Author: Lamia Wahba; Nimit Jain; Andrew Z. Fire; Massa J. Shoura; Karen L. Artiles; Matthew J. McCoy; Dae-Eun Jeong
Title: Identification of a Pangolin Niche for a 2019-nCoV-like Coronavirus via an Extensive Meta-metagenomic Search Document date: 2020_2_14
ID: emr0eh0i_11
Snippet: All metagenomic datasets with the keyword "virome" in NCBI SRA as of January 2020 127 were selected for analysis in a process that required approximately 2 days each for 128 downloading and conversion to readable file formats and one day for searching by k-mer 129 match on a desktop workstation computer (i7 8-core). Together the datasets included showing no matched 32-mers to 2019-nCoV. Of the datasets with matched k-mers, one was 136 from an app.....
Document: All metagenomic datasets with the keyword "virome" in NCBI SRA as of January 2020 127 were selected for analysis in a process that required approximately 2 days each for 128 downloading and conversion to readable file formats and one day for searching by k-mer 129 match on a desktop workstation computer (i7 8-core). Together the datasets included showing no matched 32-mers to 2019-nCoV. Of the datasets with matched k-mers, one was 136 from an apparent synthetic mixture of viral sequences, while the remaining were all from 137 vertebrate animal sources. The matches were from five studies: two bat-focused studies (7, 138 8), one bird-focused study (9), one small-animal-and-rodent focused study (10), and a study 139 of pangolins (11) [ Table 1 ].
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