cv
To view my full CV, click on the PDF icon to the right.
General Information
| Full Name | Danielle Denisko |
| Languages | English, French |
| Contact | ddenisko [at] g [dot] harvard [dot] edu |
Education
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2020 - PhD
Harvard University, Boston, MA, USA - Non-canonical roles of transposable elements in human evolution and disease
- Advised by Alice Eunjung Lee
- Bioinformatics and Integrative Genomics program, Department of Biomedical Informatics
- Non-canonical roles of transposable elements in human evolution and disease
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2017 - 2019 MSc
University of Toronto, Toronto, ON, Canada - Motif elucidation in ChIP-seq datasets with a knockout control
- Advised by Michael M. Hoffman
- Department of Medical Biophysics
- Motif elucidation in ChIP-seq datasets with a knockout control
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2013 - 2017 Honours BSc
Trinity College in the University of Toronto, Toronto, ON, Canada - Cumulative GPA of 3.93/4.00
- Specialist in Biological Physics (Award for top-performing student)
- Minor in Mathematics
- Cumulative GPA of 3.93/4.00
Experience
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2019-2020 Biomedical Data Scientist
nference Canada, Toronto, ON, Canada - Developed an epigenomics application for clinicians and scientists to better understand disease
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Fall 2022 Teaching Fellow
Harvard University, Boston, MA, USA - MCB112 Biological Data Analysis
- Taught by Sean Eddy
Open Source Projects
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2024 inverted Alus
- Jupyter notebooks for statistical analysis of "jumping genes" and RNA splicing
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2019 peaKO
- PyPI package to discover motifs in ChIP-seq datasets with knockout controls
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2020 - 2024 this website!
- Based on the al-folio Jekyll theme
Honors and Awards
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2024 - 4DN Hackathon Travel Stipend
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2018 - 2019 - Ontario Graduate Scholarship
- $15,000 for three consecutive sessions; awarded to 3,000 applicants across Canada per year
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2018 - 2019 - MBP Excellence OSOTF Scholarship (University of Toronto)
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2018 - SGS Conference Grant (University of Toronto)
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2017 - 2018 - NSERC Canada Graduate Scholarships-Master's
- $17,500 for one year; awarded to 840 students across Canada per year in Natural Sciences and Engineering
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2017 - 2018 - The Princess Margaret Hospital Foundation Graduate Fellowships in Cancer Research OSOTF
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2017 - 2018 - Graduate and Life Sciences Education Merit Entrace Scholarship (University of Toronto)
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2017 - The Provost's Scholar Award (Trinity College)
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2016 - 2017 - Fraser-Crawford Scholarship (Trinity College)
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2016 - 2017 - George Luste Prize in Biological Physics (University of Toronto)
- Awarded to the top-performing student in the Biological Physics Honours BSc program
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2016 - 2017 - John Samuel and Louise Mary Buscombe Bursary (Trinity College)
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2016 - CIHR Institute of Genetics Undergraduate Summer Studentship Award
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2016 - University of Toronto Summer Studentship Award
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2015 - 2016 - St. Hilda's Chancellor's Scholarship (Trinity College)
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2013 - 2014 - University of Toronto Scholar
Academic Interests
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Computational methods development
- Deep learning and machine learning
- Working on classification fine-tuning using HyenaDNA LLM
- Interpretability of models (biological meaning)
- Developed a statistical method and tool for detecting motifs
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Understanding basic biological mechanisms
- Alternative splicing
- Structural variation
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Multimodal data integration
- Integrating different types of epigenomics data e.g. ChIP-seq, ATAC-seq, Hi-C
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Reproducible science
- All of my repeated analyses are converted into Snakemake workflows
- Visualization and results in public well-documented Jupyter notebooks
Other Interests
- Hobbies: Playing with my kittycats, pickup and intramural futsal at HMS, piano, running, ballet, singing, portraiture sketching, exploring Boston/Toronto & trying new things
- Favourite things: Anything related to hedgehogs and cats, green tea (ask me how many mugs I own :D), Ghibli movies, Stardew Valley, bike riding (love my Brompton), stargazing, trying to keep my plants happy, organizing & cleaning, visiting cute bookstores & cafes