Author: Austin Nguyen; Julianne K David; Sean K Maden; Mary A Wood; Benjamin R Weeder; Abhinav Nellore; Reid F Thompson
Title: Human leukocyte antigen susceptibility map for SARS-CoV-2 Document date: 2020_3_26
ID: k3y8tpps_23
Snippet: Sequence retrieval and alignments Full polyprotein 1ab (ORF1ab), spike (S) protein, membrane (M) protein, envelope (E) protein, and nucleocapsid (N) protein sequences were obtained for each of 34 distinct but representative alpha and betacoronaviruses from a broad genus and subgenus distribution, including all known human coronaviruses (i.e. SARS-CoV, SARS-CoV-2, MERS-CoV, HKU1, OC43, NL63, and 229E). FASTA-formatted protein sequence data (full a.....
Document: Sequence retrieval and alignments Full polyprotein 1ab (ORF1ab), spike (S) protein, membrane (M) protein, envelope (E) protein, and nucleocapsid (N) protein sequences were obtained for each of 34 distinct but representative alpha and betacoronaviruses from a broad genus and subgenus distribution, including all known human coronaviruses (i.e. SARS-CoV, SARS-CoV-2, MERS-CoV, HKU1, OC43, NL63, and 229E). FASTA-formatted protein sequence data (full accession number list available in Supplementary (68) . For the purposes of estimating time of viral peptide production, we classified ORF1a and ORF1b peptides as "early" while all other peptides produced by subgenomic mRNAs were classified as "late" (69, 70) .
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