Mohammadsadeq Mottaqi | Computational biology | Young Scientist Award

Posted on by ScienceFather

Mr. Mohammadsadeq Mottaqi | Computational biology | Young Scientist Award

MohammadSadeq Mottaqi is a dedicated Ph.D. candidate in Biochemistry at the City University of New York, with a strong foundation in Biotechnology from the University of Tehran. He possesses a robust skill set in Python, R, and various bioinformatics tools. His research focuses on machine learning-based drug action prediction, molecular dynamics simulations, and protein-ligand interactions. He has contributed significantly to research projects at Hunter College and Weill Cornell Medicine, and has industry experience as an R&D intern. MohammadSadeq is a published author, with works in journals like the Journal of Environmental Management and Informatics in Medicine Unlocked.

Profile

Orcid

Scholar

EducationšŸŽ“

City University of New York, the Graduate Center, New York, NY PhD in Biochemistry, Computer Science Department
Aug 2022 – Present. University of Tehran, Tehran, Iran B.Sc. in Biotechnology, GPA: 3.8 (top 15%) Sep 2017 – March 2022

Ā Technical SkillsšŸ’»

Programming Languages: Python, R, Bioinformatics Tools and Libraries: PyMol, MOE, Gromacs, Spss, Unity, Scikit-learn, Data Analysis: Transcriptomics data analysis, Statistical analysis, Data Visualization, Operating Systems: Linux, Unix, Others: High-performance computing

Ā Relevant Experience šŸŒŸ

Machine learning-based prediction methods for drug actions
Prof. Lei Xie lab, Hunter College and Weill Cornell Medicine
June 2023 – Present
Thesis: Deep learning models for chemical-induced differential gene expression and cell viability predictions for de novo drugs and cell lines

  • Resolve challenges in predictive modeling using algorithmic approaches
  • Design pre-processing pipelines for Transcriptomics datasets
  • Integrate disparate Transcriptomics datasets (80 cell-lines) using Python
  • Incorporate multiple diverse labeled and unlabeled OMICS data
  • Contribute to writing manuscript

Molecular dynamics simulations of mutated HER2 protein
Research assistant – Dr. Mateusz Marianski lab, Hunter College
April 2023 – June 2023

  • Investigated coupling reactions and residue interactions in several mutated HER2 proteins
  • Performed molecular dynamics (MD) simulations employing Gromacs
  • Analyzed the data of the MD simulations
  • Presented the interpreted results

Protein-Ligand interactions in docking
Research assistant – Prof. Tom Kurtzman lab, Lehman College
Nov 2022 – Jan 2023

  • Identified the potential molecular interactions between protein pharmacophores and ligands
  • Wrote Python scripts in PyMOL for detection of potential H-bonds and Van der Waals forces

Aral Teb CO. Ltd., Tehran, Iran
R&D Intern
May 2020 – Oct 2020

  • Designed and executed experiments for a bacterial diagnostic kit
  • Converted 3D MRI data into a format compatible with 3D bioprinter
  • Served as a key researcher in the clean room

Virtual reality (VR) project, Iranā€™s National Elites Foundation
Nov 2020 – Aug 2021

  • Devised 7 biotechnological experiments in VR environments employing Unity software
  • Collaborated with 9 computer scientists and 4 biologists

Publications Top Notes šŸ“

  • Iman Kianian, Mohammad Sadeq Mottaqi, et al. Automated identification of toxigenic cyanobacterial genera for water quality control purposes, Journal of Environmental Management

 

  • Mohammad Sadeq Mottaqi, et al. Contribution of machine learning approaches in response to SARS-CoV-2 infection, Informatics in Medicine Unlocked, 2021

Annesha Chakraborty| Bioinformatics | Women Researcher Award

Posted on by ScienceFather

Ā Dr. Annesha Chakraborty | Bioinformatics | Women Researcher Award

Ā Dr. SASTRA DEEMED UNIVERSITY

šŸ‘©ā€šŸ”¬ A highly motivated Ph.D. candidate at SASTRA Deemed University, specializing in Bioinformatics and Biomolecular Crystallography, with hands-on experience in molecular docking, dynamics, and laboratory techniques. Possessing an M.Sc. in Microbiology and B.Sc. (Hons.) in Microbiology, Chemistry, and Botany, I excel in research and academic achievements. As a Research Intern at MEAB LAB and Lab Tech. Intern at Suraksha Diagnostic Pvt. Ltd., I contributed to multiple publications and gained expertise in DNA/RNA extraction and PCR. Currently engaged in molecular dynamics studies on COVID Mpro, biomass production, and A.baumanniiā€™s efflux pump research. Passionate about advancing scientific knowledge and addressing real-world challenges.šŸŒŸ

 

Profile

Orcid

Scholar

 

šŸŽ“ Education

Doctor of Philosophy (2023-Ongoing) SASTRA Deemed University, India Bioinformatics Center and Biomolecular Crystallography Lab, under the supervision of Dr. S. Thamotharan and co-supervision of Dr. Vigneshwer R. Currently pursuing research funded by DBT-govt. of India. M.Sc in Microbiology (2020-2022) Grade: A+ (80%) [Ranked 4th] B.Sc (Hons.) in Microbiology (2017-2020) Optional subjects: Chemistry and Botany Grade: B+ 12th (High School) (2015-2017) Science stream

šŸ”¬ Key Skills

  • Molecular Docking
  • Molecular Dynamics
  • Schrodinger
  • Pymol
  • MegaAUTODOCK
  • Agarose Gel Electrophoresis
  • ELISA
  • qPCR
  • RT-PCR
  • Flow Cytometry
  • Online tools for nucleic acid or protein sequence-based analysis (Expasy, Clustal Omega, NCBI)

šŸ’¼ Work Experience

Research Intern at MEAB LAB (08/2021-09/2022) JIS University (Hybrid mode) Responsibilities: Worked on current research projects with PhD scholars as a Project Associate Intern. Co-authored 3 review articles and 1 book chapter, and contributed to 3 research projects. Previously worked here for Master’s thesis paper. Lab Tech Intern at Suraksha Diagnostic Pvt. Ltd. (12.08.2022-24.08.2022) Responsibilities: Conducted DNA and RNA extraction for PCR to detect HLA, hepatitis B, hepatitis C, and Covid-19 virus. Performed RT-PCR and real-time PCR to detect RNA and DNA viruses.

Publications Top Notes šŸ“

  1. Title: Lignocellulolytic Microbial Systems and its Importance in Dye Decolourization: A Review

 

  1. Title: Microbial electrolysis cells for effective biohydrogen biogenesis from biowastes

 

  1. Title: Algae educed industrial enzymes production: a sustainable way forward?
    • Book: Industrial Microbiology
    • ISBN: 978-93-5461-997-7
    • Publisher: Astral International Pvt. Ltd. (Scopus)