cran: Boruta | Projects | Ecosyste.ms: Papers

10.15252/msb.20209539

Predictive features of gene expression variation reveal mechanistic link with differential expression
Cited by: 36
Author(s): Olga M. Sigalova, Amirreza Shaeiri, Mattia Forneris, Eileen E. M. Furlong, Judith B. Zaugg
Software Mentions: 30
Published: over 4 years ago

10.1084/jem.20210915

Blood transcriptomics reveal the evolution and resolution of the immune response in tuberculosis
Cited by: 27
Author(s): Olivier Tabone, Raman Verma, Akul Singhania, Probir Chakravarty, William J. Branchett, Christine M. Graham, Jo Lee, Trần Thị Huyền Trang, Frédéric Reynier, Philippe Leissner, Karine Kaiser, Marc Rodrigue, Gerrit Woltmann, Pranabashis Haldar, Anne O’Garra
Software Mentions: 27
Published: about 3 years ago

10.1186/s40168-021-01100-2

Microbiota long-term dynamics and prediction of acute graft-versus-host disease in pediatric allogeneic stem cell transplantation
Cited by: 31
Author(s): Anna Cäcilia Ingham, Katrine Kielsen, Hanne Mordhorst, Marianne Ifversen, Frank Møller Aarestrup, Klaus Müller, Sünje Johanna Pamp
Software Mentions: 18
Published: over 3 years ago

10.3389/fvets.2021.620327

Detection of Mycobacterium avium ssp. paratuberculosis in Cultures From Fecal and Tissue Samples Using VOC Analysis and Machine Learning Tools
Cited by: 6
Author(s): Philipp Vitense, Elisa Kasbohm, Anne Klassen, Peter Gierschner, Phillip Trefz, M. Weber, Wolfram Miekisch, Jochen K. Schubert, Petra Möbius, Petra Reinhold, Volkmar Liebscher, Heike Köhler
Software Mentions: 17
Published: almost 4 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: over 3 years ago

10.1371/journal.pone.0243467

Predicting self-harm within six months after initial presentation to youth mental health services: A machine learning study
Cited by: 16
Author(s): Frank Iorfino, Nicholas Ho, Joanne S. Carpenter, Shane Cross, Tracey A Davenport, Daniel F. Hermens, Hannah Yee, Alissa Nichles, Natalia Zmicerevska, Adam J. Guastella, Elizabeth Scott, Ian B. Hickie
Software Mentions: 14
Published: almost 4 years ago

10.3390/ijms22031075

A Novel Epigenetic Machine Learning Model to Define Risk of Progression for Hepatocellular Carcinoma Patients
Cited by: 7
Author(s): Luca Bedon, Michele Dal Bo, Monica Mossenta, Davide Busato, Giuseppe Toffoli, Maurizio Polano
Software Mentions: 13
Published: almost 4 years ago

10.1371/journal.pone.0204123

Prediction of early breast cancer patient survival using ensembles of hypoxia signatures
Cited by: 8
Author(s): Inna Y. Gong, Natalie S. Fox, Vincent Huang, Paul C. Boutros
Software Mentions: 12
Published: about 6 years ago

10.1186/s12859-020-03786-x

IP4M: an integrated platform for mass spectrometry-based metabolomics data mining
Cited by: 32
Author(s): Dandan Liang, Quan Liu, Kejun Zhou, Jia Wang, Guoxiang Xie, Tianlu Chen
Software Mentions: 11
Published: about 4 years ago

10.1038/s41598-021-95688-y

Identification of markers that distinguish adipose tissue and glucose and insulin metabolism using a multi-modal machine learning approach
Cited by: 6
Author(s): Josefin Henninger, Björn Eliasson, Ulf Smith, Aidin Rawshani
Software Mentions: 10
Published: about 3 years ago

10.1371/journal.pone.0134679

Prediction of Peptide and Protein Propensity for Amyloid Formation
Cited by: 50
Author(s): Carlos Família, Sarah Rachel Dennison, Alexandre Quintas, David A. Phoenix
Software Mentions: 10
Published: over 9 years ago

10.1016/j.ajhg.2020.03.012

Mantis-ml: Disease-Agnostic Gene Prioritization from High-Throughput Genomic Screens by Stochastic Semi-supervised Learning
Cited by: 24
Author(s): Dimitrios Vitsios, Steve Petrovski
Software Mentions: 10
Published: over 4 years ago

10.1038/s42003-021-02137-7

The lexicon of antimicrobial peptides: a complete set of arginine and tryptophan sequences
Cited by: 33
Author(s): Sam Clark, Thomas A. Jowitt, Lynda K. Harris, Christopher G. Knight, Curtis B. Dobson
Software Mentions: 10
Published: over 3 years ago

10.1155/2020/6539398

Distinguishing Kawasaki Disease from Febrile Infectious Disease Using Gene Pair Signatures
Cited by: 1
Author(s): Jiayong Zhong, Qingsheng Huang, Yanfei Wang, Huan Gao, Hongling Jia, Jun Fan, Huiying Liang
Software Mentions: 10
Published: over 4 years ago

10.1186/s12943-021-01405-8

Uncovering cancer vulnerabilities by machine learning prediction of synthetic lethality
Cited by: 6
Author(s): Salvatore Benfatto, Özdemirhan Serçin, Francesca R. Dejure, Amir Abdollahi, Frank T. Zenke, Balca R. Mardin
Software Mentions: 9
Published: about 3 years ago

10.1155/2020/4252580

A Novel RNA-Seq-Based Model for Preoperative Prediction of Lymph Node Metastasis in Oral Squamous Cell Carcinoma
Cited by: 7
Author(s): Bo Qiao, Min Zhao, Jing Wu, Huan Wu, Yiming Zhao, Fanhao Meng, Yu Tian, Situo Wang, Jianxin Shi, Haizhong Zhang
Software Mentions: 9
Published: about 4 years ago

10.1038/s41598-021-89496-7

Erosion of tropical bird diversity over a century is influenced by abundance, diet and subtle climatic tolerances
Cited by: 12
Author(s): Jenna R. Curtis, W. Douglas Robinson, Ghislain Rompré, Randall P. Moore, Bruce McCune
Software Mentions: 9
Published: over 3 years ago

10.1016/j.ebiom.2021.103444

A diagnostic miRNA signature for pulmonary arterial hypertension using a consensus machine learning approach
Cited by: 24
Author(s): Niamh Errington, James Iremonger, Josephine Pickworth, Sokratis Kariotis, Christopher J. Rhodes, Alexander Rothman, Robin Condliffe, Charles Elliot, David G. Kiely, Luke Howard, John Wharton, A. A. Roger Thompson, Nicholas W. Morrell, Martin R. Wilkins, Dennis Wang, Allan Lawrie
Software Mentions: 8
Published: over 3 years ago

10.3389/fmicb.2018.03247

Lactobacillus Dominate in the Intestine of Atlantic Salmon Fed Dietary Probiotics
Cited by: 45
Author(s): S. R. Gupta, Adriána Fečkaninová, Jep Lokesh, Jana Koščová, Mette Sørensen, Jorge M. O. Fernandes, Viswanath Kiron
Software Mentions: 8
Published: almost 6 years ago

10.3389/fmicb.2020.555347

Dysbiosis in the Dead: Human Postmortem Microbiome Beta-Dispersion as an Indicator of Manner and Cause of Death
Cited by: 22
Author(s): Sierra F. Kaszubinski, Jennifer L. Pechal, Katelyn Smiles, Carl J. Schmidt, Heather R. Jordan, Mariah H. Meek, M. Eric Benbow
Software Mentions: 8
Published: about 4 years ago

10.1038/s41598-021-97491-1

Metabolic drift in the aging nervous system is reflected in human cerebrospinal fluid
Cited by: 5
Author(s): Kristian Peters, Stephanie Herman, Payam Emami Khoonsari, Joachim Burman, Steffen Neumann, Kim Kultima
Software Mentions: 8
Published: about 3 years ago

10.1186/gb-2013-14-12-r137

Integrative DNA methylation and gene expression analysis in high-grade soft tissue sarcomas
Cited by: 76
Author(s): Marcus Renner, Thomas Wolf, Hannah Meyer, Wolfgang Hartmann, Roland Penzel, Alexis Ulrich, Burkhard Lehner, Volker Hovestadt, Esteban Czwan, Gerlinde Egerer, Thomas Schmitt, Ingo Alldinger, Eva Kristin Renker, Volker Ehemann, Roland Eils, Eva Wardelmann, Reinhard Büttner, Peter Lichter, Benedikt Brors, Peter Schirmacher, Gunhild Mechtersheimer
Software Mentions: 8
Published: almost 12 years ago

10.1007/s00125-019-4848-7

Metformin-induced changes of the gut microbiota in healthy young men: results of a non-blinded, one-armed intervention study
Cited by: 117
Author(s): Thomas Bryrup, Cæcilie W. Thomsen, Timo Kern, Kristine H. Allin, Ivan Brandslund, Niklas Rye Jørgensen, Henrik Vestergaard, Torben Hansen, Oluf Pedersen, Trine Nielsen
Software Mentions: 8
Published: over 5 years ago

10.1038/s41598-019-55325-1

Development of an in silico prediction system of human renal excretion and clearance from chemical structure information incorporating fraction unbound in plasma as a descriptor
Cited by: 25
Author(s): Reiko Watanabe, Rikiya Ohashi, Tsuyoshi Esaki, Hitoshi Kawashima, Yayoi Natsume-Kitatani, Chioko Nagao, Kenji Mizuguchi
Software Mentions: 8
Published: almost 5 years ago

10.1038/s41598-020-73978-1

Data based predictive models for odor perception
Cited by: 27
Author(s): Rinu Chacko, Deepak Jain, Manasi Patwardhan, Abhishek Puri, Shirish Karande, Beena Rai
Software Mentions: 8
Published: about 4 years ago

10.1093/bioinformatics/btab088

multiclassPairs: an R package to train multiclass pair-based classifier
Cited by: 6
Author(s): Nour Al Dain Marzouka, Pontus Eriksson
Software Mentions: 7
Published: over 3 years ago

10.3390/cancers13092102

Integration of Urinary EN2 Protein & Cell-Free RNA Data in the Development of a Multivariable Risk Model for the Detection of Prostate Cancer Prior to Biopsy
Cited by: 4
Author(s): Shea P. Connell, Robert Mills, Hardev Pandha, Richard Morgan, Christopher S. Cooper, Jeremy Clark, Daniel Brewer
Software Mentions: 7
Published: over 3 years ago

10.3389/fmicb.2019.02037

Macroalga-Derived Alginate Oligosaccharide Alters Intestinal Bacteria of Atlantic Salmon
Cited by: 41
Author(s): S. R. Gupta, Jep Lokesh, Yousri Abdelhafiz, Prabhugouda Siriyappagouder, Ronan Pierre, Mette Sørensen, Jorge M. O. Fernandes, Viswanath Kiron
Software Mentions: 7
Published: about 5 years ago

10.1038/s41598-021-80970-w

Breath can discriminate tuberculosis from other lower respiratory illness in children
Cited by: 19
Author(s): Carly A. Bobak, Lili Kang, Lesley Workman, Lindy Bateman, Mohammad Sharif Khan, Margaretha Prins, Lloyd May, Flavio A. Franchina, Cynthia Baard, Mark P. Nicol, Heather J. Zar, Jane E. Hill
Software Mentions: 7
Published: almost 4 years ago

10.3390/microorganisms9091939

Human Milk Oligosaccharide-Stimulated Bifidobacterium Species Contribute to Prevent Later Respiratory Tract Infections
Cited by: 18
Author(s): Shaillay Kumar Dogra, François-Pierre Martin, Dominique Donnicola, Monique Julita, Bernard Berger, Norbert Sprenger
Software Mentions: 7
Published: about 3 years ago

10.1038/s41598-019-45912-7

Amphibian and Reptilian Chorotypes in the Arid Land of Central Asia and Their Determinants
Cited by: 1
Author(s): Zhengxin Lu, Liang Tao, Lei Shi
Software Mentions: 7
Published: over 5 years ago

10.3390/molecules26102854

Detection of Paratuberculosis in Dairy Herds by Analyzing the Scent of Feces, Alveolar Gas, and Stable Air
Cited by: 1
Author(s): M. Weber, Peter Gierschner, Anne Klassen, Elisa Kasbohm, Jochen K. Schubert, Wolfram Miekisch, Petra Reinhold, Heike Köhler
Software Mentions: 7
Published: over 3 years ago

10.1038/s41598-019-43125-6

Predicting protein-ligand interactions based on bow-pharmacological space and Bayesian additive regression trees
Cited by: 33
Author(s): Li Li, Ching Chiek Koh, Daniel Reker, J.B. Brown, Haishuai Wang, Nicholas Keone Lee, Hien-haw Liow, Hao Dai, H. K. Fan, Luonan Chen, Dong‐Qing Wei
Software Mentions: 7
Published: over 5 years ago

10.1038/s41598-018-21197-0

Effects of timber harvesting on the genetic potential for carbon and nitrogen cycling in five North American forest ecozones
Cited by: 14
Author(s): Erick Cardenas, Luis H. Orellana, Konstantinos T. Konstantinidis, William W. Mohn
Software Mentions: 7
Published: over 6 years ago

10.1371/journal.pone.0185380

Recapitulation of Ayurveda constitution types by machine learning of phenotypic traits
Cited by: 24
Author(s): Prabhat Tiwari, Rintu Kutum, Tavpritesh Sethi, Ankita Shrivastava, Bhushan Girase, Shilpi Aggarwal, Rutuja Patil, Dhiraj Agarwal, Pramod Gautam, Anurag Agrawal, Debasis Dash, Saurabh Ghosh, Sanjay Juvekar, Mitali Mukerji, Bhavana Prasher
Software Mentions: 7
Published: about 7 years ago

10.3389/fpls.2021.693739

Comparative Metabolomics of Fruits and Leaves in a Hyperdiverse Lineage Suggests Fruits Are a Key Incubator of Phytochemical Diversification
Cited by: 11
Author(s): Gerald Schneider, Diego Salazar, Sherry B. Hildreth, Richard Helm, Susan R. Whitehead
Software Mentions: 7
Published: about 3 years ago

10.1371/journal.pone.0181943

CRISPRpred: A flexible and efficient tool for sgRNAs on-target activity prediction in CRISPR/Cas9 systems
Cited by: 63
Author(s): Md. Khaledur Rahman, Mahfuzur Rahman
Software Mentions: 7
Published: over 7 years ago

10.3390/diagnostics11091686

Radiomics and Machine Learning Can Differentiate Transient Osteoporosis from Avascular Necrosis of the Hip
Cited by: 15
Author(s): Michail E. Klontzas, Georgios C. Manikis, Katerina Nikiforaki, Evangelia E. Vassalou, Konstantinos Spanakis, Ioannis Stathis, George A. Kakkos, Nikolas Matthaiou, Aristeidis Zibis, Kostas Marias, Apostolos H. Karantanas
Software Mentions: 6
Published: about 3 years ago

10.1186/s40168-020-00836-7

Cultivation-independent and cultivation-dependent metagenomes reveal genetic and enzymatic potential of microbial community involved in the degradation of a complex microbial polymer
Cited by: 46
Author(s): Ohana Y.A. Costa, Mattias de Hollander, Agata Pijl, Binbin Liu, Eiko E. Kuramae
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pone.0107801

A Robust and Accurate Method for Feature Selection and Prioritization from Multi-Class OMICs Data
Cited by: 31
Author(s): Vittorio Fortino, Pia Anneli Sofia Kinaret, Nanna Fyhrquist, Harri Alenius, Dario Greco
Software Mentions: 6
Published: about 10 years ago

10.3390/molecules25061442

Discrimination of Gentiana and Its Related Species Using IR Spectroscopy Combined with Feature Selection and Stacked Generalization
Cited by: 26
Author(s): Tao Shen, Hong Yu, Yuanzhong Wang
Software Mentions: 6
Published: over 4 years ago

10.1186/s13148-020-0810-2

5-Hydroxymethylcytosine signatures in circulating cell-free DNA as diagnostic and predictive biomarkers for coronary artery disease
Cited by: 12
Author(s): Chunlan Dong, Jiemei Chen, Jilin Zheng, Yiming Liang, Tao Yu, Yupeng Liu, Feng Gao, Jie Long, Hangyu Chen, Qianhui Zhu, Zilong He, Songnian Hu, Chuan He, Jian Lin, Yi-Da Tang, Haibo Zhu
Software Mentions: 6
Published: almost 5 years ago

10.1038/s41598-019-38979-9

Integrative modeling reveals key chromatin and sequence signatures predicting super-enhancers
Cited by: 10
Author(s): Aziz Khan, Xuegong Zhang
Software Mentions: 6
Published: over 5 years ago

10.1186/s13007-021-00761-2

Prediction of plant-level tomato biomass and yield using machine learning with unmanned aerial vehicle imagery
Cited by: 14
Author(s): Kenichi Tatsumi, Noa Igarashi, Xiao Mengxue
Software Mentions: 6
Published: over 3 years ago

10.3390/cancers13102447

MRI-Based Radiomics Analysis for the Pretreatment Prediction of Pathologic Complete Tumor Response to Neoadjuvant Systemic Therapy in Breast Cancer Patients: A Multicenter Study
Cited by: 16
Author(s): R. Granzier, Abdalla Ibrahim, Sergey Primakov, Sanaz Samiei, Thiemo J A van Nijnatten, Maaike de Boer, E. M. Heuts, F J Hulsmans, A. Chatterjee, Philippe Lambin, Marc Lobbes, Henry C. Woodruff, Marjolein L. Smidt
Software Mentions: 6
Published: over 3 years ago

10.3389/fchem.2021.659656

iMAP: A Web Server for Metabolomics Data Integrative Analysis
Cited by: 4
Author(s): Di Zhou, Wen-Hong Zhu, Tao Sun, Yang Wang, Yi Chi, Tianlu Chen, Jingchao Lin
Software Mentions: 6
Published: over 3 years ago

10.3389/fpls.2021.609684

Transcriptomics of Differential Ripening in ‘d’Anjou’ Pear (Pyrus communis L.)
Cited by: 5
Author(s): Loren Honaas, Heidi Hargarten, John A. Hadish, Stephen P. Ficklin, Sara Serra, Stefano Musacchi, Eric Wafula, James P. Mattheis, Claude W. dePamphilis, David R. Rudell
Software Mentions: 6
Published: over 3 years ago

10.1186/s12915-021-01002-7

A cell-to-patient machine learning transfer approach uncovers novel basal-like breast cancer prognostic markers amongst alternative splice variants
Cited by: 12
Author(s): Jean-Philippe Villemin, Claudio Lorenzi, Marie-Sarah Cabrillac, Andrew Oldfield, William Ritchie, Reini F. Luco
Software Mentions: 6
Published: over 3 years ago

10.3389/fmicb.2019.01347

Finding Functional Differences Between Species in a Microbial Community: Case Studies in Wine Fermentation and Kefir Culture
Cited by: 194
Author(s): Chrats Melkonian, Willi Gottstein, Sonja Blasche, Yongkyu Kim, Martin Abel-Kistrup, Hentie Swiegers, Sofie Saerens, Nathalia Edwards, Kiran R. Patil, Bas Teusink, Douwe Molenaar
Software Mentions: 6
Published: over 5 years ago

10.18632/aging.101264

Machine learning for predicting lifespan-extending chemical compounds
Cited by: 32
Author(s): Diogo Barardo, Danielle Newby, Daniel Thornton, Taravat Ghafourian, João Pedro de Magalhães, Alex A. Freitas
Software Mentions: 6
Published: over 7 years ago

10.3389/fcimb.2021.633573

Abundance and Expression of Shiga Toxin Genes in Escherichia coli at the Recto-Anal Junction Relates to Host Immune Genes
Cited by: 6
Author(s): Zhe Pan, Yanhong Chen, Tim A. McAllister, Michael G. Gänzle, Graham Plastow, Le Luo Guan
Software Mentions: 6
Published: over 3 years ago

10.3389/fmicb.2019.02560

Trophic Status Is Associated With Community Structure and Metabolic Potential of Planktonic Microbiota in Plateau Lakes
Cited by: 35
Author(s): Mohai Shen, Qi Li, Mei Ren, Yan Lin, Juanping Wang, Li Chen, Tao Li, Jindong Zhao
Software Mentions: 6
Published: almost 5 years ago

10.3389/fped.2021.719352

Risk Identification of Bronchopulmonary Dysplasia in Premature Infants Based on Machine Learning
Cited by: 9
Author(s): Jia Lei, Tiankai Sun, Yongjiang Jiang, Ping Wu, Jinjian Fu, Tao Zhang, Eric McGrath
Software Mentions: 6
Published: about 3 years ago

10.3390/foods10071543

Comparative Study of Several Machine Learning Algorithms for Classification of Unifloral Honeys
Cited by: 10
Author(s): Fernando Mateo, Andrea Tarazona, Eva M. Mateo
Software Mentions: 6
Published: over 3 years ago

10.1038/s41598-021-82989-5

CD4+ T cells from children with active juvenile idiopathic arthritis show altered chromatin features associated with transcriptional abnormalities
Cited by: 5
Author(s): Evan Tarbell, Kaiyu Jiang, Teresa Hennon, Lucy C Holmes, Sonja D. Williams, Yao Fu, Patrick M. Gaffney, Tao Liu, James N. Jarvis
Software Mentions: 6
Published: over 3 years ago

10.1155/2021/7391560

The Effect of Ferroptosis-Related Genes on Prognosis and Tumor Mutational Burden in Hepatocellular Carcinoma
Cited by: 8
Author(s): Hao Zhang, Renzheng Liu, Lin Sun, Weidong Guo, Xiao Hu
Software Mentions: 5
Published: about 3 years ago

10.1038/s41398-020-0781-2

Machine learning classification of ADHD and HC by multimodal serotonergic data
Cited by: 31
Author(s): Alexander Kautzky, Thomas Vanicek, Cécile Philippe, Georg S. Kranz, Wolfgang Wadsak, Markus Mitterhauser, Andréas Hartmann, Andreas Hahn, Marcus Hacker, Dan Rujescu, Siegfried Kasper, Rupert Lanzenberger
Software Mentions: 5
Published: over 4 years ago

10.3390/cancers12061531

Mass Spectrometric Comparison of HPV-Positive and HPV-Negative Oropharyngeal Cancer
Cited by: 6
Author(s): M. Wurlitzer, Nikolaus Möckelmann, Malte Kriegs, Maren Vens, Maryam Omidi, Konstantin Hoffer, Clara von Bargen, Christina Möller‐Koop, Melanie Witt, Conrad Droste, Agnes Oetting, Hannes Petersen, Chia‐Jung Busch, Adrian Münscher, Hartmut Schlüter, Till S. Clauditz, Thorsten Rieckmann
Software Mentions: 5
Published: over 4 years ago

10.3390/ijms20020296

High-Throughput Omics and Statistical Learning Integration for the Discovery and Validation of Novel Diagnostic Signatures in Colorectal Cancer
Cited by: 30
Author(s): Nguyen Phuoc Long, Seongoh Park, Nguyễn Hoàng Anh, Tran Diem Nghi, Sang Jun Yoon, Jeong Hill Park, Jong-Tae Lim, Sung Won Kwon
Software Mentions: 5
Published: almost 6 years ago

10.3389/fpls.2021.660303

Elucidation of Novel cis-Regulatory Elements and Promoter Structures Involved in Iron Excess Response Mechanisms in Rice Using a Bioinformatics Approach
Cited by: 16
Author(s): Yusuke Kakei, Hiroshi Masuda, Naoko K. Nishizawa, Hiroyuki Hattori, May Sann Aung
Software Mentions: 5
Published: over 3 years ago

10.1371/journal.pone.0100052

Mining Gene Expression Data of Multiple Sclerosis
Cited by: 20
Author(s): Pi Guo, Qin Zhang, Zhenli Zhu, Zhengliang Huang, Ké Li
Software Mentions: 5
Published: over 10 years ago

10.3389/fgene.2020.00214

The Identification of Metal Ion Ligand-Binding Residues by Adding the Reclassified Relative Solvent Accessibility
Cited by: 5
Author(s): Xiuzhen Hu, Zhenxing Feng, Xiaojin Zhang, Liu Liu, Shan Wang
Software Mentions: 5
Published: over 4 years ago

10.1371/journal.pone.0238648

The intestinal microbiome is a co-determinant of the postprandial plasma glucose response
Cited by: 6
Author(s): Nadja B Søndertoft, Josef Korbinian Vogt, Manimozhiyan Arumugam, Mette Kristensen, Rikke Juul Gøbel, Yong Fan, Liwei Lyu, Martin Iain Bahl, Carsten Eriksen, Lars Ängquist, Hanne Frøkiær, Tue H. Hansen, Susanne Brix, Henrik Bjørn Nielsen, Henrik Vestergaard, Ramneek Gupta, Tine Rask Licht, Lotte Lauritzen, Oluf Pedersen
Software Mentions: 5
Published: about 4 years ago

10.1371/journal.pone.0252025

Prediction of preterm birth in nulliparous women using logistic regression and machine learning
Cited by: 14
Author(s): Reza Arabi Belaghi, Joseph Beyene, Sarah D. McDonald
Software Mentions: 5
Published: over 3 years ago

10.1371/journal.pone.0236874

What’s all that racket! Soundscapes, phenology, and biodiversity in estuaries
Cited by: 10
Author(s): Agnieszka Monczak, Bradshaw McKinney, Claire Mueller, Eric W. Montie
Software Mentions: 5
Published: about 4 years ago

10.1002/jev2.12150

Stroma‐derived extracellular vesicle mRNA signatures inform histological nature of prostate cancer
Cited by: 6
Author(s): Alex P. Shephard, Peter Giles, Mariama Mbengue, Amr Alraies, Lisa K. Spary, Howard Kynaston, Mark Gurney, Juan Manuel Falcón‐Pérez, Félix Royo, Zsuzsanna Tabi, Dimitris Parthimos, Rachel J. Errington, Aled Clayton, Jason P. Webber
Software Mentions: 5
Published: about 3 years ago

10.1186/s12864-020-06809-2

Gene expression predictions and networks in natural populations supports the omnigenic theory
Cited by: 22
Author(s): Aurélien Chateigner, Marie-Claude Lesage-Descauses, Odile Rogier, Véronique Jorge, Jean‐Charles Leplé, Véronique Brunaud, Christine Paysant‐Le Roux, Ludivine Soubigou‐Taconnat, Marie‐Laure Martin‐Magniette, Leopoldo Sánchez, Vincent Segura
Software Mentions: 5
Published: over 4 years ago

10.1186/s12911-019-0747-6

Importance of medical data preprocessing in predictive modeling and risk factor discovery for the frailty syndrome
Cited by: 39
Author(s): Andreas Philipp Hassler, Ernestina Menasalvas, Francisco José García‐García, Leocadio Rodríguez‐Mañas, Andreas Holzinger
Software Mentions: 5
Published: over 5 years ago

10.18632/aging.104170

Identification of prognostic chromatin-remodeling genes in clear cell renal cell carcinoma
Cited by: 4
Author(s): Yujing Yang, Chengyuan Wang, Ningde Wei, Tao Hong, Zuyu Sun, Jiawen Xiao, Jiaxi Yao, Zhi Li, Tao Liu
Software Mentions: 5
Published: almost 4 years ago

10.1128/AEM.02012-16

Long-Term Warming Alters Carbohydrate Degradation Potential in Temperate Forest Soils
Cited by: 58
Author(s): Grace Pold, Andrew F. Billings, Jeffrey L. Blanchard, Daniel Burkhardt, Serita D. Frey, Jerry M. Melillo, Julia Schnabel, Linda T. A. van Diepen, Kristen M. DeAngelis
Software Mentions: 5
Published: almost 8 years ago

10.1186/s12967-020-02635-y

Exploration of predictive and prognostic alternative splicing signatures in lung adenocarcinoma using machine learning methods
Cited by: 8
Author(s): Qidong Cai, Boxue He, Pengfei Zhang, Zhenyu Zhao, Ping Xiong, Yuqian Zhang, Hui Xie, Xiang Wang
Software Mentions: 5
Published: almost 4 years ago

10.1007/s00429-018-1683-4

Inter-individual differences in serotonin and glutamate co-transmission reflect differentiation in context-induced conditioned 50-kHz USVs response after morphine withdrawal
Cited by: 11
Author(s): Adam Hamed, Miron B. Kursa
Software Mentions: 5
Published: over 6 years ago

10.1038/s41598-021-97660-2

Kinematics and observer-animator kinematic similarity predict mental state attribution from Heider–Simmel style animations
Cited by: 4
Author(s): Bianca Schuster, Dagmar S. Fraser, Jasper J.F. van den Bosch, Sophie Sowden, Andrew S. Gordon, Dongsung Huh, Jennifer Cook
Software Mentions: 5
Published: about 3 years ago

10.1038/s41598-020-67362-2

Integrated metabolomics and gut microbiome to the effects and mechanisms of naoxintong capsule on type 2 diabetes in rats
Cited by: 22
Author(s): Zenghao Yan, Hao Wu, Haokui Zhou, Shuo Chen, Yan He, Weijian Zhang, Taobin Chen, Hongliang Yao, Weiwei Su
Software Mentions: 5
Published: over 4 years ago

10.1186/s13007-021-00796-5

Improving the estimation of alpine grassland fractional vegetation cover using optimized algorithms and multi-dimensional features
Cited by: 12
Author(s): Xingchen Lin, Jianjun Chen, Peiqing Lou, Shuai Yi, Yu Qin, Haotian You, Xiaofei Han
Software Mentions: 5
Published: about 3 years ago

10.1371/journal.pone.0175957

RAPIDSNPs: A new computational pipeline for rapidly identifying key genetic variants reveals previously unidentified SNPs that are significantly associated with individual platelet responses
Cited by: 3
Author(s): Bajuna R. Salehe, Chris I. Jones, Giuseppe Di Fatta, Liam J. McGuffin
Software Mentions: 5
Published: over 7 years ago

10.1186/s12890-016-0303-4

The bronchial epithelial cell bacterial microbiome and host response in patients infected with human immunodeficiency virus
Cited by: 6
Author(s): Marc A. Sze, Stella Xu, Janice M. Leung, Emily A. Vucic, Tawimas Shaipanich, Aida Moghadam, Marianne Harris, Silvia Guillemi, Sunita Sinha, Corey Nislow, Darra Murphy, Cameron Hague, Jonathon Leipsic, Stephen Lam, Wan L. Lam, Julio S. G. Montaner, Don D. Sin, S. F. Paul Man
Software Mentions: 5
Published: almost 8 years ago

10.3390/jcdd8040044

Predicting Long-Term Mortality in TAVI Patients Using Machine Learning Techniques
Cited by: 12
Author(s): Marco Penso, Mauro Pepi, Laura Fusini, Manuela Muratori, C. Claudia, Valentina Mantegazza, Paola Gripari, Sarah Ali, Franco Fabbiocchi, Antonio L. Bartorelli, Enrico G. Caiani, Gloria Tamborini
Software Mentions: 5
Published: over 3 years ago

10.1371/journal.pone.0257251

Potential biomarkers of major depression diagnosis and chronicity
Cited by: 10
Author(s): Ana Cecília de Menezes Galvão, Raíssa Nóbrega de Almeida, Geovan Menezes de Sousa Júnior, Mário André Leocádio-Miguel, Fernanda Palhano-Fontes, Dráulio Barros de Araújo, Bruno Lobão-Soares, João Paulo Maia‐de‐Oliveira, Emerson Arcoverde Nunes, Jaime Eduardo Cecílio Hallak, Jerome Sarris, Nicole Leite Galvão-Coelho
Software Mentions: 5
Published: about 3 years ago

10.3390/healthcare9020138

Distal Symmetric Polyneuropathy Identification in Type 2 Diabetes Subjects: A Random Forest Approach
Cited by: 9
Author(s): Valeria Maeda-Gutiérrez, Carlos E. Galván-Tejada, Miguel Cruz, Adán Valladares–Salgado, Jorge I. Galván-Tejada, Hamurabi Gamboa-Rosales, Alejandra García-Hernández, Huizilopoztli Luna-García, Irma González-Curiel, Mónica Martínez-Acuña
Software Mentions: 5
Published: almost 4 years ago

10.1371/journal.pone.0036466

A Metagenomic Approach to Characterization of the Vaginal Microbiome Signature in Pregnancy
Cited by: 546
Author(s): Kjersti M. Aagaard, Kevin Riehle, Jun Ma, Nicola Segata, Toni Ann Mistretta, Cristian Coarfa, Sabeen Raza, Sean Rosenbaum, Ignatia Van den Veyver, Aleksandar Milosavljevic, Dirk Gevers, Curtis Huttenhower, Joseph F. Petrosino, James Versalovic
Software Mentions: 5
Published: over 12 years ago

10.1186/1752-0509-7-S6-S16

Active enhancer positions can be accurately predicted from chromatin marks and collective sequence motif data
Cited by: 14
Author(s): Agnieszka Podsiadło, Mariusz Wrzesień, Wiesław Paja, Witold R. Rudnicki, Bartek Wilczyński
Software Mentions: 4
Published: almost 11 years ago

10.1186/1471-2105-15-8

Robustness of Random Forest-based gene selection methods
Cited by: 206
Author(s): Miron B. Kursa
Software Mentions: 4
Published: almost 11 years ago

10.1186/1471-2105-13-S13-S11

The Genboree Microbiome Toolset and the analysis of 16S rRNA microbial sequences
Cited by: 37
Author(s): Kevin Riehle, Cristian Coarfa, Andrew Jackson, Jun Ma, Arpit Tandon, Sameer Paithankar, Sriram Raghuraman, Toni Ann Mistretta, Delphine M. Saulnier, Sabeen Raza, M.A. Valdovinos Díaz, Robert J. Shulman, Kjersti M. Aagaard, James Versalovic, Aleksandar Milosavljevic
Software Mentions: 4
Published: over 12 years ago

10.1186/s12864-020-07289-0

Long non-coding RNA exploration for mesenchymal stem cell characterisation
Cited by: 2
Author(s): Sébastien Riquier, Marc Mathieu, Chloé Bessière, Anthony Boureux, Florence Rufflé, Jean-Marc Lemaı̂tre, Farida Djouad, Nicolas Gilbert, Thérèse Commes
Software Mentions: 4
Published: over 3 years ago

10.1186/s12866-017-1022-6

Influence of chronic azithromycin treatment on the composition of the oropharyngeal microbial community in patients with severe asthma
Cited by: 22
Author(s): Guido Lopes dos Santos Santiago, Guy Brusselle, Kenny Dauwe, Pieter Deschaght, Chris Verhofstede, Dries Vaneechoutte, Ellen Deschepper, Paul Jordens, Guy Joos, Mario Vaneechoutte
Software Mentions: 4
Published: over 7 years ago

10.1186/s12884-021-03807-4

Comparison of first trimester dating methods for gestational age estimation and their implication on preterm birth classification in a North Indian cohort
Cited by: 4
Author(s): Ramya Vijayram, Nikhita Damaraju, Ashley Xavier, Bapu Koundinya Desiraju, Ramachandran Thiruvengadam, Sumit Misra, Shilpa Chopra, Ashok Khurana, Nitya Wadhwa, Raghunathan Rengaswamy, Himanshu Sinha, Shinjini Bhatnagar
Software Mentions: 4
Published: over 3 years ago

10.18632/aging.203380

Immune cell infiltration-associated signature in colon cancer and its prognostic implications
Cited by: 12
Author(s): Dan Deng, Xin Luo, Sifang Zhang, Zhijie Xu
Software Mentions: 4
Published: over 3 years ago

10.1186/s12575-021-00148-6

Nasopharyngeal Microbiota in SARS-CoV-2 Positive and Negative Patients
Cited by: 22
Author(s): Phillip A. Engen, Ankur Naqib, Cheryl Jennings, Stefan J. Green, Alan Landay, Ali Keshavarzian, Robin M. Voigt
Software Mentions: 4
Published: over 3 years ago

10.3390/molecules24142562

Assessing Geographical Origin of Gentiana Rigescens Using Untargeted Chromatographic Fingerprint, Data Fusion and Chemometrics
Cited by: 13
Author(s): Tao Shen, Hong Yu, Yuanzhong Wang
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0111228

Changes in the Bacterial Microbiota in Gut, Blood, and Lungs following Acute LPS Instillation into Mice Lungs
Cited by: 135
Author(s): Marc A. Sze, Masashi Tsuruta, Shun Wei Julia Yang, Yeni Oh, S. F. Paul Man, James C. Hogg, Don D. Sin
Software Mentions: 4
Published: about 10 years ago

10.1371/journal.pone.0184677

Simple yet effective: Historical proximity variables improve the species distribution models for invasive giant hogweed (Heracleum mantegazzianum s.l.) in Poland
Cited by: 7
Author(s): Piotr Mędrzycki, Ingeborga Jarzyna, Artur Obidziński, B. Tokarska-Guzik, Zofia Sotek, Piotr Pabjanek, Adam Pytlarczyk, Izabela Sachajdakiewicz
Software Mentions: 4
Published: about 7 years ago

10.1038/s41419-021-04075-y

A Catalogus Immune Muris of the mouse immune responses to diverse pathogens
Cited by: 0
Author(s): Céline Barlier, Diego Barriales, Alexey Samosyuk, Sascha Jung, Srikanth Ravichandran, Yulia A. Medvedeva, Juan Anguíta, Antonio del Sol
Software Mentions: 4
Published: about 3 years ago

10.3390/cells10030576

A New Epigenetic Model to Stratify Glioma Patients According to Their Immunosuppressive State
Cited by: 7
Author(s): Maurizio Polano, Emanuele Fabbiani, Eva Adreuzzi, Federica Di Cintio, Luca Bedon, Davide Gentilini, Maurizio Mongiat, Tamara Ius, M. Arcicasa, Miran Škrap, Michele Dal Bo, Giuseppe Toffoli
Software Mentions: 4
Published: over 3 years ago

10.1038/s41424-018-0059-7

First Degree Relatives of Patients with Celiac Disease Harbour an Intestinal Transcriptomic Signature that Might Protect them from Enterocyte Damage
Cited by: 5
Author(s): Pragyan Acharya, Rintu Kutum, Rajesh Pandey, Abhishek Mishra, Ratan K. Saha, Akshay Munjal, Vineet Ahuja, Mitali Mukerji, Govind Makharia
Software Mentions: 4
Published: about 6 years ago

10.1038/s42003-021-02289-6

Predicting the probability of death using proteomics
Cited by: 7
Author(s): Thjodbjorg Eiriksdottir, Steinthor Ardal, Benedikt Atli Jónsson, Sigrún H. Lund, Erna V. Ívarsdóttir, Kristjan Norland, Egil Ferkingstad, Hreinn Stefánsson, Ingileif Jónsdóttir, Hilma Hólm, Thorunn Rafnar, Jona Saemundsdottir, Gudmundur L. Norddahl, Guðmundur Þorgeirsson, Daníel F. Guðbjartsson, Patrick Sulem, Unnur Þorsteinsdóttir, Kári Stefansson, Magnus O. Ulfarsson
Software Mentions: 4
Published: over 3 years ago

10.3389/fbioe.2020.00187

The Joint Analysis of Multi-Omics Data Revealed the Methylation-Expression Regulations in Atrial Fibrillation
Cited by: 8
Author(s): Ban Liu, Xin Shi, Keke Ding, Mengwei Lv, Yongjun Qian, Shijie Zhu, Changfa Guo, Yangyang Zhang
Software Mentions: 4
Published: over 4 years ago

10.3389/fmicb.2016.00902

Reconstructing the Genetic Potential of the Microbially-Mediated Nitrogen Cycle in a Salt Marsh Ecosystem
Cited by: 27
Author(s): Francisco Dini‐Andreote, Maria Julia de Lima Brossi, Jan Dirk van Elsas, Joana Falccao Salles
Software Mentions: 4
Published: over 8 years ago

10.3389/fonc.2020.558162

Radiomic Features From Multi-Parameter MRI Combined With Clinical Parameters Predict Molecular Subgroups in Patients With Medulloblastoma
Cited by: 32
Author(s): Jing Yan, Lei Liu, Weiwei Wang, Yuanshen Zhao, Kay Ka‐Wai Li, Ké Li, Li Wang, Binke Yuan, Haiyang Geng, Shenghai Zhang, Zhen Liu, Wenchao Duan, Yunbo Zhan, Dongling Pei, Haibiao Zhao, Tongwen Sun, Chen Sun, Wenqing Wang, Xuanke Hong, Xiangxiang Wang, Yu Guo, Wencai Li, Jingliang Cheng, Xianzhi Liu, Ho‐Keung Ng, Zhicheng Li, Zhenyu Zhang
Software Mentions: 4
Published: about 4 years ago

10.3389/fonc.2020.00248

A Contrast-Enhanced Computed Tomography Based Radiomics Approach for Preoperative Differentiation of Pancreatic Cystic Neoplasm Subtypes: A Feasibility Study
Cited by: 25
Author(s): Xiaoyong Shen, Fan Yang, Pengfei Yang, Modan Yang, Lei Xu, Jianyong Zhuo, Jianguo Wang, Di Lu, Zhikun Liu, Shusen Zheng, Tianye Niu, Xiao Xu
Software Mentions: 4
Published: over 4 years ago

Projects: cran: Boruta

Papers Mentioning Boruta 192