Smiling African American male wearing black glasses, light purple shirt, tie, and black sweater

Resume

 I am a computational biologist and technical writer.

 

 

PDF version of resume is available for download.  Resume of Jamshaid Shahir in pdf format to download.

PROFESSIONAL SUMMARY

  § 10+ years coding experience (Python, R, MATLAB) in various domains including research and teaching

§ Collaborated with a team of 15+ researchers to analyze single-cell cancer genomics data (Python & R)

§ Analyzed IRB-approved survey data in R of mental health climate among UNC’s student population in collaboration with psychology researchers and occupational therapists

§ Recipient of  2 highly prestigious fellowships and 1 travel grant to support my graduate training

 

 

EDUCATION

Ph.D., Bioinformatics and Computational Biology, Department of Genetics 2018 – 2023 University of North Carolina at Chapel Hill (UNC) Biological and Biomedical Sciences Program (BBSP)

B.S. Mathematics, B.S. Statistics 2014 – 2018 University of Maryland Baltimore County (UMBC) Magna Cum Laude, Meyerhoff Scholar

 

 

DATA SCIENCE EXPERIENCE

Graduate Researcher at UNC 2018 – Present

§ Analyzed cell cycle dynamics in differentiating human embryonic stem cells using Python in the context of image analysis and single-cell genomics

§ Trained graph neural networks in TensorFlow via SLURM to study the effects of experimental perturbations in single-cell RNA sequencing data

§ Collaborated with cancer researchers at UNC to study role of ZBP1 in necroptosis by analyzing single-cell RNA sequencing data with Python and R

§ Presented at 7 professional meetings – including 2 international – and gave 1 invited talk

§ Was awarded $5000 from Burroughs Wellcome Fund to support conference travel

 

 

UNDERGRADUATE RESEARCHER UMBC 2016 – 2018

§ Modeled biochemical reaction-diffusion systems using stochastic simulation algorithms in MATLAB

§ Applied this methodology to study cell polarization in a traveling wave model

§ Authored senior thesis

§ Received NSF Graduate Research Fellowship based on a proposal directly related to this work

Technical Writer at Towards Data Science, Medium.com 2021 – Present

§ Published 8 articles on single-cell genomics methods, machine learning, and AI for a data science publication with over 650,000 readers as of February 2023

§ Authored articles that have been featured in the weekly newsletter, editorial columns, and specialized columns, receiving 55,000+ views and 200+ followers

Co-Investigator, Stigma-Free Carolina, UNC 2019, 2020

§ Collaborated with graduate students in psychology and occupational therapy in fellowship program to evaluate the efficacy of a student-run campaign to destigmatize mental health at UNC

§ Co-authored IRB application to survey UNC students and analyze resulting data in R

§ Organized mental health awareness events in response to survey findings Instructor and Co-administrator, How to Learn to Code, UNC 2019, 2022

§ Taught interactive graduate student-led course on programming in R (2019) and Python (2022) for a class of biologists spanning undergraduates and faculty

§ Developed course materials, recruited students, and assigned teachers

Tutor, BCB 720: Introduction to Statistical Modeling, UNC 2020, 2021

§ Tutored first-year students in statistics using RStudio and facilitated weekly sessions to discuss core concepts and set goals for next week’s session

§ Managed logistics, collaborated with instructor and staff to ensure student needs were met and recruit additional students to tutoring sessions

 

SCIENTIFIC MANUSCRIPTS

  • Shahir JA, Stanley N, Purvis JE. Cellograph: A semi-supervised approach to analyzing multi-condition

    single-cell RNA-sequencing data using graph neural networks, BMC Bioinformatics (2024).   https://doi.org/10.1186/s12859-024-05641-9

  • Cho M-G, Kumar RJ, Lin C-C, Boyer JA, Shahir JA, Fagan-Solis K, et al. MRE11 liberates cGAS from

    nucleosome sequestration during tumorigenesis, Nature (2024). https://doi.org/10.1038/s41586-023-

    06889-6

COMPUTATIONAL SKILLS (selected)

Programming Languages: Python | R | MATLAB

Research tools: LaTeX | Linux | SLURM | Cloud Computing | High-Performance Computing | TensorFlow | Keras | PyTorch | OpenCV | PIL | Mathematical Modeling | Statistical Modeling

HONORS AND AWARDS Hector Fellow Academy Best Poster Award 2023 • Awarded for outstanding presentation at the Innovations in Single Cell Omics conference • Presented “Elucidating the role of the cell cycle in stem cell fate using multiplexed imaging”

Burroughs Wellcome Fund Graduate Diversity Enrichment Program 2021 – 2023

§ Nominated by advisor for competitive grant to support training of 10 graduate students from underrepresented backgrounds enrolled at universities in North Carolina

§ Awarded $5000 over 2 years for conference travel and research supplies

National Science Foundation Graduate Research Fellowship Program 2018 – 2023

§ Prestigious national fellowship

§ Awarded >$100,000 in stipend to support graduate training

Caroline H. and Thomas S. Royster Society of Fellows 2018 – 2023

§ Awarded the premier doctoral fellowship program at UNC, providing 5 years § Provides 5 years of support, including a stipend

§ Received $2000 for conference travel

NIH MARC U*STAR Scholarship (now called U-RISE), UMBC 2016 – 2018 § Highly competitive, NIH-funded scholarship program at UMBC to prepare students for graduate school § Provided full tuition and funds for conference travel § Focused on increasing diversity of STEM workforce

Meyerhoff Scholarship, UMBC 2014 – 2018

§ Highly competitive scholarship program at UMBC to prepare students for graduate school, with a focus on increasing diversity in STEM

CONFERENCES/PRESENTATIONS (Selected)

Innovations in Single Cell Omics, Berlin, Germany 2023

Single Cell Genomics 2022, Utrecht, The Netherlands 2022

International Society for Stem Cell Research Annual Meeting, Virtual 2022 Winter Q-Bio, O’ahu, Hawaii (2022), Maui, Hawaii (2018) 2018, 2022

LEADERSHIP EXPERIENCE (Selected) Lead Peer Mentor, First-year Group BBSP, UNC 2021 – 2022

§ Oversaw a team of 7 peer mentors to ensure students receive consistent mentoring and guidance during a year-long course introducing first-year graduate students to graduate school

§ Managed a $1,250 budget for social events in line with UNC’s COVID-19 guidelines Chair, Graduate and Professional Student Government Travel Awards Committee 2022 – 2023

§ Elected by peers as student representative of my PhD program for the GPSG § Served on and later led a committee that dispersed competitive financial awards for conference travel to graduate students, overseeing an $33,000 budget for the school year

§ Delegated tasks in reviewing applications to committee members in a double-blind review process

§ Drafted and presented legislature of the committee’s decision and total funds dispersed for Senate confirmation in monthly meetings

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