{"id":15384694,"url":"https://github.com/bblodfon/colomoto-gupta","last_synced_at":"2026-01-05T19:12:13.442Z","repository":{"id":90675034,"uuid":"158228454","full_name":"bblodfon/colomoto-gupta","owner":"bblodfon","description":"A reproducibility study using the Colomoto notebook","archived":false,"fork":false,"pushed_at":"2018-11-22T10:19:40.000Z","size":774,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":2,"default_branch":"master","last_synced_at":"2025-01-30T13:22:53.052Z","etag":null,"topics":["colomoto-docker","logical-modeling","reproducibility","reproducible-research"],"latest_commit_sha":null,"homepage":"","language":"HTML","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/bblodfon.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":null,"code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null}},"created_at":"2018-11-19T13:32:57.000Z","updated_at":"2018-11-22T10:19:41.000Z","dependencies_parsed_at":null,"dependency_job_id":"4632851d-c10a-42e6-b9d8-32c28bf25e10","html_url":"https://github.com/bblodfon/colomoto-gupta","commit_stats":{"total_commits":10,"total_committers":2,"mean_commits":5.0,"dds":"0.30000000000000004","last_synced_commit":"5e978c362db8e087f2454c9e57ef153a217c8a50"},"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/bblodfon%2Fcolomoto-gupta","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/bblodfon%2Fcolomoto-gupta/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/bblodfon%2Fcolomoto-gupta/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/bblodfon%2Fcolomoto-gupta/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/bblodfon","download_url":"https://codeload.github.com/bblodfon/colomoto-gupta/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":245483338,"owners_count":20622847,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":["colomoto-docker","logical-modeling","reproducibility","reproducible-research"],"created_at":"2024-10-01T14:43:05.691Z","updated_at":"2026-01-05T19:12:08.405Z","avatar_url":"https://github.com/bblodfon.png","language":"HTML","funding_links":[],"categories":[],"sub_categories":[],"readme":"# colomoto-gupta\n\n## Intro\n \nThis repo has the necessary files to reproduce the analysis on the boolean model presented in [Gupta et al. (2018)](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6053189/), titled '*Modeling the role of microRNA-449a in the regulation of the G2/M cell cycle checkpoint in prostate LNCaP cells under ionizing radiation*'. The present reproducibity analysis was the project of the PhD course **Logical Modeling for Experimental Design in Current and Future Biotechnology and Biomedicine**, offered by NTNU during the Autumn of 2018.\n\n## Run notebook\n\nFirst, you need to install the [colomoto-docker](https://github.com/colomoto/colomoto-docker). Then:\n```\ngit clone https://github.com/bblodfon/colomotoGupta.git\ncd pathTo/colomoto-docker\npython colomoto_docker.py -V 2018-08-17 --bind /pathTo/colomotoGupta\n```\nThe [gupta_john_zobolas.ipynb](https://github.com/bblodfon/colomotoGupta/blob/master/gupta_john_zobolas.ipynb) is the main notebook file.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fbblodfon%2Fcolomoto-gupta","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fbblodfon%2Fcolomoto-gupta","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fbblodfon%2Fcolomoto-gupta/lists"}