10.3390/cancers13081788

Analysis of Intra-Tumoral Macrophages and T Cells in Non-Small Cell Lung Cancer (NSCLC) Indicates a Role for Immune Checkpoint and CD200-CD200R Interactions
Cited by: 7
Author(s): Anders Tøndell, Yashwanth Subbannayya, Sissel Gyrid Freim Wahl, Arnar Flatberg, Sveinung Sørhaug, Magne Børset, Markus Haug
Software Mentions: 12
Published: over 5 years ago

10.12688/f1000research.15949.2

The Mega2R package: R tools for accessing and processing genetic data in common formats
Cited by: 0
Author(s): R. Baron, Justin R. Stickel, Daniel E. Weeks
Software Mentions: 12
Published: over 7 years ago

10.26508/lsa.201900461

Drug-induced chromatin accessibility changes associate with sensitivity to liver tumor promotion
Cited by: 5
Author(s): Antonio Vitobello, Juliane Perner, Johanna Beil, Jiang Zhu, Alberto Del Río-Espínola, Laurent Morawiec, Magdalena Westphal, Valérie Dubost, Marc Altorfer, Ulrike Naumann, Arne Mueller, Karen Kapur, Mark Borowsky, Colin J. Henderson, Charles Wolf, Michael Schwarz, Jonathan G. Moggs, Rémi Terranova
Software Mentions: 12
Published: almost 7 years ago

10.1371/journal.ppat.1005548

Determinants of Arbovirus Vertical Transmission in Mosquitoes
Cited by: 90
Author(s): Sébastian Lequime, Paul Rácz, Louis Lambrechts
Software Mentions: 12
Published: over 10 years ago

10.1016/j.heliyon.2021.e06236

: A neuroscientist's sound toolkit
Cited by: 2
Author(s): N. Jeremy Hill, Scott W.J. Mooney, Glen T. Prusky
Software Mentions: 12
Published: over 5 years ago

10.1128/mSystems.00903-19

manta: a Clustering Algorithm for Weighted Ecological Networks
Cited by: 7
Author(s): Lisa Röttjers, Karoline Faust
Software Mentions: 12
Published: over 6 years ago

10.3389/fpsyg.2018.00776

Spatial and Verbal Routes to Number Comparison in Young Children
Cited by: 9
Author(s): Francesco Sella, Daniela Lucangeli, Marco Zorzi
Software Mentions: 12
Published: over 8 years ago

10.1186/s12974-021-02235-7

Sex differences and similarities in the neuroimmune response to central administration of poly I:C
Cited by: 14
Author(s): Caitlin K. Posillico, Rosa E. Garcia-Hernandez, Natalie C. Tronson
Software Mentions: 12
Published: about 5 years ago

10.3389/fpubh.2020.00425

Political Consequences of COVID-19 and Media Framing in South Korea
Cited by: 13
Author(s): Wonkwang Jo, Daesung Chang
Software Mentions: 12
Published: about 6 years ago

10.3390/jcm10184071

Diagnostic and Prognostic Potential of MiR-379/656 MicroRNA Cluster in Molecular Subtypes of Breast Cancer
Cited by: 2
Author(s): Megha Lal, Asgar Hussain Ansari, Anurag Agrawal, Arijit Mukhopadhyay
Software Mentions: 12
Published: about 5 years ago

10.3389/fgene.2019.01079

HiCeekR: A Novel Shiny App for Hi-C Data Analysis
Cited by: 13
Author(s): Lucio Di Filippo, Dario Righelli, Miriam Gagliardi, Maria R. Matarazzo, Claudia Angelini
Software Mentions: 12
Published: almost 7 years ago

10.1186/s12935-021-01900-4

Role of tumor mutation burden-related signatures in the prognosis and immune microenvironment of pancreatic ductal adenocarcinoma
Cited by: 16
Author(s): Rong Tang, Xiaomeng Liu, Wei Wang, Jie Hua, Jin Xu, Chen Liang, Qingcai Meng, Jiang Liu, Bo Zhang, Yu Lei, Si Shi
Software Mentions: 12
Published: over 5 years ago

10.3390/insects11080535

Impacts of Dietary Nutritional Composition on Larval Development and Adult Body Composition in the Yellow Fever Mosquito (Aedes aegypti)
Cited by: 15
Author(s): Tess van Schoor, Erin Taylor Kelly, Nicole Tam, Geoffrey M. Attardo
Software Mentions: 12
Published: about 6 years ago

10.1371/journal.pone.0239197

Effects of germline and somatic events in candidate BRCA-like genes on breast-tumor signatures
Cited by: 13
Author(s): Weston R. Bodily, Brian H. Shirts, Tom Walsh, Süleyman Gülsüner, Mary‐Claire King, Alyssa Parker, Moom R. Roosan, Stephen R. Piccolo
Software Mentions: 12
Published: almost 6 years ago

10.3389/fpsyg.2020.575170

Do Disadvantageous Social Contexts Influence Food Choice? Evidence From Three Laboratory Experiments
Cited by: 0
Author(s): Qëndresa Rramani, Holger Gerhardt, Xenia Grote, Weihua Zhao, Johannes Schultz, Bernd Weber
Software Mentions: 12
Published: almost 6 years ago

10.1111/1462-2920.14621

Microbial iron metabolism as revealed by gene expression profiles in contrasted Southern Ocean regimes
Cited by: 22
Author(s): Pavla Debeljak, Ève Toulza, Sara Beier, Stéphane Blain, Ingrid Obernosterer
Software Mentions: 12
Published: over 7 years ago

10.3389/fgene.2021.655536

Machine Intelligence in Single-Cell Data Analysis: Advances and New Challenges
Cited by: 30
Author(s): Jiajia Li, Zusen Fan, Weiling Zhao, Xiaobo Zhou
Software Mentions: 12
Published: over 5 years ago

10.1002/ece3.7130

QuoVidi: An open‐source web application for the organization of large‐scale biological treasure hunts
Cited by: 8
Author(s): Guillaume Lobet, Charlotte Descamps, Lola Leveau, Alain Guillet, Jean-François Rees
Software Mentions: 12
Published: over 5 years ago

10.3390/nu13082639

Infants’ First Solid Foods: Impact on Gut Microbiota Development in Two Intercontinental Cohorts
Cited by: 18
Author(s): Chiara-Maria Homann, Connor A J Rossel, Sara Dizzell, Liene Bervoets, Julia Simioni, Jenifer Li, Elizabeth Gunn, Michael G. Surette, Russell J. de Souza, Monique Mommers, Eileen K. Hutton, Katherine M. Morrison, John Penders, Niels van Best, Jennifer C. Stearns
Software Mentions: 12
Published: about 5 years ago

10.3389/fmicb.2019.00697

Taxonomic and Functional Characterization of the Microbial Community During Spontaneous in vitro Fermentation of Riesling Must
Cited by: 28
Author(s): Kimmo Sirén, Sarah S.T. Mak, Chrats Melkonian, Christian Carøe, Jan H. Swiegers, Douwe Molenaar, Ulrich Fischer, M. Thomas P. Gilbert
Software Mentions: 12
Published: over 7 years ago

10.3390/insects10090271

Comparison of Twelve Ant Species and Their Susceptibility to Fungal Infection
Cited by: 13
Author(s): Nick Bos, Viljami Kankaanpää-Kukkonen, Dalial Freitak, Dimitri Stucki, Liselotte Sundström
Software Mentions: 12
Published: about 7 years ago

10.7554/eLife.55529

Smchd1 is a maternal effect gene required for genomic imprinting
Cited by: 22
Author(s): Iromi Wanigasuriya, Quentin Gouil, Sarah Kinkel, Andrés Tapia del Fierro, Tamara Beck, Ellise A Roper, Kelsey Breslin, Jessica M Stringer, Karla J. Hutt, Heather Lee, Andrew Keniry, Matthew E. Ritchie, Marnie E. Blewitt
Software Mentions: 12
Published: almost 6 years ago

10.7554/eLife.52465

Navigating the garden of forking paths for data exclusions in fear conditioning research
Cited by: 87
Author(s): Tina B. Lonsdorf, Maren Klingelhöfer-Jens, Marta Andreatta, Tom Beckers, Anastasia Chalkia, Anna Gerlicher, Valerie L. Jentsch, Shira Meir Drexler, Gaëtan Mertens, Jan Richter, Rachel Sjouwerman, Julia Wendt, Christian J. Merz
Software Mentions: 12
Published: almost 7 years ago

10.1371/journal.pone.0152098

Combining Soil Databases for Topsoil Organic Carbon Mapping in Europe
Cited by: 37
Author(s): Ece Aksoy, Yusuf Yiğini, Luca Montanarella
Software Mentions: 12
Published: over 10 years ago

10.12688/f1000research.24187.2

ExploreModelMatrix: Interactive exploration for improved understanding of design matrices and linear models in R
Cited by: 0
Author(s): Charlotte Soneson, Fédérico Marini, Florian Geier, Michael I. Love, Michael Stadler
Software Mentions: 12
Published: about 6 years ago

10.1371/journal.pgen.1009141

A fast and scalable framework for large-scale and ultrahigh-dimensional sparse regression with application to the UK Biobank
Cited by: 68
Author(s): Junyang Qian, Yosuke Tanigawa, Wenfei Du, Matthew Aguirre, Chris Chang, Robert Tibshirani, Manuel A. Rivas, Trevor Hastie
Software Mentions: 12
Published: almost 6 years ago

10.3389/fmicb.2019.02597

New Insights Into Cinnamoyl Esterase Activity of Oenococcus oeni
Cited by: 9
Author(s): Ingrid Collombel, Chrats Melkonian, Douwe Molenaar, Francisco M. Campos, Tim Hogg
Software Mentions: 12
Published: almost 7 years ago

10.12688/f1000research.12874.2

Measuring evolutionary rates of proteins in a structural context
Cited by: 5
Author(s): Dariya K. Sydykova, Benjamin R. Jack, Scott R. Spielman, Claus O. Wilke
Software Mentions: 12
Published: over 8 years ago

10.1186/s13071-017-2054-3

GIS-supported epidemiological analysis on canine Angiostrongylus vasorum and Crenosoma vulpis infections in Germany
Cited by: 41
Author(s): Pavlo Maksimov, Carlos Hermosilla, Anja Taubert, Christoph Staubach, Carola Sauter‐Louis, Franz Josef Conraths, Majda Globokar Vrhovec, Nikola Pantchev
Software Mentions: 12
Published: over 9 years ago

10.1002/ece3.7294

Determinants of habitat suitability models transferability across geographically disjunct populations: Insights from <i>Vipera ursinii urs</i> <i>inii</i>
Cited by: 8
Author(s): Francesco Cerasoli, Aurélien Besnard, Marc-Antoine Marchand, Paola D’Alessandro, Mattia Iannella, Maurizio Biondi
Software Mentions: 12
Published: over 5 years ago

10.18632/aging.202871

A novel focal adhesion related gene signature for prognostic prediction in hepatocellular carcinoma
Cited by: 4
Author(s): Zhuo Lin, Dan Miao, Xu Qian, Xiaodong Wang, Fang Yu
Software Mentions: 12
Published: over 5 years ago

10.1111/gcb.14581

Structural and functional responses of invertebrate communities to climate change and flow regulation in alpine catchments
Cited by: 61
Author(s): Daniel Bruno, Óscar Belmar, Anthony Maire, Adrien Morel, Bernard Dumont, Thibault Datry
Software Mentions: 12
Published: over 7 years ago

10.1186/s40462-017-0096-y

Movement of leopard tortoises in response to environmental and climatic variables in a semi-arid environment
Cited by: 6
Author(s): Martyn Drabik-Hamshare, Colleen T. Downs
Software Mentions: 12
Published: over 9 years ago

10.12688/f1000research.14013.2

Taxa: An R package implementing data standards and methods for taxonomic data
Cited by: 23
Author(s): Zachary Foster, Scott Chamberlain, Niklaus J. Grünwald
Software Mentions: 12
Published: about 8 years ago

10.1128/mBio.02782-18

Fitness Cost of Aflatoxin Production in Aspergillus flavus When Competing with Soil Microbes Could Maintain Balancing Selection
Cited by: 21
Author(s): Milton T. Drott, Tracy Debenport, Steven A. Higgins, Daniel H. Buckley, Michael G. Milgroom
Software Mentions: 12
Published: over 7 years ago

10.1186/s40560-021-00531-1

Development and validation of an online model to predict critical COVID-19 with immune-inflammatory parameters
Cited by: 7
Author(s): Yue Gao, Lingxi Chen, Jianhua Chi, Shaoqing Zeng, Xikang Feng, Huayi Li, Dan Liŭ, Xiang Feng, Siyuan Wang, Ya Wang, Rui Yu, Yuan Yuan, Sen Xu, Chunrui Li, Wei Zhang, Shuai Cheng Li, Qinglei Gao
Software Mentions: 12
Published: over 5 years ago

10.7717/peerj.4251

Sicegar: R package for sigmoidal and double-sigmoidal curve fitting
Cited by: 28
Author(s): Mehmet Umut Caglar, Ashley I. Teufel, Claus O. Wilke
Software Mentions: 11
Published: over 8 years ago

10.1111/1755-0998.13220

High‐contiguity genome assembly of the chemosynthetic gammaproteobacterial endosymbiont of the cold seep tubeworm <i>Lamellibrachia barhami</i>
Cited by: 6
Author(s): Corinna Breusing, Darrin T. Schultz, Sebastian Sudek, Alexandra Z. Worden, Charles W. Young
Software Mentions: 11
Published: about 6 years ago

10.3390/tropicalmed6030115

Agro-Environmental Determinants of Leptospirosis: A Retrospective Spatiotemporal Analysis (2004–2014) in Mahasarakham Province (Thailand)
Cited by: 4
Author(s): Jaruwan Viroj, Claude Julien, Claire Lajaunie, Julien Cappelle, Anamika Kritiyakan, Pornsit Thuainan, Worachead Chewnarupai, Sergé Morand
Software Mentions: 11
Published: about 5 years ago

10.1016/j.mex.2018.07.003

A practical method to control spatiotemporal confounding in environmental impact studies
Cited by: 4
Author(s): Rezvan Hatami
Software Mentions: 11
Published: over 8 years ago

10.1002/ece3.7881

Conversion of rainforest into oil palm and rubber plantations affects the functional composition of litter and soil Collembola
Cited by: 4
Author(s): Winda Ika Susanti, Tamara Bartels, Valentyna Krashevska, Rahayu Widyastuti, Louis Deharveng, Stefan Scheu, Anton M. Potapov
Software Mentions: 11
Published: about 5 years ago

10.3390/nu12020302

The Role of Glycemic Index and Glycemic Load in the Development of Real-Time Postprandial Glycemic Response Prediction Models for Patients with Gestational Diabetes
Cited by: 14
Author(s): Evgenii Pustozerov, Aleksandra Tkachuk, Elena Vasukova, А. В. Дронова, Ekaterina S. Shilova, Anna D. Anopova, Faina Piven, Tatiana Pervunina, Elena Vasilieva, Elena Grineva, Polina Popova
Software Mentions: 11
Published: over 6 years ago

10.1186/s12942-021-00262-4

Estimating the local spatio‐temporal distribution of malaria from routine health information systems in areas of low health care access and reporting
Cited by: 8
Author(s): Elizabeth Hyde, Matthew H. Bonds, Felana Angella Ihantamalala, Ann C. Miller, Laura Cordier, Bénédicte Razafinjato, Herinjaka Andriambolamanana, Marius Randriamanambintsoa, Michèle Barry, Jean Claude Andrianirinarison, Mauricette Andriamananjara, Andrés Garchitorena
Software Mentions: 11
Published: over 5 years ago

10.1017/S003329171800315X

A machine learning ensemble to predict treatment outcomes following an Internet intervention for depression
Cited by: 37
Author(s): Rahel Pearson, Derek Pisner, Björn Meyer, Jason Shumake, Christopher G. Beevers
Software Mentions: 11
Published: almost 8 years ago

10.12688/wellcomeopenres.15477.2

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

10.1111/mec.13636

Escape from the cryptic species trap: lichen evolution on both sides of a cyanobacterial acquisition event
Cited by: 34
Author(s): Kevin Schneider, Philipp Resl, Toby Spribille
Software Mentions: 11
Published: over 10 years ago

10.3389/fimmu.2019.00827

Quantitative Prediction of the Landscape of T Cell Epitope Immunogenicity in Sequence Space
Cited by: 60
Author(s): Masato Ogishi, Hiroshi Yotsuyanagi
Software Mentions: 11
Published: over 7 years ago

10.1371/journal.pone.0245127

Adaptation and validation of a German version of the Strengths Use and Deficit Correction (SUDCO) questionnaire
Cited by: 2
Author(s): Timo Lorenz, Kathrin Heinitz, Clemens Beer, Marianne van Woerkom
Software Mentions: 11
Published: over 5 years ago

10.1074/mcp.TIR120.002155

ReactomeGSA - Efficient Multi-Omics Comparative Pathway Analysis
Cited by: 129
Author(s): Johannes Griss, Guilherme Viteri, Konstantinos Sidiropoulos, Vy Kim Nguyen, Antonio Fabregat, Henning Hermjakob
Software Mentions: 11
Published: almost 6 years ago

10.1016/j.molcel.2019.12.001

PRC1 Catalytic Activity Is Central to Polycomb System Function
Cited by: 163
Author(s): Neil P. Blackledge, Nadezda A. Fursova, Jessica R. Kelley, Miles K. Huseyin, Angelika Feldmann, Robert J. Klose
Software Mentions: 11
Published: over 6 years ago

10.3389/fninf.2019.00012

A Serverless Tool for Platform Agnostic Computational Experiment Management
Cited by: 13
Author(s): Gregory Kiar, Shawn T. Brown, Tristan Glatard, Alan C. Evans
Software Mentions: 11
Published: over 7 years ago

10.1371/journal.pone.0242728

Video kills the sentiment—Exploring fans’ reception of the video assistant referee in the English premier league using Twitter data
Cited by: 10
Author(s): Otto Kolbinger, Melanie Knopp
Software Mentions: 11
Published: almost 6 years ago

10.7717/peerj.1140

Composition, taxonomy and functional diversity of the oropharynx microbiome in individuals with schizophrenia and controls
Cited by: 190
Author(s): Eduardo Castro-Nallar, Matthew L. Bendall, Marcos Pérez‐Losada, Sarven Sabuncyan, Emily G. Severance, Faith Dickerson, Jennifer R. Schroeder, Robert H. Yolken, Keith A. Crandall
Software Mentions: 11
Published: about 11 years ago

10.1371/journal.pone.0235283

Targeting the oral plaque microbiome with immobilized anti-biofilm peptides at tooth-restoration interfaces
Cited by: 18
Author(s): Dina G. Moussa, Conrado Aparicio
Software Mentions: 11
Published: about 6 years ago

10.1186/s12859-019-2968-1

Visualization methods for differential expression analysis
Cited by: 6
Author(s): Lindsay Rutter, Adrienne N. Moran Lauter, Michelle A. Graham, Dianne Cook
Software Mentions: 11
Published: about 7 years ago

10.3389/fmicb.2020.619226

Terroir Is the Main Driver of the Epiphytic Bacterial and Fungal Communities of Mango Carposphere in Reunion Island
Cited by: 4
Author(s): Ahmed Taïbi, Ronan Rivallan, Véronique Broussolle, Dominique Pallet, Sylvie Lortal, Jean-Christophe Meile, Florentin Constancias
Software Mentions: 11
Published: over 5 years ago

10.3389/fonc.2021.614052

MRI Radiomics Signature as a Potential Biomarker for Predicting KRAS Status in Locally Advanced Rectal Cancer Patients
Cited by: 9
Author(s): Zhiyuan Zhang, Lijun Shen, Yan Wang, Jiazhou Wang, Hui Zhang, Xuesen Fan, Juefeng Wan
Software Mentions: 11
Published: over 5 years ago

10.1098/rsos.150632

Kinship as a frequency dependent strategy
Cited by: 15
Author(s): Ting Ji, Xiu-Deng Zheng, Qiao-Qiao He, Jiajia Wu, Ruth Mace, Yi Tao
Software Mentions: 11
Published: over 10 years ago

10.3389/fgene.2021.640242

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

10.1186/s12859-020-03846-2

ARPIR: automatic RNA-Seq pipelines with interactive report
Cited by: 10
Author(s): Giulio Spinozzi, Valentina Tini, Alessia Adorni, Brunangelo Falini, Maria Paola Martelli
Software Mentions: 11
Published: almost 6 years ago

10.1038/s41598-021-96712-x

Pan-transcriptome identifying master genes and regulation network in response to drought and salt stresses in Alfalfa (Medicago sativa L.)
Cited by: 12
Author(s): César A. Medina, Deborah A. Samac, Long‐Xi Yu
Software Mentions: 11
Published: about 5 years ago

10.1371/journal.pone.0156825

Inundation and Fire Shape the Structure of Riparian Forests in the Pantanal, Brazil
Cited by: 32
Author(s): Wellinton de Sá Arruda, Jens Oldeland, Antônio Conceição Paranhos Filho, Arnildo Pott, Nicolay Leme da Cunha, Iria Hiromi Ishii, Geraldo Alves Damasceno
Software Mentions: 11
Published: over 10 years ago

10.3390/biomedicines8110488

TCox: Correlation-Based Regularization Applied to Colorectal Cancer Survival Data
Cited by: 4
Author(s): Carolina Peixoto, Marta B. Lopes, Marta Martins, Luís Costa, Susana Vinga
Software Mentions: 11
Published: almost 6 years ago

10.3389/fcvm.2021.624714

Identification of Potential Biomarkers and Immune Infiltration Characteristics in Idiopathic Pulmonary Arterial Hypertension Using Bioinformatics Analysis
Cited by: 21
Author(s): Haowei Zeng, Xiaoqin Liu, Yushun Zhang
Software Mentions: 11
Published: over 5 years ago

10.3389/fonc.2021.672928

Glioma-Associated Stromal Cells Stimulate Glioma Malignancy by Regulating the Tumor Immune Microenvironment
Cited by: 13
Author(s): Xiangming Cai, Feng Yuan, Junhao Zhu, Jin Yang, Chao Tang, Zixiang Cong, Chiyuan Ma
Software Mentions: 11
Published: over 5 years ago

10.1038/s42003-020-01166-y

Spatial patterns of microbial communities across surface waters of the Great Barrier Reef
Cited by: 28
Author(s): Pedro R. Frade, Bettina Glasl, Samuel A. Matthews, Camille Mellin, Ester Á. Serrão, Kennedy Wolfe, Peter J. Mumby, Nicole S. Webster, David G. Bourne
Software Mentions: 11
Published: about 6 years ago

10.3390/cancers11081104

Differential Expression of DNA Repair Genes in Prognostically-Favorable versus Unfavorable Uveal Melanoma
Cited by: 10
Author(s): Mehmet Doğrusöz, Andrea Ruschel Träsel, Jinfeng Cao, Selҫuk Ҫolak, Sake I. van Pelt, Wilma G. M. Kroes, Amina F.A.S. Teunisse, Samar Alsafadi, Sjoerd G. van Duinen, Gregorius P M Luyten, Pieter A. van der Velden, Adriana Amaro, Ulrich Pfeffer, Aart G. Jochemsen, Martine J. Jager
Software Mentions: 11
Published: about 7 years ago

10.3390/plants8120547

New Insights on Lilium Phylogeny Based on a Comparative Phylogenomic Study Using Complete Plastome Sequences
Cited by: 12
Author(s): Hyoung Tae Kim, Ki-Byung Lim, Jung Sung Kim
Software Mentions: 11
Published: almost 7 years ago

10.12688/f1000research.26771.2

HPAStainR: a Bioconductor and Shiny app to query protein expression patterns in the Human Protein Atlas
Cited by: 1
Author(s): Tim O. Nieuwenhuis, Marc K. Halushka
Software Mentions: 11
Published: over 5 years ago

10.1038/srep26929

High-throughput and Cost-effective Chicken Genotyping Using Next-Generation Sequencing
Cited by: 43
Author(s): Fábio Pértille, Carlos Guerrero-Bosagna, Vinícius da Silva, Clarissa Boschiero, José de Ribamar da Silva Nunes, Mônica Corrêa Ledur, Per Jensen, Luiz Lehmann Coutinho
Software Mentions: 11
Published: over 10 years ago

10.3389/fonc.2021.683582

Novel Prognostic Biomarkers in Gastric Cancer: CGB5, MKNK2, and PAPPA2
Cited by: 6
Author(s): Min Qin, Zhihai Liang, Hao Qin, Yifang Huo, Qing Yang Steve Wu, Huiying Yang, Guodu Tang
Software Mentions: 11
Published: over 5 years ago

10.1186/s13059-020-1926-6

Eleven grand challenges in single-cell data science
Cited by: 646
Author(s): David Laehnemann, Johannes Köster, Ewa Szczurek, Davis J. McCarthy, Stephanie Hicks, Mark D. Robinson, Catalina A. Vallejos, Kieran R Campbell, Niko Beerenwinkel, Ahmed Mahfouz, Luca Pinello, Pavel Skums, Alexandros Stamatakis, Camille Stephan‐Otto Attolini, Samuel Aparicio, Jasmijn A. Baaijens, Marleen Balvert, Buys de Barbanson, Antonio Cappuccio, Giacomo Corleone, Bas E. Dutilh, Maria Florescu, Victor Guryev, Rens Holmer, Katharina Jahn, Thamar Jessurun Lobo, Emma M Keizer, Indu Khatri, Szymon M. Kiełbasa, Jan Korbel, Alexey M Kozlov, Tzu Hao Kuo, Boudewijn P. F. Lelieveldt, Ion Măndoiu, John C. Marioni, Tobias Marschall, Felix Mölder, Amir Niknejad, Łukasz Rączkowski, Marcel J. T. Reinders, Jeroen de Ridder, Antoine Emmanuel Saliba, Antonios Somarakis, Oliver Stegle, Fabian J. Theis, Huan Yang, Alexander Zelikovsky, Alice C. McHardy, Benjamin J. Raphael, Sohrab P. Shah, Alexander Schönhuth
Software Mentions: 11
Published: over 6 years ago

10.1038/s41598-021-94324-z

Modest changes in Spi1 dosage reveal the potential for altered microglial function as seen in Alzheimer’s disease
Cited by: 17
Author(s): Ruth Jones, Robert Andrews, Peter Holmans, Matthew Hill, Philip R. Taylor
Software Mentions: 11
Published: about 5 years ago

10.3389/fgene.2021.625145

Identification of Tumor Microenvironment-Related Prognostic Biomarkers for Ovarian Serous Cancer 3-Year Mortality Using Targeted Maximum Likelihood Estimation: A TCGA Data Mining Study
Cited by: 2
Author(s): Lu Wang, Xiaoru Sun, Chuandi Jin, Yue Fan, Fuzhong Xue
Software Mentions: 11
Published: over 5 years ago

10.3389/fgene.2021.733715

Development and Validation of a Novel Gene Signature for Predicting the Prognosis by Identifying m5C Modification Subtypes of Cervical Cancer
Cited by: 2
Author(s): Jing Yu, Leilei Liang, Jing Liu, Tingting Liu, Jian Li, Lin Xiu, Jia Zeng, Tiantian Wang, Di Wang, Lijun Liang, Dawei Xie, Ding-Xiong Chen, Jusheng An, Lingying Wu
Software Mentions: 11
Published: about 5 years ago

10.3389/fgene.2021.609174

METTL14 Acts as a Potential Regulator of Tumor Immune and Progression in Clear Cell Renal Cell Carcinoma
Cited by: 11
Author(s): Tianbo Xu, Su Gao, Hailong Ruan, Jingchong Liu, Yuenan Liu, Di Liu, Junwei Tong, Jian Shi, Hongmei Yang, Ke Chen, Xiaoping Zhang
Software Mentions: 11
Published: over 5 years ago

10.1016/j.cell.2018.08.067

Structural Remodeling of the Human Colonic Mesenchyme in Inflammatory Bowel Disease
Cited by: 396
Author(s): James Kinchen, Hannah H. Chen, Kaushal Parikh, Agne Antanaviciute, Marta Jagielowicz, David Fawkner-Corbett, Neil Ashley, Laura Cubitt, Esther Mellado-Gomez, Moustafa Attar, Eshita Sharma, Quin F. Wills, Rory Bowden, Felix Clemens Richter, David Ahern, Kamal D. Puri, Jill Hénault, François G. Gervais, Hashem Koohy, Alison Simmons
Software Mentions: 11
Published: almost 8 years ago

10.1371/journal.pone.0238026

Funding sources and breast cancer research frame
Cited by: 3
Author(s): Wonkwang Jo
Software Mentions: 11
Published: about 6 years ago

10.3390/ijms20225621

APOBEC3-Mediated RNA Editing in Breast Cancer is Associated with Heightened Immune Activity and Improved Survival
Cited by: 45
Author(s): Mariko Asaoka, Takashi Ishikawa, Kazuaki Takabe, Santosh K. Patnaik
Software Mentions: 11
Published: almost 7 years ago

10.3390/ijms22147269

Genome-Wide Identification, Structure Characterization, and Expression Pattern Profiling of the Aquaporin Gene Family in Betula pendula
Cited by: 3
Author(s): Jean-Stéphane Venisse, Eele Õunapuu-Pikas, Maxime Dupont, Aurélie Gousset-Dupont, Mouadh Saadaoui, Mohamed Faize, Song Chen, Su Chen, Gilles Pétel, Boris Fumanal, Patricia Roeckel‐Drevet, Arne Sellin, Philippe Label
Software Mentions: 11
Published: about 5 years ago

10.3389/fgene.2020.489357

Cascabel: A Scalable and Versatile Amplicon Sequence Data Analysis Pipeline Delivering Reproducible and Documented Results
Cited by: 13
Author(s): Alejandro Abdala Asbun, Marc Besseling, Sergio Balzano, Judith van Bleijswijk, Harry J. Witte, Laura Villanueva, Julia C. Engelmann
Software Mentions: 11
Published: almost 6 years ago

10.7554/eLife.49064

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

10.1002/1878-0261.12117

Recurrence-associated gene signature optimizes recurrence-free survival prediction of colorectal cancer
Cited by: 37
Author(s): Xianglong Tian, Xiaoqiang Zhu, Tingting Yan, Chuangqi Yu, Chaoqin Shen, Ye Hu, Jie Hong, Haoyan Chen, Jing‐Yuan Fang
Software Mentions: 11
Published: about 9 years ago

10.1128/mSystems.00404-19

Effects of Antibiotic Pretreatment of an Ulcerative Colitis-Derived Fecal Microbial Community on the Integration of Therapeutic Bacteria <i>In Vitro</i>
Cited by: 13
Author(s): Kaitlyn Oliphant, Kyla Cochrane, Kathleen Schroeter, Michelle Daigneault, Sandi Yen, Elena F. Verdú, Emma Allen‐Vercoe
Software Mentions: 11
Published: over 6 years ago

10.12688/f1000research.26669.2

TreeSummarizedExperiment: a S4 class for data with hierarchical structure
Cited by: 14
Author(s): Ronald Huang, Charlotte Soneson, Felix G.M. Ernst, Kévin Rue-Albrecht, Yu Guo, Stephanie C. Hicks, Mark D. Robinson
Software Mentions: 11
Published: over 5 years ago

10.1186/s13059-021-02329-8

scMET: Bayesian modeling of DNA methylation heterogeneity at single-cell resolution
Cited by: 13
Author(s): Chantriolnt-Andreas Kapourani, Ricard Argelaguet, Guido Sanguinetti, Catalina A. Vallejos
Software Mentions: 11
Published: over 5 years ago

10.3389/fpls.2020.01132

Intra and Inter-specific Variability of Salt Tolerance Mechanisms in Diospyros Genus
Cited by: 3
Author(s): Francisco Gil-Muñoz, Juan G. Pérez-Pérez, Ana Quiñones, María del Mar Naval, M. L. Badenes
Software Mentions: 11
Published: about 6 years ago

10.1186/s12879-019-4585-z

Development of a high number, high coverage dog rabies vaccination programme in Sri Lanka
Cited by: 8
Author(s): Carlos Sánchez-Soriano, Andrew D Gibson, Luke Gamble, Jordana L. Burdon Bailey, Samantha Green, Mark Green, Barend M. deC. Bronsvoort, Ian Handel, Richard J. Mellanby, Stella Mazeri
Software Mentions: 11
Published: almost 7 years ago

10.1186/1471-2105-10-74

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

10.1038/s41598-018-28356-3

Dosage compensation and DNA methylation landscape of the X chromosome in mouse liver
Cited by: 34
Author(s): Chris Duncan, Sara A. Grimm, Daniel L. Morgan, Pierre R. Bushel, Brian D. Bennett, John D. Roberts, Frederick L. Tyson, B. Alex Merrick, Paul A. Wade
Software Mentions: 11
Published: about 8 years ago

10.18632/oncotarget.22928

Comparing the genomes of cutaneous melanoma tumors to commercially available cell lines
Cited by: 10
Author(s): Stephen A. Luebker, Weiwei Zhang, Scott A. Koepsell
Software Mentions: 11
Published: almost 9 years ago

10.1016/j.celrep.2019.05.026

ZIC3 Controls the Transition from Naive to Primed Pluripotency
Cited by: 41
Author(s): Shen Hsi Yang, Munazah Andrabi, Rebecca Biss, Syed Murtuza Baker, Mudassar Iqbal, Andrew D. Sharrocks
Software Mentions: 11
Published: over 7 years ago

10.3389/fimmu.2020.612784

Integrated Analysis of the ETS Family in Melanoma Reveals a Regulatory Role of ETV7 in the Immune Microenvironment
Cited by: 14
Author(s): Hui Qü, Hui Zhao, Xi Zhang, Yang Liu, Feng Li, Li-Yan Sun, Zewen Song
Software Mentions: 11
Published: almost 6 years ago

10.1155/2021/6616908

Interpreting the Molecular Mechanisms of Yinchenhao Decoction on Hepatocellular Carcinoma through Absorbed Components Based on Network Pharmacology
Cited by: 5
Author(s): Jijia Sun, Tao Han, Tao Yang, Yunhui Chen, Jihan Huang
Software Mentions: 11
Published: over 5 years ago

10.1038/s42003-021-02463-w

Data-driven decentralized breeding increases prediction accuracy in a challenging crop production environment
Cited by: 18
Author(s): Kauê de Sousa, Jacob van Etten, Jesse Poland, Carlo Fadda, Jean‐Luc Jannink, Yosef Gebrehawaryat Kidane, Basazen Fantahun, Deȷene K. Mengistu, Mario Enrico Pè, Svein Øivind Solberg, Matteo Dell’Acqua
Software Mentions: 11
Published: about 5 years ago

10.1038/s41598-019-46850-0

Deep Learning using Convolutional LSTM estimates Biological Age from Physical Activity
Cited by: 56
Author(s): Syed Ashiqur Rahman, Donald A. Adjeroh
Software Mentions: 11
Published: about 7 years ago

10.1371/journal.pone.0225253

Visualising statistical models using dynamic nomograms
Cited by: 78
Author(s): Amirhossein Jalali, Alberto Alvarez‐Iglesias, Davood Roshan, John Newell
Software Mentions: 11
Published: almost 7 years ago

10.3389/fmolb.2021.635074

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

10.3389/fpsyg.2019.01529

Social Support and Emotional Intelligence as Protective Resources for Well-Being in Moroccan Adolescents
Cited by: 33
Author(s): Esther López-Zafra, Manuel M. Ramos‐Álvarez, Karima El Ghoudani, Octavio Luque-Reca, José María Augusto Landa, Benaissa Zarhbouch, Smail Alaoui, Daniel Cortés-Denia, Manuel Pulido-Martos
Software Mentions: 11
Published: about 7 years ago

10.1038/s41598-021-92406-6

Plasma lipidomic analysis shows a disease progression signature in mdx mice
Cited by: 3
Author(s): Roula Tsonaka, Alexandre Seyer, Annemieke Aartsma‐Rus, Pietro Spitali
Software Mentions: 11
Published: over 5 years ago