1. Maximizing Depth of PTM Coverage: Generating Robust MS Datasets for Computational Prediction Modeling
Anthony A. Iannetta and Leslie M. Hicks
2. PLDMS: Phosphopeptide Library Dephosphorylation followed by Mass Spectrometry Analysis to Determine the Specificity of Phosphatases for Dephosphorylation Site Sequences
Thomas Kokot, Bernhard Hoermann, Dominic Helm, Jeremy E. Chojnacki, Mikhail M. Savitski, and Maja K鐬n
3. FEPS: A tool for Feature Extraction from Protein Sequence
Hamid Ismail, Clarence White, Hussam AL-barakati, Robert H. Newman, and Dukka B. KC
4. A pre-trained ELECTRA model for Kinase-specific Phosphorylation Site Prediction
Lei Jiang, Duolin Wang, and Dong Xu
5. iProtGly-SS: A Tool to Accurately Predict Protein Glycation Site Using structural-based Features
Abdollah Dehzangi, Alok Sharma, and Swakkhar Shatabda
6. Functions of Glycosylation and Related Web Resources for its Prediction
Kiyoko F. Aoki-Kinoshita
7. Analysis of Post-Translational Modifications in Arabidopsis Proteins and Metabolic Pathways using the FAT-PTM Database
Madison N. Blea and Ian S. Wallace
8. Bioinformatic Analyses of Peroxiredoxins and RF-Prx: A RANDOM FOREST-BASED PREDICTOR and classifier for Prxs
Hussam AL-barakati, Robert H. Newman, Dukka B. KC, and Leslie B. Poole
9. Computational prediction of N- and O-linked glycosylation sites for human and mouse proteins
Ghazaleh Taherzadeh, Matthew Campbell, and Yaoqi Zhou
10. iPTMnet RESTful API for Post-Translational Modification Network Analysis
Sachin Gavali, Karen E. Ross, Julie Cowart, Chuming Chen, and Cathy H. Wu
11. Systematic Characterization of Lysine Post-Translational Modification Sites using MUscADEL
Zhen Chen, Xuhan Liu, Fuyi Li, Chen Li, Tatiana Marquez-Lago, Andr?Leier, Geoffrey I. Webb, Dakang Xu, Tatsuya Akutsu, and Jiangning Song
12. Enhancing the Discovery of Functional Post-Translational Modification Sites with Machine Learning Models - Development, Validation, and Interpretation
Nolan English and Matthew Torres
13. Exploration of Protein Post-Translational Modification Landscape and Crosstalk with CrossTalkMapper
Arthur Grimaud, Frederik Holck, Louise Marie Buur, Rebecca Kirsch, and Veit Schw鄝mle
14. PTM-X: Prediction of Post-Translational Modification Crosstalk Within and Across Proteins
Yuxuan Li, Yuanhua Huang, and Tingting Li
15. Deep Learning-Based Advances In Protein Post-Translational Modification Site And Protein Cleavage Prediction
Subash C. Pakhrin, Suresh Pokharel,
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