{"id":17099112,"url":"https://github.com/dhimmel/bindingdb","last_synced_at":"2026-01-05T14:14:20.576Z","repository":{"id":30199685,"uuid":"33750553","full_name":"dhimmel/bindingdb","owner":"dhimmel","description":"Process BindingDB","archived":false,"fork":false,"pushed_at":"2015-11-19T01:10:30.000Z","size":15020,"stargazers_count":8,"open_issues_count":0,"forks_count":4,"subscribers_count":2,"default_branch":"gh-pages","last_synced_at":"2025-01-28T23:50:17.349Z","etag":null,"topics":["binding","bindingdb","compound","drug","hetionet","protein","rephetio","tsv"],"latest_commit_sha":null,"homepage":"https://doi.org/10.15363/thinklab.d53","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/dhimmel.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}},"created_at":"2015-04-10T21:02:24.000Z","updated_at":"2024-04-01T19:18:10.000Z","dependencies_parsed_at":"2022-08-03T15:13:29.298Z","dependency_job_id":null,"html_url":"https://github.com/dhimmel/bindingdb","commit_stats":null,"previous_names":[],"tags_count":1,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dhimmel%2Fbindingdb","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dhimmel%2Fbindingdb/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dhimmel%2Fbindingdb/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dhimmel%2Fbindingdb/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/dhimmel","download_url":"https://codeload.github.com/dhimmel/bindingdb/tar.gz/refs/heads/gh-pages","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":245144973,"owners_count":20568056,"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":["binding","bindingdb","compound","drug","hetionet","protein","rephetio","tsv"],"created_at":"2024-10-14T15:09:05.059Z","updated_at":"2026-01-05T14:14:20.536Z","avatar_url":"https://github.com/dhimmel.png","language":"HTML","funding_links":[],"categories":[],"sub_categories":[],"readme":"# Processing BindingDB\n\n[![DOI](https://zenodo.org/badge/14475/dhimmel/bindingdb.svg)](https://zenodo.org/badge/latestdoi/14475/dhimmel/bindingdb)\n\nThis repository contains our processing of [BindingDB](https://www.bindingdb.org/bind/index.jsp). Refer to the corresponding [Thinklab discussion](https://doi.org/10.15363/thinklab.d53) for more information.\n\n## License\n\nBindingDB includes the following [licensing statement](https://github.com/dhimmel/integrate/blob/1a43ef2718283cbfc9ae869aee1856bf20e2ad6e/licenses/custom/BindingDB.md):\n\n\u003e Data imported from ChEMBL are provided under their [Creative Commons Attribution-Share Alike 3.0 Unported License](https://www.ebi.ac.uk/chembl/about). All data curated by BindingDB staff are provided under the [Creative Commons Attribution 3.0 License](https://creativecommons.org/licenses/by/3.0/us/).\n\nAll original content in this repository is released as [CC0](https://creativecommons.org/publicdomain/zero/1.0/).\n\n## Execution\n\nThe analysis can be reproduced by running `process.ipynb` followed by `collapse.Rmd`.\n\nThe python notebook `process.ipynb`:\n\n+ processes affinities to floats\n+ converts to entrez genes\n+ simplifies observations into essential fields\n\nThe rmarkdown script `collapse.Rmd`:\n\n+ filters to human experiments\n+ converts to drugbank compounds\n+ collapses observations by compound-gene pairs\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdhimmel%2Fbindingdb","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fdhimmel%2Fbindingdb","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdhimmel%2Fbindingdb/lists"}