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Hire Dr. Amreesh P.

India

USD 10 /hr

PhD Biochemist | Molecular Dynamics & Protein Engineering Consultant | Expert in MD Simulations, Homology Modeling & NGS

Profile Summary

I am a PhD biochemist with over 8 years of international research experience spanning India, China, and South Africa. My expertise bridges experimental biochemistry and computational biology—a rare combination that allows me to understand biological problems from both the bench and the screen, delivering insights that are not just computationally sound but biologically meaningful. I currently work as a freelance bioinformatics consultant, specializing in molecular dynamics (MD) simulations using GROMACS and Martini coarse-grained methods. I help biotech startups, pharmaceutical companies, and academic research labs investigate protein-ligand interactions, protein-membrane systems, conformational changes, and mechanistic insights to guide protein engineering and drug discovery. Core Expertise Molecular Dynamics & Structural Bioinformatics: • Protein-ligand and protein-membrane MD simulations • Martini coarse-grained simulations for large-scale systems • Homology modeling and molecular docking • Binding free energy calculations • Trajectory analysis and Python-based data visualization Bioinformatics & Genomics: • NGS data analysis (metagenomics, genomics) • Sequence analysis and annotation • Metadata curation following FAIR principles • Metabolomics Protein Science (Wet-Lab Background): • Protein engineering (rational design, directed evolution) • Protein expression and purification (FPLC, column chromatography) • Enzyme kinetics and biochemical assays • Site-directed mutagenesis and gene cloning • HPLC and LC-MS/MS analysis

Subject Matter Expertise

• ☆ Biocatalysis
• ☆ Natural Product Chemistry
• ☆ Computational Biology
• ☆ Evolutionary Biology
• ☆ Molecular Biology
• ☆ Omics
• ☆ Comparative Genomics
• ☆ Genome Sequencing
• ☆ Drug Discovery
• ☆ High Throughput Screening (HTS)
• ☆ Medicinal Chemistry
• ☆ Drug Design

Services

• Research
• Data & AI

Research Scientific and Technical Research

Data & AI Statistical Analysis, Data Visualization, Data Mining, Data Processing

Work Experience

Postdoc

University of the Western Cape

January 2023 - Present

Postdoctoral Researcher

University of the Western Cape

January 2023 - June 2024

Postdoctoral Researcher

Jiangsu University of Science and Technology

June 2019 - November 2021

Education

Ph. D (Faculty of Life Science and Biotechnology)

South Asian University

July 2013 - November 2018

M. Sc (School of Life Sciences)

Jawaharlal Nehru University

August 2011 - June 2013

Certifications

• NET JRF

  CSIR

  July 2013 - Present

Publications

JOURNAL ARTICLE

Amreesh Parvez, Yufei Zhang, Junhua Yun, Guoyan Zhang, Lei Zhou, Hossain M. Zabed, Jia Li, Xianghui Qi(2023). Efficient biosynthesis of 3-hydroxypropionic acid from glucose through multidimensional engineering of Escherichia coli . Bioresource Technology. 389. p. 129822. Elsevier {BV}

Amreesh Parvez, Guoyan Zhang, Yingfeng An, Hossain M Zabed, Junhua Yun, Mei Zhao, Cunsheng Zhang, Yuvaraj Ravikumar, Jia Li, Xianghui Qi(2023). Rewiring Bacillus subtilis and bioprocess optimization for oxidoreductive reaction-mediated biosynthesis of D-tagatose . Bioresource Technology. 389. p. 129843. Elsevier {BV}

Jamila A. Tuly, Haile Ma, Ho-Jin Lee, Jong-Won Song, Amresh Parvez, Md Nazmus Saqib, Waleed Yaseen, Zhang Xinyan(2023). Insights of keratin geometry from agro-industrial wastes: A comparative computational and experimental assessment . Food Chemistry. 418. p. 135854. Elsevier {BV}

Amreesh Parvez, Poorna Chandrika Sabapathy, Sabarinathan Devaraj, Parthiban Anburajan, Preethi Kathirvel, Xianghui Qi(2023). Active polyhydroxybutyrate (PHB)/sugarcane bagasse fiber-based anti-microbial green composite: material characterization and degradation studies . Applied Nanoscience. 13. (2). p. 1187--1199. Springer Science and Business Media {LLC}

Sabapathy, P.C., Devaraj, S., Anburajan, P., Parvez, A., Kathirvel, P., Qi, X.(2023). Active polyhydroxybutyrate (PHB)/sugarcane bagasse fiber-based anti-microbial green composite: material characterization and degradation studies . Applied Nanoscience (Switzerland). 13. (2). p. 1187-1199.

Zhang, G., An, Y., Zabed, H.M., Yun, J., Parvez, A., Zhao, M., Zhang, C., Ravikumar, Y., Li, J., Qi, X.(2023). Rewiring Bacillus subtilis and bioprocess optimization for oxidoreductive reaction-mediated biosynthesis of D-tagatose . Bioresource Technology. 389.

Zhang, Y., Yun, J., Zhang, G., Parvez, A., Zhou, L., Zabed, H.M., Li, J., Qi, X.(2023). Efficient biosynthesis of 3-hydroxypropionic acid from glucose through multidimensional engineering of Escherichia coli . Bioresource Technology. 389.

Amreesh Parvez, Yuvaraj Ravikumar, Renu Bisht, Junhua Yun, Yang Wang, Sabapathy Poorna Chandrika, Hossain M. Zabed, Xianghui Qi(2022). Functional and Structural Roles of the Dimer Interface in the Activity and Stability of <i>Clostridium butyricum</i> 1,3-Propanediol Oxidoreductase . ACS Synthetic Biology. 11. (3). p. 1261--1271. American Chemical Society ({ACS})

Parvez, A., Ravikumar, Y., Bisht, R., Yun, J., Wang, Y., Chandrika, S.P., Zabed, H.M., Qi, X.(2022). Functional and Structural Roles of the Dimer Interface in the Activity and Stability of Clostridium butyricum 1,3-Propanediol Oxidoreductase . ACS Synthetic Biology. 11. (3). p. 1261-1271.

Amreesh Parvez, Junhua Yun, Hossain M. Zabed, Yufei Zhang, Guoyan Zhang, Xianghui Qi(2021). Co-fermentation of glycerol and glucose by a co-culture system of engineered Escherichia coli strains for 1,3-propanediol production without vitamin B12 supplementation . Bioresource Technology. 319. p. 124218. Elsevier {BV}

Yun, J., Zabed, H.M., Zhang, Y., Parvez, A., Zhang, G., Qi, X.(2021). Co-fermentation of glycerol and glucose by a co-culture system of engineered Escherichia coli strains for 1,3-propanediol production without vitamin B₁₂ supplementation . Bioresource Technology. 319.

Amreesh Parvez, Yang Wang, Yuvaraj Ravikumar, Guoyan Zhang, Junhua Yun, Yufei Zhang, Xianghui Qi, Wenjing Sun(2020). Biocatalytic Synthesis of D-Allulose Using Novel D-Tagatose 3-Epimerase From Christensenella minuta . Frontiers in Chemistry. 8. Frontiers Media {SA}

Amreesh Parvez, Guoyan Zhang, Yingfeng An, Hossain M. Zabed, Junhua Yun, Xianghui Qi(2020). Exploring a Highly D-Galactose Specific L-Arabinose Isomerase From Bifidobacterium adolescentis for D-Tagatose Production . Frontiers in Bioengineering and Biotechnology. 8. Frontiers Media {SA}

Amreesh Parvez, Radhika Chandankere, Jayabaskaran Chelliah, Kamalraj Subban, Vanitha C. Shanadrahalli, Hossain M. Zabed, Yogesh C. Sharma, Xianghui Qi(2020). Pleiotropic Functions and Biological Potentials of Silver Nanoparticles Synthesized by an Endophytic Fungus . Frontiers in Bioengineering and Biotechnology. 8. Frontiers Media {SA}

Chandankere, R., Chelliah, J., Subban, K., Shanadrahalli, V.C., Parvez, A., Zabed, H.M., Sharma, Y.C., Qi, X.(2020). Pleiotropic Functions and Biological Potentials of Silver Nanoparticles Synthesized by an Endophytic Fungus . Frontiers in Bioengineering and Biotechnology. 8.

Wang, Y., Ravikumar, Y., Zhang, G., Yun, J., Zhang, Y., Parvez, A., Qi, X., Sun, W.(2020). Biocatalytic Synthesis of D-Allulose Using Novel D-Tagatose 3-Epimerase From Christensenella minuta . Frontiers in Chemistry. 8.

Zhang, G., An, Y., Parvez, A., Zabed, H.M., Yun, J., Qi, X.(2020). Exploring a Highly D-Galactose Specific L-Arabinose Isomerase From Bifidobacterium adolescentis for D-Tagatose Production . Frontiers in Bioengineering and Biotechnology. 8.

Amreesh Parvez, Samir Giri, Renu Bisht, Priti Saxena(2018). New Insights on Cyclization Specificity of Fungal Type III Polyketide Synthase, PKSIIINc in Neurospora crassa . Indian Journal of Microbiology. 58. (3). p. 268--277. Springer Science and Business Media {LLC}

Amreesh Parvez, Samir Giri, Gorkha Raj Giri, Monika Kumari, Renu Bisht, Priti Saxena(2018). Novel Type III Polyketide Synthases Biosynthesize Methylated Polyketides in Mycobacterium marinum . Scientific Reports. 8. (1). Springer Science and Business Media {LLC}

Parvez, A., Giri, S., Giri, G.R., Kumari, M., Bisht, R., Saxena, P.(2018). Novel Type III Polyketide Synthases Biosynthesize Methylated Polyketides in Mycobacterium marinum . Scientific Reports. 8. (1).

Parvez, A., Giri, S., Bisht, R., Saxena, P.(2018). New Insights on Cyclization Specificity of Fungal Type III Polyketide Synthase, PKSIIINc in Neurospora crassa . Indian Journal of Microbiology. 58. (3). p. 268-277.

OTHER

Zhang, Y., Yun, J., Zhang, G., Parvez, A., Zhou, L., Zabed, H.M., Li, J., Qi, X.(2023). Efficient Biosynthesis of 3-Hydroxypropionic Acid from Glucose Through Multidimensional Engineering of Escherichia Coli . SSRN.

Zhang, G., An, Y., Zabed, H.M., Yun, J., Parvez, A., Zhang, C., Zhao, M., Ravikumar, Y., Qi, X.(2023). Oxidoreductive Reaction-Mediated Biosynthesis of D-Tagatose from D-Galactose by Bacillus Subtilis: Enzyme Identification, Metabolic Engineering and Process Optimization . SSRN.

Parvez, A., Yadav, S., Pandey, V., Qi, X.(2020). In Silico high-throughput virtual screening and molecular dynamics simulation study to identify 3CLpro inhibitor of COVID-19 . Research Square.

PREPRINT

Amreesh Parvez, Guoyan Zhang, Yingfeng An, Hossain M. Zabed, Junhua Yun, Cunsheng Zhang, Mei Zhao, Yuvaraj Ravikumar, Xianghui Qi(2023). Oxidoreductive Reaction-Mediated Biosynthesis of D-Tagatose from D-Galactose by Bacillus Subtilis: Enzyme Identification, Metabolic Engineering and Process Optimization . Elsevier {BV}

BOOK CHAPTER

Amreesh Parvez, Sudisha Mukherjee, Vivek Pandey, Xianghui Qi, Touseef Hussain(2022). Bacillus as a Versatile Tool for Crop Improvement and Agro-Industry . Bacilli in Climate Resilient Agriculture and Bioprospecting. p. 429--452. Springer International Publishing