Handcrafted versus non-handcrafted (self-supervised) features for the classification of antimicrobial peptides: complementary or redundant?
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Title
Handcrafted versus non-handcrafted (self-supervised) features for the classification of antimicrobial peptides: complementary or redundant?
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Keywords
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Journal
BRIEFINGS IN BIOINFORMATICS
Volume -, Issue -, Pages -
Publisher
Oxford University Press (OUP)
Online
2022-09-03
DOI
10.1093/bib/bbac428
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Note: Only part of the references are listed.- Do deep learning models make a difference in the identification of antimicrobial peptides?
- (2022) César R García-Jacas et al. BRIEFINGS IN BIOINFORMATICS
- Identification of antimicrobial peptides from the human gut microbiome using deep learning
- (2022) Yue Ma et al. NATURE BIOTECHNOLOGY
- Deep-ABPpred: identifying antibacterial peptides in protein sequences using bidirectional LSTM with word2vec
- (2021) Ritesh Sharma et al. BRIEFINGS IN BIOINFORMATICS
- Biological structure and function emerge from scaling unsupervised learning to 250 million protein sequences
- (2021) Alexander Rives et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- iAMP-CA2L: a new CNN-BiLSTM-SVM classifier based on cellular automata image for identifying antimicrobial peptides and their functional types
- (2021) Xuan Xiao et al. BRIEFINGS IN BIOINFORMATICS
- AniAMPpred: artificial intelligence guided discovery of novel antimicrobial peptides in animal kingdom
- (2021) Ritesh Sharma et al. BRIEFINGS IN BIOINFORMATICS
- A novel antibacterial peptide recognition algorithm based on BERT
- (2021) Yue Zhang et al. BRIEFINGS IN BIOINFORMATICS
- Alignment-Free Antimicrobial Peptide Predictors: Improving Performance by a Thorough Analysis of the Largest Available Data Set
- (2021) Sergio A. Pinacho-Castellanos et al. Journal of Chemical Information and Modeling
- Boosting Tree-Assisted Multitask Deep Learning for Small Scientific Datasets
- (2020) Jian Jiang et al. Journal of Chemical Information and Modeling
- Antifungal Peptides as Therapeutic Agents
- (2020) Miguel Fernández de Ullivarri et al. Frontiers in Cellular and Infection Microbiology
- Deep-AmPEP30: Improve Short Antimicrobial Peptides Prediction with Deep Learning
- (2020) Jielu Yan et al. Molecular Therapy-Nucleic Acids
- ACEP: improving antimicrobial peptides recognition through automatic feature fusion and amino acid embedding
- (2020) Haoyi Fu et al. BMC GENOMICS
- PeptiDesCalculator : Software for computation of peptide descriptors. Definition, implementation and case studies for 9 bioactivity endpoints
- (2020) Stephen J. Barigye et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- Automatic construction of molecular similarity networks for visual graph mining in chemical space of bioactive peptides: an unsupervised learning approach
- (2020) Longendri Aguilera-Mendoza et al. Scientific Reports
- Antimicrobial Peptides: Classification, Design, Application and Research Progress in Multiple Fields
- (2020) Yuchen Huan et al. Frontiers in Microbiology
- DeepAVP: A Dual-Channel Deep Neural Network for Identifying Variable-Length Antiviral Peptides
- (2020) Jiawei Li et al. IEEE Journal of Biomedical and Health Informatics
- Optimization of serine phosphorylation prediction in proteins by comparing human engineered features and deep representations
- (2020) Sheraz Naseer et al. ANALYTICAL BIOCHEMISTRY
- Ensemble feature selection for high-dimensional data: a stability analysis across multiple domains
- (2019) Barbara Pes NEURAL COMPUTING & APPLICATIONS
- PEPred-Suite: improved and robust prediction of therapeutic peptides using adaptive feature representation learning
- (2019) Leyi Wei et al. BIOINFORMATICS
- Graph-based data integration from bioactive peptide databases of pharmaceutical interest: toward an organized collection enabling visual network analysis
- (2019) Longendri Aguilera-Mendoza et al. BIOINFORMATICS
- Antiaflatoxigenic effects of selected antifungal peptides
- (2019) Manju S Devi et al. PEPTIDES
- Human Beta Defensins and Cancer: Contradictions and Common Ground
- (2019) Santosh K. Ghosh et al. Frontiers in Oncology
- An advanced approach to identify antimicrobial peptides and their function types for penaeus through machine learning strategies
- (2019) Yuan Lin et al. BMC BIOINFORMATICS
- Antiviral peptides as promising therapeutic drugs
- (2019) Liana Costa Pereira Vilas Boas et al. CELLULAR AND MOLECULAR LIFE SCIENCES
- Antiviral Activities of Human Host Defense Peptides
- (2019) David C. Brice et al. CURRENT MEDICINAL CHEMISTRY
- MuLiMs-MCoMPAs: A Novel Multiplatform Framework to Compute Tensor Algebra-Based Three-Dimensional Protein Descriptors
- (2019) Ernesto Contreras-Torres et al. Journal of Chemical Information and Modeling
- Cardiovascular, mortality, and kidney outcomes with GLP-1 receptor agonists in patients with type 2 diabetes: a systematic review and meta-analysis of cardiovascular outcome trials
- (2019) Søren L Kristensen et al. Lancet Diabetes & Endocrinology
- Antimicrobial peptide identification using multi-scale convolutional network
- (2019) Xin Su et al. BMC BIOINFORMATICS
- LEGO-based generalized set of two linear algebraic 3D bio-macro-molecular descriptors: Theory and validation by QSARs
- (2019) Yovani Marrero-Ponce et al. JOURNAL OF THEORETICAL BIOLOGY
- Antimicrobial Resistance: Implications and Costs
- (2019) Porooshat Dadgostar Infection and Drug Resistance
- Deep learning improves antimicrobial peptide recognition
- (2018) Daniel Veltri et al. BIOINFORMATICS
- iFeature: a Python package and web server for features extraction and selection from protein and peptide sequences
- (2018) Zhen Chen et al. BIOINFORMATICS
- Therapeutic peptides: Historical perspectives, current development trends, and future directions
- (2018) Jolene L. Lau et al. BIOORGANIC & MEDICINAL CHEMISTRY
- Human antimicrobial peptides and cancer
- (2018) Ge Jin et al. SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY
- AmPEP: Sequence-based prediction of antimicrobial peptides using distribution patterns of amino acid properties and random forest
- (2018) Pratiti Bhadra et al. Scientific Reports
- Designing Antibacterial Peptides with Enhanced Killing Kinetics
- (2018) Faiza H. Waghu et al. Frontiers in Microbiology
- In Silico Approach for Prediction of Antifungal Peptides
- (2018) Piyush Agrawal et al. Frontiers in Microbiology
- Identifying antimicrobial peptides using word embedding with deep recurrent neural networks
- (2018) Md-Nafiz Hamid et al. BIOINFORMATICS
- Public health burden of antimicrobial resistance in Europe
- (2018) Evelina Tacconelli et al. LANCET INFECTIOUS DISEASES
- Attributable deaths and disability-adjusted life-years caused by infections with antibiotic-resistant bacteria in Switzerland
- (2018) Michael Gasser et al. LANCET INFECTIOUS DISEASES
- Attributable deaths and disability-adjusted life-years caused by infections with antibiotic-resistant bacteria in the EU and the European Economic Area in 2015: a population-level modelling analysis
- (2018) Alessandro Cassini et al. LANCET INFECTIOUS DISEASES
- UniProt: a worldwide hub of protein knowledge
- (2018) NUCLEIC ACIDS RESEARCH
- Ensembles for feature selection: A review and future trends
- (2018) Verónica Bolón-Canedo et al. Information Fusion
- Predicting antimicrobial peptides with improved accuracy by incorporating the compositional, physico-chemical and structural features into Chou’s general PseAAC
- (2017) Prabina Kumar Meher et al. Scientific Reports
- Imbalanced multi-label learning for identifying antimicrobial peptides and their functional types
- (2016) Weizhong Lin et al. BIOINFORMATICS
- Antimicrobial peptides
- (2016) Ling-juan Zhang et al. CURRENT BIOLOGY
- Anti-parasitic Peptides from Arthropods and their Application in Drug Therapy
- (2016) Ariane F. Lacerda et al. Frontiers in Microbiology
- Overlap and diversity in antimicrobial peptide databases: compiling a non-redundant set of sequences
- (2015) Longendri Aguilera-Mendoza et al. BIOINFORMATICS
- IMMAN: free software for information theory-based chemometric analysis
- (2015) Ricardo W. Pino Urias et al. MOLECULAR DIVERSITY
- CAMPR3: a database on sequences, structures and signatures of antimicrobial peptides: Table 1.
- (2015) Faiza Hanif Waghu et al. NUCLEIC ACIDS RESEARCH
- iAMP-2L: A two-level multi-label classifier for identifying antimicrobial peptides and their functional types
- (2013) Xuan Xiao et al. ANALYTICAL BIOCHEMISTRY
- Incorporating key position and amino acid residue features to identify general and species-specific Ubiquitin conjugation sites
- (2013) Xiang Chen et al. BIOINFORMATICS
- Antibiotic resistance—the need for global solutions
- (2013) Ramanan Laxminarayan et al. LANCET INFECTIOUS DISEASES
- Prediction of antimicrobial peptides based on the adaptive neuro-fuzzy inference system application
- (2012) Fabiano C. Fernandes et al. BIOPOLYMERS
- ClassAMP: A Prediction Tool for Classification of Antimicrobial Peptides
- (2012) Shaini Joseph et al. IEEE-ACM Transactions on Computational Biology and Bioinformatics
- AVPpred: collection and prediction of highly effective antiviral peptides
- (2012) Nishant Thakur et al. NUCLEIC ACIDS RESEARCH
- AMPA: an automated web server for prediction of protein antimicrobial regions
- (2011) Marc Torrent et al. BIOINFORMATICS
- Multifunctional host defense peptides: antiparasitic activities
- (2009) Amram Mor FEBS Journal
- Predictive learning via rule ensembles
- (2008) Jerome H. Friedman et al. Annals of Applied Statistics
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