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A list of all the posts and pages found on the site. For you robots out there is an XML version available for digesting as well.
Pages
Overview
About me
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Posts
Future Blog Post
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Blog Post number 4
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Blog Post number 3
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Blog Post number 2
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Blog Post number 1
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portfolio
Labeling Fan-Generated Roleplaying Game (RPG) Content: An NLP Task
RoBERTA-based sequence classifier modeling on a novel natural language dataset achieving a macro-averaged F1 score of 0.88 with an AUC/ROC of .99.
The full repository with notebooks can be found on my GitHub repo.
Predicting Used Car Values
Ordinal regression to predict used car purchase/appraisal prices in an obfuscated and highly incomplete dataset using iterative imputation methods and tree-based regression methods. Here I achieved an R^2 of 0.91 and concordance score of 0.95 without excluding any incomplete samples.
The full repository with notebooks can be found on my GitHub repo.
Transcriptomic Analysis of KSHV Infection
I performed bulk and single-cell transcriptomic analyses of KSHV infected lymphatic endothelial cells, which are the best available de novo infection for modeling Kaposi’s sarcoma. The results of this analysis are still largely confidential due to the competitive nature of this topic right now. A publication is in preparation pending some molecular imaging and mechanistic follow-up studies based on these results. Click above for a short discussion on some of the challenges this dataset presented and some of the methods employed to overcome them.
Role of FLICE-Inhibitory Proteins in Primary Effusion Lymphoma
My PhD dissertation (get PDF copy here), this work is largely published in Cell Death and Differentiation in which I make use of genome-wide synthetic CRISPR rescue screens alongside traditional low-throughput biological methods to identify novel regulators of cFLIP and ligand-independent TRAIL-R1-mediated cell death.
Lake Michigan Metavirome
See my publications section for more details on this project.
publications
Assessment of a metaviromic dataset generated from nearshore Lake Michigan.
Published in Marine and Freshwater Research, 2015
A sequence-based characterization of the microbial ecology of Chicago’s Lake Michigan, particulary that of its viral species/phages.
Recommended citation: Watkins S, Kuehnle N, ..., Putonti C. (2015). "Assessment of a metaviromic dataset generated from nearshore Lake Michigan." Marine and Freshwater Research. 67(11).
https://www.publish.csiro.au/mf/ExportCitation/MF15172
Druggable host gene dependencies in primary effusion lymphoma.
Published in Current Opinion in Virology, 2022
A review of current research into the host genetic dependencies of KSHV-asosciated primary effusion lymphoma.
Recommended citation: Kuehnle N, Gottwein E. (2022). "Druggable host gene dependencies in primary effusion lymphoma." Curr Opin Virol. 56:101270.
https://www.sciencedirect.com/science/article/abs/pii/S187962572200081
CRISPR screens identify novel regulators of cFLIP dependency and ligand-independent, TRAIL-R1-mediated cell death
Published in Cell Death and Differentation, 2023
A characterization of the role of cellular and viral FLICE-inhibitory proteins in KSHV-associated PEL cells.
Recommended citation: Kuehnle N, Osbourn S, Liang Z, Manzano M, and Gottwein E. (2023). "CRISPR screens identify novel regulators of cFLIP dependency and ligand-independent, TRAIL-R1-mediated cell death." Cell Death and Differentation. 30, 1221–1234.
https://www.nature.com/articles/s41418-023-01133-0
talks
Talk 1 on Relevant Topic in Your Field
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Conference Proceeding talk 3 on Relevant Topic in Your Field
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teaching
Teaching experience 1
Undergraduate course, University 1, Department, 2014
This is a description of a teaching experience. You can use markdown like any other post.
Teaching experience 2
Workshop, University 1, Department, 2015
This is a description of a teaching experience. You can use markdown like any other post.