2d:null 2e:["$","title",null,{"children":"GWAS Catalog | Jonas Almeida | Observable"}] 33:[] 31:{"id":"2f1a8a2332d9d9c0","slug":"gwas","title":"GWAS Catalog","thumbnail":"5ef2845d1cea1d5218e9dc6c5501eee27462dd3afcf6a4576fe20d02ee3422d7","access_level":"public","create_time":"$D2022-01-26T02:11:35.491Z","update_time":"$D2023-03-08T17:41:04.849Z","view_time":null,"first_public_time":"$D2022-01-26T02:11:43.502Z","fork":false,"stars":0,"starred":false,"owner":{"type":"team","id":"0f2e596d5bd6ef6e","login":"episphere","name":"Jonas Almeida","avatar_url":"https://avatars-next.observableusercontent.com/3a0ff5abff6da0cdbd100da305ba323e12d43c8fcb7604275e6c72591db9dc69","tier":"starter_2024"},"version":175,"publish_version":null,"role":null,"authored":false,"authors":[{"type":"individual","id":"4355fe13cb71b11d","login":"episphere","name":"Jonas Almeida","avatar_url":"https://avatars-next.observableusercontent.com/3a0ff5abff6da0cdbd100da305ba323e12d43c8fcb7604275e6c72591db9dc69","tier":null}],"members":[{"type":"individual","id":"4355fe13cb71b11d","login":"episphere","name":"Jonas Almeida","avatar_url":"https://avatars-next.observableusercontent.com/3a0ff5abff6da0cdbd100da305ba323e12d43c8fcb7604275e6c72591db9dc69","tier":null,"role":"editor"}],"comments":[],"custom_thumbnail":false,"trashed":false,"lapsed":null,"subscribed":null,"forks":0,"collection":null,"type":"notebook","body":{"title":"GWAS Catalog","cells":[{"id":0,"value":"# GWAS Catalog\n","pinned":false,"hidden":false,"mode":"md","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":7,"value":"

Information and reference

\nSee Clou4Bio Hackathon for paper report and workshop material.\n\n

API: https://www.ebi.ac.uk/gwas/docs/api.\n

GWAS Catalog: https://www.ebi.ac.uk/gwas/home.

GWAS.uk

...

","pinned":false,"hidden":false,"mode":"html","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":39,"value":"## API","pinned":false,"hidden":false,"mode":"md","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":43,"value":"List of API endpoints: https://www.ebi.ac.uk/gwas/rest/api","pinned":false,"hidden":false,"mode":"md","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":48,"value":"endPoints = (await fetch(\"https://www.ebi.ac.uk/gwas/rest/api\")).json()","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":106,"value":"Plotly = require(\"https://cdn.plot.ly/plotly-2.8.3.min.js\")","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":72,"value":"

GWAS Studies

https://www.ebi.ac.uk/gwas/rest/api/studies{?page,size,sort,projection}

","pinned":false,"hidden":false,"mode":"md","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":65,"value":"studies = (\n await fetch(\"https://www.ebi.ac.uk/gwas/rest/api/studies?page=0&size=300\")\n).json()","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":114,"value":"studyTimeSizePlot = {\n let div = DOM.element(\"div\");\n let trace = {\n x: studies._embedded.studies.map(\n (d) => new Date(d.publicationInfo.publicationDate)\n ),\n y: studies._embedded.studies.map((d) => d.snpCount),\n mode: \"markers\",\n type: \"scatter\",\n text: studies._embedded.studies.map(\n (d) => `Accession ID ${d.accessionId}:
${d.initialSampleSize}`\n )\n };\n Plotly.newPlot(div, [trace], {\n title: \"SNPs per study publication date\",\n yaxis: {\n type: \"log\",\n autorange: true\n }\n });\n return div;\n}","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":158,"value":"## Notes","pinned":true,"hidden":false,"mode":"md","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":159,"value":"* https://www.ebi.ac.uk/gwas/home \n* https://www.ebi.ac.uk/gwas/docs/api \n* https://www.ebi.ac.uk/gwas/downloads <-- note RDF and OWL ...\n* check what is called by https://www.ebi.ac.uk/gwas/search?query=rs7329174 \n* or by https://www.ebi.ac.uk/gwas/studies/GCST001969\n* and by https://www.ebi.ac.uk/gwas/search?query=6:16000000-25000000\n* FTP : ftp://ftp.ebi.ac.uk/pub/databases/gwas/summary_statistics/ \n* Note parelelism with pgs: http://ftp.ebi.ac.uk/pub/databases/gwas/summary_statistics, check for example, http://ftp.ebi.ac.uk/pub/databases/gwas/summary_statistics/Ahola-OlliAV_27989323_GCST004420 \n* https://observablehq.com/@episphere/gwas, compare with the sister EBI risk resource; https://observablehq.com/@episphere/pgs ","pinned":false,"hidden":false,"mode":"md","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"}],"files":"$W33","stdlib":"1","titling":"auto"}} 32:"$31:body"