Posts by Collection

certificates

Introduction to Molecular Modeling in Drug Discovery

Completed on: April 28, 2021

Schrödinger course on the fundamentals of small molecule drug discovery with Maestro and LiveDesign, covering protein preparation, ligand docking, and collaborative design.

Bioinformatics for Protein Identification

Completed on: June 05, 2022

ASMS course on the fundamentals of protein identification from LC-MS/MS data, covering database searching, error rate estimation, and protein assembly.

LC-MS Practical Maintenance and Troubleshooting

Completed on: June 04, 2023

ASMS course on the essential skills for maintaining LC-MS instrument performance, covering best practices, system suitability, tuning, calibration, and troubleshooting across various platforms.

Quantitative Proteomics: Case Studies

Completed on: June 02, 2024

ASMS course on quantitative proteomics using case studies, focusing on SRM and DIA data analysis with Skyline and MSstats.

Machine Learning

Completed on: June 15, 2024

Machine Learning Certificate.

Deep Learning Specialization

Completed on: June 23, 2024

Deep Learning Specialization Certificate.

Associate Python Developer

Completed on: October 21, 2024

DataCamp Associate Python Developer Certificate.

AI Agents Course

Completed on: May 17, 2025

Hugging Face AI Agents Course Certificate.

portfolio

AI-Enhanced Intact Mass Data Communication: Expert-Level Comment and Automated Visualization

Published: May 01, 2025

Automated tool for LC-MS data: AI-driven expert comments and interactive 96-well plate heatmap visualization.

Automated Sequence Generation and Data Prep Toolkit for LC-MS Intact Mass Analysis of Antibody Biologics

Published: May 01, 2025

Toolkit to automate LC-MS sequence generation and data prep for antibody biologics.

publications

Synthesis and Mass Spectrometry Analysis of Oligo-peptoids

Published in Journal of Visualized Experiments, (132):56652, 2018, 2018

This article presents a method for manual synthesis of oligo-peptoids and sequence analysis using tandem mass spectrometry (MS/MS) techniques.

Recommended citation: Jianhua Ren, Yadwinder S Mann, Yuntao Zhang, Michael D Browne. (2018). "Synthesis and Mass Spectrometry Analysis of Oligo-peptoids." J Vis Exp, (132):56652. https://doi.org/10.3791/56652
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Characterization of protonated AcAlaDab and AcDabAla by IRMPD spectroscopy and molecular modeling

Published in International Journal of Mass Spectrometry, Volume 444, October 2019, 116178, 2019

This paper characterizes protonated AcAlaDab and AcDabAla using IRMPD spectroscopy and molecular modeling, revealing structural insights into these isomeric dipeptides.

Recommended citation: Patrick Batoon, Yuntao Zhang, Giel Berden, Jos Oomens, Jianhua Ren. (2019). "Characterization of protonated AcAlaDab and AcDabAla by IRMPD spectroscopy and molecular modeling." International Journal of Mass Spectrometry, 444, 116178. https://doi.org/10.1016/j.ijms.2019.116178
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Mass spectrometry studies of the fragmentation patterns and mechanisms of protonated peptoids

Published in Biopolymers, 111(7):e23358, 2020, 2020

This study uses tandem mass spectrometry to characterize the fragmentation patterns and mechanisms of singly and doubly protonated peptoids with basic residues at different positions.

Recommended citation: Jianhua Ren, Yuan Tian, Ekram Hossain, Joshua S Ho, Yadwinder S Mann, Yuntao Zhang, Michael D Browne, Michael D Connolly, Ronald N Zuckermann. (2020). "Mass spectrometry studies of the fragmentation patterns and mechanisms of protonated peptoids." Biopolymers, 111(7):e23358. https://doi.org/10.1002/bip.23358
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Subtle chirality effects of a D/l-Cysteine on the intrinsic acidity and conformation of isomeric tripeptides ACA and AdCA

Published in International Journal of Mass Spectrometry, Volume 469, November 2021, 116685, 2021

This paper investigates the subtle chirality effects of a D/l-Cysteine on the intrinsic acidity and conformation of isomeric tripeptides ACA and AdCA.

Recommended citation: Yuntao Zhang, Zachary Buen, Michael D. Browne, Yadwinder S. Mann, Jianhua Ren. (2021). "Subtle chirality effects of a D/l-Cysteine on the intrinsic acidity and conformation of isomeric tripeptides ACA and AdCA." International Journal of Mass Spectrometry, 469, 116685. https://doi.org/10.1016/j.ijms.2021.116685
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Chirality Effects on the Intrinsic Acidity of Isomeric Tripeptides Containing a D/L-Cysteine on the N-terminus: CAA and dCAA

Published in International Journal of Mass Spectrometry, Volume 514, August 2025, 117472, 2025

This paper investigates the chirality effects on the intrinsic acidity of isomeric tripeptides containing a D/L-Cysteine on the N-terminus.

Recommended citation: Shiyuan Wang, Zachary Buen, Kimberlyann R. Harvey, Yuntao Zhang, Jianhua Ren. (2025). "Chirality effects on the intrinsic acidity of isomeric tripeptides containing a D/L-Cysteine on the N-terminus: CAA and dCAA." International Journal of Mass Spectrometry, 514, 117472. https://doi.org/10.1016/j.ijms.2025.117472
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Co-inventor on Two U.S. Provisional Patent Applications

Published in U.S. Patent and Trademark Office (USPTO), 2125

Co-inventor on two U.S. provisional patent applications

Recommended citation: Co-inventor on two pending U.S. provisional patent applications. Filed via Bristol Myers Squibb. (Details are confidential until publication).
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talks

How Can D-Amino Acids Influence the Conformations and the Acidities of Oligopeptides?

Published: January 19, 2019

More information here

Chirality Induced Conformational and Thermochemical Changes in Cysteine Polyalanine Peptides

Published: January 18, 2020