Software Open Access

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

Ahmed M Moustafa


MARC21 XML Export

<?xml version='1.0' encoding='UTF-8'?>
<record xmlns="http://www.loc.gov/MARC21/slim">
  <leader>00000nmm##2200000uu#4500</leader>
  <controlfield tag="005">20200730125925.0</controlfield>
  <controlfield tag="001">3966904</controlfield>
  <datafield tag="856" ind1="4" ind2=" ">
    <subfield code="s">45949459</subfield>
    <subfield code="z">md5:0aae47e6525a5967d03f47c4c545601e</subfield>
    <subfield code="u">https://zenodo.org/record/3966904/files/ahmedmagds/GNUVID-v1.3.zip</subfield>
  </datafield>
  <datafield tag="542" ind1=" " ind2=" ">
    <subfield code="l">open</subfield>
  </datafield>
  <datafield tag="260" ind1=" " ind2=" ">
    <subfield code="c">2020-07-30</subfield>
  </datafield>
  <datafield tag="909" ind1="C" ind2="O">
    <subfield code="p">software</subfield>
    <subfield code="p">user-covid-19</subfield>
    <subfield code="p">user-zenodo</subfield>
    <subfield code="o">oai:zenodo.org:3966904</subfield>
  </datafield>
  <datafield tag="100" ind1=" " ind2=" ">
    <subfield code="u">Children's Hospital of Philadelphia</subfield>
    <subfield code="a">Ahmed M Moustafa</subfield>
  </datafield>
  <datafield tag="245" ind1=" " ind2=" ">
    <subfield code="a">ahmedmagds/GNUVID: GNUVID v1.3: Globally circulating clonal complexes as of 2020-07-17</subfield>
  </datafield>
  <datafield tag="980" ind1=" " ind2=" ">
    <subfield code="a">user-covid-19</subfield>
  </datafield>
  <datafield tag="980" ind1=" " ind2=" ">
    <subfield code="a">user-zenodo</subfield>
  </datafield>
  <datafield tag="540" ind1=" " ind2=" ">
    <subfield code="a">Other (Open)</subfield>
  </datafield>
  <datafield tag="650" ind1="1" ind2="7">
    <subfield code="a">cc-by</subfield>
    <subfield code="2">opendefinition.org</subfield>
  </datafield>
  <datafield tag="520" ind1=" " ind2=" ">
    <subfield code="a">Summary
&lt;ul&gt;
&lt;li&gt;&lt;p&gt;25594 GISAID sequences have been included in this analysis.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;&lt;p&gt;GNUVID compressed the 255940 ORFs in the 25594 genomes to 15025 unique alleles.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;&lt;p&gt;13688 Sequence Types (STs) have been assigned in this dataset and were clustered in 59 clonal complexes (CCs).&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;&lt;p&gt;14 new CCs have been assigned.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;&lt;p&gt;42 CCs have been Inactive (i.e. Last time seen more than 1 month before 2020-07-17).&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;&lt;p&gt;12 CCs have gone Quiet (i.e. Last seen 2-4 weeks before 2020-07-17).&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;&lt;p&gt;5 CCs have been Active (i.e. Last seen within the 2 weeks before 2020-07-17).&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;&lt;p&gt;CC70, CC26, CC343, CC927 and CC1434 have now been called CC550, CC750, CC9999, CC1179 and CC2175 respectively.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;&lt;p&gt;Starting from the DB update (07/17/2020), &lt;strong&gt;the nine defining SNPs (C241,C3037,A23403,C8782,G11083,G25563,G26144,T28144,G28882)&lt;/strong&gt; for the six GISAID clades are reported for each CC for easier correlation between the two systems.&lt;/p&gt;
&lt;/li&gt;
&lt;/ul&gt;</subfield>
  </datafield>
  <datafield tag="773" ind1=" " ind2=" ">
    <subfield code="n">url</subfield>
    <subfield code="i">isSupplementTo</subfield>
    <subfield code="a">https://github.com/ahmedmagds/GNUVID/tree/v1.3</subfield>
  </datafield>
  <datafield tag="773" ind1=" " ind2=" ">
    <subfield code="n">doi</subfield>
    <subfield code="i">isVersionOf</subfield>
    <subfield code="a">10.5281/zenodo.3927062</subfield>
  </datafield>
  <datafield tag="024" ind1=" " ind2=" ">
    <subfield code="a">10.5281/zenodo.3966904</subfield>
    <subfield code="2">doi</subfield>
  </datafield>
  <datafield tag="980" ind1=" " ind2=" ">
    <subfield code="a">software</subfield>
  </datafield>
</record>
390
18
views
downloads
All versions This version
Views 390161
Downloads 184
Data volume 563.6 MB183.8 MB
Unique views 334151
Unique downloads 164

Share

Cite as