* There are all five tables(or files) in a dataset. * The date of genotype was used as a baseline and all the fields providing date information contain the number of weeks from the baseline. * This document was updated on 2005-03-30. * For any question, please email Soo-Yon Rhee (syrhee@stanford.edu). ----------------------------------------------------------------------------------------- TABLE RX.txt DESCRIPTION This file contains a list of regimens for each patient who enrolled the study. FIELD DESCRIPTION PtID -- a patient identifier Alias -- a patient name alias ExactDateUnknown -- "No" if the exact dates of start and stop of a regimen are known and the StartDate and StopDate columns contain the exact dates "Yes" if the exact dates of start and stop of a regimen are not known and StartDate and StopDate columns contain made-up dates DrugOrderUnknown -- "No" if the drugs in a regimen are known to be taken at the same time "Yes" if the combination of drugs taken at the same time or the order of drugs taken is not known StartDate -- date of start of a regimen (number of weeks from the baseline) StopDate -- date of stop of a regimen (number of weeks from the baseline) List of Drugs -- "1" if a regimen contains the corresponding drug or "0" otherwise. -- if the column 'PI', 'NRTI' or 'NNRTI' has a value '1', the patient had a drug in the corresponding ARV class but the name of drug is not known FORMAT Each field is delimited by a tab. ----------------------------------------------------------------------------------------- TABLE PR.txt DESCRIPTION This file contains a list of protease sequences that were obtained from patients who enrolled the study. FIELD DESCRIPTION PtID -- a patient identifier Alias -- a patient name alias IsolateDate -- date of genotype (the baseline) Subtype -- subtype information MutList -- a list of mutations (differences from Subtype B consensus amino acid sequence) List of positions (1 to 99) -- Amino acid at a position. '-' indicates consensus. '.' indicates no sequence. '*' indicates a stop codon. '#' indicates insertions. '~' indicates deletions. a letter indicates one letter Amino Acid substitution. 2 or more letters indicates mixtures at this position. FORMAT Each field is delimited by a tab. ----------------------------------------------------------------------------------------- TABLE RT.txt DESCRIPTION This file contains a list of RT sequences that were obtained from patients who enrolled the study. FIELD DESCRIPTION Alias -- a patient name alias IsolateDate -- date of genotype (the baseline) Subtype -- subtype information MutList -- a list of mutations (differences from Subtype B consensus amino acid sequence) List of positions (1 to 240) -- Amino acid at a position. '-' indicates consensus. '.' indicates no sequence. '*' indicates a stop codon. '#' indicates insertions. '~' indicates deletions. one of more letters indicate a Amino Acid substitution or mixtures. FORMAT Each field is delimited by a tab. ----------------------------------------------------------------------------------------- TABLE RNA.txt DESCRIPTION This file contains a list of plasma HIV RNA levels that were measured on patients who enrolled the study. FIELD DESCRIPTION PtID -- a patient identifier RNADate -- date of measurement (number of weeks from the baseline) VLoad -- plasma HIV RNA levels in a log-transformed value(copies/ml) VLoadMatch -- '<' if the VLoad is less than the lower limit of detection for the assay used '=' otherwise. FORMAT Each field is delimited by a tab. ----------------------------------------------------------------------------------------- TABLE CD4.txt DESCRIPTION This file contains a list of CD4 counts that were measured on patients who who enrolled the study. FIELD DESCRIPTION PtID -- a patient identifier CD4Date -- date of measurement (number of weeks from the baseline) CD4Count -- number of CD4 cells (cells/ml) FORMAT Each field is delimited by a tab. -----------------------------------------------------------------------------------------