10.3390/ijms22052352

Overexpression of A Biotic Stress-Inducible Pvgstu Gene Activates Early Protective Responses in Tobacco under Combined Heat and Drought
Cited by: 8
Author(s): Evangelia Stavridou, Georgia Voulgari, Michail Michailidis, Stefanos Kostas, Evangelia Chronopoulou, Nikolaos E. Labrou, Panagiotis Madesis, Irini Nianiou-Obeidat
Software Mentions: 4
Published: over 5 years ago

10.1111/tbed.13661

Different environmental gradients associated to the spatiotemporal and genetic pattern of the H5N8 highly pathogenic avian influenza outbreaks in poultry in Italy
Cited by: 6
Author(s): Francesca Scolamacchia, Paolo Mulatti, Matteo Mazzucato, Marco Barbujani, William T. Harvey, Alice Fusaro, Isabella Monne, Stefano Marangon
Software Mentions: 4
Published: about 6 years ago

10.1186/s12983-019-0345-6

Characteristics of tiger moth (Erebidae: Arctiinae) anti-bat sounds can be predicted from tymbal morphology
Cited by: 7
Author(s): Nicolas J. Dowdy, William E. Conner
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0231142

Sex-based differences in movement and space use of the blacktip reef shark, Carcharhinus melanopterus
Cited by: 4
Author(s): Audrey M. Schlaff, Michelle R. Heupel, Vinay Udyawer, Colin A. Simpfendorfer
Software Mentions: 4
Published: over 6 years ago

10.1080/15592294.2016.1182272

Bisphenol A causes reproductive toxicity, decreases <i>dnmt1</i> transcription, and reduces global DNA methylation in breeding zebrafish <i>(Danio rerio)</i>
Cited by: 138
Author(s): Lauren V. Laing, Joana Viana, Emma Dempster, Maciej Trznadel, L. A. Trunkfield, Tamsyn M. Uren Webster, Ronny van Aerle, Gregory C. Paull, Robert J. Wilson, Jonathan Mill, Eduarda M. Santos
Software Mentions: 4
Published: about 10 years ago

10.1002/ece3.6404

“A cleaner break”: Genetic divergence between geographic groups and sympatric phenotypes revealed in ballan wrasse (<i>Labrus bergylta</i>)
Cited by: 9
Author(s): Gaute Wilhelmsen Seljestad, María Quintela, Ellika Faust, Kim Tallaksen Halvorsen, François Besnier, Eva Jansson, Geir Dahle, Halvor Knutsen, Carl André, Arild Folkvord, Kevin A. Glover
Software Mentions: 4
Published: about 6 years ago

10.3389/fcimb.2020.00460

Reassortment Between Divergent Strains of Camp Ripley Virus (Hantaviridae) in the Northern Short-Tailed Shrew (Blarina brevicauda)
Cited by: 5
Author(s): Schuyler Liphardt, Hae Ji Kang, Satoru Arai, Se Hun Gu, Joseph A. Cook, Richard Yanagihara
Software Mentions: 4
Published: almost 6 years ago

10.1523/ENEURO.0142-20.2020

Neural Differentiation is Moderated by Age in Scene-Selective, But Not Face-Selective, Cortical Regions
Cited by: 18
Author(s): Sabina Srokova, Paul F. Hill, Joshua D. Koen, Danielle R. King, Michael D. Rugg
Software Mentions: 4
Published: over 6 years ago

10.1016/j.mex.2019.100775

PHARMIP: An insilico method to predict genetics that underpin adverse drug reactions
Cited by: 6
Author(s): Ahmad Zidan, Eman A. Saad, Nasser E. Ibrahim, Amal Mahmoud, Medhat H. Hashem, Alaa A. Hemeida
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0223524

Trends in NBA and Euroleague basketball: Analysis and comparison of statistical data from 2000 to 2017
Cited by: 24
Author(s): Radivoj Mandić, Saša Jakovljević, Frane Erčulj, Erik Štrumbelj
Software Mentions: 4
Published: almost 7 years ago

10.1002/ece3.3625

Cryptic genetic variation in an inbreeding and cosmopolitan pest, <i>Xylosandrus crassiusculus</i> , revealed using dd <scp>RAD</scp> seq
Cited by: 29
Author(s): Caroline Storer, Adam C. Payton, Stuart F. McDaniel, Bjarte H. Jordal, Jiří Hulcr
Software Mentions: 4
Published: over 8 years ago

10.3390/biom10040527

Aspirin: A Suicide Inhibitor of Carbonic Anhydrase II
Cited by: 10
Author(s): Jacob T. Andring, Jacob Combs, Robert McKenna
Software Mentions: 4
Published: over 6 years ago

10.3390/v10100576

Gene Gangs of the Chloroviruses: Conserved Clusters of Collinear Monocistronic Genes
Cited by: 10
Author(s): Phillip Seitzer, Adrien Jeanniard, Fangrui Ma, James L. Van Etten, Marc T. Facciotti, David D. Dunigan
Software Mentions: 4
Published: almost 8 years ago

10.1523/JNEUROSCI.3104-20.2021

A Hierarchy of Functional States in Working Memory
Cited by: 15
Author(s): Paul S. Muhle-Karbe, Norman Myers, Mark G. Stokes
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-019-48853-3

Hunters select for behavioral traits in a large carnivore
Cited by: 16
Author(s): Martin Leclerc, Andreas Zedrosser, Jon E. Swenson, Fanie Pelletier
Software Mentions: 4
Published: almost 7 years ago

10.1038/s41598-021-86640-1

Native Burmese pythons exhibit site fidelity and preference for aquatic habitats in an agricultural mosaic
Cited by: 18
Author(s): Samantha Nicole Smith, Max Dolton Jones, Benjamin Michael Marshall, Surachit Waengsothorn, George Gale, Colin Thomas Strine
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0250720

Effects of juvenile hormone in fertility and fertility-signaling in workers of the common wasp Vespula vulgaris
Cited by: 11
Author(s): Cíntia Akemi Oi, Helena Mendes Ferreira, Rafael Carvalho da Silva, Andreas Bienstman, Fábio Santos do Nascimento, Tom Wenseleers
Software Mentions: 4
Published: about 5 years ago

10.12688/f1000research.11964.2

Preprocessed Consortium for Neuropsychiatric Phenomics dataset
Cited by: 25
Author(s): Krzysztof J. Gorgolewski, Joke Durnez, Russell A. Poldrack
Software Mentions: 4
Published: almost 9 years ago

10.3389/fninf.2016.00002

Using Make for Reproducible and Parallel Neuroimaging Workflow and Quality-Assurance
Cited by: 19
Author(s): Mary K. Askren, Trevor K. M. Day, Natalie Koh, Zoé Mestre, Jennifer N. Dines, Benjamin Korman, Susan J. Melhorn, Daniel J. Peterson, Matthew Peverill, Xiaoyan Qin, Swati Rane, Melissa Reilly, M. Reiter, Kelly Sambrook, Karl A. Woelfer, Thomas J. Grabowski, Tara M. Madhyastha
Software Mentions: 4
Published: over 10 years ago

10.1186/s41235-021-00321-1

Knowledge guides attention to goal-relevant information in older adults
Cited by: 3
Author(s): Maverick E. Smith, Lester C. Loschky, Heather R. Bailey
Software Mentions: 4
Published: almost 5 years ago

10.1002/ece3.1695

Genome‐wide analyses suggest parallel selection for universal traits may eclipse local environmental selection in a highly mobile carnivore
Cited by: 19
Author(s): Astrid Vik Strønen, Bogumiła Jędrzejewska, Cino Pertoldi, Ditte Demontis, Ettore Randi, Magdalena Niedziałkowska, Tomasz Borowik, Vadim E. Sidorovich, Josip Kusak, Ilpo Kojola, Alexandros A. Karamanlidis, Jurijs Ozoliņš, Vitalii Dumenko, Sylwia D. Czarnomska
Software Mentions: 4
Published: almost 11 years ago

10.1186/s13068-016-0608-9

Time-scale dynamics of proteome and transcriptome of the white-rot fungus Phlebia radiata: growth on spruce wood and decay effect on lignocellulose
Cited by: 91
Author(s): Jaana Kuuskeri, Mari Häkkinen, Pia Laine, Olli‐Pekka Smolander, Fitsum Tamene, Sini Miettinen, Paula Nousiainen, Marianna Kemell, Petri Auvinen, Taina Lundell
Software Mentions: 4
Published: almost 10 years ago

10.1038/s41598-020-64623-y

Comparative analysis of MACROD1, MACROD2 and TARG1 expression, localisation and interactome
Cited by: 20
Author(s): Roko Žaja, Gülcan Aydin, Barbara E. Lippok, Regina Feederle, Bernhard Lüscher, Karla L. H. Feijs
Software Mentions: 4
Published: about 6 years ago

10.1007/s00227-016-2922-y

Changes in behaviour drive inter-annual variability in the at-sea distribution of northern gannets
Cited by: 18
Author(s): Victoria Warwick-Evans, Philip W. Atkinson, John P. Y. Arnould, Roland D Gauvain, Louise Soanes, Leonie A. Robinson, Jonathan A. Green
Software Mentions: 4
Published: about 10 years ago

10.1002/ece3.6306

Small coastal streams—Critical reservoirs of genetic diversity for trout (<i>Salmo trutta</i>L.) in the face of increasing anthropogenic stressors
Cited by: 1
Author(s): R. Andrew King, Bruce Stockley, Jamie R. Stevens
Software Mentions: 4
Published: about 6 years ago

10.1038/s41598-018-28999-2

Spiking neurons with short-term synaptic plasticity form superior generative networks
Cited by: 22
Author(s): Luziwei Leng, Roman Martel, Oliver Breitwieser, Ilja Bytschok, Walter Senn, Johannes Schemmel, K. Meier, Mihai A. Petrovici
Software Mentions: 4
Published: about 8 years ago

10.3389/fgene.2018.00537

SeqVItA: Sequence Variant Identification and Annotation Platform for Next Generation Sequencing Data
Cited by: 4
Author(s): Prashanthi Dharanipragada, Sampreeth Reddy Seelam, Nita Parekh
Software Mentions: 4
Published: over 7 years ago

10.1186/1471-2105-13-166

Slim-Filter: an interactive windows-based application for illumina genome analyzer data assessment and manipulation
Cited by: 10
Author(s): George Golovko, Kamil Khanipov, Mark Rojas, Antonio Martínez-Alcántara, Jesse J. Howard, Efren Ballesteros, Sharu Gupta, William R. Widger, Yuriy Fofanov
Software Mentions: 4
Published: about 14 years ago

10.1002/ece3.5950

Continent‐wide population genomic structure and phylogeography of North America’s most destructive conifer defoliator, the spruce budworm (<i>Choristoneura fumiferana</i>)
Cited by: 19
Author(s): Lisa M. Lumley, Esther Pouliot, Jérôme Laroche, Brian Boyle, Bryan M. T. Brunet, Roger C. Levesque, Felix A. H. Sperling, Michel Cusson
Software Mentions: 4
Published: over 6 years ago

10.1002/ece3.4610

Genetic diversity and differentiation among <i>Prosopis alba</i> (Leguminosae) populations from dry valleys of Bolivia with different levels of human disturbance and altitude
Cited by: 5
Author(s): Cecilia Bessega, Carolina Luciana Pometti, Ramiro Pablo López, Daniel M. Larrea‐Alcázar, Renée H. Fortunato, Beatriz Ofelia Saidman, Juan C. Vilardi
Software Mentions: 4
Published: almost 8 years ago

10.1371/journal.pcbi.1008904

High-throughput Interpretation of Killer-cell Immunoglobulin-like Receptor Short-read Sequencing Data with PING
Cited by: 15
Author(s): Wesley M. Marin, Ravi Dandekar, Danillo G. Augusto, Tasneem Yusufali, Bianca Heyn, Jan A. Hofmann, Vinzenz Lange, Jürgen Sauter, Paul J. Norman, Jill A. Hollenbach
Software Mentions: 4
Published: about 5 years ago

10.1002/ece3.3503

Radiation of the polymorphic Little Devil poison frog (<i>Oophaga sylvatica</i>) in Ecuador
Cited by: 16
Author(s): Alexandre B. Roland, Juan Carlos Santos, Bella C. Carriker, Stephanie N. Caty, Elicio Tapia, Luis A. Coloma, Lauren A. O’Connell
Software Mentions: 4
Published: almost 9 years ago

10.7717/peerj.2571

The single-species metagenome: subtyping<i>Staphylococcus aureus</i>core genome sequences from shotgun metagenomic data
Cited by: 8
Author(s): Sandeep J. Joseph, Ben Li, Robert A. Petit, Zhaohui S. Qin, Lyndsey A. Darrow, Timothy D. Read
Software Mentions: 4
Published: almost 10 years ago

10.1038/s41598-018-37309-9

HRGPred: Prediction of herbicide resistant genes with k-mer nucleotide compositional features and support vector machine
Cited by: 8
Author(s): Prabina Kumar Meher, Tanmaya Kumar Sahu, K. Raghunandan, Shachi Gahoi, Nalini Kanta Choudhury, Atmakuri Ramakrishna Rao
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pone.0130622

DELTA: A Distal Enhancer Locating Tool Based on AdaBoost Algorithm and Shape Features of Chromatin Modifications
Cited by: 54
Author(s): Yiming Lu, Wubin Qu, Guangyu Shan, Chenggang Zhang
Software Mentions: 4
Published: about 11 years ago

10.3389/fspor.2021.618913

Movement Patterns and Match Statistics in the National Rugby League Women's (NRLW) Premiership
Cited by: 7
Author(s): Tim Newans, Phillip Bellinger, Simon Buxton, Karlee Quinn, Clare Minahan
Software Mentions: 4
Published: over 5 years ago

10.1016/j.celrep.2021.109583

Dynamic bi-directional phosphorylation events associated with the reciprocal regulation of synapses during homeostatic up- and down-scaling
Cited by: 19
Author(s): Kristina Desch, Julian D. Langer, Erin M. Schuman
Software Mentions: 4
Published: about 5 years ago

10.1038/s41419-021-04057-0

TRAIP modulates the IGFBP3/AKT pathway to enhance the invasion and proliferation of osteosarcoma by promoting KANK1 degradation
Cited by: 14
Author(s): Mi Li, Wei Wu, Sisi Deng, Zengwu Shao, Xin Jin
Software Mentions: 4
Published: about 5 years ago

10.1098/rsos.150636

Temporal and phylogenetic evolution of the sauropod dinosaur body plan
Cited by: 45
Author(s): Karl T. Bates, Philip D. Mannion, Peter L. Falkingham, Stephen L. Brusatte, John R. Hutchinson, Alejandro Otero, William I. Sellers, Corwin Sullivan, Kent A. Stevens, Vivian Allen
Software Mentions: 4
Published: over 10 years ago

10.3389/fpsyg.2015.01906

Implicit Attitude Toward Caregiving: The Moderating Role of Adult Attachment Styles
Cited by: 16
Author(s): Pietro De Carli, Angela Tagini, Diego Sarracino, Alessandra Santona, Laura Parolin
Software Mentions: 4
Published: over 10 years ago

10.3389/fpsyg.2019.00697

Ipsilesional Impairments of Visual Awareness After Right-Hemispheric Stroke
Cited by: 8
Author(s): Mario Bonato, Zaira Romeo, Elvio Blini, Marco Pitteri, Eugenia Durgoni, Laura Passarini, Francesca Meneghello, Marco Zorzi
Software Mentions: 4
Published: over 7 years ago

10.7554/eLife.22039

Mapping cell type-specific transcriptional enhancers using high affinity, lineage-specific Ep300 bioChIP-seq
Cited by: 48
Author(s): Pingzhu Zhou, Fei Gu, Lina Zhang, Brynn N. Akerberg, Qing Ma, Kai Li, Aibin He, Zhiqiang Lin, Sean Stevens, Bin Zhou, William T. Pu
Software Mentions: 4
Published: over 9 years ago

10.1371/journal.pone.0224562

Volatile anesthetics versus total intravenous anesthesia in patients undergoing coronary artery bypass grafting: An updated meta-analysis and trial sequential analysis of randomized controlled trials
Cited by: 26
Author(s): Xue‐Feng Jiao, Xiufang Lin, Xiaofeng Ni, Hailong Li, Chuan Zhang, Chunsong Yang, Haoxin Song, Qiusha Yi, Lingli Zhang
Software Mentions: 4
Published: almost 7 years ago

10.1186/1471-2105-6-216

JACOP: A simple and robust method for the automated classification of protein sequences with modular architecture
Cited by: 22
Author(s): Peter Sperisen, Marco Pagni
Software Mentions: 4
Published: almost 21 years ago

10.7554/eLife.00170

Dual functions of TAF7L in adipocyte differentiation
Cited by: 39
Author(s): Haiying Zhou, Tommy Kaplan, Yan Li, Ivan Grubisic, Zhengjian Zhang, P. Jeremy Wang, Michael B. Eisen, Robert Tjian
Software Mentions: 4
Published: over 13 years ago

10.1371/journal.pone.0187150

RNA-seq transcriptome analysis of formalin fixed, paraffin-embedded canine meningioma
Cited by: 13
Author(s): Jennifer K. Grenier, Polly Foureman, Erica A. Sloma, Andrew D. Miller
Software Mentions: 4
Published: almost 9 years ago

10.1038/s41416-021-01335-8

The amino acid metabolism is essential for evading physical plasma-induced tumour cell death
Cited by: 9
Author(s): Rajesh Kumar Gandhirajan, Dorothee Meyer, Sanjeev Kumar Sagwal, Klaus‐Dieter Weltmann, Thomas von Woedtke, Sander Bekeschus
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pgen.1002984

The Paramecium Germline Genome Provides a Niche for Intragenic Parasitic DNA: Evolutionary Dynamics of Internal Eliminated Sequences
Cited by: 142
Author(s): Olivier Arnaiz, Nathalie Mathy, Céline Baudry, Sophie Malinsky, Jean‐Marc Aury, Cyril Denby Wilkes, Olivier Garnier, Karine Labadie, Benjamin E. Lauderdale, Anne Le Mouël, Antoine Marmignon, Mariusz Nowacki, Julie Poulain, M Prajer, Patrick Wincker, Éric Meyer, Sandra Duharcourt, Laurent Duret, Mireille Bétermier, Linda Sperling
Software Mentions: 4
Published: almost 14 years ago

10.3390/s21134323

Real-Time Human Recognition at Night via Integrated Face and Gait Recognition Technologies
Cited by: 15
Author(s): Samah A. F. Manssor, Shanhui Sun, Mohammed A. M. Elhassan
Software Mentions: 4
Published: about 5 years ago

10.1038/s41418-019-0285-x

CBP and SRF co-regulate dendritic growth and synaptic maturation
Cited by: 25
Author(s): Beatriz del Blanco, Deisy Guiretti, Romana Tomasoni, María T. Lopez-Cascales, Rafael Muñoz‐Viana, Michał Lipiński, Marilyn Scandaglia, Yaiza Coca, Román Olivares, Luis M. Valor, Eloı́sa Herrera, Ángel Barco
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pone.0231037

Shift work and long work hours and their association with chronic health conditions: A systematic review of systematic reviews with meta-analyses
Cited by: 101
Author(s): Adovich S. Rivera, Maxwell O Akanbi, Linda O’Dwyer, Megan McHugh
Software Mentions: 4
Published: over 6 years ago

10.1038/s41598-020-61678-9

Systematic alteration of ATAC-seq for profiling open chromatin in cryopreserved nuclei preparations from livestock tissues
Cited by: 23
Author(s): Michelle M. Halstead, Colin Kern, Perot Saelao, Ganrea Chanthavixay, Y. Wang, Mary E. Delany, Huaijun Zhou, Pablo J. Ross
Software Mentions: 4
Published: over 6 years ago

10.1155/2021/1102083

Classification Framework for Healthy Hairs and Alopecia Areata: A Machine Learning (ML) Approach
Cited by: 10
Author(s): Choudhary Sobhan Shakeel, Saad Jawaid Khan, Beenish Moalla Chaudhry, Syeda Fatima Aijaz, Umer Hassan
Software Mentions: 4
Published: almost 5 years ago

10.3389/fdata.2020.00022

The ADC API: A Web API for the Programmatic Query of the AIRR Data Commons
Cited by: 22
Author(s): Scott Christley, Ademar Aguiar, George Blanck, Felix Breden, Syed Ahmad Chan Bukhari, Christian E. Busse, Jerome Jaglale, Srilakshmy L. Harikrishnan, Uri Laserson, Bjoern Peters, Artur Rocha, Chaim A. Schramm, Sarah E. Taylor, Jason A. Vander Heiden, Bojan Zimonja, Corey T. Watson, Brian Corrie, Lindsay G. Cowell
Software Mentions: 4
Published: about 6 years ago

10.1186/s40168-018-0470-z

Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2’s q2-feature-classifier plugin
Cited by: 2,605
Author(s): Nicholas A. Bokulich, Benjamin Kaehler, Jai Ram Rideout, Matthew R. Dillon, Evan Bolyen, Rob Knight, Gavin A. Huttley, J. Gregory Caporaso
Software Mentions: 4
Published: about 8 years ago

10.3389/fgene.2021.731515

PanSVR: Pan-Genome Augmented Short Read Realignment for Sensitive Detection of Structural Variations
Cited by: 1
Author(s): Gaoyang Li, Tao Jiang, Junyi Li, Yadong Wang
Software Mentions: 4
Published: almost 5 years ago

10.1186/s12915-021-01122-0

Single-cell analysis of cell fate bifurcation in the chordate Ciona
Cited by: 4
Author(s): Konner Winkley, Wendy Reeves, Michael Veeman
Software Mentions: 4
Published: almost 5 years ago

10.1038/s41598-020-73060-w

Automatic classification of healthy and disease conditions from images or digital standard 12-lead electrocardiograms
Cited by: 18
Author(s): Вадим Глинер, Noam Keidar, В. В. Макаров, Arutyun Avetisyan, Assaf Schuster, Yael Yaniv
Software Mentions: 4
Published: almost 6 years ago

10.1093/molbev/msw161

Characterization of the Poplar Pan-Genome by Genome-Wide Identification of Structural Variation
Cited by: 82
Author(s): Sara Pinosio, Stefania Giacomello, Patricia Faivre-Rampant, Gail Taylor, Véronique Jorge, Marie Christine Le Paslier, Giusi Zaina, Catherine Bastien, Federica Cattonaro, Fabio Marroni, Michèle Morgante
Software Mentions: 4
Published: almost 10 years ago

10.1186/s12864-021-07699-8

Chromosome-level genome assembly and manually-curated proteome of model necrotroph Parastagonospora nodorum Sn15 reveals a genome-wide trove of candidate effector homologs, and redundancy of virulence-related functions within an accessory chromosome
Cited by: 8
Author(s): Stefania Bertazzoni, Darcy A. B. Jones, H. Phan, Kar‐Chun Tan, James K. Hane
Software Mentions: 4
Published: about 5 years ago

10.1038/s41597-021-00823-z

Collegiate athlete brain data for white matter mapping and network neuroscience
Cited by: 3
Author(s): Bradley Caron, Ricardo Stuck, Brent McPherson, Daniel Bullock, Lindsey Kitchell, Joshua Faskowitz, Derek Kellar, Hu Cheng, Sharlene D. Newman, Nicholas Port, Franco Pestilli
Software Mentions: 4
Published: over 5 years ago

10.3390/s140101155

A Methodology to Assess the Accuracy with which Remote Data Characterize a Specific Surface, as a Function of Full Width at Half Maximum (FWHM): Application to Three Italian Coastal Waters
Cited by: 12
Author(s): Rosa Maria Cavalli, Mattia Betti, Alessandra Campanelli, Annalisa Di Cicco, Daniela Guglietta, Pierluigi Penna, Viviana Piermattei
Software Mentions: 4
Published: over 12 years ago

10.7554/eLife.60498

Genome-wide alterations of uracil distribution patterns in human DNA upon chemotherapeutic treatments
Cited by: 11
Author(s): Hajnalka Laura Pálinkás, Angéla Békési, Gergely Róna, Lőrinc Sándor Pongor, Gábor Papp, Gergely Tihanyi, Eszter Holub, Ádám Póti, Carolina Gemma, Simak Ali, Michael J. Morten, Eli Rothenberg, Michele Pagano, Dávid Szűts, Balázs Győrffy, Beáta G. Vértessy
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pgen.1007588

Numerous recursive sites contribute to accuracy of splicing in long introns in flies
Cited by: 17
Author(s): Athma A. Pai, Joseph M. Paggi, Paul Yan, Karen Adelman, Christopher B. Burge
Software Mentions: 4
Published: almost 8 years ago

10.7554/eLife.19760

Compact and highly active next-generation libraries for CRISPR-mediated gene repression and activation
Cited by: 551
Author(s): Max A. Horlbeck, Luke A. Gilbert, Jacqueline E. Villalta, Brittany Susan Adamson, Ryan A. Pak, Yu‐Wen Chen, Alexander P. Fields, Chong Yon Park, Jacob E. Corn, Martin Kampmann, Jonathan S. Weissman
Software Mentions: 4
Published: almost 10 years ago

10.1186/s13072-016-0070-8

Changes of 5-hydroxymethylcytosine distribution during myeloid and lymphoid differentiation of CD34+ cells
Cited by: 18
Author(s): Xavier Tekpli, Alfonso Urbanucci, Adnan Hashim, Cathrine Broberg Vågbø, Robert Lyle, Marianne Kristiansen Kringen, Anne Cathrine Staff, Ingunn Dybedal, Ian G. Mills, Arne Klungland, Judith Staerk
Software Mentions: 4
Published: about 10 years ago

10.1590/1678-4685-GMB-2017-0164

Identification of potential target genes of USP22 via ChIP-seq and RNA-seq analysis in HeLa cells
Cited by: 5
Author(s): Zhizhong Gong, Jianyun Liu, Xin Xie, Xiaoyuan Xu, Ping Wu, Huimin Li, Yaqin Wang, Weidong Li, Jianjun Xiong
Software Mentions: 4
Published: about 8 years ago

10.1186/1471-2105-11-598

Initial steps towards a production platform for DNA sequence analysis on the grid
Cited by: 8
Author(s): Angela C. M. Luyf, Barbera D.C. van Schaik, Michèl de Vries, Frank Baas, Antoine H. C. van Kampen, Sílvia D. Olabarriaga
Software Mentions: 4
Published: over 15 years ago

10.1186/s13321-017-0228-9

chemalot and chemalot_knime: Command line programs as workflow tools for drug discovery
Cited by: 12
Author(s): Man-Ling Lee, Ignacio Aliagas, Jianwen Feng, Thomas R. Gabriel, TJ O'Donnell, Benjamin D. Sellers, Bernd Wiswedel, A. Gobbi
Software Mentions: 4
Published: about 9 years ago

10.1016/j.dib.2017.10.038

Programs for the calculation of the spinodal decomposition growth rate and the spinodal gap in nanoparticles
Cited by: 0
Author(s): Evgeny Pogorelov, Julia Kundin
Software Mentions: 4
Published: over 8 years ago

10.3389/fninf.2020.00030

Experimental Pipeline (Expipe): A Lightweight Data Management Platform to Simplify the Steps From Experiment to Data Analysis
Cited by: 5
Author(s): Mikkel Elle Lepperød, Svenn-Arne Dragly, Alessio Paolo Buccino, Milad Hobbi Mobarhan, Anders Malthe‐Sørenssen, Torkel Hafting, Marianne Fyhn
Software Mentions: 4
Published: about 6 years ago

10.1128/mSystems.00299-20

Expanded Phylogenetic Diversity and Metabolic Flexibility of Mercury-Methylating Microorganisms
Cited by: 44
Author(s): Elizabeth A. McDaniel, Brittany F. Peterson, Sarah Stevens, Patricia Q. Tran, Karthik Anantharaman, Katherine D. McMahon
Software Mentions: 4
Published: almost 6 years ago

10.3389/fpls.2016.01924

Transcriptome Analysis Reveals Candidate Genes Involved in Gibberellin-Induced Fruit Setting in Triploid Loquat (Eriobotrya japonica)
Cited by: 25
Author(s): Shuang Jiang, Luo Jun, Fanjie Xu, Xueying Zhang
Software Mentions: 4
Published: over 9 years ago

10.1186/s13287-021-02601-5

Longitudinal clonal tracking in humanized mice reveals sustained polyclonal repopulation of gene-modified human-HSPC despite vector integration bias
Cited by: 0
Author(s): Gajendra W. Suryawanshi, Hubert Arokium, Sanggu Kim, Wannisa Khamaikawin, Samantha Lin, Saki Shimizu, Koollawat Chupradit, Yoojin Lee, Yiming Xie, Xin Guan, Vasantika Suryawanshi, Angela P. Presson, Dong-Sung An, Irvin S. Y. Chen
Software Mentions: 4
Published: almost 5 years ago

10.7717/peerj-cs.285

Deep learning based Sequential model for malware analysis using Windows exe API Calls
Cited by: 56
Author(s): Ferhat Özgür Çatak, Ahmet Faruk Yazı, Ogerta Elezaj, Javed Ahmed
Software Mentions: 4
Published: about 6 years ago

10.1038/s41597-021-00905-y

A resource to explore the discovery of rare diseases and their causative genes
Cited by: 5
Author(s): Friederike Ehrhart, Egon Willighagen, Martina Kutmon, Max van Hoften, Leopold Curfs, Chris T. Evelo
Software Mentions: 4
Published: over 5 years ago

10.1016/j.enzmictec.2020.109592

Identification and catalytic properties of new epoxide hydrolases from the genomic data of soil bacteria
Cited by: 9
Author(s): Gorjan Stojanovski, Dragana Dobrijevic, Helen C. Hailes, John M. Ward
Software Mentions: 4
Published: almost 6 years ago

10.3389/fendo.2021.714561

Biased Coupling to β-Arrestin of Two Common Variants of the CB2 Cannabinoid Receptor
Cited by: 9
Author(s): Gábor Turu, Eszter Soltész‐Katona, András Tóth, C.C. Juhasz, Miklós Cserző, Ádám Misák, András Balla, Marc G. Caron, László Hunyady
Software Mentions: 4
Published: almost 5 years ago

10.15252/embr.201846331

Clipped histone H3 is integrated into nucleosomes of <scp>DNA</scp> replication genes in the human malaria parasite <i>Plasmodium falciparum</i>
Cited by: 8
Author(s): Abril Marcela Herrera‐Solorio, Shruthi S. Vembar, Cameron Ross MacPherson, Daniela Lozano-Amado, Gabriela Romero Meza, Beatriz Xoconostle‐Cázares, Rafael Miyazawa Martins, Patty Chen, Miguel Vargas, Artur Scherf, Rosaura Hernández‐Rivas
Software Mentions: 4
Published: over 7 years ago

10.1186/s12889-021-11790-w

Electronic data collection, management and analysis tools used for outbreak response in low- and middle-income countries: a systematic review and stakeholder survey
Cited by: 4
Author(s): Patrick Keating, Jillian Murray, Karl Schenkel, Laura Merson, Anna C. Seale
Software Mentions: 4
Published: almost 5 years ago

10.3389/fmicb.2020.01022

Phytopathogenic Rhodococcus Have Diverse Plasmids With Few Conserved Virulence Functions
Cited by: 14
Author(s): Elizabeth A. Savory, Alexandra J. Weisberg, Danielle M. Stevens, Allison Creason, Skylar L Fuller, Emma M Pearce, Jeff H. Chang
Software Mentions: 4
Published: about 6 years ago

10.1002/ece3.2819

Outlier analyses to test for local adaptation to breeding grounds in a migratory arctic seabird
Cited by: 26
Author(s): Anna Tigano, Allison J. Shultz, Scott V. Edwards, Gregory J. Robertson, Vicki L. Friesen
Software Mentions: 4
Published: over 9 years ago

10.1186/s13059-020-02084-2

GMM-Demux: sample demultiplexing, multiplet detection, experiment planning, and novel cell-type verification in single cell sequencing
Cited by: 34
Author(s): Hongyi Xin, Qiuyu Lian, Yale Jiang, Jianmin Luo, Xinjun Wang, Carla Erb, Zhongli Xu, Xiaoyi Zhang, Elisa Heidrich-O’Hare, Qi Yan, Richard H. Duerr, Kong Chen, Wei Chen
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0232609

The two types of society: Computationally revealing recurrent social formations and their evolutionary trajectories
Cited by: 3
Author(s): Lux Miranda, Jacob Freeman
Software Mentions: 4
Published: about 6 years ago

10.7554/eLife.53789

Insights into herpesvirus assembly from the structure of the pUL7:pUL51 complex
Cited by: 23
Author(s): Benjamin G Butt, Danielle Owen, Cy M. Jeffries, Lyudmila Ivanova, C.P. Hill, Jennifer D. Houghton, Firoz Ahmed, Robin Antrobus, Dmitri I. Svergun, John J. Welch, Colin M. Crump, Stephen C. Graham
Software Mentions: 4
Published: about 6 years ago

10.3389/fgene.2020.00194

Quantifying RNA Editing in Deep Transcriptome Datasets
Cited by: 26
Author(s): Claudio Lo Giudice, Domenico Alessandro Silvestris, Shalom Hillel Roth, Eli Eisenberg, Graziano Pesole, Angela Gallo, Ernesto Picardi
Software Mentions: 4
Published: over 6 years ago

10.15252/msb.20199356

Proteome profiling in cerebrospinal fluid reveals novel biomarkers of Alzheimer's disease
Cited by: 129
Author(s): Jakob Bader, Philipp E. Geyer, Johannes B. Müller-Reif, Maximilian T. Strauss, Manja Koch, Frank Leypoldt, Pèter Köertvelyessy, Daniel Bittner, Carola G. Schipke, Enise I. Incesoy, Oliver Peters, Nikolaus Deigendesch, Mikael Simons, Majken K. Jensen, Henrik Zetterberg, Matthias Mann
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pntd.0004626

Reproductive Incompatibility Involving Senegalese Aedes aegypti (L) Is Associated with Chromosome Rearrangements
Cited by: 21
Author(s): Laura B. Dickson, Maria V. Sharakhova, Vladimir A. Timoshevskiy, Karen Fleming, Alex Caspary, Massamba Sylla, William C. Black
Software Mentions: 4
Published: over 10 years ago

10.7554/eLife.40292

Is it possible to reconstruct an accurate cell lineage using CRISPR recorders?
Cited by: 62
Author(s): Irepan Salvador-Martínez, Marco Grillo, Michalis Averof, Maximilian J. Telford
Software Mentions: 4
Published: over 7 years ago

10.1093/database/baab013

MENSAdb: a thorough structural analysis of membrane protein dimers
Cited by: 1
Author(s): Pedro Matos-Filipe, António Preto, Panagiotis I. Koukos, Joana Mourão, Alexandre M. J. J. Bonvin, Irina S. Moreira
Software Mentions: 4
Published: over 5 years ago

10.7554/eLife.24836

Minimal-assumption inference from population-genomic data
Cited by: 21
Author(s): Daniel B. Weissman, Oskar Hallatschek
Software Mentions: 4
Published: about 9 years ago

10.1371/journal.pone.0236540

Harnessing the power of eDNA metabarcoding for the detection of deep-sea fishes
Cited by: 38
Author(s): Beverly McClenaghan, Nicole A Fahner, David Côté, Julek Chawarski, Avery McCarthy, Hoda Rajabi, Gregory A. C. Singer, Mehrdad Hajibabaei
Software Mentions: 4
Published: over 5 years ago

10.1111/1751-7915.13496

Preventive antibiotic treatment of calves: emergence of dysbiosis causing propagation of obese state‐associated and mobile multidrug resistance‐carrying bacteria
Cited by: 15
Author(s): Dorota A. Dobrzanska, Matthew T F Lamaudière, Jess Rollason, Lauren Acton, Michael Duncan, Sharon Compton, John Simms, Gareth D. Weedall, Igor Y. Morozov
Software Mentions: 4
Published: almost 7 years ago

10.3389/fninf.2021.713899

The EBRAINS NeuroFeatureExtract: An Online Resource for the Extraction of Neural Activity Features From Electrophysiological Data
Cited by: 2
Author(s): Luca Bologna, Roberto Smiriglia, Dario Curreri, Michele Migliore
Software Mentions: 4
Published: almost 5 years ago

10.1371/journal.pcbi.1005510

Good enough practices in scientific computing
Cited by: 240
Author(s): Greg Wilson, Jenny Bryan, Karen Cranston, Justin Kitzes, Alexander J. Nederbragt, Tracy K. Teal
Software Mentions: 4
Published: about 9 years ago

10.1371/journal.pone.0141225

A catalogue of novel bovine long noncoding RNA across 18 tissues
Cited by: 76
Author(s): Lambros T. Koufariotis, Yi‐Ping Phoebe Chen, Amanda J. Chamberlain, Christy Vander Jagt, Ben J. Hayes
Software Mentions: 4
Published: almost 11 years ago

10.1111/acel.13443

The antagonistic pleiotropy of insulin‐like growth factor 1
Cited by: 22
Author(s): William B. Zhang, Kenny Ye, Nir Barzilai, Sofiya Milman
Software Mentions: 4
Published: almost 5 years ago

10.1371/journal.pone.0177459

Singularity: Scientific containers for mobility of compute
Cited by: 895
Author(s): Gregory M. Kurtzer, Vanessa Sochat, Michael Bauer
Software Mentions: 4
Published: about 9 years ago

10.1186/s13072-017-0160-2

Ubiquitin C-terminal hydrolase isozyme L1 is associated with shelterin complex at interstitial telomeric sites
Cited by: 6
Author(s): Aleksandar Ilić, Sumin Lu, Vikram Bhatia, Farhana Begum, Thomas Klonisch, Prasoon Agarwal, Wayne Xu, James R. Davie
Software Mentions: 4
Published: over 8 years ago

10.1097/MD.0000000000016829

The effectiveness of moxibustion for stable angina pectoris
Cited by: 0
Author(s): Yili Zhang, Yuan Li, Juan Wang, Nannan Tan, Junjie Liu, Kangjia Du, Miao Zhang, Yong Wang, Huihui Zhao, Wei Wang
Software Mentions: 4
Published: about 7 years ago