Publication Supplements

Click the paper title or document link below to download supplemental materials.

2020

• A SARS-CoV-2 vaccine candidate would likely match all currently circulating variants
  • Dataset S1 ‘GISAID_acknowledgement_table_20200518.xls’ (separate file)
    • This file provides information pertaining to the sequences used in the study, including the accession numbers along with details on the originating and submitting laboratories.
  • Dataset S2. ‘Ancestral.SequenceAlignment’ (separate file)
    • This file consists of the alignment of the ancestral and consensus sequences computationally derived in this study.
  • ​Dataset S3 ‘HammingDistance’ (separate file)
    • ​Code to calculate Hamming distances across a set of sequences.
  • ​Dataset S4. ‘eta_over_time.R’ (separate file)
    • ​Code to estimate η across phylogenies.​
• Randomized, Double Blind Evaluation of Different One-Year Boosts after ALVAC-HIV (vCP1521) and gp120 B/E (AIDSVAX® B/E) Prime-Boost Regimen in HIV-uninfected Thai Adults  (.zip file)

2019

• The breadth of HIV-1 neutralizing antibodies depends on the conservation of key sites in their epitopes  (65MB .tbz file)
• A non-parametric analytic framework for within-host viral phylogenies and a test for HIV-1 founder multiplicity  (.R file)
• Molecular dating and viral load growth rates suggested that the eclipse phase lasted about a week in HIV-1 infected adults in East Africa and Thailand. (.zip file)