ShinyGPAS: interactive genomic prediction accuracy simulator based on deterministic formulas
Cited by: 8
Author(s): Gota Morota
Software Mentions: 4
Published: almost 7 years ago

10.7554/eLife.56801

Slightly beneficial genes are retained by bacteria evolving DNA uptake despite selfish elements
Cited by: 26
Author(s): Bram van Dijk, Paulien Hogeweg, Hilje M. Doekes, Nobuto Takeuchi
Software Mentions: 3
Published: over 4 years ago

10.3389/fpls.2017.00564

Modular Design of Picroside-II Biosynthesis Deciphered through NGS Transcriptomes and Metabolic Intermediates Analysis in Naturally Variant Chemotypes of a Medicinal Herb, Picrorhiza kurroa
Cited by: 19
Author(s): Varun Kumar, Ankush Bansal, Rajinder Singh Chauhan
Software Mentions: 3
Published: over 7 years ago

10.3389/fpls.2019.01396

Desiccation-Driven Senescence in the Resurrection Plant Xerophyta schlechteri (Baker) N.L. Menezes: Comparison of Anatomical, Ultrastructural, and Metabolic Responses Between Senescent and Non-Senescent Tissues
Cited by: 19
Author(s): Astrid Lillie Radermacher, S. Francois du Toit, Jill M. Farrant
Software Mentions: 3
Published: about 5 years ago

10.3389/fimmu.2021.666953

Highly Sensitive Flow Cytometry Allows Monitoring of Changes in Circulating Immune Cells in Blood After Tdap Booster Vaccination
Cited by: 13
Author(s): Annieck M Diks, Indu Khatri, Liesbeth E.M. Oosten, Bas de Mooij, Rick J Groenland, Cristina Teodósio, Martín Pérez‐Andrés, Alberto Órfão, Guy A. M. Berbers, Jaap Jan Zwaginga, Jacques J.M. van Dongen, Magdalena A. Berkowska
Software Mentions: 3
Published: over 3 years ago

10.3389/fdata.2020.00032

Dashboard of Sentiment in Austrian Social Media During COVID-19
Cited by: 24
Author(s): Max Pellert, Jana Lasser, Hannah Metzler, David García
Software Mentions: 3
Published: about 4 years ago

10.3389/fvets.2016.00031

Wild and Domestic Pig Interactions at the Wildlife–Livestock Interface of Murchison Falls National Park, Uganda, and the Potential Association with African Swine Fever Outbreaks
Cited by: 32
Author(s): Esther A. Kukielka, Ferrán Jori, Beatriz Martínez‐López, Erika Chenais, Charles Masembe, David Chavernac, Karl Ståhl
Software Mentions: 3
Published: over 8 years ago

10.1016/j.stem.2021.02.005

Development, maturation, and maintenance of human prostate inferred from somatic mutations
Cited by: 25
Author(s): Sebastian Großmann, Yvette Hooks, Laura Wilson, Luiza Moore, Laura P. O’Neill, Iñigo Martincorena, Thierry Voet, Michael R. Stratton, Rakesh Heer, Peter J. Campbell
Software Mentions: 3
Published: over 3 years ago

10.3390/genes12010034

Biological Regulatory Network (BRN) Analysis and Molecular Docking Simulations to Probe the Modulation of IP3R Mediated Ca2+ Signaling in Cancer
Cited by: 2
Author(s): Humaira Ismatullah, Ishrat Jabeen, Muhammad Saeed
Software Mentions: 3
Published: almost 4 years ago

10.1371/journal.pone.0211508

Evidence of a trans-kingdom plant disease complex between a fungus and plant-parasitic nematodes
Cited by: 11
Author(s): David L. Wheeler, Jeness C. Scott, Jeremiah K. S. Dung, Dennis A. Johnson
Software Mentions: 3
Published: almost 6 years ago

10.3390/ijms19113340

Physical Background of the Disordered Nature of “Mutual Synergetic Folding” Proteins
Cited by: 6
Author(s): Csaba Magyar, Anikó Mentes, Erzsébet Fichó, Miklós Cserző, István Simon
Software Mentions: 3
Published: about 6 years ago

10.1002/osp4.402

Correlation of plasma metabolites with glucose and lipid fluxes in human insulin resistance
Cited by: 7
Author(s): Annick V. Hartstra, Pieter F. de Groot, Diogo Mendes Bastos, Evgeni Levin, Mireille J. Serlie, Maarten R. Soeters, Ceyda Tuğba Pekmez, Lars Ove Dragsted, Mariëtte T. Ackermans, Albert K. Groen, Max Nieuwdorp
Software Mentions: 3
Published: almost 5 years ago

10.1111/tpj.14115

High intraspecific diversity of <i>Restorer‐of‐fertility‐like</i> genes in barley
Cited by: 21
Author(s): Joanna Melonek, Ruonan Zhou, Philipp E. Bayer, David Edwards, Nils Stein, Ian Small
Software Mentions: 3
Published: about 6 years ago

10.12688/wellcomeopenres.15807.2

Making health economic models Shiny: A tutorial
Cited by: 26
Author(s): Robert Smith, P. Schneider
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-019-54193-z

Effects on milk quantity and composition associated with extruded linseed supplementation to dairy cow diets
Cited by: 6
Author(s): Juan Manuel Ariza, Thomas Meignan, Aurélien Madouasse, François Beaudeau, Nathalie N. Bareille
Software Mentions: 3
Published: almost 5 years ago

10.1186/s40880-018-0326-8

Transcriptomic but not genomic variability confers phenotype of breast cancer stem cells
Cited by: 20
Author(s): Man‐Li Tong, Ziqian Deng, Mengying Yang, Chang Xu, Xiaolong Zhang, Qingzheng Zhang, Yuwei Liao, Xiaolong Deng, Dekang Lv, Xuehong Zhang, Yu Zhang, Peiying Li, Limei Song, Bi-Cheng Wang, Aisha Al-Dherasi, Chi Kong Li, Quentin Liu
Software Mentions: 3
Published: about 6 years ago

10.1155/2018/1097018

Complex Analyses of Short Inverted Repeats in All Sequenced Chloroplast DNAs
Cited by: 20
Author(s): Václav Brázda, Jiří Lýsek, Martin Bartas, Miroslav Fojta
Software Mentions: 3
Published: over 6 years ago

10.1093/bioinformatics/btz409

PatientExploreR: an extensible application for dynamic visualization of patient clinical history from electronic health records in the OMOP common data model
Cited by: 25
Author(s): Benjamin S. Glicksberg, Boris Oskotsky, Phyllis Thangaraj, Nicholas Giangreco, Marcus A. Badgeley, Kipp W. Johnson, Debajyoti Datta, Vivek Rudrapatna, Nadav Rappoport, Mark Shervey, Riccardo Miotto, Theodore C. Goldstein, Eugenia Rutenberg, Remi Frazier, Nelson Lee, Sharat Israni, Rick Larsen, Bethany Percha, Li Li, Joel T. Dudley, Nicholas P. Tatonetti, Atul J. Butte
Software Mentions: 3
Published: over 5 years ago

10.3389/fpls.2014.00652

Genome wide transcriptome analysis reveals ABA mediated response in Arabidopsis during gold (AuClâˆ’4) treatment
Cited by: 34
Author(s): Devesh Shukla, Sneha Krishnamurthy, Shivendra V. Sahi
Software Mentions: 3
Published: almost 10 years ago

10.3390/ani11051304

Tandem Mass Tag (TMT) Proteomic Analysis of Saliva in Horses with Acute Abdominal Disease
Cited by: 3
Author(s): Alberto Muñoz-Prieto, Damián Escribano, María Dolores Contreras-Aguilar, Anita Horvatić, Nicolas Guillemin, Stine Jacobsen, José J. Cerón, Vladimir Mrljak
Software Mentions: 2
Published: over 3 years ago

10.1093/sysbio/syz014

Automated Taxonomic Identification of Insects with Expert-Level Accuracy Using Effective Feature Transfer from Convolutional Networks
Cited by: 96
Author(s): Miroslav Valan, K. Makónyi, Atsuto Maki, Dominik Vondráček, Fredrik Ronquist
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-020-78057-z

Bacterial diversity and functional analysis of severe early childhood caries and recurrence in India
Cited by: 16
Author(s): Kalpana Balakrishnan, Puniethaa Prabhu, Ashaq Hussain Bhat, Arunsaikiran Senthilkumar, Raj Pranap Arun, Sharath Asokan, Sachin S. Gunthe, Rama Shanker Verma
Software Mentions: 2
Published: almost 4 years ago

10.3389/fnins.2018.00315

ShinyCortex: Exploring Single-Cell Transcriptome Data From the Developing Human Cortex
Cited by: 8
Author(s): Jorge Kageyama, Damian Wollny, Barbara Treutlein, J. Gray Camp
Software Mentions: 2
Published: over 6 years ago

10.1186/s13229-019-0281-5

Neuropsychiatric phenotypes and a distinct constellation of ASD features in 3q29 deletion syndrome: results from the 3q29 registry
Cited by: 33
Author(s): Rebecca M Pollak, Melissa M. Murphy, Michael P. Epstein, Michael E. Zwick, Cheryl Klaiman, Celine A. Saulnier, Jennifer G. Mullé
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-019-39233-y

Imbalance in the Expression of Genes Associated with Purinergic Signalling in the Lung and Systemic Arteries of COPD Patients
Cited by: 3
Author(s): Oriol Careta, Ester Cuevas, Mariana Muñoz-Esquerre, Maite López-Sánchez, Yuliana Pascual-González, Jordi Dorca, Elisabet Aliagas, Salud Santos
Software Mentions: 2
Published: over 5 years ago

10.3390/plants8090297

High Biodiversity Arises from the Analyses of Morphometric, Biochemical and Genetic Data in Ancient Olive Trees of South of Italy
Cited by: 3
Author(s): Nicola G. Criscuolo, Francesco Guarino, Claudia Angelini, Stefano Castiglione, Tonino Caruso, Angela Cicatelli
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0254096

Melting, smelting, and recycling: A regional study around the Late Bronze Age mining site of Prigglitz-Gasteil, Lower Austria
Cited by: 6
Author(s): Marianne Mödlinger, Peter Trebsche, Benjamin Sabatini
Software Mentions: 2
Published: over 3 years ago

10.1038/s41437-018-0141-7

Is molecular evolution faster in the tropics?
Cited by: 24
Author(s): Matthew G. Orton, Jacqueline A. May, Winfield Ly, Dong Hoon Lee, Sarah J. Adamowicz
Software Mentions: 2
Published: about 6 years ago

10.3389/fcvm.2020.596583

Women and COVID-19: A One-Man Show?
Cited by: 5
Author(s): Jef Van den Eynde, Karen De Vos, Kim Robin van Daalen, Wouter Oosterlinck
Software Mentions: 2
Published: almost 4 years ago

10.3390/ijerph17041311

Association between Cardiovascular Mortality and Economic Development: A Spatio-Temporal Study for Prefectures in Japan
Cited by: 8
Author(s): Emerson Augusto Baptista, Katsumi Kakinuma, Bernardo Lanza Queiroz
Software Mentions: 2
Published: almost 5 years ago

Projects: cran: plotly

Papers Mentioning plotly 163