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New prefix: mirgenedb #1393

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merged 6 commits into from
Feb 7, 2025
Merged

New prefix: mirgenedb #1393

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5ffe90d
Added mirgenedb as new prefix
nalikapalayoor Jan 31, 2025
3909bfa
Add example and fix regex
nalikapalayoor Jan 31, 2025
2db963d
Fix PR number
nalikapalayoor Jan 31, 2025
e35603a
Update uri format and curate associated publications
nalikapalayoor Feb 1, 2025
56fb92e
Update pattern, ID, and take out irrelevant papers
nalikapalayoor Feb 7, 2025
85daca3
Add reviewer info
bgyori Feb 7, 2025
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50 changes: 50 additions & 0 deletions src/bioregistry/data/bioregistry.json
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Original file line number Diff line number Diff line change
Expand Up @@ -70498,6 +70498,56 @@
}
]
},
"mirgenedb": {
"contact": {
"email": "[email protected]",
"name": "Bastian Fromm",
"orcid": "0000-0003-0352-3037"
},
"contributor": {
"email": "[email protected]",
"github": "nalikapalayoor",
"name": "Nalika Palayoor",
"orcid": "0009-0008-8406-631X"
},
"description": "mircoRNA Gene Database is a collection of animal microRNA genes. This database allows researchers to analyze mircoRNA properties like secondary structure and features in a phylogenetic context.",
"example": "hsa/Let-7-P1b",
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"github_request_issue": 1393,
"homepage": "https://mirgenedb.org/",
"name": "microRNA Gene Database",
"pattern": "^[a-zA-Z0-9-]+-[a-zA-Z0-9-]+$",
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"publications": [
{
"doi": "10.1093/nar/gkae1094",
"pmc": "PMC11701709",
"pubmed": "39673268",
"title": "MirGeneDB 3.0: improved taxonomic sampling, uniform nomenclature of novel conserved microRNA families and updated covariance models",
"year": 2025
},
{
"doi": "10.1093/nar/gkab1101",
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"pmc": "PMC8728216",
"pubmed": "34850127",
"title": "MirGeneDB 2.1: toward a complete sampling of all major animal phyla",
"year": 2022
},
{
"doi": "10.1093/nar/gkz885",
"pmc": "PMC6943042",
"pubmed": "31598695",
"title": "MirGeneDB 2.0: the metazoan microRNA complement",
"year": 2020
},
{
"doi": "10.1146/annurev-genet-120213-092023",
"pmc": "PMC4743252",
"pubmed": "26473382",
"title": "A Uniform System for the Annotation of Vertebrate microRNA Genes and the Evolution of the Human microRNAome",
"year": 2015
}
],
"uri_format": "https://mirgenedb.org/browse?qtype=mgid&org=ALL&query=$1"
},
"miriam": {
"edam": {
"description": "Unique identifier of a MIRIAM data resource.",
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4 changes: 4 additions & 0 deletions src/bioregistry/data/curated_papers.tsv
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Original file line number Diff line number Diff line change
@@ -1,4 +1,7 @@
pubmed relevant orcid date_curated relevancy_type pr_added notes
26473382 1 0009-0008-8406-631X 2025-2-1 new_publication 1394 Publication for mirgenedb
31598695 1 0009-0008-8406-631X 2025-2-1 new_publication 1394 Publication for mirgenedb
34850127 1 0009-0008-8406-631X 2025-2-1 new_publication 1394 Publication for mirgenedb
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38991828 0 0009-0009-5240-7463 2024-09-28 irrelevant_other 1193
38991851 1 0009-0009-5240-7463 2024-09-28 unclear 1193 identifiers for sharing, retrieving, and validating sample metadata. Unclear if this should be curated as a prefix, provider or a separate registry
39005357 0 0009-0009-5240-7463 2024-10-05 irrelevant_other 1193
Expand Down Expand Up @@ -143,6 +146,7 @@ pubmed relevant orcid date_curated relevancy_type pr_added notes
39661723 1 0009-0008-8406-631X 2025-01-21 new_prefix 1374
39670819 0 0009-0008-8406-631X 2025-01-10 irrelevant_other 1351
39672676 0 0009-0008-8406-631X 2025-01-14 irrelevant_other 1364
39673268 1 0009-0008-8406-631X 2025-01-10 new_prefix 1394
39674175 0 0009-0008-8406-631X 2025-01-21 irrelevant_other 1372
39677843 0 0009-0008-8406-631X 2025-01-21 irrelevant_other 1372
39684768 0 0009-0008-8406-631X 2025-01-14 irrelevant_other 1364
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