Education | Shrikant Pawar

Field of Research/Study: 1. Bioinformatics. 2. Computational Biology. 3. Data Science. 4. Artificial Intelligence. 5. Computer Vision. 6. Biomarker study.

January 1, 2014- May 5, 2019: Doctor of Philosophy (Bioinformatics): Georgia State University, Atlanta, Georgia, United States of America (USA).
January 1, 2016- May 5, 2019: Master of Science (Computer Science): Georgia State University, Atlanta, Georgia, USA.
January 1, 2016- May 5, 2019: Master of Science (Biology): Georgia State University, Atlanta, Georgia, USA.
January 1, 2016- May 5, 2019: Master of Science (Bioinformatics): Western Kentucky University, Bowling Green, Kentucky, USA.
August 15, 2009- May 5, 2011: Continuing Studies Program (2023-24): Stanford University, USA.

Doctoral Dissertation (GPA 3.6): Goal: Identifying newer bioinformatics techniques for studying drug resistance in Human immunodeficiency (HIV) virus & Staphylococcus aureus. Dissertation published here. Contributions: Application of machine learning techniques (Restricted Boltzmann Machine) on next generation sequencing, microarray datasets and structure guided drug design studies on HIV-1 protease. Application of algorithms was performed using R and Python functional programming languages while the structure guided drug design was studied using enzyme kinetics and X-ray crystallography. Our new technique of applying Restricted Boltzmann Machine produced highly accurate and robust classification of HIV protease resistance profiles. It was also used to effectively compare resistance profiles of different clinical protease inhibitors. Pawar, Shrikant, “Bioinformatics Techniques for Studying Drug Resistance In HIV and Staphylococcus Aureus.” Dissertation, Georgia State University, 2019. doi: https://doi.org/10.57709/14306337
Master’s Degree (Computer Science) Project (GPA 3.6): Goal: Computational optimization of defined graph-based sequence structure HIV-1 protease resistance prediction through supervised, unsupervised machine learning techniques. Contributions: Application of supervised and unsupervised clustering techniques on next generation sequencing datasets for identifying representative HIV-1 protease sequences. Current projects in collaboration with Dr. Eichenbaum, Dr. Aneja, Dr. Charles Derby, Dr. Nathan J. Bowen, The Center for Cancer Research and Therapeutic Development (CCRTD) at Clark Atlanta University, Georgia, USA & Dr. Chung-Dar Lu, Dr. Harrison and Dr. Weber.
Master’s Degree (Bioinformatics) Project (GPA 3.6): Goal: Transcriptomic data analysis to determine the impact of antioxidant supplementation on gene expression in brains of mice infected with Toxoplasma. gondii. Current projects in collaboration Dr. Claire Rinehart & Dr. Cheryl Davis. Contributions: Application of linear transformations like data driven Haar-Fisz transformations on microarray datasets for identifying gene expression trends.

Relevant Computer Science coursework at Georgia State University, Atlanta, USA:

Automata (Prof Li) CSC6510, Theoretical Foundations of Computer Science (Prof. Alex. Zelikowsky) , Data Structures (Prof Bhola) , Operating Systems, Advanced Bioinformatics (Prof Harrison) CSC8630, Fundamentals of Bioinformatics (Prof Harrison) BIOL6640, Principles of Computer Science (Prof Henry) CSC2010, UNIX/C for Bioinformatics, Seminar in Computer Science CSC7351, Design & Analysis of Algorithms (Prof Skums) CSC6520, Mobile App Development CSC6360, Web Programming (Bing Li) CSC6370, Advanced Bioinformatics (Prof. Alex. Zelikowsky) CSC8630, Programming Language Concepts (Prof Mussa) CSC6330, Software Engineering(Prof Bhola) CSC6350, Advanced Software Engineering (Prof Hu) CSC8350, Advanced Graphics Algorithms (Prof Zhu) CSC8820, Computer Architecture (Prof Belkasim) CSC6210, Advanced Algorithms for Bioinformatics (Prof. Alex. Zelikowsky) CSC8540. Stanford Continuing Studies Program: Introduction to Machine learning TCS-1. System-Level-Programming: https://github.com/spawar2/System-Level-Programming, Data-Structures: https://github.com/spawar2/Data-Structures, CS-Introduction: https://github.com/spawar2/CS-Introduction, Advanced-Graphic-Algorithms: https://github.com/spawar2/Advanced-Graphic-Algorithms, Fundamentals of Bioinformatics: https://github.com/spawar2/Bioinformatics-scripts

Current projects in collaboration with Dr. Karina. Liles Smart Home Claflin University seed funding, Dr. Omar. Bagasra “Coronavirus transcriptomics”, Dr. Kamal. Chowdhary “Prostate Biomarkers”, Dr. Sahu “Machine learning applications (generative adversarial network (GAN)) in cybersecurity”, Dr. Verlie. Tisdale, National Science Foundation (NSF) South Carolina Established Program for Stem Cooperative Research (SC EPSCoR) RII Track-1 Award, NSF Identifier: 000879633, Award Number: 2242812, Award/Fund Agency Code: 4900, Program Element/Reference Code’s (PEC/Congressional District): 193Y00, 075Z/7715/8037/9150/SMET/03, Assistance Listing Number: 47.083, “AI-enabled Devices for the Advancement of Personalized and Transformative Healthcare in South Carolina”, ADAPT award, Techniques of computer vision for image analysis Dr. Konneman Daniel, “Systematics in Coccoloba (Polygonaceae)”, Dr. Derrick Swinton, Kean University, Union, New Jersey, USA, “Machine learning for nanoparticle property prediction”, “Comprehensive Approach to Cardio-Renal Health in Lupus: Investigating the Role of Sex, Endothelial Dysfunction, and Social Determinants of Health” with Dr. Jim Oates, at Medical University of South Carolina (MUSC), Charleston, USA. “Deep learning for predicting biofilm patterns from surface-enhanced Raman spectroscopy (SERS)” with Dr. Tzeng, Dr. Anker, Dr. Rao, & Dr. Bhattacharya, Clemson University, South Carolina, USA, Dr. Shahid Mukhtar, Clemson University, South Carolina, USA, “Artificial intelligence & Big data of genomics Learning Experiences to Careers (ABLE2C)”, Dr. Gao Zhi, Clemson University Subaward, Clemson University https://cecas.clemson.edu/biophotonics/, South Carolina, USA GAIN CRP award (Grants for Applications in Industry and Networking Collaborative Research Program): “AI-Enabled Construction of Aligned Collagen Using Two-Photon Techniques”, Award Number: 2242812, Award/Fund Agency Code: 4900, Program Element/Reference Code’s (PEC/Congressional District): 193Y00, 075Z/7715/8037/9150/SMET/03, Assistance Listing Number: 47.083, Dr. Theppatorn & Dr. Desowky, Scired: Scientific Research & Development at Claflin University, Orangeburg, South Carolina, USA. Current projects in collaboration with Dr. Christian Griñán Ferré, Univesity of Barcelona, Spain, “G9a/GLP transcriptomics”; Dr. Steven. Kleinstein, Yale University, “IMMuno Phenotyping Assessment in a COVID-19 Cohort (IMPACC)”, New Haven, Connecticut, USA, Dr. Ruth Montgomery, Yale University, New Haven, Connecticut, USA, “Single Cell analysis, Cytometry by time of flight”; Dr. Mohammad. Uduman, Dana Farber Harvard, Cambridge, MA, USA, “ICOS gene transcriptomics”; Dr. George. Tegos, Gamma Therapeutics, “Probiotics efficacy”; Dr. Chandrajit. Lahiri, Sunway University, Malaysia, “Cancer Biomarkers”; Dr. Allen. Bale, Dr. Hui. Zhang, DNA Diagnostic Lab at Yale University, New Haven, Connecticut, USA; Dr. Insoo. Kang, “T cell Transcriptomics”; Dr. Kei-Hoi Chung, Linkedimm; and Dr. Leying Guan, “Supervised bayesian factor analysis”, “Expression analysis of inducible T cell costimulator gene in CCR6 T cells”, “Antimicrobial light-based technologies for managing the COVID-19 infection”, “Whole genome, exome sequencing analysis of cancer samples”, “Global gene expression analysis for CD4 & CD8+ T cell subsets in aging subjects, Linkedimm”, “Multifactorial analysis and single cell sequencing standards”, at Yale University, New Haven, Connecticut, USA. Current projects in collaboration with Dr. Zehava. Eichenbaum “Biofilm transcriptomics”, Dr. Ritu. Aneja, “Ovarian Biomarkers”, Dr. Charles. Derby, “Chemosensory transcriptomics”, & Dr. Chung-Dar. Lu, “Spermine transcriptomics”, Georgia State University, Atlanta, USA. Current projects in collaboration with Dr. Claire. Rinehart & Dr. Cheryl. Davis, “Toxoplasma gondi transcriptomics”, Western Kentucky University, Bowling Green, USA.

Relevant Biology coursework at Georgia State University, Atlanta, USA:

Molecular Immunology BIOL8278, Concepts Molecular Genetics BIOL8278 with Dr. Paallavi. Garg, Dr. Julia. Hilliard, Dr. Tim. Denning, Dr. Greer, Advanced Biotechniques BIOL8696, Physiology Prokaryotes BIOL8610, Concepts Cell Biology BIOL8310. Masters and Ph.D. Course Projects at Georgia State University, Atlanta, USA: https://github.com/spawar2/System-Level-Programming/; https://github.com/spawar2/Advanced-Graphic-Algorithms; https://github.com/spawar2/CS-Introduction; https://github.com/spawar2/Data-Structures; https://github.com/spawar2/Bioinformatics-scripts; https://github.com/spawar2/Advanced-Graphic-Algorithms; https://github.com/spawar2/CS-Introduction/; https://github.com/spawar2/Data-Structures/; https://github.com/spawar2/Homework_1; https://github.com/spawar2/Computer-Architecture–Java-platform-to-create-logic-circuit–evaluate-bolean-expression.; https://github.com/spawar2/SP2017Summer/; https://github.com/spawar2/PawarDemo/; https://github.com/spawar2/Binary-Search-Tree-In-Java-Implementation; https://github.com/spawar2/Final_Project_PHP_SQL

Relevant Bioinformatics coursework at Western Kentucky University, Bowling Green, USA:

Biostatistics PH520 Dr. Nagy, Bioinformatics BIOL312 Dr. Claire. Rinehart, Epidemiology PH582 Dr. Emmauel , Public Health PH580, Health Behavior PH587 Dr. Gardner , Topics in Immunology BIOL475 Dr. Cheryl. Davis, Advanced Molecular Genetics BIOL566 Dr. Claire. Rinehart, Parasitology BIOL460G Dr. Cheryl. Davis, Advanced Biochemistry BIOL562 Dr. Jacobson, Virology BIOL407G Dr. King. Current projects in collaboration with Dr. Claire. Rinehart & Dr. Cheryl. Davis.