Circadian Clock Modulators

Analyzing circadian clock modulators.

References

Figshare datasets by Tamai et al are stored in the data/tamai-screen directory. They were downloaded from figshare at the locations listed below, where they are available under a CC0 License.

1. Identification of circadian clock modulators from existing drugs
   T Katherine Tamai, Yusuke Nakane, Wataru Ota, Akane Kobayashi, Masateru Ishiguro, Naoya Kadofusa, Keisuke Ikegami, Kazuhiro Yagita, Yasufumi Shigeyoshi, Masaki Sudo, … Takashi Yoshimura
   EMBO Molecular Medicine (2018-04-17) https://doi.org/ggq6hh
   DOI: 10.15252/emmm.201708724 · PMID: 29666146 · PMCID: PMC5938619

2. FDA_Tamai et al_Identification of circadian clock modulators from existing drugs
   Kathy Tamai, Yusuke Nakane, Takashi Yoshimura
   figshare (2020) https://doi.org/ggq6hp
   DOI: 10.6084/m9.figshare.11608485.v2

3. IDC_Tamai et al_Identification of circadian clock modulators from existing drugs
   Kathy Tamai, Takashi Yoshimura, Yusuke Nakane
   figshare (2020) https://doi.org/ggq6hq
   DOI: 10.6084/m9.figshare.11626014.v2

Environment

This repository uses Pipenv to manage its environment. See this post for information on using Pipenv with notebooks and vscode.

Here are some useful commands to run from the repository's root directory:

# if conda is installed, it might help to deactivate a conda env first
conda deactivate

# install the virtual environment
pipenv install

# activate a terminal shell with this environment
pipenv shell

# start the jupyter notebook
pipenv run jupyter notebook

# add the "pandas" package to the environment (already done)
pipenv install pandas

License

All original work in this repository is released under a CC0 License. All code in this repository is also released under a BSD-2-Clause Plus Patent License as provided in license-bsd.md.