High Performance Computing
Resume:
Python, R, SQL
Linux Bash scripting
High performance computing
Bioinformatics pipelines
Docker and singlarity containers
Nextflow workflows
GPUaccerlerated python software
(i.e.PyTorch)
Next Generation Sequencing
Nana-Fatima
Haruna
www.linkedin.com/in/nfdh
www.github.com/NanaHaruna
Chicago, IL
Computational Biologist, Immunologist
SUMMARY
EDUCATION
SKILLS
Bioinformatics
Pipelines
Multi-omics: scRNA-seq, CITE seq
Bulk RNA Seq
Spatial transcriptomics
ATAC-seq
Metabolomics
Sept. 2021 - Present
Ph.D. Biomedical Science
Northwestern Feinberg School of Medicine
Sept. 2015 - May 2019
B.A, Biological Science
Rutgers University, Summa Cum laude
I am a passionate scientist interested in answering biological questions with computational methods. I am experienced in Python, R, and SQL programming languages to integrate and analyze genomics, proteomics, spatial transcriptomics, and metabolomics data. I also have expertise in immune biology, immunophenotypying techniques, and molecular biology techniques. I thrive in a collaborative environment that fosters creativity and discussion. I am also skilled at working with and managing people from different fields towards a common goal. WORK EXPERIENCE
Computational Support
Northwestern University
Research Computing Support – High performance Computing (Quest HPC) Dec. 2024 - present
• Supported faculty, students, and staff researchers navigate the HPC cluster.
• Hosted training and workshops to teach users slurm commands and Nextflow workflows
• Built dockers and singularity containers to house software modules for the HPC cluster
• Assisted users set up anaconda virtual environment for running deep-learning models using GPU accelerated python software (such as PyTorch)
• Troubleshooted and debugged Python and R workflows for users Ph.D. Candidate
Northwestern Feinberg School of Medicine
Department of Medicine - Division of Allergy and Immunology Advisor: Dr. Sergejs Berdnikovs
• Utilized bioinformatics tools to answer immunology hematopoiesis and fate mapping questions
• Worked on a GSK grant to investigate the influence of biologics on immune populations
• Developed proficiency in immunophenotypying techniques including flow cytometry and immunohistochemistry.
• Developed proficiency in integrating bioinformatics data from scRNA seq, CITE seq, Bulk RNA seq, Spatial transcriptomics, metabolomics, and ATAC seq to answer research questions.
• Developed strong proficiency in programming languages such as R, python, and SQL for data analysis and management.
• Utilized machine learning algorithm in Python used for classification and re- gression analysis of genomics data
• Reviewed manuscripts for peer-review journals including FASEB
• Presented my work at various international conferences including AIC (Autumn Immunology Conference) and AAI (American Association of Immunologists)
• Published multiple peer-reviewed paper detailing the results and implications of my research
Sept. 2021 - present
LEADERSHIP
PUBLICATIONS
WORK EXPERIENCE
Application Scientist
TheWell Bioscience, Inc.
• Studied and evaluated the effects of different extracellular matrix functional ligands on cancer and stem cell growth and development.
• Developed clinically relevant 3D cell models for studying diseases and meta- bolic processes.
• Developed protocols for the study of pathological processes (such as invasion and metastasis) in different cancer cell lines.
• Experienced with customer relationship management (CRM) system and served as a troubleshooting resource for customers in research labs. Research Mentor
Kimberly Querrey Summer Research
Program – Division of Pulmonary and
Critical Care.
June - August 2023
June - August 2024
Fellowship in Leadership
Northwestern University
Center for Leadership
Jan - May 2024
Study Group Facilitator
Northwestern University
Fundamentals of Biochemistry
Sept - Dec 2022
Sept - Dec 2023
Outreach and Diversity Committee
Member
Website/Social Media Committee
Member
International Eosinophil Society (IES)
Nov 2023-Present
July 2019 - July 2021
• Constructed plasmid containing PiggyBac transposon and Bacterial luciferase gene cassette for the development of auto-bioluminescent ovarian cancer cell lines.
• Performed PCR, gel electrophoresis, DNA purification, restriction digest, liga- tion, and spectrophotometry to obtain and analyze recombinant plasmid.
• Transfected recombinant plasmids into SKOV3 and A2780 ovarian cancer cell lines.
• Trained two incoming lab assistants working with luciferase and bacterial cell culture.
• Completed Seniors thesis and defended my research to faculty members. Undergraduate Research Assistant
Rutgers University
Department of Cell Biology and Neuroscience
Advisor: Dr. Dunne Fong
June 2017 - May 2019
1. Haruna NF, Politanska Y, Connelly AR, O'Connor K, Bhattacharya S, Miklaszewski GE, Pérez-Leonor XG, Rerko G, Hen- tenaar IT, Nguyen DC, Molina PAL, Bochner BS, Abdala-Valencia H, Gill M, Lee FE, Berdnikovs S. scRNA-seq profiling of human granulocytes reveals expansion of developmentally flexible neutrophil precursors with mixed neutrophil and eosinophil properties in asthma J Leukoc Biol. 2024
2. Berdnikovs S, Newcomb DC, McKernan KE, Kuehnle SN, Haruna NF, Gebretsadik T, McKennan C, Ma S, Cephus JY, Rosas-Salazar C, Anderson LJ, Gern JE, Hartert T. Single cell profiling to determine influence of wheeze and early-life vi- ral infection on developmental programming of airway epithelium. bioRxiv [Preprint]. 2024 Jul 11:2024.07.08.602506. doi: 10.1101/2024.07.08.602506.
3. Haruna NF, Politanska Y, Connelly AR, Miklaszewski GE, Pérez-Leonor XG, Rerko G, Abdala-Valencia H, Gill M, Berd- nikovs S, Bioinformatics exploration of heamatopoietic trajectorys of granulocytes during airway inflammation across different tissues. (submitted manuscript - Blue Journal).
4. Haruna NF, Berdnikovs S, Nie Z. Eosinophil biology from the standpoint of metabolism: implications for metabolic disorders and asthma. J Leukoc Biol. 2024 May 3:qiae100. doi: 10.1093/jleuko/qiae100. 5. Gebeyehu A, Surapaneni SK, Huang J, Mondal A, Wang VZ, Haruna NF, Bagde A, Arthur P, Kutlehria S, Patel N, Rishi AK, Singh M. Polysaccharide hydrogel based 3D printed tumor models for chemotherapeutic drug screening. Sci Rep. 2021 Jan 11;11(1):372. doi: 10.1038/s41598-020-79325-8.
6. Haruna NF, Huang J. Investigating the Dynamic Biophysical Properties of a Tunable Hydrogel for 3D Cell Culture. J Cytol Tissue Biol. 2020 Oct 26; 7:030.
7. Haruna NF, Queener AM, Chiarella SE, Connelly AR, Politanska Y, Abdala-Valencia H, Berdnikovs S. Airway inflammation in a murine model of asthma parallels Type 2 immune response and eosinophil recruitment in visceral adipose tissue (Manu- script in preparation).
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