10.15252/msb.20188636

Unsupervised identification of disease states from high‐dimensional physiological and histopathological profiles
Cited by: 11
Author(s): Kenichi Shimada, Timothy J. Mitchison
Software Mentions: 17
Published: over 7 years ago

10.31744/einstein_journal/2020AO6127

COVID-19 information exposure in digital media and implications for employees in the health care sector: findings from an online survey
Cited by: 7
Author(s): Paulo Rodrigo Bazán, Raymundo Machado de Azevedo Neto, Julia Abou Dias, Vanessa Gil Salvatierra, Liana Guerra Sanches, Sheylla Nadjane Batista Lacerda, Edson Amaro, Elisa Harumi Kozasa, Joana Bisol Balardin
Software Mentions: 17
Published: over 6 years ago

10.3389/fimmu.2020.565730

Class I HLA Allele Predicted Restricted Antigenic Coverages for Spike and Nucleocapsid Proteins Are Associated With Deaths Related to COVID-19
Cited by: 22
Author(s): Marco Antônio M. Pretti, Rômulo Gonçalves Galvani, Gustavo Fioravanti Vieira, Adriana Bonomo, Martín Bonamino, Mariana Boroni
Software Mentions: 17
Published: over 5 years ago

10.3390/brainsci11081017

Facial Signals and Social Actions in Multimodal Face-to-Face Interaction
Cited by: 14
Author(s): Naomi Nota, James P. Trujillo, Judith Holler
Software Mentions: 17
Published: about 5 years ago

10.1186/s13059-019-1819-8

SEPATH: benchmarking the search for pathogens in human tissue whole genome sequence data leads to template pipelines
Cited by: 12
Author(s): Abraham Gihawi, Ghanasyam Rallapalli, Rachel Hurst, Colin S. Cooper, Richard M. Leggett, Daniel Brewer
Software Mentions: 17
Published: almost 7 years ago

10.7717/peerj.9539

The importance of open science for biological assessment of aquatic environments
Cited by: 15
Author(s): Marcus W. Beck, Casey C. O’Hara, Julia S. Stewart Lowndes, Raphael D. Mazor, Susanna Theroux, David J. Gillett, Belize Lane, Gregory Gearheart
Software Mentions: 17
Published: about 6 years ago

10.3389/fgene.2019.00499

ABioTrans: A Biostatistical Tool for Transcriptomics Analysis
Cited by: 6
Author(s): Zou Yutong, Thuy Tien Bui, Kumar Selvarajoo
Software Mentions: 17
Published: about 7 years ago

10.1186/s12859-020-03577-4

NASQAR: a web-based platform for high-throughput sequencing data analysis and visualization
Cited by: 38
Author(s): Ayman Yousif, Nizar Drou, Jillian Rowe, Mohammed Khalfan, Kristin C. Gunsalus
Software Mentions: 17
Published: about 6 years ago

10.1186/s12913-019-4105-2

Testing the psychometric properties of the Finnish version of the cross-cultural competence instrument of healthcare professionals (CCCHP)
Cited by: 5
Author(s): Laura Hietapakka, Marko Elovainio, Karolina Wesołowska, Anna-Mari Aalto, Anu‐Marja Kaihlanen, Timo Sinervo, Tarja Heponiemi
Software Mentions: 17
Published: over 7 years ago

10.1038/s41598-020-71344-9

Twentieth-century emergence of antimicrobial resistant human- and bovine-associated Salmonella enterica serotype Typhimurium lineages in New York State
Cited by: 9
Author(s): Laura M. Carroll, Jana S. Huisman
Software Mentions: 17
Published: almost 6 years ago

10.1038/s41598-020-80340-y

Universal principles underlying segmental structures in parrot song and human speech
Cited by: 6
Author(s): Dan C. Mann, W. Tecumseh Fitch, Hsiao‐Wei Tu, Marisa Hoeschele
Software Mentions: 17
Published: over 5 years ago

10.3390/cells10082013

ChroMo, an Application for Unsupervised Analysis of Chromosome Movements in Meiosis
Cited by: 0
Author(s): Daniel León-Periñán, Alfonso Fernández-Álvarez
Software Mentions: 17
Published: about 5 years ago

10.3390/tropicalmed6010027

Identification, Distribution, and Habitat Suitability Models of Ixodid Tick Species in Cattle in Eastern Bhutan
Cited by: 10
Author(s): Jamyang Namgyal, Tim Lysyk, Isabelle Couloigner, Sylvia Checkley, Ratna B. Gurung, Tenzin Tenzin, Sithar Dorjee, Susan C. Cork
Software Mentions: 16
Published: over 5 years ago

10.1186/s12935-020-01571-7

RETRACTED ARTICLE: Aging-related tumor associated fibroblasts changes could worsen the prognosis of GBM patients
Cited by: 7
Author(s): Hongwang Song, Xiaojun Fu, Chenxing Wu, Shouwei Li
Software Mentions: 16
Published: almost 6 years ago

10.1186/1471-2105-9-439

CMA – a comprehensive Bioconductor package for supervised classification with high dimensional data
Cited by: 90
Author(s): Martin Slawski, Martin Däumer, Anne‐Laure Boulesteix
Software Mentions: 16
Published: almost 18 years ago

10.1371/journal.pone.0230416

The citation advantage of linking publications to research data
Cited by: 131
Author(s): Giovanni Colavizza, Iain Hrynaszkiewicz, Isla Staden, Kirstie Whitaker, Barbara McGillivray
Software Mentions: 16
Published: over 6 years ago

10.1186/1472-6947-13-126

Evaluation of prediction models for the staging of prostate cancer
Cited by: 19
Author(s): Susie Boyce, Yue Fan, R. William G. Watson, Brendan Murphy
Software Mentions: 16
Published: over 12 years ago

10.1093/molbev/msab006

Compatibility of Evolutionary Responses to Constituent Antibiotics Drive Resistance Evolution to Drug Pairs
Cited by: 14
Author(s): Leonie Johanna Jahn, Daniel Simon, Mia Jensen, Charles B. Bradshaw, Mostafa Mostafa Hashim Ellabaan, Morten Otto Alexander Sommer
Software Mentions: 16
Published: over 5 years ago

10.1371/journal.pone.0195112

Verrucomicrobia are prevalent in north-temperate freshwater lakes and display class-level preferences between lake habitats
Cited by: 43
Author(s): Edna Chiang, Marian L. Schmidt, Michelle A. Berry, Bopaiah A. Biddanda, Ashley M. Burtner, Thomas H. Johengen, Danna Palladino, Vincent J. Denef
Software Mentions: 16
Published: over 8 years ago

10.1128/MRA.00129-19

omu, a Metabolomics Count Data Analysis Tool for Intuitive Figures and Convenient Metadata Collection
Cited by: 12
Author(s): Connor R. Tiffany, Andreas J. Bäumler
Software Mentions: 16
Published: over 7 years ago

10.1126/sciimmunol.abd6832

Natural killer cell immunotypes related to COVID-19 disease severity
Cited by: 315
Author(s): Christopher Maucourant, Iva Filipovic, Andrea Ponzetta, Soo Aleman, Martin Cornillet, Laura Hertwig, Benedikt Strunz, Antonio Lentini, Björn Reinius, Demi Brownlie, Angélica Cuapio, Eivind Heggernes Ask, Ryan M. Hull, Alvaro Haroun-Izquierdo, Marie Schaffer, Jonas Klingström, Elin Folkesson, Marcus Buggert, Johan K. Sandberg, Lars Eriksson, Olav Rooyackers, Hans‐Gustaf Ljunggren, Karl‐Johan Malmberg, Jakob Michaëlsson, Nicole Marquardt, Quirin Hammer, Kristoffer Strålin, Niklas K. Björkström
Software Mentions: 16
Published: about 6 years ago

10.3389/fimmu.2017.00445

Integration of Immune Cell Populations, mRNA-Seq, and CpG Methylation to Better Predict Humoral Immunity to Influenza Vaccination: Dependence of mRNA-Seq/CpG Methylation on Immune Cell Populations
Cited by: 15
Author(s): Michael T. Zimmermann, Richard B. Kennedy, Diane E. Grill, Ann L. Oberg, Krista M. Goergen, Inna G. Ovsyannikova, Iana H. Haralambieva, Gregory A. Poland
Software Mentions: 16
Published: over 9 years ago

10.3389/fninf.2018.00068

Code Generation in Computational Neuroscience: A Review of Tools and Techniques
Cited by: 27
Author(s): Inga Blundell, Romain Brette, Thomas A. Cleland, Thomas G. Close, Daniel Coca, Andrew P. Davison, Sandra Diaz-Pier, Carlos Fernandez Musoles, Padraig Gleeson, Dan F. M. Goodman, Michael L. Hines, Michael Hopkins, Pramod Kumbhar, David Lester, Bóris Marin, Abigail Morrison, Eric Müller, Thomas Nowotny, Alexander Peyser, Dimitri Plotnikov, Paul Richmond, Andrew Rowley, Bernhard Rumpe, Marcel Stimberg, Alan B. Stokes, Adam Tomkins, Guido Trensch, Michael Woodman, Jochen Martin Eppler
Software Mentions: 16
Published: almost 8 years ago

10.1093/conphys/coaa131

Automated flow control of a multi-lane swimming chamber for small fishes indicates species-specific sensitivity to experimental protocols
Cited by: 3
Author(s): Björn Illing, Andrea Severati, Justin Hochen, Paul M. Boyd, Paulin Raison, Rachel Mather, Adam T. Downie, Jodie L. Rummer, Frederieke J. Kroon, Craig Humphrey
Software Mentions: 16
Published: over 5 years ago

10.3389/fcell.2020.596679

Development and Validation of a Combined Ferroptosis and Immune Prognostic Classifier for Hepatocellular Carcinoma
Cited by: 77
Author(s): Yang Liu, Xi Zhang, Junjun Zhang, Juan Tan, Jie Li, Zewen Song
Software Mentions: 16
Published: over 5 years ago

10.7554/eLife.21883

Layer-specific chromatin accessibility landscapes reveal regulatory networks in adult mouse visual cortex
Cited by: 72
Author(s): Lucas T. Gray, Zizhen Yao, Thuc Nghi Nguyen, Tae Kyung Kim, Hongkui Zeng, Bosiljka Tasic
Software Mentions: 16
Published: over 9 years ago

10.1534/g3.119.400018

BGData - A Suite of R Packages for Genomic Analysis with Big Data
Cited by: 23
Author(s): Alexander Grueneberg, Gustavo de los Campos
Software Mentions: 16
Published: over 7 years ago

10.7150/ijms.53531

Identification novel prognostic signatures for Head and Neck Squamous Cell Carcinoma based on ceRNA network construction and immune infiltration analysis
Cited by: 18
Author(s): Haiting Zhou, Yi He, Lingling Li, Cheng Wu, Guoqing Hu
Software Mentions: 16
Published: over 5 years ago

10.1038/s41598-021-81688-5

Fungal diversity and community structure from coastal and barrier island beaches in the United States Gulf of Mexico
Cited by: 14
Author(s): Allison K. Walker, Brent M. Robicheau
Software Mentions: 16
Published: over 5 years ago

10.1371/journal.pone.0136452

Estimating Limit Reference Points for Western Pacific Leatherback Turtles (Dermochelys coriacea) in the U.S. West Coast EEZ
Cited by: 14
Author(s): K. Alexandra Curtis, Jeffrey E. Moore, Scott R. Benson
Software Mentions: 16
Published: almost 11 years ago

10.12688/f1000research.27268.1

rANOMALY: AmplicoN wOrkflow for Microbial community AnaLYsis
Cited by: 16
Author(s): Sébastien Theil, Étienne Rifa
Software Mentions: 16
Published: over 5 years ago

10.1080/17453674.2020.1846956

Uncemented or cemented stems in first-time revision total hip replacement? An observational study of 867 patients including assessment of femoral bone defect size
Cited by: 7
Author(s): Yosef Tyson, Christer Hillman, Norbert Majenburg, Olof Sköldenberg, Ola Rolfson, Johan Kärrholm, Maziar Mohaddes, Nils P Hailer
Software Mentions: 16
Published: almost 6 years ago

10.1002/ece3.6959

In the shadows of snow leopards and the Himalayas: density and habitat selection of blue sheep in Manang, Nepal
Cited by: 11
Author(s): Marc Filla, Rinzin Phunjok Lama, Tashi Rapte Ghale, Johannes Signer, Tim Filla, Raja Ram Aryal, Marco Heurich, Matthias Waltert, Niko Balkenhol, Igor Khorozyan
Software Mentions: 16
Published: over 5 years ago

10.3390/cancers12040957

Pan-Cancer Analysis of Radiotherapy Benefits and Immune Infiltration in Multiple Human Cancers
Cited by: 10
Author(s): Pengbo Wen, Yang Gao, Bin Chen, Xiaojing Qi, Guanshuo Hu, An Xu, Junfeng Xia, Lijun Wu, Lu Han, Guoping Zhao
Software Mentions: 16
Published: over 6 years ago

10.3389/fonc.2021.644416

An Inflammatory Response-Related Gene Signature Can Impact the Immune Status and Predict the Prognosis of Hepatocellular Carcinoma
Cited by: 62
Author(s): Zhuo Lin, Xu Qian, Dan Miao, Fang Yu
Software Mentions: 16
Published: over 5 years ago

10.1038/s41419-021-03909-z

Diagnostic and prognostic potential of the proteomic profiling of serum-derived extracellular vesicles in prostate cancer
Cited by: 14
Author(s): Michele Signore, Romina Alfonsi, Giulia Federici, Simona Nanni, Antonio Addario, Lucia Bertuccini, Aurora Aiello, Anna Pace, Isabella Sperduti, Giovanni Muto, Alessandro Giacobbe, Devis Collura, Lidia Brunetto, Giuseppe Simone, Manuela Costantini, Lucio Crinò, Stefania Rossi, Claudio Tabolacci, Marco Diociaiuti, Tania Merlino, Michele Gallucci, Steno Sentinelli, Rocco Papalia, Ruggero De Maria, Dèsirèe Bonci
Software Mentions: 16
Published: about 5 years ago

10.1186/s13059-014-0550-8

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
Cited by: 49,504
Author(s): Michael I. Love, Wolfgang Huber, Simon Anders
Software Mentions: 16
Published: over 11 years ago

10.1186/s13059-021-02335-w

Human brain region-specific variably methylated regions are enriched for heritability of distinct neuropsychiatric traits
Cited by: 15
Author(s): Lindsay F. Rizzardi, Peter Hickey, Adrian Idrizi, Rakel Tryggvadóttir, Colin M. Callahan, K Stephens, Sean D. Taverna, Hao Zhang, Sinan Ramazanoglu, Kasper D. Hansen, Andrew P. Feinberg
Software Mentions: 16
Published: over 5 years ago

10.3389/fmicb.2019.00240

Changes in Trophic Groups of Protists With Conversion of Rainforest Into Rubber and Oil Palm Plantations
Cited by: 38
Author(s): Garvin Schulz, Dominik Schneider, Nicole Brinkmann, Nur Edy, Rolf Daniel, Andrea Polle, Stefan Scheu, Valentyna Krashevska
Software Mentions: 16
Published: over 7 years ago

10.1371/journal.pone.0231982

Rapid processing of neutral and angry expressions within ongoing facial stimulus streams: Is it all about isolated facial features?
Cited by: 2
Author(s): Antonio Schettino, Emanuele Porcu, Christopher Gundlach, Christian Keitel, Matthias Müller
Software Mentions: 16
Published: over 6 years ago

10.12688/f1000research.15398.3

Swimming downstream: statistical analysis of differential transcript usage following Salmon quantification
Cited by: 53
Author(s): Michael I. Love, Charlotte Soneson, Rob Patro
Software Mentions: 16
Published: almost 8 years ago

10.3389/fonc.2020.555632

Comprehensive Characterization of Alternative mRNA Splicing Events in Glioblastoma: Implications for Prognosis, Molecular Subtypes, and Immune Microenvironment Remodeling
Cited by: 8
Author(s): Liang Zhao, Jiayue Zhang, Zhiyuan Liu, Yu Wang, Shurui Xuan, Peng Zhao
Software Mentions: 16
Published: over 5 years ago

10.3389/fvets.2020.00068

Near Real-Time Monitoring of Clinical Events Detected in Swine Herds in Northeastern Spain
Cited by: 3
Author(s): Ana Alba-Casals, Eduard Allue, Vicens Tarancón, Jordi Baliellas, Elena Novell, Sebastián Napp, Lorenzo Fraile
Software Mentions: 16
Published: over 6 years ago

10.12688/f1000research.22139.2

scRepertoire: An R-based toolkit for single-cell immune receptor analysis
Cited by: 121
Author(s): Nicholas Borcherding, Nicholas L. Bormann, Gloria Kraus
Software Mentions: 16
Published: about 6 years ago

10.12688/f1000research.16198.2

scClustViz – Single-cell RNAseq cluster assessment and visualization
Cited by: 25
Author(s): Brendan T. Innes, Gary D. Bader
Software Mentions: 16
Published: over 7 years ago

10.1155/2018/6587049

Data Association Methodology to Improve Spatial Predictions in Alternative Marketing Circuits in Ecuador
Cited by: 1
Author(s): Washington R. Padilla, Juan Francisco Blanco García
Software Mentions: 16
Published: almost 8 years ago

10.3389/fonc.2021.690129

A Tumor Progression Related 7-Gene Signature Indicates Prognosis and Tumor Immune Characteristics of Gastric Cancer
Cited by: 6
Author(s): Fen Liu, Zongcheng Yang, Lixin Zheng, Wei Shao, Xiujie Cui, Yue Wang, Jihui Jia, Yue Fu
Software Mentions: 16
Published: about 5 years ago

10.7554/eLife.61812

Reproducible analysis of disease space via principal components using the novel R package syndRomics
Cited by: 18
Author(s): Abel Torres-Espín, Austin Chou, J. Russell Huie, Nikos Kyritsis, Pavan S. Upadhyayula, Adam R. Ferguson
Software Mentions: 16
Published: over 5 years ago

10.1371/journal.pone.0244876

Predicting drug-metagenome interactions: Variation in the microbial β-glucuronidase level in the human gut metagenomes
Cited by: 12
Author(s): Moamen M. Elmassry, Sunghwan Kim, Ben Busby
Software Mentions: 16
Published: over 5 years ago

10.1371/journal.pntd.0007969

Severity Index for Suspected Arbovirus (SISA): Machine learning for accurate prediction of hospitalization in subjects suspected of arboviral infection
Cited by: 10
Author(s): Rachel Sippy, Daniel F. Farrell, Daniel A. Lichtenstein, Ryan Nightingale, Megan Harris, Joseph Toth, Paris Hantztidiamantis, Nicholas Usher, Cinthya Cueva Aponte, Julio Barzallo Aguilar, Anthony Puthumana, Christina D. Lupone, Timothy P. Endy, Sadie J. Ryan, Anna M. Stewart-Ibarra
Software Mentions: 16
Published: over 6 years ago

10.3389/fpsyg.2021.727737

Psychological Balance Scale: Validation Studies of an Integrative Measure of Well-Being
Cited by: 7
Author(s): Anastasia Besika, Andrea B. Horn, Mike Martin
Software Mentions: 16
Published: almost 5 years ago

10.3390/cancers13133166

High-Risk Clinicopathological and Genetic Features and Outcomes in Patients Receiving Neoadjuvant Radiochemotherapy for Locally Advanced Rectal Cancer
Cited by: 3
Author(s): Sofía Del Carmen, Luis A. Corchete, Cristina Velasco, Julia Sanz, José A. Sánchez Alcázar, José María Sánchez García, Ana Isabel Enríquez Rodríguez, Rosario Vidal-Tocino, A Barrio Rodriguez, Luis Alberto Pérez-Romasanta, José María Sayagués, Mónica Viñarás Abad
Software Mentions: 16
Published: about 5 years ago

10.1186/s13059-021-02388-x

Gene set enrichment analysis for genome-wide DNA methylation data
Cited by: 61
Author(s): Jovana Maksimovic, Alicia Oshlack, Belinda Phipson
Software Mentions: 16
Published: about 5 years ago

10.7717/peerj.11177

Predicting migration routes for three species of migratory bats using species distribution models
Cited by: 13
Author(s): Jamin G. Wieringa, Bryan C. Carstens, H. Lisle Gibbs
Software Mentions: 16
Published: over 5 years ago

10.3390/cells10092367

The Emerging Plasticizer Alternative DINCH and Its Metabolite MINCH Induce Oxidative Stress and Enhance Inflammatory Responses in Human THP-1 Macrophages
Cited by: 16
Author(s): Alexandra Schaffert, Josi Arnold, Isabel Karkossa, Matthias Blüher, Martin von Bergen, Kristin Schubert
Software Mentions: 16
Published: almost 5 years ago

10.1016/j.xpro.2021.100768

A computational approach for identification of core modules from a co-expression network and GWAS data
Cited by: 0
Author(s): Olivia L. Sabik, Cheryl Ackert‐Bicknell, Charles R. Farber
Software Mentions: 16
Published: almost 5 years ago

10.1186/1471-2105-11-237

ChIPpeakAnno: a Bioconductor package to annotate ChIP-seq and ChIP-chip data
Cited by: 868
Author(s): Lihua Julie Zhu, Claude Gazin, Nathan D. Lawson, Hervé Pagès, Simon Lin, David S. Lapointe, Michael R. Green
Software Mentions: 16
Published: over 16 years ago

10.3389/frai.2021.628441

Interpretability Versus Accuracy: A Comparison of Machine Learning Models Built Using Different Algorithms, Performance Measures, and Features to Predict E. coli Levels in Agricultural Water
Cited by: 12
Author(s): Daniel Weller, Tanzy Love, Martin Wiedmann
Software Mentions: 16
Published: over 5 years ago

10.1038/s41597-019-0344-7

A global database for metacommunity ecology, integrating species, traits, environment and space
Cited by: 21
Author(s): Aliénor Jeliazkov, Darko Mijatovic, Stéphane Chantepie, Nigel R. Andrew, Raphaël Arlettaz, Luc Barbaro, Nadia Barsoum, Alena Sucháčková Bartoňová, Elena Belskaya, Núria Bonada, Anik Brind’Amour, Rodrigo Assis de Carvalho, Helena Castro, Damian Chmura, Philippe Choler, Karen M. Chong‐Seng, Daniel F. R. Cleary, A. Cormont, William K. Cornwell, Ramiro de Campos, Nicole J. de Voogd, Sylvain Dolédec, Joshua Adam Drew, Frank Dziock, Anthony S. Eallonardo, Melanie J. Edgar, Fábio Z. Farneda, Domingo Flores Hernández, Cédric Frenette‐Dussault, Guillaume Fried, Belinda Gallardo, Heloise Gibb, Thiago Gonçalves‐Souza, Janet Higuti, Jean‐Yves Humbert, Boris R. Krasnov, Eric Le Saux, Zoë Lindo, Adrià López‐Baucells, E. Cronin Lowe, Bryndís Marteinsdóttir, Koenraad Martens, Peter J. Meffert, Andrés Mellado‐Díaz, Myles H. M. Menz, Christoph F. J. Meyer, Julia Ramos-Miranda, David Mouillot, Alessandro Ossola, Robin J. Pakeman, Sandrine Pavoine, Burak K. Pekin, Joan Pino, Arnaud Pocheville, Francesco Pomati, Peter Poschlod, Honor C. Prentice, Oliver Purschke, Valérie Raevel, Triin Reitalu, Willem Renema, Ignacio Ribera, Natalie Robinson, Bjorn J. M. Robroek, Ricardo Rocha, Sen-Her Shieh, Rebecca Spake, Monika Staniaszek‐Kik, Michał Stanko, Francisco Leonardo Tejerina‐Garro, Cajo J. F. ter Braak, Mark C. Urban, Roel van Klink, Sébastien Villéger, R.J.M. Wegman, Martin J. Westgate, Jonas Wolff, Jan Żarnowiec, М. П. Золотарев, Jonathan M. Chase
Software Mentions: 16
Published: over 6 years ago

10.1038/s41598-021-81583-z

Foraging niche partitioning in sympatric seabird populations
Cited by: 11
Author(s): Christina Petalas, Thomas Lazarus, Richard Lavoie, Kyle H. Elliott, Mélanie F. Guigueno
Software Mentions: 16
Published: over 5 years ago

10.1371/journal.pone.0189789

An integrative framework to reevaluate the Neotropical catfish genus Guyanancistrus (Siluriformes: Loricariidae) with particular emphasis on the Guyanancistrus brevispinis complex
Cited by: 11
Author(s): Sonia Fisch-Muller, Jan H. Mol, Raphaël Covain
Software Mentions: 16
Published: over 8 years ago

10.3390/ijms22052244

The Distribution of Several Genomic Virulence Determinants Does Not Corroborate the Established Serotyping Classification of Bacillus thuringiensis
Cited by: 4
Author(s): Anton E. Shikov, Yury V. Malovichko, Arseniy Lobov, Maria Belousova, Anton A. Nizhnikov, Kirill S. Antonets
Software Mentions: 16
Published: over 5 years ago

10.1038/s42003-021-01757-3

Jaw shape and mechanical advantage are indicative of diet in Mesozoic mammals
Cited by: 20
Author(s): Nuria Melisa Morales-García, Pamela G. Gill, Christine M. Janis, Emily J. Rayfield
Software Mentions: 16
Published: over 5 years ago

10.1371/journal.pone.0156537

Gendist: An R Package for Generated Probability Distribution Models
Cited by: 8
Author(s): Shaiful Anuar Abu Bakar, Saralees Nadarajah, Zahrul Azmir Absl Kamarul Adzhar, Ibrahim Mohamed
Software Mentions: 16
Published: about 10 years ago

10.1093/gigascience/giz061

LION/web: a web-based ontology enrichment tool for lipidomic data analysis
Cited by: 110
Author(s): Martijn R. Molenaar, Aike Jeucken, Tsjerk A. Wassenaar, Chris H.A. van de Lest, Jos F. Brouwers, J. Bernd Helms
Software Mentions: 16
Published: about 7 years ago

10.1371/journal.pone.0214640

Correlates of social role and conflict severity in wild vervet monkey agonistic screams
Cited by: 10
Author(s): Stéphanie Mercier, Éloïse C. Déaux, Erica van de Waal, Axelle Bono, Klaus Zuberbühler
Software Mentions: 16
Published: over 7 years ago

10.1371/journal.pgen.1008866

Phylogenetic background and habitat drive the genetic diversification of Escherichia coli
Cited by: 119
Author(s): Marie Touchon, Perrin Amandine, Jorge Moura de Sousa, Belinda Vangchhia, Samantha Burn, Claire O’Brien, Erick Denamur, David M. Gordon, Eduardo P. C. Rocha
Software Mentions: 16
Published: about 6 years ago

10.3389/fgene.2021.719204

RetroScan: An Easy-to-Use Pipeline for Retrocopy Annotation and Visualization
Cited by: 2
Author(s): Zhaoyuan Wei, Jiahe Sun, Qinhui Li, Ting Yao, Haiyue Zeng, Yi Wang
Software Mentions: 16
Published: almost 5 years ago

10.3389/fpsyg.2021.627561

Automatic Facial Expression Recognition in Standardized and Non-standardized Emotional Expressions
Cited by: 41
Author(s): Theresa Küntzler, T. Tim A. Höfling, Georg W. Alpers
Software Mentions: 16
Published: over 5 years ago

10.1002/ece3.4361

Seasonal variation of secondary metabolites in nine different bryophytes
Cited by: 28
Author(s): Kristian Peters, Karin Gorzolka, Helge Bruelheide, Steffen Neumann
Software Mentions: 16
Published: almost 8 years ago

10.3390/ijms22062822

A Detailed Catalogue of Multi-Omics Methodologies for Identification of Putative Biomarkers and Causal Molecular Networks in Translational Cancer Research
Cited by: 6
Author(s): Efstathios Iason Vlachavas, Jonas Bohn, Frank Ückert, Sylvia Nürnberg
Software Mentions: 16
Published: over 5 years ago

10.1371/journal.pgen.1008927

On the cross-population generalizability of gene expression prediction models
Cited by: 34
Author(s): Kevin L. Keys, Angel C. Y. Mak, Marquitta J. White, Walter L. Eckalbar, Andrew Dahl, Joel Mefford, Anna V. Mikhaylova, María G. Contreras, Jennifer R. Elhawary, Celeste Eng, Donglei Hu, Scott Huntsman, Sam S. Oh, Sandra Salazar, Michael A. LeNoir, Jimmie C. Ye, Timothy A. Thornton, Noah Zaitlen, Esteban G. Burchard, Christopher R. Gignoux
Software Mentions: 16
Published: about 6 years ago

10.1038/s41598-020-69683-8

Concomitant DNA methylation and transcriptome signatures define epidermal responses to acute solar UV radiation
Cited by: 5
Author(s): Nicholas Holzscheck, Jörn Söhle, T. Schläger, Cassandra Falckenhayn, Elke Grönniger, Ludger Kolbe, Horst Wenck, Lara Terstegen, Lars Kaderali, Marc Winnefeld, Katharina Gorges
Software Mentions: 16
Published: about 6 years ago

10.1111/mec.15250

Demographic and environmental drivers of metagenomic viral diversity in vampire bats
Cited by: 57
Author(s): Laura M. Bergner, Richard Orton, Julio A. Benavides, Daniel J. Becker, Carlos Tello, Roman Biek, Daniel G. Streicker
Software Mentions: 16
Published: almost 7 years ago

10.1186/s13059-020-02020-4

Lifestyle and the presence of helminths is associated with gut microbiome composition in Cameroonians
Cited by: 43
Author(s): Meagan A Rubel, Arwa Abbas, Louis J. Taylor, Andrew Jesse Connell, Ceylan Tanes, Kyle Bittinger, Valantine Ngum Ndze, Julius Y. Fonsah, Eric Ngwang, André Essiane, Charles Fokunang, Alfred K. Njamnshi, Frederic D. Bushman, Sarah A. Tishkoff
Software Mentions: 16
Published: about 6 years ago

10.1038/s41598-017-11514-4

Microbial communities in placentas from term normal pregnancy exhibit spatially variable profiles
Cited by: 121
Author(s): Lindsay A. Parnell, Catherine Briggs, Bin Cao, Omar Delannoy-Bruno, Andrew E. Schrieffer, Indira U. Mysorekar
Software Mentions: 16
Published: almost 9 years ago

10.1186/s40168-019-0725-3

Baseline microbiota composition modulates antibiotic-mediated effects on the gut microbiota and host
Cited by: 43
Author(s): Aonghus Lavelle, Thomas Hoffmann, Hang-Phuong Pham, Philippe Langella, Éric Guédon, Harry Sokol
Software Mentions: 16
Published: about 7 years ago

10.1093/gbe/evab127

Genome-Inferred Correspondence between Phylogeny and Metabolic Traits in the Wild <i>Drosophila</i> Gut Microbiome
Cited by: 4
Author(s): Jeffery S. McMullen, Eduardo Bueno, Frances Blow, Angela E. Douglas
Software Mentions: 16
Published: about 5 years ago

10.1186/s40168-020-00961-3

Whole microbial community viability is not quantitatively reflected by propidium monoazide sequencing approach
Cited by: 30
Author(s): Wang Ya, Yan Yan, Kelsey N. Thompson, Sena Bae, Emma K. Accorsi, Yancong Zhang, Jiaxian Shen, Hera Vlamakis, Erica M. Hartmann, Curtis Huttenhower
Software Mentions: 15
Published: over 5 years ago

10.1111/eva.13202

Adaptive markers distinguish North and South Pacific Albacore amid low population differentiation
Cited by: 15
Author(s): Felix Vaux, Sandra Bohn, John R. Hyde, Kathleen G. O’Malley
Software Mentions: 15
Published: over 5 years ago

10.3390/biomedicines9020144

Dietary Rice Bran-Modified Human Gut Microbial Consortia Confers Protection against Colon Carcinogenesis Following Fecal Transfaunation
Cited by: 19
Author(s): Kristopher D. Parker, Akhilendra Kumar Maurya, Hend Ibrahim, Sangeeta Rao, Petronella R. Hove, Dileep Kumar, Rama Kant, B. L. Raina, Rajesh Agarwal, Kristine A. Kuhn, Komal Raina, Elizabeth P. Ryan
Software Mentions: 15
Published: over 5 years ago

10.1038/s42003-021-01796-w

Temporal association between human upper respiratory and gut bacterial microbiomes during the course of COVID-19 in adults
Cited by: 73
Author(s): Rong Xu, Renfei Lu, Tao Zhang, Qian Wu, Wei Cai, Xudong Han, Zhenzhou Wan, Xia Jin, Zhigang Zhang, Chiyu Zhang
Software Mentions: 15
Published: over 5 years ago

10.1371/journal.pgen.1009538

Transcriptome-wide investigation of stop codon readthrough in Saccharomyces cerevisiae
Cited by: 16
Author(s): Kotchaphorn Mangkalaphiban, Feng He, Robin Ganesan, Chan Wu, Richard E. Baker, Allan Jacobson
Software Mentions: 15
Published: over 5 years ago

10.3390/microorganisms9051050

Effect of Ionizing Radiation on the Bacterial and Fungal Endophytes of the Halophytic Plant Kalidium schrenkianum
Cited by: 5
Author(s): Jing Zhu, Xiang Sun, Zhidong Zhang, Qi-Yong Tang, Minghong Gu, Lijuan Zhang, Min Hou, Amir Sharon, Hongli Yuan
Software Mentions: 15
Published: over 5 years ago

10.1007/s00204-021-03031-1

Functional alterations by a subgroup of neonicotinoid pesticides in human dopaminergic neurons
Cited by: 26
Author(s): Dominik Loser, María G. Hinojosa, John D. Blum, Jasmin Schaefer, Markus Brüll, Ylva Johansson, Ilinca Suciu, Karin Grillberger, Timm Danker, Clemens Möller, Iain Gardner, Gerhard Ecker, Susanne Hougaard Bennekou, Anna Forsby, Udo Kraushaar, Marcel Leist
Software Mentions: 15
Published: over 5 years ago

10.3389/fgene.2021.559998

Gene Size Matters: An Analysis of Gene Length in the Human Genome
Cited by: 55
Author(s): Inês Lopes, Gulam Altab, Priyanka Raina, João Pedro de Magalhães
Software Mentions: 15
Published: over 5 years ago

10.1038/s41598-020-63428-3

No evidence of spontaneous preference for slowly moving objects in visually naïve chicks
Cited by: 7
Author(s): Bastien S. Lemaire
Software Mentions: 15
Published: over 6 years ago

10.3390/ijms21239157

NF-Y Overexpression in Liver Hepatocellular Carcinoma (HCC)
Cited by: 16
Author(s): Eugenia Bezzecchi, Mirko Ronzio, Roberto Mantovani, Diletta Dolfini
Software Mentions: 15
Published: over 5 years ago

10.1186/s12859-017-1994-0

PIVOT: platform for interactive analysis and visualization of transcriptomics data
Cited by: 30
Author(s): Qin Zhu, Stephen Fisher, Hannah Dueck, Sarah A. Middleton, Mugdha Khaladkar, Junhyong Kim
Software Mentions: 15
Published: over 8 years ago

10.1111/eva.13246

Movements of transposable elements contribute to the genomic plasticity and species diversification in an asexually reproducing nematode pest
Cited by: 11
Author(s): Djampa Kozlowski, Rahim Hassanaly‐Goulamhoussen, Martine Da Rocha, Georgios Koutsovoulos, Marc Bailly‐Bechet, Étienne Danchin
Software Mentions: 15
Published: about 5 years ago

10.3389/fcell.2021.671736

Identification of a Novel Immune Landscape Signature for Predicting Prognosis and Response of Endometrial Carcinoma to Immunotherapy and Chemotherapy
Cited by: 6
Author(s): Jinhui Liu, Yichun Wang, Jie Mei, Song Nie, Yan Zhang
Software Mentions: 15
Published: about 5 years ago

10.1038/s41598-021-81200-z

MuSA: a graphical user interface for multi-OMICs data integration in radiogenomic studies
Cited by: 11
Author(s): Mario Zanfardino, Rossana Castaldo, Katia Pane, Ornella Affinito, Marco Aiello, Marco Salvatore, Monica Franzese
Software Mentions: 15
Published: over 5 years ago

10.26508/lsa.202000766

Egr2 and 3 control inflammation, but maintain homeostasis, of PD-1^high memory phenotype CD4 T cells
Cited by: 6
Author(s): Alistair L. J. Symonds, Wei Zheng, Tizong Miao, Ang Li, Tieshang Wang, Ruth Kiome, Xiaofeng Hou, Suling Li, Ping Wang
Software Mentions: 15
Published: about 6 years ago

10.1111/tran.12131

Regional surnames and genetic structure in Great Britain
Cited by: 14
Author(s): Jens Kandt, James Cheshire, Paul Longley
Software Mentions: 15
Published: about 10 years ago

10.1371/journal.pone.0188955

Gbm.auto: A software tool to simplify spatial modelling and Marine Protected Area planning
Cited by: 19
Author(s): Simon Dedman, Rick Officer, Maurice Clarke, David G. Reid, Deirdre Brophy
Software Mentions: 15
Published: over 8 years ago

10.2196/12875

Developing the National Usability-Focused Health Information System Scale for Physicians: Validation Study
Cited by: 26
Author(s): Hannele Hyppönen, Johanna Kaipio, Tarja Heponiemi, Tinja Lääveri, Anna Mari Aalto, Jukka Vänskä, Marko Elovainio
Software Mentions: 15
Published: about 7 years ago

10.3390/metabo9100222

Chemical Diversity and Classification of Secondary Metabolites in Nine Bryophyte Species
Cited by: 29
Author(s): Kristian Peters, Hendrik Treutler, Stefanie Döll, Alida Kindt, Thomas Hankemeier, Steffen Neumann
Software Mentions: 15
Published: almost 7 years ago

10.3389/fneur.2019.01366

Prediction of Early TBI Mortality Using a Machine Learning Approach in a LMIC Population
Cited by: 39
Author(s): Robson Luís Oliveira de Amorim, Louise Makarem Oliveira, Luis Marcelo Malbouisson, Márcia Mitie Nagumo, Marcela Simoes, Leandro Miranda, Edson Bor‐Seng‐Shu, André Beer‐Furlan, Almir Ferreira de Andrade, Andrés M. Rubiano, Manoel Jacobsen Teixeira, Angelos G. Kolias, Wellingson Silva Paiva
Software Mentions: 15
Published: over 6 years ago

10.1038/s41598-020-72571-w

Persistent fire foci in all biomes undermine the Paris Agreement in Brazil
Cited by: 51
Author(s): Carlos Antônio da Silva, Paulo Eduardo Teodoro, Rafael Coll Delgado, Larissa Pereira Ribeiro Teodoro, Mendelson Lima, Ariane de Andréa Pantaleão, Fábio Henrique Rojo Baio, Gileno Brito de Azevedo, Glauce Táıs de Oliveira Sousa Azevedo, Guilherme Fernando Capristo-Silva, Damien Arvor, Cassiele Uliana Facco
Software Mentions: 15
Published: almost 6 years ago

10.1093/bib/bbv080

Public data and open source tools for multi-assay genomic investigation of disease
Cited by: 47
Author(s): Lavanya Kannan, Marcel Ramos, Angela Re, Nehmé El-Hachem, Zhaleh Safikhani, Deena M.A. Gendoo, Sean Davis, David Gomez-Cabrero, Robert Castelo, Kasper D. Hansen, Vincent J. Carey, Martin Morgan, Aedín C. Culhane, Benjamin Haibe‐Kains, Levi Waldron
Software Mentions: 15
Published: almost 11 years ago