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ahmedmagds/GNUVID: GNUVID v1.3: Globally circulating clonal complexes as of 2020-07-17

Ahmed M Moustafa


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{
  "publisher": "Zenodo", 
  "DOI": "10.5281/zenodo.3966904", 
  "title": "ahmedmagds/GNUVID: GNUVID v1.3: Globally circulating clonal complexes as of 2020-07-17", 
  "issued": {
    "date-parts": [
      [
        2020, 
        7, 
        30
      ]
    ]
  }, 
  "abstract": "Summary\n<ul>\n<li><p>25594 GISAID sequences have been included in this analysis.</p>\n</li>\n<li><p>GNUVID compressed the 255940 ORFs in the 25594 genomes to 15025 unique alleles.</p>\n</li>\n<li><p>13688 Sequence Types (STs) have been assigned in this dataset and were clustered in 59 clonal complexes (CCs).</p>\n</li>\n<li><p>14 new CCs have been assigned.</p>\n</li>\n<li><p>42 CCs have been Inactive (i.e. Last time seen more than 1 month before 2020-07-17).</p>\n</li>\n<li><p>12 CCs have gone Quiet (i.e. Last seen 2-4 weeks before 2020-07-17).</p>\n</li>\n<li><p>5 CCs have been Active (i.e. Last seen within the 2 weeks before 2020-07-17).</p>\n</li>\n<li><p>CC70, CC26, CC343, CC927 and CC1434 have now been called CC550, CC750, CC9999, CC1179 and CC2175 respectively.</p>\n</li>\n<li><p>Starting from the DB update (07/17/2020), <strong>the nine defining SNPs (C241,C3037,A23403,C8782,G11083,G25563,G26144,T28144,G28882)</strong> for the six GISAID clades are reported for each CC for easier correlation between the two systems.</p>\n</li>\n</ul>", 
  "author": [
    {
      "family": "Ahmed M Moustafa"
    }
  ], 
  "version": "v1.3", 
  "type": "article", 
  "id": "3966904"
}
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