{"id":20386996,"url":"https://github.com/cmdcolin/protein_data_service","last_synced_at":"2026-06-05T12:31:11.188Z","repository":{"id":137213363,"uuid":"172276301","full_name":"cmdcolin/protein_data_service","owner":"cmdcolin","description":null,"archived":false,"fork":false,"pushed_at":"2019-03-01T02:25:25.000Z","size":54428,"stargazers_count":0,"open_issues_count":2,"forks_count":0,"subscribers_count":3,"default_branch":"master","last_synced_at":"2025-01-15T08:44:07.355Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":"JavaScript","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/cmdcolin.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":"2019-02-23T23:42:33.000Z","updated_at":"2019-03-01T02:25:26.000Z","dependencies_parsed_at":null,"dependency_job_id":"9c634ef7-0c62-40fe-ac66-b3faffa3de0e","html_url":"https://github.com/cmdcolin/protein_data_service","commit_stats":null,"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cmdcolin%2Fprotein_data_service","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cmdcolin%2Fprotein_data_service/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cmdcolin%2Fprotein_data_service/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cmdcolin%2Fprotein_data_service/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/cmdcolin","download_url":"https://codeload.github.com/cmdcolin/protein_data_service/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":241936969,"owners_count":20045156,"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":[],"created_at":"2024-11-15T02:42:02.825Z","updated_at":"2026-06-05T12:31:11.177Z","avatar_url":"https://github.com/cmdcolin.png","language":"JavaScript","funding_links":[],"categories":[],"sub_categories":[],"readme":"# protein-data-service\n\nCollects some data from different resources about genes/proteins\n\n\n## Install\n\n    yarn\n\n## Run\n\n    node server.js\n\n## Usage\n\n\n    http://localhost:2999/?ensemblGeneId=ENSG00000000003\u0026ensemblTranscriptId=ENST00000373020\n\n* ensemblGeneId: required\n* ensemblTranscriptId: optional, is a filter, cannot be specified without a gene id\n\nThe reason a transcript ID cannot be specified by itself is that the variation biomart only filters on gene ID\n\n\n## Data sources\n\nAccesses protein domains and COSMIC variants from BioMart\n\nThe count level information is parsed from  CosmicCodingMuts.vcf from release v87, 13th November 2018. It is pre-processed and loaded into sqlite\n\nCurrently accessing Ensembl 95 from biomart\n\n## Sample\n\n\nReturns JSON object of format\n\n    {\n      variants: [],\n      domains: [],\n      protein: []\n    }\n\nA sample element of the variant array is\n\n    {\n      \"uniqueId\": \"COSM1736737\",\n      \"start\": 236,\n      \"end\": 237,\n      \"seq_id\": \"TSPAN6\",\n      \"score\": 1\n    }\n\nA sample element of the domain array is\n\n    {\n      \"uniqueId\": \"IPR000301_8_245\",\n      \"start\": 8,\n      \"end\": 245,\n      \"seq_id\": \"TSPAN6\",\n      \"type\": \"Tetraspanin\"\n    }\n\nA sample sequence is\n\n    \n    {\n      \"name\": \"TSPAN6\",\n      \"sequences\": {\n        \"aminoAcid\": \"MASPSRRLQTKPVITCFKSVLLIYTFIFWITGVILLAVGIWGKVSLENYFSLLNEKATNVPFVLIATGTVIILLGTFGCFATCRASAWMLKLYAMFLTLVFLVELVAAIVGFVFRHEIKNSFKNNYEKALKQYNSTGDYRSHAVDKIQNTLHCCGVTDYRDWTDTNYYSEKGFPKSCCKLEDCTPQRDADKVNNEGCFIKVMTIIESEMGVVAGISFGVACFQLIGIFLAYCLSRAITNNQYEIV\",\n        \"translatedDna\": \"ATGGCGTCCCCGTCTCGGAGACTGCAGACTAAACCAGTCATTACTTGTTTCAAGAGCGTTCTGCTAATCTACACTTTTATTTTCTGGATCACTGGCGTTATCCTTCTTGCAGTTGGCATTTGGGGCAAGGTGAGCCTGGAGAATTACTTTTCTCTTTTAAATGAGAAGGCCACCAATGTCCCCTTCGTGCTCATTGCTACTGGTACCGTCATTATTCTTTTGGGCACCTTTGGTTGTTTTGCTACCTGCCGAGCTTCTGCATGGATGCTAAAACTGTATGCAATGTTTCTGACTCTCGTTTTTTTGGTCGAACTGGTCGCTGCCATCGTAGGATTTGTTTTCAGACATGAGATTAAGAACAGCTTTAAGAATAATTATGAGAAGGCTTTGAAGCAGTATAACTCTACAGGAGATTATAGAAGCCATGCAGTAGACAAGATCCAAAATACGTTGCATTGTTGTGGTGTCACCGATTATAGAGATTGGACAGATACTAATTATTACTCAGAAAAAGGATTTCCTAAGAGTTGCTGTAAACTTGAAGATTGTACTCCACAGAGAGATGCAGACAAAGTAAACAATGAAGGTTGTTTTATAAAGGTGATGACCATTATAGAGTCAGAAATGGGAGTCGTTGCAGGAATTTCCTTTGGAGTTGCTTGCTTCCAACTGATTGGAATCTTTCTCGCCTACTGCCTCTCTCGTGCCATAACAAATAACCAGTATGAGATAGTG\"\n      }\n    }\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fcmdcolin%2Fprotein_data_service","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fcmdcolin%2Fprotein_data_service","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fcmdcolin%2Fprotein_data_service/lists"}