Predicting protein phosphorylation sites in soybean using interpretable deep tabular learning network

Impact of Dataset Size on Classification Performance: An Empirical Evaluation in the Medical Domain

(2021) Alhanoof Althnian et al.   Applied Sciences-Basel

Incorporating Machine Learning into Established Bioinformatics Frameworks

(2021) Noam Auslander et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Predicting phosphorylation sites using machine learning by integrating the sequence, structure, and functional information of proteins

(2021) Salma Jamal et al.   Journal of Translational Medicine

Machine Learning in Agriculture: A Comprehensive Updated Review

(2021) Lefteris Benos et al.   SENSORS

RF-MaloSite and DL-Malosite: Methods based on random forest and deep learning to identify malonylation sites

(2020) Hussam AL-barakati et al.   Computational and Structural Biotechnology Journal

GPS 5.0: An Update on the Prediction of Kinase-specific Phosphorylation Sites in Proteins

(2020) Chenwei Wang et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

Evaluation of post-translational modifications in histone proteins: A review on histone modification defects in developmental and neurological disorders

(2020) Shahin Ramazi et al.   JOURNAL OF BIOSCIENCES

Using machine learning tools to predict outcomes for emergency department intensive care unit patients

(2020) Qiangrong Zhai et al.   Scientific Reports

Machine Learning Techniques for Soybean Charcoal Rot Disease Prediction

(2020) Elham Khalili et al.   Frontiers in Plant Science

Computational identification of microbial phosphorylation sites by the enhanced characteristics of sequence information

(2019) Md. Mehedi Hasan et al.   Scientific Reports

EPSD: a well-annotated data resource of protein phosphorylation sites in eukaryotes

(2019) Shaofeng Lin et al.   BRIEFINGS IN BIOINFORMATICS

Deep learning classifiers for hyperspectral imaging: A review

(2019) M.E. Paoletti et al.   ISPRS JOURNAL OF PHOTOGRAMMETRY AND REMOTE SENSING

Machine Learning and Deep Learning Methods for Cybersecurity

(2018) Yang Xin et al.   IEEE Access

Monitoring of Plant Protein Post-translational Modifications Using Targeted Proteomics

(2018) Borjana Arsova et al.   Frontiers in Plant Science

DeepPhos: prediction of protein phosphorylation sites with deep learning

(2018) Fenglin Luo et al.   BIOINFORMATICS

The crucial role of protein phosphorylation in cell signaling and its use as targeted therapy (Review)

(2017) Fatima Ardito et al.   INTERNATIONAL JOURNAL OF MOLECULAR MEDICINE

Unb-DPC: Identify mycobacterial membrane protein types by incorporating un-biased dipeptide composition into Chou's general PseAAC

(2017) Muslim Khan et al.   JOURNAL OF THEORETICAL BIOLOGY

Prediction of phosphorylation sites based on Krawtchouk image moments

(2017) Xue Wang et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Protein post-translational modifications: In silico prediction tools and molecular modeling

(2017) Martina Audagnotto et al.   Computational and Structural Biotechnology Journal

Optimal classifier for imbalanced data using Matthews Correlation Coefficient metric

(2017) Sabri Boughorbel et al.   PLoS One

Extreme Gradient Boosting as a Method for Quantitative Structure–Activity Relationships

(2016) Robert P. Sheridan et al.   Journal of Chemical Information and Modeling

GlycoMine: a machine learning-based approach for predicting N-, C- and O-linked glycosylation in the human proteome

(2015) Fuyi Li et al.   BIOINFORMATICS

Posttranslational Modifications of the Master Transcriptional Regulator NPR1 Enable Dynamic but Tight Control of Plant Immune Responses

(2015) Abdelaty Saleh et al.   Cell Host & Microbe

Multithreshold Entropy Linear Classifier: Theory and applications

(2015) Wojciech Marian Czarnecki et al.   EXPERT SYSTEMS WITH APPLICATIONS

Feedback Control of Snf1 Protein and Its Phosphorylation Is Necessary for Adaptation to Environmental Stress

(2015) Hsiang-En Hsu et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Recent advances and challenges in plant phosphoproteomics

(2015) Cecilia Silva-Sanchez et al.   PROTEOMICS

Computational Identification of Protein Pupylation Sites by Using Profile-Based Composition of k-Spaced Amino Acid Pairs

(2015) Md. Mehedi Hasan et al.   PLoS One

The FLS2-Associated Kinase BIK1 Directly Phosphorylates the NADPH Oxidase RbohD to Control Plant Immunity

(2014) Lei Li et al.   Cell Host & Microbe

A Kinase-Phosphatase Signaling Module with BSK8 and BSL2 Involved in Regulation of Sucrose-Phosphate Synthase

(2014) XuNa Wu et al.   JOURNAL OF PROTEOME RESEARCH

Emerging roles of post-translational modifications in signal transduction and angiogenesis

(2014) Nader Rahimi et al.   PROTEOMICS

Computational phosphorylation site prediction in plants using random forests and organism-specific instance weights

(2013) B. Trost et al.   BIOINFORMATICS

Quantitative Phosphoproteomics after Auxin-stimulated Lateral Root Induction Identifies an SNX1 Protein Phosphorylation Site Required for Growth

(2013) Hongtao Zhang et al.   MOLECULAR & CELLULAR PROTEOMICS

pLogo: a probabilistic approach to visualizing sequence motifs

(2013) Joseph P O'Shea et al.   NATURE METHODS

An Ensemble Method for Predicting Subnuclear Localizations from Primary Protein Structures

(2013) Guo Sheng Han et al.   PLoS One

PREDICTING SUBCHLOROPLAST LOCATIONS OF PROTEINS BASED ON THE GENERAL FORM OF CHOU'S PSEUDO AMINO ACID COMPOSITION: APPROACHED FROM OPTIMAL TRIPEPTIDE COMPOSITION

(2013) HAO LIN et al.   International Journal of Biomathematics

Phosphorylation Variation during the Cell Cycle Scales with Structural Propensities of Proteins

(2013) Stefka Tyanova et al.   PLoS Computational Biology

CD-HIT: accelerated for clustering the next-generation sequencing data

(2012) Limin Fu et al.   BIOINFORMATICS

A method to distinguish between lysine acetylation and lysine methylation from protein sequences

(2012) Shao-Ping Shi et al.   JOURNAL OF THEORETICAL BIOLOGY

PhosphoRice: a meta-predictor of rice-specific phosphorylation sites

(2012) Shufu Que et al.   Plant Methods

Protein phosphorylation in plant immunity: insights into the regulation of pattern recognition receptor-mediated signaling

(2012) Chang-Jin Park et al.   Frontiers in Plant Science

Predicting subcellular location of apoptosis proteins with pseudo amino acid composition: approach from amino acid substitution matrix and auto covariance transformation

(2011) Xiaoqing Yu et al.   AMINO ACIDS

Computational prediction of eukaryotic phosphorylation sites

(2011) B. Trost et al.   BIOINFORMATICS

PlantPhos: using maximal dependence decomposition to identify plant phosphorylation sites with substrate site specificity

(2011) Tzong-Yi Lee et al.   BMC BIOINFORMATICS

Receiver operating characteristic (ROC) curve for medical researchers

(2011) Rajeev Kumar et al.   INDIAN PEDIATRICS

Prediction of 492 human protein kinase substrate specificities

(2011) Javad Safaei et al.   Proteome Science

Some remarks on protein attribute prediction and pseudo amino acid composition

(2010) Kuo-Chen Chou   JOURNAL OF THEORETICAL BIOLOGY

Musite, a Tool for Global Prediction of General and Kinase-specific Phosphorylation Sites

(2010) Jianjiong Gao et al.   MOLECULAR & CELLULAR PROTEOMICS

Tumor classification ranking from microarray data

(2008) Rattikorn Hewett et al.   BMC GENOMICS

Large-scale phosphorylation mapping reveals the extent of tyrosine phosphorylation in Arabidopsis

(2008) Naoyuki Sugiyama et al.   Molecular Systems Biology

Human Protein Reference Database--2009 update

(2008) T. S. Keshava Prasad et al.   NUCLEIC ACIDS RESEARCH

P3DB: a plant protein phosphorylation database

(2008) J. Gao et al.   NUCLEIC ACIDS RESEARCH

Training neural network classifiers for medical decision making: The effects of imbalanced datasets on classification performance

(2007) Maciej A. Mazurowski et al.   NEURAL NETWORKS

Prediction of RNA binding sites in a protein using SVM and PSSM profile

(2007) Manish Kumar et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS