10.3758/s13428-019-01203-7

Cross-modal associations and synesthesia: Categorical perception and structure in vowel–color mappings in a large online sample
Cited by: 24
Author(s): Christine Cuskley, Mark Dingemanse, Simon Kirby, Tessa M. van Leeuwen
Software Mentions: 5
Published: over 7 years ago

10.1264/jsme2.ME20153

Inoculation of <i>Mimosa Pudica</i> with <i>Paraburkholderia phymatum</i> Results in Changes to the Rhizoplane Microbial Community Structure
Cited by: 5
Author(s): Shashini U. Welmillage, Qian Zhang, Virinchipuram S. Sreevidya, Michael J. Sadowsky, Prasad Gyaneshwar
Software Mentions: 5
Published: over 5 years ago

10.3390/microorganisms9081711

Microbial Shift in the Enteric Bacteriome of Coral Reef Fish Following Climate-Driven Regime Shifts
Cited by: 6
Author(s): Marie-Charlotte Cheutin, Sébastien Villéger, Christina C. Hicks, James P. W. Robinson, Nicholas A. J. Graham, Clémence Marconnet, Claudia Ximena Ortiz Restrepo, Yvan Bettarel, Thierry Bouvier, Jean‐Christophe Auguet
Software Mentions: 5
Published: almost 5 years ago

10.1007/s00265-016-2118-y

Consequences of a warming climate for social organisation in sweat bees
Cited by: 15
Author(s): Roger Schürch, Christopher Accleton, Jeremy Field
Software Mentions: 5
Published: about 10 years ago

10.1093/aob/mcu034

Influence of the variation of geometrical and topological traits on light interception efficiency of apple trees: sensitivity analysis and metamodelling for ideotype definition
Cited by: 43
Author(s): David Da Silva, Liqi Han, Robert Faivre, Evelyne Costes
Software Mentions: 5
Published: over 12 years ago

10.1534/g3.115.019166

Genome-Wide Analysis of<i>Drosophila</i>RBf2 Protein Highlights the Diversity of RB Family Targets and Possible Role in Regulation of Ribosome Biosynthesis
Cited by: 15
Author(s): Yiliang Wei, Shamba S. Mondal, Rima Mouawad, Bartek Wilczyński, R. William Henry, David N. Arnosti
Software Mentions: 5
Published: about 11 years ago

10.7554/eLife.31683

Transcription-factor-dependent enhancer transcription defines a gene regulatory network for cardiac rhythm
Cited by: 36
Author(s): Xinan Yang, Rangarajan D. Nadadur, Catharina R.E. Hilvering, Valerio Bianchi, Michael S. Werner, Stefan R. Mazurek, Margaret Gadek, Karen Shen, Joseph D. Goldman, Leonid Tyan, Jenna C. Bekeny, Johnathon M Hall, Nutishia Lee, Carlos Perez-Cervantes, Ozanna Burnicka-Turek, Kenneth D. Poss, Christopher R. Weber, Wouter de Laat, Alexander J. Ruthenburg, Ivan P. Moskowitz
Software Mentions: 5
Published: over 8 years ago

10.3389/fmicb.2016.01637

Response of Core Microbial Consortia to Chronic Hydrocarbon Contaminations in Coastal Sediment Habitats
Cited by: 60
Author(s): Mathilde Jeanbille, Jérôme Gury, Robert Duran, Jacek Tronczyński, Hélène Agogué, Olfa Ben Saïd, Jean-François Ghiglione, Jean‐Christophe Auguet
Software Mentions: 5
Published: almost 10 years ago

10.3389/fpls.2018.01256

Comparative Transcriptomic Analysis of Two Actinorhizal Plants and the Legume Medicagotruncatula Supports the Homology of Root Nodule Symbioses and Is Congruent With a Two-Step Process of Evolution in the Nitrogen-Fixing Clade of Angiosperms
Cited by: 14
Author(s): Kai Battenberg, Daniel Potter, Christine A. Tabuloc, Joanna C. Chiu, Alison M. Berry
Software Mentions: 5
Published: almost 8 years ago

10.1136/bmj.l1945

Diagnosis of obstructive coronary artery disease using computed tomography angiography in patients with stable chest pain depending on clinical probability and in clinically important subgroups: meta-analysis of individual patient data
Cited by: 85
Author(s): Robert Haase, Peter Schlattmann, Pascal Guéret, Daniele Andreini, Gianluca Pontone, Hatem Alkadhi, Jörg Hausleiter, Mario J. García, Sebastian Leschka, Willem B. Meijboom, Elke Zimmermann, Bernhard Gerber, U. Joseph Schoepf, Abbas Arjmand Shabestari, Bjarne Linde Nørgaard, Matthijs F.L. Meijs, Akira Sato, Kristian Altern Øvrehus, Axel Cosmus Pyndt Diederichsen, Shona M.M. Jenkins, Juhani Knuuti, Ashraf Hamdan, Bjørn Halvorsen, Vladimir Mendoza-Rodríguez, Carlos Eduardo Rochitte, Johannes Rixe, Yung Liang Wan, C. Langer, Nuno Bettencourt, Eugenio Martuscelli, Saïd Ghostine, Ronny R. Buechel, Konstantin Nikolaou, Hans Mickley, Lin Yang, Zhaqoi Zhang, Marcus Y Chen, David A. Halon, Matthias Rief, Kai Sun, Beatrice Hirt-Moch, Hiroyuki Niinuma, Roy Marcus, Simone Muraglia, Réda Jakamy, Benjamin J.W. Chow, Philipp A. Kaufmann, Jean‐Claude Tardif, César Higa Nomura, Klaus F. Kofoed, Jean Pierre Laissy, Armin Arbab‐Zadeh, Kakuya Kitagawa, Roger J. Laham, Masahiro Jinzaki, John Hoe, Frank J. Rybicki, Arthur J. Scholte, Narinder Paul, Swee Yaw Tan, Kunihiro Yoshioka, Robert Röhle, Georg M. Schuetz, Sabine Schueler, Maria H. Coenen, Viktoria Wieske, Stephan Achenbach, Matthew J. Budoff, Michael Laule, David E. Newby, Marc Dewey
Software Mentions: 5
Published: about 7 years ago

10.1002/ece3.2454

Root exudate cocktails: the link between plant diversity and soil microorganisms?
Cited by: 154
Author(s): Katja Steinauer, Antonis Chatzinotas, Nico Eisenhauer
Software Mentions: 5
Published: almost 10 years ago

10.1186/s12862-016-0841-7

Plasticity in growth of farmed and wild Atlantic salmon: is the increased growth rate of farmed salmon caused by evolutionary adaptations to the commercial diet?
Cited by: 25
Author(s): Alison C. Harvey, Monica Favnebøe Solberg, Eva Troianou, Gary R. Carvalho, Martin I. Taylor, Simon Creer, Lise Dyrhovden, Ivar Helge Matre, Kevin A. Glover
Software Mentions: 5
Published: over 9 years ago

10.1038/s41598-020-57798-x

Impact of the early-life skin microbiota on the development of canine atopic dermatitis in a high-risk breed birth cohort
Cited by: 8
Author(s): Sabrina Rodriguez‐Campos, Ana Rostaher, Lena Zwickl, Nina Fischer, Isabelle Brodard, Sara Vidal, Bernd W. Brandt, Claude Favrot, Vincent Perreten
Software Mentions: 5
Published: over 6 years ago

10.3389/fpls.2021.694727

The Plastid-Localized AtFtsHi3 Pseudo-Protease of Arabidopsis thaliana Has an Impact on Plant Growth and Drought Tolerance
Cited by: 3
Author(s): Laxmi S. Mishra, Sanatkumar Mishra, Daniel Caddell, Devin Coleman‐Derr, Christiane Funk
Software Mentions: 5
Published: about 5 years ago

10.1186/2047-217X-3-37

Shared data for intensity modulated radiation therapy (IMRT) optimization research: the CORT dataset
Cited by: 68
Author(s): David Craft, Mark Bangert, Tammy M. Long, Dávid Papp, Jan Unkelbach
Software Mentions: 5
Published: over 11 years ago

10.1371/journal.pcbi.1006982

MAPS: Model-based analysis of long-range chromatin interactions from PLAC-seq and HiChIP experiments
Cited by: 83
Author(s): Ivan Jurić, Miao Yu, Armen Abnousi, Ramya Raviram, Rongxin Fang, Yuan Zhao, Yanxiao Zhang, Yunjiang Qiu, Yuchen Yang, Yun Li, Bing Ren, Maowen Hu
Software Mentions: 5
Published: over 7 years ago

10.1371/journal.pone.0136469

Tree Diversity Limits the Impact of an Invasive Forest Pest
Cited by: 47
Author(s): Virginie Guyot, Bastien Castagneyrol, Aude Vialatte, Marc Deconchat, Federico Selvi, Filippo Bussotti, Hervé Jactel
Software Mentions: 5
Published: almost 11 years ago

10.1186/s40168-018-0458-8

Fecal Aliquot Straw Technique (FAST) allows for easy and reproducible subsampling: assessing interpersonal variation in trimethylamine-N-oxide (TMAO) accumulation
Cited by: 16
Author(s): Kymberleigh A. Romano, Kimberly A. Dill‐McFarland, Kazuyuki Kasahara, Robert L. Kerby, Eugenio I. Vivas, Daniel Amador‐Noguez, Pamela Herd, Federico E. Rey
Software Mentions: 5
Published: about 8 years ago

10.1038/s41598-018-24931-w

Exposure to toxic metals triggers unique responses from the rat gut microbiota
Cited by: 85
Author(s): Joshua B. Richardson, Blair C. R. Dancy, Cassandra L. Horton, Young S. Lee, Michael S. Madejczyk, Zhenjiang Zech Xu, Gail Ackermann, Gregory Humphrey, Gustavo Palacios, Rob Knight, John A. Lewis
Software Mentions: 5
Published: about 8 years ago

10.1016/j.dib.2020.106472

Dataset of sodium chloride sterile liquid in bottles for intravenous administration and fill level monitoring
Cited by: 2
Author(s): Danilo Pau, Bipin P. Kumar, Prashant Namekar, Gauri Dhande, Luca Simonetta
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0184761

Temporal patterns in road crossing behaviour in roe deer (Capreolus capreolus) at sites with wildlife warning reflectors
Cited by: 27
Author(s): Jim Lino Kämmerle, Falko Brieger, Max Kröschel, Robert Hagen, Ilse Storch, Rudi Suchant
Software Mentions: 5
Published: almost 9 years ago

10.7717/peerj.3688

Skin bacterial microbiome of a generalist Puerto Rican frog varies along elevation and land use gradients
Cited by: 45
Author(s): Myra C. Hughey, Janelle A. Pena, R. Vazquez Reyes, Daniel Medina, Lisa K. Belden, Patricia A. Burrowes
Software Mentions: 5
Published: almost 9 years ago

10.1186/s40168-018-0543-z

Quantification of variation and the impact of biomass in targeted 16S rRNA gene sequencing studies
Cited by: 40
Author(s): Jeffrey M. Bender, Fan Li, Helty Adisetiyo, David Lee, Sara Zabih, Long Hung, Thomas A. Wilkinson, Pia S. Pannaraj, Rosemary C. She, Jennifer Dien Bard, Nicole H. Tobin, Grace M. Aldrovandi
Software Mentions: 5
Published: almost 8 years ago

10.1371/journal.pgen.1008367

Integrating transcriptomic network reconstruction and eQTL analyses reveals mechanistic connections between genomic architecture and Brassica rapa development
Cited by: 15
Author(s): Robert L. Baker, Wen Fung Leong, Marcus T. Brock, Matthew J. Rubin, R. J. Cody Markelz, Stephen M. Welch, Julin Maloof, Cynthia Weinig
Software Mentions: 5
Published: almost 7 years ago

10.3389/fpsyg.2021.701305

The Effect of Loneliness on Cognitive Functioning Among Healthy Individuals in Mid- and Late-Adulthood: Evidence From the Canadian Longitudinal Study on Aging (CLSA)
Cited by: 5
Author(s): Aki-Juhani Kyröläinen, Victor Kuperman
Software Mentions: 5
Published: almost 5 years ago

10.1038/s41598-017-16375-5

Comparative metagenomics of hydrocarbon and methane seeps of the Gulf of Mexico
Cited by: 45
Author(s): Adrien Vigneron, Eric Alsop, Perrine Cruaud, Gwenaelle Philibert, Benjamin L. King, Leslie Baksmaty, D. A. Lavallée, Bart P. Lomans, Nikos C. Kyrpides, Ian M. Head, Nicolas Tsesmetzis
Software Mentions: 5
Published: over 8 years ago

10.1371/journal.pone.0237747

Weighted-persistent-homology-based machine learning for RNA flexibility analysis
Cited by: 4
Author(s): Chi Seng Pun, Brandon Yung Sin Yong, Kelin Xia
Software Mentions: 5
Published: almost 6 years ago

10.3389/fninf.2019.00053

A Comparison of Shallow and Deep Learning Methods for Predicting Cognitive Performance of Stroke Patients From MRI Lesion Images
Cited by: 52
Author(s): Sucheta Chauhan, Lovekesh Vig, Michele De Filippo De Grazia, Maurizio Corbetta, Shandar Ahmad, Marco Zorzi
Software Mentions: 5
Published: almost 7 years ago

10.1186/2047-217X-1-3

Resources for methylome analysis suitable for gene knockout studies of potential epigenome modifiers
Cited by: 40
Author(s): Gareth A. Wilson, Pawandeep Dhami, Andrew Feber, Daniel Cortázar, Yuka Suzuki, Reiner Schulz, Primo Schär, Stephan Beck
Software Mentions: 5
Published: about 14 years ago

10.1186/s12864-017-4091-x

5-hydroxymethylcytosine is highly dynamic across human fetal brain development
Cited by: 56
Author(s): Helen Spiers, Eilís Hannon, Leonard C Schalkwyk, Nicholas John Bray, Jonathan Mill
Software Mentions: 5
Published: almost 9 years ago

10.1128/mSystems.00093-19

Randomized Lasso Links Microbial Taxa with Aquatic Functional Groups Inferred from Flow Cytometry
Cited by: 14
Author(s): Peter Rubbens, Marian L. Schmidt, Ruben Props, Bopaiah A. Biddanda, Nico Boon, Willem Waegeman, Vincent J. Denef
Software Mentions: 5
Published: over 6 years ago

10.1186/s12859-021-04355-6

Fast and exact quantification of motif occurrences in biological sequences
Cited by: 1
Author(s): Mattia Prosperi, Simone Marini, Christina Boucher
Software Mentions: 5
Published: almost 5 years ago

10.1186/s13059-019-1922-x

DENDRO: genetic heterogeneity profiling and subclone detection by single-cell RNA sequencing
Cited by: 31
Author(s): Zilu Zhou, Baocheng Xu, Andy J. Minn, Nancy R. Zhang
Software Mentions: 5
Published: over 6 years ago

10.1002/ece3.5691

Metabolically similar cohorts of bacteria exhibit strong cooccurrence patterns with diet items and eukaryotic microbes in lizard guts
Cited by: 7
Author(s): Iris Holmes, Ivan V. Monagan, Daniel L. Rabosky, Alison R. Davis Rabosky
Software Mentions: 5
Published: over 6 years ago

10.1186/s12864-021-07912-8

Quantitative analysis of the blood transcriptome of young healthy pigs and its relationship with subsequent disease resilience
Cited by: 8
Author(s): Kyu-Sang Lim, Jian Cheng, Austin M. Putz, Qian Dong, Xue Bai, Hamid Beiki, Christopher K. Tuggle, Michael K. Dyck, Pig Gen Canada, Frédéric Fortin, John C. S. Harding, Graham Plastow, Jack C. M. Dekkers
Software Mentions: 5
Published: almost 5 years ago

10.1186/s12974-019-1454-z

Balance between innate versus adaptive immune system and the risk of dementia: a population-based cohort study
Cited by: 46
Author(s): Kimberly D. van der Willik, Lana Fani, Dimitris Rizopoulos, Silvan Licher, Jesse Fest, Sanne B. Schagen, Mohammad Kamran Ikram, M. Arfan Ikram
Software Mentions: 5
Published: over 7 years ago

10.3390/genes1010070

Next Generation Sequencing of miRNAs – Strategies, Resources and Methods
Cited by: 111
Author(s): Susanne Motameny, Stefanie Wolters, Peter Nürnberg, Björn Schumacher
Software Mentions: 5
Published: about 16 years ago

10.1371/journal.pone.0239552

Combining organic and mineral fertilizers as a climate-smart integrated soil fertility management practice in sub-Saharan Africa: A meta-analysis
Cited by: 39
Author(s): Gil Gram, Dries Roobroeck, Pypers Pieter, Johan Six, Roel Merckx, Bernard Vanlauwe
Software Mentions: 5
Published: almost 6 years ago

10.3390/diagnostics10040188

Profiling of Circulating microRNAs in Prostate Cancer Reveals Diagnostic Biomarker Potential
Cited by: 21
Author(s): Jacob Fredsøe, Anne Rasmussen, Peter Mouritzen, Marianne Bjerre, Peter Busch Østergren, Mikkel Fode, Michael Borre, Karina D. Sørensen
Software Mentions: 5
Published: over 6 years ago

10.7717/peerj.7362

DeepBindRG: a deep learning based method for estimating effective protein–ligand affinity
Cited by: 61
Author(s): Haiping Zhang, Linbu Liao, Konda Mani Saravanan, Peng Yin, Yanjie Wei
Software Mentions: 5
Published: almost 7 years ago

10.7554/eLife.50541

The MADS-box transcription factor PHERES1 controls imprinting in the endosperm by binding to domesticated transposons
Cited by: 62
Author(s): Rita A Batista, Jordi Moreno‐Romero, Yue Qiu, Joram van Boven, Juan Santos‐González, Duarte D. Figueiredo, Claudia Köhler
Software Mentions: 5
Published: over 6 years ago

10.1007/s10654-020-00636-1

Prediction meets causal inference: the role of treatment in clinical prediction models
Cited by: 43
Author(s): Nan van Geloven, Sonja A Swanson, Chava Ramspek, Kim Luijken, Merel van Diepen, Tim P Morris, Rolf H.H. Groenwold, Hans C. van Houwelingen, Hein Putter, Saskia le Cessie
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pgen.1009140

Drosophila Caliban preserves intestinal homeostasis and lifespan through regulating mitochondrial dynamics and redox state in enterocytes
Cited by: 12
Author(s): Zhaoxia Dai, Dong Liu, Xiao Du, Ying Ge, Deborah A. Hursh, Xiaolin Bi
Software Mentions: 5
Published: almost 6 years ago

10.1038/s41598-017-03232-8

Using variable importance measures to identify a small set of SNPs to predict heading date in perennial ryegrass
Cited by: 14
Author(s): Stephen Byrne, Philip G. Conaghan, Susanne Barth, Sai Krishna Arojju, Michael D. Casler, Thibauld Michel, Janaki Velmurugan, Dan Milbourne
Software Mentions: 5
Published: about 9 years ago

10.1186/s13073-021-00938-3

The DNA methylation landscape of multiple myeloma shows extensive inter- and intrapatient heterogeneity that fuels transcriptomic variability
Cited by: 9
Author(s): Jennifer Derrien, Catherine Guérin‐Charbonnel, Victor Gaborit, Loı̈c Campion, Martine Devic, Elise Douillard, Nathalie Roi, Hervé Avet‐Loiseau, Olivier Decaux, Thierry Facon, Jan‐Philipp Mallm, Roland Eils, Nikhil C. Munshi, Philippe Moreau, Carl Herrmann, Florence Magrangeas, Stέphane Minvielle
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0229845

A new method for computing the projection median, its influence curve and techniques for the production of projected quantile plots
Cited by: 1
Author(s): Fan Chen, Guy P. Nason
Software Mentions: 5
Published: about 6 years ago

10.1186/1471-2164-15-1072

In vivo genome-wide analysis of multiple tissues identifies gene regulatory networks, novel functions and downstream regulatory genes for Bapx1 and its co-regulation with Sox9 in the mammalian vertebral column
Cited by: 18
Author(s): Satadal Chatterjee, V. Sivakamasundari, Sook Peng Yap, Petra Kraus, Vibhor Kumar, Xing Xing, Siew Lan Lim, Joel Sng, Shyam Prabhakar, Thomas Lufkin
Software Mentions: 5
Published: over 11 years ago

10.1007/s00572-019-00918-x

Evolution and networks in ancient and widespread symbioses between Mucoromycotina and liverworts
Cited by: 20
Author(s): William R. Rimington, Silvia Pressel, Jeffrey G. Duckett, Katie J. Field, Martin I. Bidartondo
Software Mentions: 5
Published: over 6 years ago

10.3389/fpsyg.2021.564011

Psychometric Properties of the Independent and Interdependent Self-Construal Questionnaire: Evidence From the Czech Republic
Cited by: 1
Author(s): David Lacko, Jiří Čeněk, Tomáš Urbánek
Software Mentions: 5
Published: about 5 years ago

10.1186/1471-2164-15-966

A novel approach for multi-domain and multi-gene family identification provides insights into evolutionary dynamics of disease resistance genes in core eudicot plants
Cited by: 29
Author(s): Johannes A. Hofberger, Beifei Zhou, Haibao Tang, Jonathan D. G. Jones, M. Eric Schranz
Software Mentions: 5
Published: over 11 years ago

10.3390/genes11070792

Integrating Deep Supervised, Self-Supervised and Unsupervised Learning for Single-Cell RNA-seq Clustering and Annotation
Cited by: 21
Author(s): Liang Chen, Yuyao Zhai, Qiuyan He, Weinan Wang, Minghua Deng
Software Mentions: 5
Published: about 6 years ago

10.1038/srep28730

Dispersal similarly shapes both population genetics and community patterns in the marine realm
Cited by: 41
Author(s): Guillem Chust, Ernesto Villarino, Anne Chenuil, Xabier Irigoien, Nihayet Bizsel, Antonio Bode, Cecilie Broms, S. Claus, María Luz Fernández de Puelles, S. Fonda-Umani, Galice Hoarau, Maria Grazia Mazzocchi, Patricija Mozetič, L. Vandepitte, Helena Veríssimo, Soultana Zervoudaki, Ángel Borja
Software Mentions: 5
Published: about 10 years ago

10.1128/AEM.00899-20

Effect of Weather on the Die-Off of Escherichia coli and Attenuated Salmonella enterica Serovar Typhimurium on Preharvest Leafy Greens following Irrigation with Contaminated Water
Cited by: 15
Author(s): Alexandra Belias, Adrian Sbodio, Pilar Truchado, Daniel Weller, Janneth Pinzon, Mariya Skots, Ana Allende, Daniel Munther, Trevor Suslow, Martin Wiedmann, Renata Ivanek
Software Mentions: 5
Published: almost 6 years ago

10.1038/s41396-018-0263-1

In situ development of a methanotrophic microbiome in deep-sea sediments
Cited by: 56
Author(s): S. Emil Ruff, Janine Felden, Harald R. Gruber‐Vodicka, Yann Marcon, Katrin Knittel, Alban Ramette, Antje Boetius
Software Mentions: 5
Published: almost 8 years ago

10.1111/eva.12507

Incorporating evolutionary insights to improve ecotoxicology for freshwater species
Cited by: 34
Author(s): Steven P. Brady, Jonathan L. Richardson, Bethany K. Kunz
Software Mentions: 5
Published: almost 9 years ago

10.1038/s41598-021-98549-w

Effect of functional oils or probiotics on performance and microbiota profile of newly weaned piglets
Cited by: 4
Author(s): Alexandre Maciel Vieira, Amanda Pires Sessin, Tatiany Aparecida Teixeira Soratto, Paula Gabriela da Silva Pires, Kátia Maria Cardinal, Glauber Wagner, Lucélia Hauptli, André Luís Ferreira Lima, Fabiano Dahlke, Diego Peres Netto, Priscila de Oliveira Moraes
Software Mentions: 5
Published: almost 5 years ago

10.1128/mBio.00798-21

Manure Microbial Communities and Resistance Profiles Reconfigure after Transition to Manure Pits and Differ from Those in Fertilized Field Soil
Cited by: 10
Author(s): Kimberley V. Sukhum, Rhiannon C. Vargas, Manish Boolchandani, Alaric W. D’Souza, Sanket Patel, Akhil Kesaraju, Gretchen Walljasper, Harshad Hegde, Zhan Ye, Robert K. Valenzuela, Paul Gunderson, Casper Bendixsen, Gautam Dantas, Sanjay Kumar Shukla
Software Mentions: 5
Published: about 5 years ago

10.3389/fmicb.2019.00798

Soil Bacterial Function Associated With Stylo (Legume) and Bahiagrass (Grass) Is Affected More Strongly by Soil Chemical Property Than by Bacterial Community Composition
Cited by: 18
Author(s): Zhihui Yang, Yongqiang Qin, Xiaodi Liu, Feng Zhang, Honghui Zhu, Qing Yao
Software Mentions: 5
Published: over 7 years ago

10.3390/brainsci11060809

A CNN-Based Autoencoder and Machine Learning Model for Identifying Betel-Quid Chewers Using Functional MRI Features
Cited by: 3
Author(s): Ming-Chou Ho, Hsin-An Shen, Yi-Peng Eve Chang, Jun‐Cheng Weng
Software Mentions: 5
Published: about 5 years ago

10.1128/AEM.00149-21

Hyperlocal Variation in Soil Iron and the Rhizosphere Bacterial Community Determines Dollar Spot Development in Amenity Turfgrass
Cited by: 1
Author(s): Ming-Yi Chou, Smita Shrestha, Renée A. Rioux, Paul L. Koch
Software Mentions: 5
Published: about 5 years ago

10.7717/peerj.11707

Genome-wide association study uncovers new genetic loci and candidate genes underlying seed chilling-germination in maize
Cited by: 17
Author(s): Yinchao Zhang, Peng Liu, Chen Wang, Na Zhang, Yuxiao Zhu, Chaoying Zou, Guangsheng Yuan, Cong Yang, Shibin Gao, Guangtang Pan, Langlang Ma, Yaou Shen
Software Mentions: 5
Published: about 5 years ago

10.1186/gb-2012-13-10-r95

Genome-wide promoter methylation analysis in neuroblastoma identifies prognostic methylation biomarkers
Cited by: 60
Author(s): Anneleen Decock, Maté Ongenaert, Jasmien Hoebeeck, Katleen De Preter, Gert Van Peer, Wim Van Criekinge, Ruth Ladenstein, Johannes H. Schulte, Rosa Noguera, Raymond Stallings, An Van Damme, Geneviève Laureys, Joëlle Vermeulen, Tom Van Maerken, Frank Speleman, Jo Vandesompele
Software Mentions: 5
Published: over 14 years ago

10.7554/eLife.34077

Computational prediction of CTCF/cohesin-based intra-TAD loops that insulate chromatin contacts and gene expression in mouse liver
Cited by: 51
Author(s): Bryan J. Matthews, David J. Waxman
Software Mentions: 5
Published: about 8 years ago

10.7717/peerj.6559

Estimating probabilistic context-free grammars for proteins using contact map constraints
Cited by: 7
Author(s): Witold Dyrka, Mateusz Pyzik, F Coste, Hugo Talibart
Software Mentions: 5
Published: over 7 years ago

10.7717/peerj.4606

Can phosphorus application and cover cropping alter arbuscular mycorrhizal fungal communities and soybean performance after a five-year phosphorus-unfertilized crop rotational system?
Cited by: 21
Author(s): Masao Higo, Ryohei Sato, Ayu Serizawa, Yuichi Takahashi, Kento Gunji, Yuya Tatewaki, Katsunori Isobe
Software Mentions: 5
Published: about 8 years ago

10.1371/journal.pone.0237118

Modulation of the intestinal microbiota of broilers supplemented with monensin or functional oils in response to challenge by Eimeria spp.
Cited by: 14
Author(s): Alexandre Maciel Vieira, Tatiany Aparecida Teixeira Soratto, Kátia Maria Cardinal, Glauber Wagner, Lucélia Hauptli, André Luís Ferreira Lima, Fabiano Dahlke, Diego Peres Netto, Priscila de Oliveira Moraes, Andréa Machado Leal Ribeiro
Software Mentions: 5
Published: almost 6 years ago

10.1371/journal.pone.0017388

Azacytidine and Decitabine Induce Gene-Specific and Non-Random DNA Demethylation in Human Cancer Cell Lines
Cited by: 129
Author(s): Sabine Hagemann, Oliver Heil, Frank Lyko, Bodo Brueckner
Software Mentions: 5
Published: over 15 years ago

10.1038/srep37646

Exploring the molecular basis of age-related disease comorbidities using a multi-omics graphical model
Cited by: 45
Author(s): Jonas Zierer, Tess Pallister, Pei-Chien Tsai, Jan Krumsiek, Jordana T. Bell, Gordan Lauc, Tim D. Spector, Cristina Menni, Gabi Kastenmüller
Software Mentions: 5
Published: over 9 years ago

10.1371/journal.pone.0216860

The behavioral repertoire of Drosophila melanogaster in the presence of two predator species that differ in hunting mode
Cited by: 3
Author(s): Abhijna Parigi, Cody K. Porter, Megan Cermak, William Pitchers, Ian Dworkin
Software Mentions: 5
Published: about 7 years ago

10.1186/s40168-020-00966-y

Dicer-like proteins influence Arabidopsis root microbiota independent of RNA-directed DNA methylation
Cited by: 10
Author(s): Rajesh Kaushal, Peng Li, Sunil Kumar Singh, Mengrui Zhang, Xinlian Zhang, Juan Ignacio Vílchez, Zhen Wang, Danxia He, Yu Ye, Suhui Lv, Zhongtian Xu, Rafael J. L. Morcillo, Wei Wang, Wei-Chang Huang, Paul W. Paré, Chun‐Peng Song, Jian‐Kang Zhu, Renyi Liu, Wenxuan Zhong, Ping Ma, Huiming Zhang
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0145099

Variability of Symbiodinium Communities in Waters, Sediments, and Corals of Thermally Distinct Reef Pools in American Samoa
Cited by: 54
Author(s): Ross Cunning, Denise M. Yost, Marisa L. Guarinello, Hollie M. Putnam, Ruth D. Gates
Software Mentions: 5
Published: over 10 years ago

10.1016/j.ibmb.2019.04.009

Diet modulates the relationship between immune gene expression and functional immune responses
Cited by: 49
Author(s): Sheena C. Cotter, Catherine E. Reavey, Yamini Tummala, Joanna L Randall, Robert Holdbrook, Fleur Ponton, Stephen J. Simpson, Judith A. Smith, Kenneth Wilson
Software Mentions: 5
Published: about 7 years ago

10.3390/genes12060876

High SGO2 Expression Predicts Poor Overall Survival: A Potential Therapeutic Target for Hepatocellular Carcinoma
Cited by: 3
Author(s): Min Deng, Shaohua Li, Jie Mei, Wenping Lin, Jingwen Zou, Wei Wei, Rong Guo
Software Mentions: 5
Published: about 5 years ago

10.1186/s12911-020-1046-y

Monitoring stance towards vaccination in twitter messages
Cited by: 20
Author(s): Florian Kunneman, Mattijs Lambooij, Albert Wong, Antal van den Bosch, Liesbeth Mollema
Software Mentions: 5
Published: over 6 years ago

10.1093/dnares/dsaa029

<i>De novo</i> genome assembly of two tomato ancestors, <i>Solanum pimpinellifolium</i> and <i>Solanum</i> <i> lycopersicum</i> var. <i>cerasiforme</i>, by long-read sequencing
Cited by: 19
Author(s): Hitomi Takei, Kenta Shirasawa, Kosuke Kuwabara, Atsushi Toyoda, Yuma Matsuzawa, Shinji Iioka, Tohru Ariizumi
Software Mentions: 5
Published: over 5 years ago

10.7717/peerj.6562

Lightweight data management with dtool
Cited by: 4
Author(s): Tjelvar S. G. Olsson, Matthew Hartley
Software Mentions: 5
Published: over 7 years ago

10.1186/s13059-019-1860-7

CRUP: a comprehensive framework to predict condition-specific regulatory units
Cited by: 26
Author(s): Anna Ramisch, Verena Heinrich, Laura V. Glaser, Alisa Fuchs, Xinyi Yang, Philipp Benner, Robert Schöpflin, Na Li, Sarah Kinkley, Anja Römer-Hillmann, John Longinotto, Steffen Heyne, Beate Czepukojc, Sonja M. Kessler, Alexandra K. Kiemer, Cristina Cadenas, Laura Arrigoni, Nina Gasparoni, Thomas Manke, Thomas Pap, J. Andrew Pospisilik, Jan G. Hengstler, Jörn Walter, Sebastiaan H. Meijsing, Ho‐Ryun Chung, Martin Vingron
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0194136

Emotion computing using Word Mover’s Distance features based on Ren_CECps
Cited by: 11
Author(s): Fuji Ren, Ning Liu
Software Mentions: 5
Published: over 8 years ago

10.1186/s40679-016-0035-9

Towards on-the-fly data post-processing for real-time tomographic imaging at TOMCAT
Cited by: 63
Author(s): Federica Marone, Alain Studer, Heiner Billich, L. Sala, Marco Stampanoni
Software Mentions: 5
Published: over 9 years ago

10.1038/s41598-017-11036-z

SRSF1 suppresses selection of intron-distal 5′ splice site of DOK7 intron 4 to generate functional full-length Dok-7 protein
Cited by: 3
Author(s): Khalid Ahsan, Akio Matsubara, Mohammad Alinoor Rahman, Jun‐ichi Takeda, Mohammad Nazim, Bisei Ohkawara, Mikako Ito, Kinji Ohno
Software Mentions: 5
Published: almost 9 years ago

10.1093/gigascience/giab052

ChronoRoot: High-throughput phenotyping by deep segmentation networks reveals novel temporal parameters of plant root system architecture
Cited by: 16
Author(s): Nicolás Gaggion, Federico Ariel, Vladimir Daric, Éric Lambert, Simon Legendre, Thomas Roulé, Alejandra Camoirano, Diego H. Milone, Martín Crespi, Thomas Blein, Enzo Ferrante
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pcbi.1009345

Learning, visualizing and exploring 16S rRNA structure using an attention-based deep neural network
Cited by: 11
Author(s): Zhengqiao Zhao, Stephen Woloszynek, Felix Agbavor, Joshua Chang Mell, Bahrad A. Sokhansanj, Gail Rosen
Software Mentions: 5
Published: almost 5 years ago

10.1016/j.clon.2019.08.008

Time to Surgery Following Short-Course Radiotherapy in Rectal Cancer and its Impact on Postoperative Outcomes. A Population-Based Study Across the English National Health Service, 2009–2014
Cited by: 7
Author(s): Bethany Levick, Alexandra Gilbert, Katie Spencer, Amy Downing, John Taylor, P. J. Finan, David Sebag‐Montefiore, Eva Morris
Software Mentions: 5
Published: over 6 years ago

10.3389/frai.2021.680564

Topological Data Analysis Highlights Novel Geographical Signatures of the Human Gut Microbiome
Cited by: 3
Author(s): Eva Lymberopoulos, Giorgia Isabella Gentili, Muhannad Alomari, Nikhil Sharma
Software Mentions: 5
Published: almost 5 years ago

10.3390/v13081647

Monitoring SARS-CoV-2 Populations in Wastewater by Amplicon Sequencing and Using the Novel Program SAM Refiner
Cited by: 25
Author(s): Devon A. Gregory, Chris G. Wieberg, Jeff Wenzel, Chung‐Ho Lin, Marc C. Johnson
Software Mentions: 5
Published: almost 5 years ago

10.3390/s21113587

A Secure and Scalable Smart Home Gateway to Bridge Technology Fragmentation
Cited by: 3
Author(s): Ezequiel Simeoni, Eugenio Gaeta, Rebeca I. García-Betances, Dave Raggett, Alejandro Martín Medrano Gil, Diego F. Carvajal-Flores, Giuseppe Fico, María Fernanda Cabrera-Umpiérrez, María Teresa Arredondo
Software Mentions: 5
Published: about 5 years ago

10.1128/mSystems.00913-20

Genome-Scale Metabolic Models and Machine Learning Reveal Genetic Determinants of Antibiotic Resistance in Escherichia coli and Unravel the Underlying Metabolic Adaptation Mechanisms
Cited by: 23
Author(s): Nicole Pearcy, Yue Hu, Michelle Baker, Alexandre Maciel-Guerra, Ning Xue, Wei Wang, Jasmeet Kaler, Zong–Gen Peng, Fengqin Li, Tania Dottorini
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0254876

Mapping the probability of forest snow disturbances in Finland
Cited by: 5
Author(s): Susanne Suvanto, Aleksi Lehtonen, Seppo Nevalainen, Ilari Lehtonen, Heli Viiri, Mikael Strandström, Mikko Peltoniemi
Software Mentions: 5
Published: almost 5 years ago

10.3389/fmicb.2018.01035

Effects of Ice-Algal Aggregate Export on the Connectivity of Bacterial Communities in the Central Arctic Ocean
Cited by: 45
Author(s): Josephine Z. Rapp, Mar Fernández‐Méndez, Christina Bienhold, Antje Boetius
Software Mentions: 5
Published: about 8 years ago

10.3389/frai.2020.536086

Attitudes Toward Multilingualism in Luxembourg. A Comparative Analysis of Online News Comments and Crowdsourced Questionnaire Data
Cited by: 5
Author(s): Christoph Purschke
Software Mentions: 5
Published: over 5 years ago

10.1186/s13017-021-00389-6

Team dynamics in emergency surgery teams: results from a first international survey
Cited by: 18
Author(s): Lorenzo Cobianchi, Francesca Dal Mas, Maurizio Massaro, Paola Fugazzola, Federico Coccolini, Yoram Kluger, Ari Leppäniemi, Ernest E. Moore, Massimo Sartelli, Peter Angelos, Luca Ansaloni
Software Mentions: 5
Published: almost 5 years ago

10.12688/f1000research.5773.3

ActivePapers: a platform for publishing and archiving computer-aided research
Cited by: 11
Author(s): Konrad Hinsen
Software Mentions: 5
Published: about 11 years ago

10.12688/f1000research.11022.3

Picopore: A tool for reducing the storage size of Oxford Nanopore Technologies datasets without loss of functionality
Cited by: 3
Author(s): Scott Gigante
Software Mentions: 5
Published: almost 9 years ago

10.1186/s12885-019-6391-9

Identification of recurrence marker associated with immune infiltration in prostate cancer with radical resection and build prognostic nomogram
Cited by: 39
Author(s): Rui Xin, Siliang Shao, Li Wang, Jiangyong Leng
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0182342

Community- and government-managed marine protected areas increase fish size, biomass and potential value
Cited by: 23
Author(s): Angelica Chirico, Timothy R. McClanahan, Johan Eklöf
Software Mentions: 5
Published: almost 9 years ago

10.1038/s42003-020-0885-5

Multi-level evidence of an allelic hierarchy of USH2A variants in hearing, auditory processing and speech/language outcomes
Cited by: 5
Author(s): Peter A. Perrino, Lidiya Talbot, Rose Kirkland, Amanda Hill, Amanda R. Rendall, Hayley S. Mountford, Jenny C. Taylor, Alexzandrea N Buscarello, Nayana Lahiri, Anand Saggar, R. Holly Fitch, Dianne F. Newbury
Software Mentions: 5
Published: about 6 years ago

10.7717/peerj.4312

A new Python library to analyse skeleton images confirms malaria parasite remodelling of the red blood cell membrane skeleton
Cited by: 34
Author(s): Juan Nunez-Iglesias, Adam J. Blanch, Oliver Looker, Matthew W. A. Dixon, Leann Tilley
Software Mentions: 5
Published: over 8 years ago

10.3390/diagnostics10050305

Characterization of Stem-like Circulating Tumor Cells in Pancreatic Cancer
Cited by: 7
Author(s): Lei Zhu, Bárbara Hissa, Balázs Győrffy, Johann-Christoph Jann, Cui Yang, Christoph Reißfelder, Sebastian Schölch
Software Mentions: 5
Published: about 6 years ago

10.1038/s41597-021-00936-5

Database of ab initio L-edge X-ray absorption near edge structure
Cited by: 14
Author(s): Yiming Chen, Chi Chen, Zheng Chen, Shyam Dwaraknath, Matthew K. Horton, Jordi Cabana, J. J. Rehr, John Vinson, Alan Dozier, J. J. Kas, Kristin A. Persson, Shyue Ping Ong
Software Mentions: 5
Published: about 5 years ago

10.1186/s13059-021-02426-8

Haploflow: strain-resolved de novo assembly of viral genomes
Cited by: 15
Author(s): Adrian Fritz, Andreas Bremges, Zhi-Luo Deng, Till Robin Lesker, Jasper Götting, Tina Ganzenmueller, Alexander Sczyrba, Alexander Dilthey, Frank Klawonn, Alice C. McHardy
Software Mentions: 5
Published: almost 5 years ago