pypi: scikit-learn | Projects | Ecosyste.ms: Papers

10.3389/fmicb.2021.644487

Beating Naive Bayes at Taxonomic Classification of 16S rRNA Gene Sequences
Cited by: 8
Author(s): Michał Ziemski, Treepop Wisanwanichthan, Nicholas A. Bokulich, Benjamin Kaehler
Software Mentions: 3
Published: over 3 years ago

10.1016/j.mcpro.2021.100096

Proteomic Portraits Reveal Evolutionarily Conserved and Divergent Responses to Spinal Cord Injury
Cited by: 14
Author(s): Michael A. Skinnider, Jason C. Rogalski, Seth Tigchelaar, Neda Manouchehri, Anna Prudova, Angela Jackson, Karina Nielsen, Jaihyun Jeong, Shalini Chaudhary, Katelyn Shortt, Ylonna Gallagher-Kurtzke, Kitty So, Allan Fong, Rishab Gupta, Elena B. Okon, Michael A. Rizzuto, Kevin Dong, Femke Streijger, Lise Bélanger, Leanna Ritchie, Angela Tsang, Sean Christie, Jean-Marc Mac-Thiong, Chris Bailey, Tamir Ailon, Raphaële Charest-Morin, Nicolas Dea, Jefferson R. Wilson, Sanjay S. Dhall, Scott Paquette, John Street, Charles G. Fisher, Marcel F. Dvorak, Casey P. Shannon, Christoph H. Borchers, Robert Balshaw, Leonard J. Foster, Brian K. Kwon
Software Mentions: 3
Published: almost 4 years ago

10.3390/s20226535

Can We Ditch Feature Engineering? End-to-End Deep Learning for Affect Recognition from Physiological Sensor Data
Cited by: 21
Author(s): Maciej Dzieżyc, Martin Gjoreski, Przemysław Kazienko, Stanisław Saganowski, Matjaž Gams
Software Mentions: 3
Published: about 4 years ago

10.1074/mcp.O115.055467

Global Membrane Protein Interactome Analysis using In vivo Crosslinking and Mass Spectrometry-based Protein Correlation Profiling
Cited by: 61
Author(s): Mark Larance, Kathryn J. Kirkwood, Michele Tinti, Alejandro Brenes Murillo, Michael A. J. Ferguson, Angus I. Lamond
Software Mentions: 3
Published: over 8 years ago

10.3390/s21020405

DOLARS, a Distributed On-Line Activity Recognition System by Means of Heterogeneous Sensors in Real-Life Deployments—A Case Study in the Smart Lab of The University of Almería
Cited by: 10
Author(s): Marcos Lupión, Javier Medina-Quero, Juan F. Sanjuan, Pilar M. Ortigosa
Software Mentions: 3
Published: almost 4 years ago

10.1155/2021/6633563

Shared Molecular Mechanisms between Alzheimer’s Disease and Periodontitis Revealed by Transcriptomic Analysis
Cited by: 10
Author(s): Jieqi Jin, Mengkai Guang, Anthony Chukwunonso Ogbuehi, Simin Li, Kai Zhang, Yihong Ma, Aneesha Acharya, Bihan Guo, Zongwu Peng, Xiangqiong Liu, Yupei Deng, Ziyu Fang, Xiongjie Zhu, Shiting Hua, Cong Liu, Rainer Haak, Dirk Ziebolz, Gerhard Schmalz, Lei Liu, Baohua Xu, Xiaofeng Huang
Software Mentions: 3
Published: over 3 years ago

10.1186/s12859-019-2892-4

MHCSeqNet: a deep neural network model for universal MHC binding prediction
Cited by: 48
Author(s): Poomarin Phloyphisut, Natapol Pornputtapong, Sira Sriswasdi, Ekapol Chuangsuwanich
Software Mentions: 3
Published: over 5 years ago

10.3390/molecules26061734

QSAR Models for Active Substances against Pseudomonas aeruginosa Using Disk-Diffusion Test Data
Cited by: 5
Author(s): Cosmin Alexandru Bugeac, Robert Ancuceanu, Mihaela Dinu
Software Mentions: 3
Published: over 3 years ago

10.3390/e23010021

ML-Based Analysis of Particle Distributions in High-Intensity Laser Experiments: Role of Binning Strategy
Cited by: 1
Author(s): Yury Rodimkov, Evgeny Efimenko, Valentin Volokitin, Elena Panova, А. Н. Половинкин, Iosif B. Meyerov, Arkady Gonoskov
Software Mentions: 2
Published: almost 4 years ago

10.1107/S2059798320009080

Predicting protein model correctness in <i>Coot</i> using machine learning
Cited by: 17
Author(s): Paul S. Bond, K.S. Wilson, Kevin Cowtan
Software Mentions: 2
Published: over 4 years ago

10.1107/S2059798319009392

Sequence assignment for low-resolution modelling of protein crystal structures
Cited by: 22
Author(s): Grzegorz Chojnowski, Joana Pereira, Victor S. Lamzin
Software Mentions: 2
Published: over 5 years ago

10.1007/s00401-020-02171-5

Patient-derived orthotopic xenografts of pediatric brain tumors: a St. Jude resource
Cited by: 38
Author(s): Kyle Smith, Ke Xu, Kimberly Mercer, Frederick A. Boop, Paul Klimo, Michael DeCupyere, José Grenet, Sarah Robinson, Paige S. Dunphy, Suzanne J. Baker, David W. Ellison, Thomas E. Merchant, Santhosh A Upadayaya, Amar Gajjar, Gang Wu, Brent A. Orr, Giles Robinson, Paul A. Northcott, Martine F. Roussel
Software Mentions: 2
Published: over 4 years ago

10.18632/aging.202168

Plasma cytokines for predicting diabetic retinopathy among type 2 diabetic patients via machine learning algorithms
Cited by: 3
Author(s): Bin Cao, Ning Zhang, Yuanyuan Zhang, Ying Fu, Dong Zhao
Software Mentions: 2
Published: almost 4 years ago

10.1186/s42523-021-00075-7

Microbiota in intestinal digesta of Atlantic salmon (Salmo salar), observed from late freshwater stage until one year in seawater, and effects of functional ingredients: a case study from a commercial sized research site in the Arctic region
Cited by: 33
Author(s): Jie Wang, Alexander Jaramillo-Torres, Yanxian Li, Trond M. Kortner, Karina Gajardo, Øyvind Jakobsen Brevik, Jan Vidar Jakobsen, Åshild Krogdahl
Software Mentions: 2
Published: almost 4 years ago

10.3390/ani10122201

Comparison of the Surface Thermal Patterns of Horses and Donkeys in Infrared Thermography Images
Cited by: 10
Author(s): Małgorzata Domino, Michał Romaszewski, Tomasz Jasiński, Małgorzata Maśko
Software Mentions: 2
Published: about 4 years ago

10.1245/s10434-020-08659-4

Multiparametric MRI and Whole Slide Image-Based Pretreatment Prediction of Pathological Response to Neoadjuvant Chemoradiotherapy in Rectal Cancer: A Multicenter Radiopathomic Study
Cited by: 32
Author(s): Lizhi Shao, Zhenyu Liu, Lili Feng, Xiaoying Lou, Zhenhui Li, Xiao Yan Zhang, Xiang-Bo Wan, Xuezhi Zhou, Kai Sun, Da Fu Zhang, Lin Wu, Guanyu Yang, Ying Sun, Rui‐hua Xu, Xinjuan Fan, Jie Tian
Software Mentions: 2
Published: over 4 years ago

10.3390/antibiotics8040225

A New Look at the Structures of Old Sepsis Actors by Exploratory Data Analysis Tools
Cited by: 8
Author(s): Antonio Gnoni, Emanuele De Nitto, Salvatore Scacco, Luigì Santacroce, Luigi Leonardo Palese
Software Mentions: 2
Published: about 5 years ago

10.3390/antibiotics9120861

Comprehensive Statistical Evaluation of Etest®, UMIC®, MicroScan and Disc Diffusion versus Standard Broth Microdilution: Workflow for an Accurate Detection of Colistin-Resistant and Mcr-Positive E. coli
Cited by: 8
Author(s): Isidro García-Meniño, Pilar Lumbreras, Pablo Valledor, Dafne Díaz-Jiménez, Luz Lestón, Javier Fernández, Azucena Mora
Software Mentions: 2
Published: almost 4 years ago

10.3390/antibiotics10040449

Meropenem Stability in Human Plasma at −20 °C: Detailed Assessment of Degradation
Cited by: 6
Author(s): Matthias Gijsen, Benjamin Filtjens, Pieter Annaert, Yeghig Armoudjian, Yves Debaveye, Joost Wauters, Peter Slaets, Isabel Spriet
Software Mentions: 2
Published: over 3 years ago

10.1186/s12859-020-3505-y

Adaptations of Escherichia coli strains to oxidative stress are reflected in properties of their structural proteomes
Cited by: 3
Author(s): Nathan Mih, Jonathan M. Monk, Xin Fang, Edward Catoiu, David Heckmann, Laurence T. Yang, Jaehyung Kim
Software Mentions: 2
Published: over 4 years ago

10.1186/s12859-019-2853-y

Capturing the differences between humoral immunity in the normal and tumor environments from repertoire-seq of B-cell receptors using supervised machine learning
Cited by: 23
Author(s): Hiroki Konishi, Daisuke Komura, Hiroto Katoh, Saoko Atsumi, Hirotomo Koda, Asami Yamamoto, Yasuyuki Seto, Masashi Fukayama, Rui Yamaguchi, Seiya Imoto, Shumpei Ishikawa
Software Mentions: 2
Published: over 5 years ago

10.1186/s12859-016-1205-4

Fusing literature and full network data improves disease similarity computation
Cited by: 18
Author(s): Ping Li, Yaling Nie, Jing Yu
Software Mentions: 2
Published: about 8 years ago

10.1186/s12859-020-03915-6

Modeling drug mechanism of action with large scale gene-expression profiles using GPAR, an artificial intelligence platform
Cited by: 18
Author(s): Shengqiao Gao, Lu Han, Dan Luo, Gang Liu, Zhiyong Xiao, Guangcun Shan, Yongxiang Zhang, Wenxia Zhou
Software Mentions: 2
Published: almost 4 years ago

10.1186/s12859-021-04096-6

Harvestman: a framework for hierarchical feature learning and selection from whole genome sequencing data
Cited by: 1
Author(s): Trevor S. Frisby, Shawn James Baker, Guillaume Marçais, Quang Minh Hoang, Carl Kingsford, Christopher J. Langmead
Software Mentions: 2
Published: over 3 years ago

10.1186/s12859-019-2939-6

Prediction of activity and specificity of CRISPR-Cpf1 using convolutional deep learning neural networks
Cited by: 28
Author(s): Jiesi Luo, Wei Chen, Xue Li, Bin Tang
Software Mentions: 2
Published: over 5 years ago

10.1186/s12859-021-03993-0

ReCGBM: a gradient boosting-based method for predicting human dicer cleavage sites
Cited by: 1
Author(s): Pengyu Liu, Jiangning Song, Chun Yuan Lin, Tatsuya Akutsu
Software Mentions: 2
Published: almost 4 years ago

10.1186/s12859-019-3010-3

nanite: using machine learning to assess the quality of atomic force microscopy-enabled nano-indentation data
Cited by: 22
Author(s): Paul Müller, Shada Abuhattum, Stephanie Möllmert, Elke Ulbricht, Anna Taubenberger, Jochen Guck
Software Mentions: 2
Published: about 5 years ago

10.1186/s12859-019-2833-2

MetaNN: accurate classification of host phenotypes from metagenomic data using neural networks
Cited by: 42
Author(s): Chieh Lo, Radu Mărculescu
Software Mentions: 2
Published: over 5 years ago

10.1186/s12859-019-3238-y

Old drug repositioning and new drug discovery through similarity learning from drug-target joint feature spaces
Cited by: 9
Author(s): Yi Zheng, Hui Peng, Xiaocai Zhang, Zhixun Zhao, Xiaoying Gao, Jinyan Li
Software Mentions: 2
Published: almost 5 years ago

10.1186/s12859-019-3050-8

Automatic discovery of 100-miRNA signature for cancer classification using ensemble feature selection
Cited by: 46
Author(s): Alejandro Lopez-Rincon, Marlet Martínez‐Archundia, Gustavo Ulises Martínez-Ruiz, Alexander Schoenhuth, Alberto Tonda
Software Mentions: 2
Published: about 5 years ago

10.1186/s12859-020-3437-6

Identification of early mild cognitive impairment using multi-modal data and graph convolutional networks
Cited by: 17
Author(s): Jin Liu, Guanxin Tan, Wei Lan, Jianxin Wang
Software Mentions: 2
Published: about 4 years ago

10.1186/s12859-019-3054-4

Antimicrobial resistance genetic factor identification from whole-genome sequence data using deep feature selection
Cited by: 21
Author(s): Jinhong Shi, Yan Yan, Matthew G. Links, Longhai Li, Jo-Anne R. Dillon, Michael C. Horsch, Anthony Kusalik
Software Mentions: 2
Published: almost 5 years ago

10.1186/s12859-019-3296-1

Evolving knowledge graph similarity for supervised learning in complex biomedical domains
Cited by: 24
Author(s): Rita Sousa, Sara Silva, Cátia Pesquita
Software Mentions: 2
Published: almost 5 years ago

10.1186/s12859-019-3068-y

A machine learning-based service for estimating quality of genomes using PATRIC
Cited by: 24
Author(s): Bruce Parrello, Rory Butler, Philippe Chlenski, Robert Olson, Jamie C. Overbeek, Gordon D. Pusch, Veronika Vonstein, Ross Overbeek
Software Mentions: 2
Published: about 5 years ago

10.1186/s12859-018-2021-9

LocText: relation extraction of protein localizations to assist database curation
Cited by: 80
Author(s): Juan Miguel Cejuela, Shrikant Vinchurkar, Tatyana Goldberg, Madhukar Sollepura Prabhu Shankar, Ashish Baghudana, Aleksandar Bojchevski, Carsten Uhlig, André Ofner, Pandu Raharja-Liu, Lars Juhl Jensen, Burkhard Rost
Software Mentions: 2
Published: almost 7 years ago

10.1186/s12859-020-03581-8

AllesTM: predicting multiple structural features of transmembrane proteins
Cited by: 3
Author(s): Peter Hönigschmid, Stephan Breimann, Martina Weigl, Dmitrij Frishman
Software Mentions: 2
Published: over 4 years ago

10.1186/s12859-018-2197-z

Automatic extraction of informal topics from online suicidal ideation
Cited by: 21
Author(s): Reilly N. Grant, David Kucher, Ana M. León, Jonathan Gemmell, Daniela Raicu, Samah Jamal Fodeh
Software Mentions: 2
Published: over 6 years ago

10.1186/s12859-016-0895-y

CP-CHARM: segmentation-free image classification made accessible
Cited by: 53
Author(s): Virginie Uhlmann, Shantanu Singh, Anne E. Carpenter
Software Mentions: 2
Published: almost 9 years ago

10.1186/s12859-018-2082-9

DecoFungi: a web application for automatic characterisation of dye decolorisation in fungal strains
Cited by: 3
Author(s): César Domínguez, Jónathan Heras, Eloy Mata, Vico Pascual
Software Mentions: 2
Published: over 6 years ago

10.1186/s12859-017-1729-2

RGIFE: a ranked guided iterative feature elimination heuristic for the identification of biomarkers
Cited by: 16
Author(s): Nicola Lazzarini, Jaume Bacardit
Software Mentions: 2
Published: over 7 years ago

10.1186/s12859-021-04270-w

PlasForest: a homology-based random forest classifier for plasmid detection in genomic datasets
Cited by: 21
Author(s): Léa Pradier, Tazzio Tissot, Anna-Sophie Fiston-Lavier, Stéphanie Bedhomme
Software Mentions: 2
Published: over 3 years ago

10.1186/1471-2105-15-93

SPiCE: a web-based tool for sequence-based protein classification and exploration
Cited by: 16
Author(s): Bastiaan A. van den Berg, Marcel J. T. Reinders, Johannes A. Roubos, Dick de Ridder
Software Mentions: 2
Published: over 10 years ago

10.1186/s12859-020-03603-5

A cell-level quality control workflow for high-throughput image analysis
Cited by: 3
Author(s): Minhua Qiu, Bin Zhou, Frederick Lo, Steven C. Cook, Jason Chyba, Doug Quackenbush, Jason Matzen, Zhizhong Li, Puiying A. Mak, Kaisheng Chen, Yingyao Zhou
Software Mentions: 2
Published: over 4 years ago

10.1186/s12859-021-04272-8

A convolutional neural network-based regression model to infer the epigenetic crosstalk responsible for CG methylation patterns
Cited by: 0
Author(s): Wan Kin Au Yeung, Osamu Maruyama, Hidetada Sasaki
Software Mentions: 2
Published: over 3 years ago

10.1186/s12859-020-03944-1

PCirc: random forest-based plant circRNA identification software
Cited by: 13
Author(s): Shuwei Yin, Xiao Tian, Jingjing Zhang, Peisen Sun, Guanglin Li
Software Mentions: 2
Published: almost 4 years ago

10.1186/s12859-018-2535-1

Sequence-based bacterial small RNAs prediction using ensemble learning strategies
Cited by: 14
Author(s): Guifeng Tang, Jingwen Shi, Wenjian Wu, Xiang Yue, Wen Zhang
Software Mentions: 2
Published: almost 6 years ago

10.1186/s12859-020-3474-1

ppiGReMLIN: a graph mining based detection of conserved structural arrangements in protein-protein interfaces
Cited by: 3
Author(s): Felippe C. Queiroz, Adriana Maria Patarroyo Vargas, M. G. A. Oliveira, Giovanni Comarela, Simonton Andrade Silveira
Software Mentions: 2
Published: over 4 years ago

10.1186/s12859-015-0518-z

Identification of binding sites and favorable ligand binding moieties by virtual screening and self-organizing map analysis
Cited by: 15
Author(s): Emna Harigua‐Souiai, Isidro Cortés-Ciriano, Nathan Desdouits, Thérèse E. Malliavin, Ikram Guizani, Michaël Nilges, Arnaud Blondel, Guillaume Bouvier
Software Mentions: 2
Published: over 9 years ago

10.1186/s12859-018-2390-0

Accurate prediction of protein-lncRNA interactions by diffusion and HeteSim features across heterogeneous network
Cited by: 24
Author(s): Lei Deng, Junqiang Wang, Yun Xiao, Zixiang Wang, Hui Liu
Software Mentions: 2
Published: about 6 years ago

10.1186/s12862-019-1552-7

tRNA functional signatures classify plastids as late-branching cyanobacteria
Cited by: 4
Author(s): Travis J Lawrence, Katherine C. H. Amrine, Wesley D. Swingley, David H. Ardell
Software Mentions: 2
Published: almost 5 years ago

10.1186/s12864-015-1264-3

Extrapolating histone marks across developmental stages, tissues, and species: an enhancer prediction case study
Cited by: 15
Author(s): John A. Capra
Software Mentions: 2
Published: almost 10 years ago

10.1186/s12864-019-6293-x

Investigating the role of super-enhancer RNAs underlying embryonic stem cell differentiation
Cited by: 15
Author(s): Hao Chun Chang, Hsuan Cheng Huang, Hsueh Fen Juan, Chia‐Lang Hsu
Software Mentions: 2
Published: almost 5 years ago

10.1186/s12864-019-6153-8

Hecaton: reliably detecting copy number variation in plant genomes using short read sequencing data
Cited by: 3
Author(s): Raúl Y. Wijfjes, Sandra Smit, Dick de Ridder
Software Mentions: 2
Published: about 5 years ago

10.1186/s12864-020-06978-0

ACEP: improving antimicrobial peptides recognition through automatic feature fusion and amino acid embedding
Cited by: 23
Author(s): Hongtuo Fu, Zicheng Cao, Mingyuan Li, Shunfang Wang
Software Mentions: 2
Published: about 4 years ago

10.1186/s12879-021-06038-2

Projecting COVID-19 disease severity in cancer patients using purposefully-designed machine learning
Cited by: 4
Author(s): Saket Navlakha, Sejal Morjaria, Rocío Pérez-Johnston, Allen Zhang, Ying Taur
Software Mentions: 2
Published: over 3 years ago

10.1186/s12920-019-0515-6

CONFIGURE: A pipeline for identifying context specific regulatory modules from gene expression data and its application to breast cancer
Cited by: 5
Author(s): Sungjoon Park, Dae Hyun Hwang, Yoon Sun Yeo, Hyunggee Kim, Jaewoo Kang
Software Mentions: 2
Published: over 5 years ago

10.1186/s12920-021-00974-3

EARN: an ensemble machine learning algorithm to predict driver genes in metastatic breast cancer
Cited by: 10
Author(s): Leila Mirsadeghi, Reihaneh Hosseini, Ali Mohammad Banaei-Moghaddam, Kaveh Kavousi
Software Mentions: 2
Published: over 3 years ago

10.1186/s12911-021-01623-6

Automatic detection of actionable radiology reports using bidirectional encoder representations from transformers
Cited by: 17
Author(s): Yukihiko Nakamura, Shouhei Hanaoka, Yukihiro Nomura, Takahiro Nakao, Soichiro Miki, Takeyuki Watadani, Tsuneo Yoshikawa, Naoto Hayashi, Osamu Abe
Software Mentions: 2
Published: about 3 years ago

10.1186/s12911-020-01358-w

A stacking-based model for predicting 30-day all-cause hospital readmissions of patients with acute myocardial infarction
Cited by: 12
Author(s): Zhen Zhang, Hang Qiu, Weihao Li, Yu‐Cheng Chen
Software Mentions: 2
Published: almost 4 years ago

10.1186/s12911-020-01217-8

Evaluation of standard and semantically-augmented distance metrics for neurology patients
Cited by: 5
Author(s): Daniel B. Hier, Jonathan Kopel, Steven U. Brint, Donald C. Wunsch, Gayla R. Olbricht, Sima Azizi, Blaine Allen
Software Mentions: 2
Published: about 4 years ago

10.1186/s12911-019-0978-6

Representation learning in intraoperative vital signs for heart failure risk prediction
Cited by: 12
Author(s): Yuwen Chen, Baolian Qi
Software Mentions: 2
Published: almost 5 years ago

10.1186/s12911-020-1104-5

How to automatically turn patient experience free-text responses into actionable insights: a natural language programming (NLP) approach
Cited by: 14
Author(s): Simone A. Cammel, Marit S. de Vos, Daphne van Soest, Kristina Hettne, F. Boer, Ewout W. Steyerberg, Hileen Boosman
Software Mentions: 2
Published: over 4 years ago

10.1186/s12911-019-0841-9

Automatically determining cause of death from verbal autopsy narratives
Cited by: 13
Author(s): Serena Jeblee, Mireille Gomes, Prabhat Jha, Frank Rudzicz, Graeme Hirst
Software Mentions: 2
Published: over 5 years ago

10.1186/s12911-018-0710-y

Neuropsychological predictors of conversion from mild cognitive impairment to Alzheimer’s disease: a feature selection ensemble combining stability and predictability
Cited by: 30
Author(s): Telma Pereira, Francisco L. Ferreira, Sandra Cardoso, Dina Silva, Alexandre de Mendonça, Manuela Guerreiro, Sara C. Madeira
Software Mentions: 2
Published: almost 6 years ago

10.1186/s12911-021-01510-0

Explainable AI enables clinical trial patient selection to retrospectively improve treatment effects in schizophrenia
Cited by: 3
Author(s): Monika S. Mellem, Matthew Kollada, Jane Tiller, Thomas Z. Lauritzen
Software Mentions: 2
Published: over 3 years ago

10.1186/s12911-020-01356-y

Explanation and prediction of clinical data with imbalanced class distribution based on pattern discovery and disentanglement
Cited by: 9
Author(s): Pei-Yuan Zhou, Andrew K. C. Wong
Software Mentions: 2
Published: almost 4 years ago

10.1186/s12911-020-01329-1

Development of a support vector machine learning and smart phone Internet of Things-based architecture for real-time sleep apnea diagnosis
Cited by: 13
Author(s): Bin Ma, Zhaolong Wu, Shengyu Li, Ryan Benton, Dongqi Li, Yulong Huang, Mohan Vamsi Kasukurthi, Jingwei Lin, Glen M. Borchert, Shaobo Tan, Gang Li, Meihong Yang, Jingshan Huang
Software Mentions: 2
Published: almost 4 years ago

10.1186/s12911-020-1069-4

Sparse multi-output Gaussian processes for online medical time series prediction
Cited by: 23
Author(s): Li Cheng, Bianca Dumitrascu, Gregory Darnell, Corey Chivers, Michael Draugelis, Kai Li, Barbara E. Engelhardt
Software Mentions: 2
Published: over 4 years ago

10.1186/s13104-015-1039-6

A property-based analysis of human transcription factors
Cited by: 7
Author(s): Shahram Bahrami, Rezvan Ehsani, Finn Drabløs
Software Mentions: 2
Published: over 9 years ago

10.1186/s12918-018-0587-5

Escherichia coli B2 strains prevalent in inflammatory bowel disease patients have distinct metabolic capabilities that enable colonization of intestinal mucosa
Cited by: 35
Author(s): Xin Fang, Jonathan M. Monk, Nathan Mih, Bin Du, Anand V. Sastry, Erol Kavvas, Yara Seif, Larry Smarr, Bernhard Ø. Palsson
Software Mentions: 2
Published: over 6 years ago

10.1186/s13040-021-00270-x

Comparison of 16S and whole genome dog microbiomes using machine learning
Cited by: 3
Author(s): Scott A. Lewis, Andrea K. Nash, Qinghong Li, Tae-Hyuk Ahn
Software Mentions: 2
Published: over 3 years ago

10.1186/s13040-017-0154-4

PMLB: a large benchmark suite for machine learning evaluation and comparison
Cited by: 217
Author(s): Randal S. Olson, William La Cava, Patryk Orzechowski, Ryan J. Urbanowicz, Jason H. Moore
Software Mentions: 2
Published: almost 7 years ago

10.3390/bioengineering8060074

Modeling Focused-Ultrasound Response for Non-Invasive Treatment Using Machine Learning
Cited by: 3
Author(s): Tariq M. Arif, Zhiming Ji, Md Adilur Rahim, Bharath Babu Nunna
Software Mentions: 2
Published: over 3 years ago

10.1093/bioinformatics/bty915

wgd—simple command line tools for the analysis of ancient whole-genome duplications
Cited by: 148
Author(s): Arthur Zwaenepoel, Yves Van de Peer
Software Mentions: 2
Published: about 6 years ago

10.1093/bioinformatics/bty565

Statistical tests for detecting variance effects in quantitative trait studies
Cited by: 24
Author(s): Bianca Dumitrascu, Gregory Darnell, Julien Ayroles, Barbara E. Engelhardt
Software Mentions: 2
Published: over 6 years ago

10.1093/bioinformatics/btx082

Benchmarking substrate-based kinase activity inference using phosphoproteomic data
Cited by: 57
Author(s): Claudia Hernández-Armenta, David Ochoa, Emanuel Gonçalvès, Julio Sáez-Rodríguez, Pedro Beltrão
Software Mentions: 2
Published: almost 8 years ago

10.1093/bioinformatics/btz012

A web application and service for imputing and visualizing missense variant effect maps
Cited by: 13
Author(s): Yingzhou Wu, Jochen Weile, Atina G. Coté, Song Sun, Jennifer J. Knapp, Marta Verby, Frederick P. Roth
Software Mentions: 2
Published: almost 6 years ago

10.1093/bioinformatics/btx601

Sipros Ensemble improves database searching and filtering for complex metaproteomics
Cited by: 21
Author(s): Xuan Guo, Zhou Li, Qiuming Yao, Robert F. Mueller, Jimmy K. Eng, David L. Tabb, IV William Judson Hervey, Chongle Pan
Software Mentions: 2
Published: about 7 years ago

10.1186/s13062-019-0246-9

Antibiotic resistance and metabolic profiles as functional biomarkers that accurately predict the geographic origin of city metagenomics samples
Cited by: 15
Author(s): Carlos S. Casimiro-Soriguer, Carlos Loucera, J. P. Florido, Daniel López-López, Joaquı́n Dopazo
Software Mentions: 2
Published: over 5 years ago

10.1186/s13062-020-0259-4

Predictability of drug-induced liver injury by machine learning
Cited by: 26
Author(s): Marco Chierici, Margherita Francescatto, Nicole Bussola, Giuseppe Jurman, Cesare Furlanello
Software Mentions: 2
Published: almost 5 years ago

10.1242/bio.036103

Extending chemical perturbations of the ubiquitin fitness landscape in a classroom setting reveals new constraints on sequence tolerance
Cited by: 16
Author(s): David Mavor, Kyle Barlow, Daniel Asarnow, Yuliya Birman, Derek Britain, Weilin Chen, Evan M. Green, L.R. Kenner, Bruk Mensa, Leanna S. Morinishi, Charlotte Nelson, Erin M. Poss, Pooja Suresh, Ruilin Tian, Taylor Arhar, Beatrice Ary, Diana Bauer, Ian D. Bergman, Rachel M. Brunetti, Cynthia M. Chio, Shizhong Dai, Miles Sasha Dickinson, Susanna K. Elledge, Cole V. M. Helsell, Nathan L. Hendel, Emily L. Kang, Nadja Kern, Matvei Khoroshkin, Lisa L. Kirkemo, Greyson R. Lewis, Kevin Lou, Wesley M. Marin, Alison Maxwell, Peter F. McTigue, Douglas Myers-Turnbull, Tamas L. Nagy, Andrew M. Natale, Keely Oltion, Sergei Pourmal, Gabriel Reder, Nicholas J. Rettko, Peter J. Rohweder, Daniel M. C. Schwarz, Sophia K. Tan, Paul Thomas, Ryan W. Tibble, Jason P. Town, Mary K. Tsai, Fatima S. Ugur, Douglas R. Wassarman, Alexander M. Wolff, Taia Wu, Derek Bogdanoff, Jennifer Li, Kurt S. Thorn, Shane Ó’Conchúir, Danielle L. Swaney, Eric D. Chow, Hiten Madhani, Sy Redding, Daniel N. Bolon, Tanja Kortemme, Joseph L. DeRisi, Martin Kampmann, James S. Fraser
Software Mentions: 2
Published: over 6 years ago

10.3390/biology9080198

Prediction of Antimalarial Drug-Decorated Nanoparticle Delivery Systems with Random Forest Models
Cited by: 19
Author(s): Diana V. Urista, Diego B. Carrué, Iago Otero, Sonia Arrasate, Viviana Quevedo-Tumailli, Marcos Gestal, Humberto González-Dı́az, Cristian R. Munteanu
Software Mentions: 2
Published: over 4 years ago

10.1155/2020/7103647

A CT-Based Radiomics Approach for the Differential Diagnosis of Sarcomatoid and Clear Cell Renal Cell Carcinoma
Cited by: 15
Author(s): Xiaohong Meng, Jing Shu, Yuwei Xia, Ruwu Yang
Software Mentions: 2
Published: over 4 years ago

10.1155/2020/4795140

Machine-Learning Prediction of Oral Drug-Induced Liver Injury (DILI) via Multiple Features and Endpoints
Cited by: 9
Author(s): Xiaobin Liu, Danhua Zheng, Yingying Zhong, Zhaofan Xia, Heng Luo, Zuquan Weng
Software Mentions: 2
Published: over 4 years ago

10.1155/2020/8450656

An Immune-Related Gene Panel for Preoperative Lymph Node Status Evaluation in Advanced Gastric Cancer
Cited by: 5
Author(s): Yuan Yang, Ya Zheng, Hongling Zhang, Yifei Miao, Gongjin Wu, Lingshan Zhou, Haoying Wang, Rui Ji, Qinghong Guo, Zhaofeng Chen, Jiangtao Wang, Yuping Wang, Yongning Zhou
Software Mentions: 2
Published: almost 4 years ago

10.3390/biom9020043

NP-Scout: Machine Learning Approach for the Quantification and Visualization of the Natural Product-Likeness of Small Molecules
Cited by: 43
Author(s): Chen Ya, Conrad Stork, Steffen Hirte, Johannes Kirchmair
Software Mentions: 2
Published: almost 6 years ago

10.3390/biom11091337

Accurate Sequence-Based Prediction of Deleterious nsSNPs with Multiple Sequence Profiles and Putative Binding Residues
Cited by: 1
Author(s): Ruiyang Song, Baixin Cao, Zhenling Peng, Christopher J. Oldfield, Lukasz Kurgan, Ka-Chun Wong, Jianyi Yang
Software Mentions: 2
Published: about 3 years ago

10.3390/biom10101460

Predicting Deep Learning Based Multi-Omics Parallel Integration Survival Subtypes in Lung Cancer Using Reverse Phase Protein Array Data
Cited by: 33
Author(s): Satoshi Takahashi, Ken Asada, Ken Takasawa, Ryo Shimoyama, Akira Sakai, Amina Bolatkan, Norio Shinkai, Kazuma Kobayashi, Masaaki Komatsu, Syuzo Kaneko, Jun Sese, Ryuji Hamamoto
Software Mentions: 2
Published: about 4 years ago

10.1016/j.bpj.2020.04.032

Protein-Folding Analysis Using Features Obtained by Persistent Homology
Cited by: 12
Author(s): Takashi Ichinomiya, Ippei Obayashi, Yasuaki Hiraoka
Software Mentions: 2
Published: over 4 years ago

10.1038/s41408-020-0322-5

Combining gene expression profiling and machine learning to diagnose B-cell non-Hodgkin lymphoma
Cited by: 19
Author(s): Victor Bobée, Fanny Drieux, Vinciane Marchand, Vincent Sater, Liana Veresezan, Jean‐Michel Picquenot, Pierre‐Julien Viailly, Marie‐Delphine Lanic, Mathieu Viennot, Élodie Bohers, Lucie Obéric, Christiane Copie‐Bergman, Thierry Jo Molina, Philippe Gaulard, Corinne Haı̈oun, Gilles Salles, Hervé Tilly, Fabrice Jardin, Philippe Ruminy
Software Mentions: 2
Published: over 4 years ago

10.1093/braincomms/fcaa202

Biomarkers of memory variability in traumatic brain injury
Cited by: 5
Author(s): Richard Adamovich‐Zeitlin, Paul A. Wanda, Ethan A. Solomon, Tung D. Phan, Bradley Lega, Barbara C. Jobst, Robert E. Gross, Kan Ding, Ramon Diaz‐Arrastia, Michael J. Kahana
Software Mentions: 2
Published: almost 4 years ago

10.3390/brainsci11081049

Using Machine Learning Algorithms for Identifying Gait Parameters Suitable to Evaluate Subtle Changes in Gait in People with Multiple Sclerosis
Cited by: 9
Author(s): Katrin Trentzsch, Paula Schumann, Grzegorz Śliwiński, Paul Bartscht, Rocco Haase, Dirk Schriefer, Andreas Zink, Andreas Heinke, Thurid Jochim, Hagen Malberg, Tjalf Ziemssen
Software Mentions: 2
Published: over 3 years ago

10.3390/brainsci11040521

Differentiating Real-World Autobiographical Experiences without Recourse to Behaviour
Cited by: 0
Author(s): Jonathan Erez, Mélanie Gagnon, Adrian M. Owen
Software Mentions: 2
Published: over 3 years ago

10.3390/brainsci10050319

Logistic Regression Algorithm Differentiates Gulf War Illness (GWI) Functional Magnetic Resonance Imaging (fMRI) Data from a Sedentary Control
Cited by: 4
Author(s): Destie Provenzano, Stuart D. Washington, Yuan James Rao, Murray H. Loew, James N. Baraniuk
Software Mentions: 2
Published: over 4 years ago

10.36834/cmej.69289

Fundamental trends within falling match rates: insights from the past decade of Canadian residency matching data
Cited by: 3
Author(s): Andy G.X. Zeng, Connor T. A. Brenna, Silvio Ndoja
Software Mentions: 2
Published: over 4 years ago

10.1186/s40170-020-0211-1

Common biochemical properties of metabolic genes recurrently dysregulated in tumors
Cited by: 9
Author(s): Krishnadev Oruganty, Scott Campit, Sainath Mamde, Costas A. Lyssiotis, Sriram Chandrasekaran
Software Mentions: 2
Published: over 4 years ago

10.1007/s00227-018-3318-y

Development and application of a machine learning algorithm for classification of elasmobranch behaviour from accelerometry data
Cited by: 66
Author(s): Lauran R. Brewster, Jonathan J. Dale, T. L. Guttridge, Samuel H. Gruber, Alexander C. Hansell, Michael Elliott, I. G. Cowx, Nicholas M. Whitney, Adrian C. Gleiss
Software Mentions: 2
Published: over 6 years ago

10.3390/ma14071747

Design and Additive Manufacturing of Porous Sound Absorbers—A Machine-Learning Approach
Cited by: 15
Author(s): Sebastian Kuschmitz, Tobias P. Ring, Hagen Watschke, Sabine Langer, Thomas Vietor
Software Mentions: 2
Published: over 3 years ago

10.3390/metabo10060237

QSRR Automator: A Tool for Automating Retention Time Prediction in Lipidomics and Metabolomics
Cited by: 27
Author(s): Bradley C. Naylor, J. Leon Catrow, J. Alan Maschek, James E. Cox
Software Mentions: 2
Published: over 4 years ago

10.1186/s40168-020-00990-y

VirSorter2: a multi-classifier, expert-guided approach to detect diverse DNA and RNA viruses
Cited by: 349
Author(s): Jiarong Guo, Benjamin Bolduc, Ahmed A. Zayed, Arvind Varsani, Guillermo Domínguez-Huerta, Tom O. Delmont, Akbar Adjie Pratama, M. Consuelo Gazitúa, Dean Vik, Matthew B. Sullivan, Simon Roux
Software Mentions: 2
Published: almost 4 years ago

Projects: pypi: scikit-learn

Papers Mentioning scikit-learn 2,431