From 764c63449d72d2121c84eaeeadeb417c0aac3313 Mon Sep 17 00:00:00 2001 From: Nalika Palayoor Date: Tue, 14 Jan 2025 12:31:57 -0500 Subject: [PATCH] Add prefix: absd (#1362) This pull request curates a new prefix `absd`, which is a standardized collection of non-redundant antibody sequences. This PR adds necessary metadata to `bioregistry.json` and adds the curated paper to `currated_papers.tsv` https://pubmed.ncbi.nlm.nih.gov/39703430/ --------- Co-authored-by: Ben Gyori --- src/bioregistry/data/bioregistry.json | 35 +++++++++++++++++++++++++ src/bioregistry/data/curated_papers.tsv | 1 + 2 files changed, 36 insertions(+) diff --git a/src/bioregistry/data/bioregistry.json b/src/bioregistry/data/bioregistry.json index 6e38d6bae..b07547cd8 100644 --- a/src/bioregistry/data/bioregistry.json +++ b/src/bioregistry/data/bioregistry.json @@ -661,6 +661,41 @@ "database": "Q111134507" } }, + "absd": { + "contact": { + "email": "nicolas.maillet@pasteur.fr", + "name": "Nicolas Maillet", + "orcid": "0000-0003-1611-5243" + }, + "contributor": { + "email": "palayoor.n@northeastern.edu", + "github": "nalikapalayoor", + "name": "Nalika Palayoor", + "orcid": "0009-0008-8406-631X" + }, + "description": "The AntiBody Sequence Database is a public dataset for antibody sequence data. It provides unique identifiers for antibody sequences, including both immunoglobulin and single-chain variable fragment sequences. These are are critical for immunological studies, and allows users to search and retrieve antibody sequences based on sequence similarity and specificity, and other biological properties.", + "example": "81d0ea69a9ab134f6ba68314e982171a367d3ab739c85c5ba49701dd02170ed3", + "github_request_issue": 1362, + "homepage": "https://absd.pasteur.cloud", + "name": "AntiBody Sequence Database", + "pattern": "^[a-f0-9]{64}$", + "publications": [ + { + "doi": "10.1093/nargab/lqae171", + "pmc": "PMC11655285", + "pubmed": "39703430", + "title": "AntiBody Sequence Database", + "year": 2024 + } + ], + "reviewer": { + "email": "b.gyori@northeastern.edu", + "github": "bgyori", + "name": "Benjamin M. Gyori", + "orcid": "0000-0001-9439-5346" + }, + "uri_format": "https://absd.pasteur.cloud/antibody/$1" + }, "ac": { "contributor": { "email": "cthoyt@gmail.com", diff --git a/src/bioregistry/data/curated_papers.tsv b/src/bioregistry/data/curated_papers.tsv index 448d8cc2d..4908dceeb 100644 --- a/src/bioregistry/data/curated_papers.tsv +++ b/src/bioregistry/data/curated_papers.tsv @@ -136,5 +136,6 @@ pubmed relevant orcid date_curated relevancy_type pr_added notes 39687250 0 0009-0008-8406-631X 2025-01-07 irrelevant_other 1351 39687760 0 0009-0008-8406-631X 2025-01-10 non_resource_paper 1351 39703015 0 0009-0008-8406-631X 2025-01-07 irrelevant_other 1351 +39703430 1 0009-0008-8406-631X 2025-1-10 new_prefix 1362 39719062 0 0009-0008-8406-631X 2025-01-07 not_identifiers_resource 1351 39732706 0 0009-0008-8406-631X 2025-01-10 not_identifiers_resource 1351