nicholasclark,Nick Clark,github

Hi there 👋

I work at @sorgerlab and @labsyspharm on a variety of computational biology projects, formerly at @uc-bd2k :) 👨‍💻👨‍🔬

I recently finished my PhD (Dec. 2021) in Biostatistics and Bioinformatics at the University of Cincinnati.

My projects:

🧬 iPAS (integrative Pathway Activity Signatures) - A method for construction of transcriptional signatures that are predictive of signaling pathway perturbation in cells. Our method is "integrative" in that it combines data from many cell lines to create "ensemble" signatures that improve predictions
🧫 iLINCS - A web portal for analyzing transcriptional data using perturbation signatures from the LINCS project. Our pre-print is available on Biorxiv.
📐 GRmetrics R package - A software package for implementing improved cell viability metrics based on changes in growth-rate due to drug treatment. Based on the work of Hafner et al. (Nature Methods 2016)
🧮 GR Calculator - A user-friendly web extension of the GRmetrics R package, Clark et al. (BMC Cancer 2017)
🧪 Small Molecule Suite - A web tool to help scientists understand the targets of molecular probes, approved drugs, and other drug-like molecules. Based on the work of Moret et al. (Cell Chemical Biology 2019)

📰 My publications:

🆔 ORCID
📚 Google Scholar

Nick Clark's Projects

courses

Course materials for the Data Science Specialization: https://www.coursera.org/specialization/jhudatascience/1

dataanalysis

The lecture slides for Coursera's Data Analysis class

datarail

Datarail's experimental design repository is a system for aiding the design, analyses, and visualization of high throughput dose response experiments.

ggplot2

An implementation of the Grammar of Graphics in R

This is a read-only mirror of the Bioconductor SVN repository. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/GRmetrics.html Contributions: https://github.com/uc-bd2k/GRmetrics. Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=GRmetrics or https://github.com/uc-bd2k/GRmetrics/issues.

kegglincs

This is a read-only mirror of the Bioconductor SVN repository. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/KEGGlincs.html Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=KEGGlincs.

ord-work

Workspace for ordinalRidge

psych

:exclamation: This is a read-only mirror of the CRAN R package repository. psych — Procedures for Psychological, Psychometric, and Personality Research. Homepage: http://personality-project.org/r/psych http://personality-project.org/r/psych-manual.pdf