Source Name	Comment [Sample_description]	Comment [Sample_source_name]	Comment [Sample_title]	Characteristics [Organism]	Term Source REF	Term Accession Number	Characteristics [cell type]	Characteristics [infection]	Characteristics [time days post-infection]	Protocol REF	Term Source REF	Protocol REF	Term Source REF	Protocol REF	Term Source REF	Extract Name	Material Type	Protocol REF	Term Source REF	Labeled Extract Name	Label	Protocol REF	Term Source REF	Assay Name	Array Design REF	Term Source REF	Technology Type	Protocol REF	Term Source REF	Protocol REF	Term Source REF	Array Data File	Comment [ArrayExpress FTP file]	Protocol REF	Term Source REF	Normalization Name	Derived Array Data File	Comment [Derived ArrayExpress FTP file]	FactorValue [INFECTION]	FactorValue [TIME DAYS POST-INFECTION]
GSM1048973 1	Infected vs. control at day 16 Infected vs. control dye Swap at day 16 US45102989_13730770_S01_crop_Exiqon_KBB3.txt: CD16_Hy3vsCDH16_Hy5 US45102989_13730771_S01_crop_Exiqon_KBB3.txt: CDH16_Hy3vsCD16_Hy5	CD16	CD16 vs CDH16 (dye swap reps)	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	CD4+CD8- cells from pooled plasma	untreated	16	P-GSE42737-2	ArrayExpress	P-GSE42737-3	ArrayExpress	P-GSE42737-4	ArrayExpress	GSM1048973 extract 1	total RNA	P-GSE42737-5	ArrayExpress	GSM1048973 LE 1	Hy3, Hy5	P-GSE42737-6	ArrayExpress	GSM1048973	A-MEXP-1501	ArrayExpress	hybridization	P-GSE42737-7	ArrayExpress	P-GSE42737-8	ArrayExpress	GSM1048973_US45102989_13730771_S01_crop_Exiqon_KBB3.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.raw.1.zip	P-GSE42737-1	ArrayExpress	GSM1048973_sample_table.txt norm	GSM1048973_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.processed.1.zip	untreated	16
GSM1048973 1	Infected vs. control at day 16 Infected vs. control dye Swap at day 16 US45102989_13730770_S01_crop_Exiqon_KBB3.txt: CD16_Hy3vsCDH16_Hy5 US45102989_13730771_S01_crop_Exiqon_KBB3.txt: CDH16_Hy3vsCD16_Hy5	CD16	CD16 vs CDH16 (dye swap reps)	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	CD4+CD8- cells from pooled plasma	untreated	16	P-GSE42737-2	ArrayExpress	P-GSE42737-3	ArrayExpress	P-GSE42737-4	ArrayExpress	GSM1048973 extract 1	total RNA	P-GSE42737-5	ArrayExpress	GSM1048973 LE 1	Hy3, Hy5	P-GSE42737-6	ArrayExpress	GSM1048973	A-MEXP-1501	ArrayExpress	hybridization	P-GSE42737-7	ArrayExpress	P-GSE42737-8	ArrayExpress	GSM1048973_US45102989_13730770_S01_crop_Exiqon_KBB3.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.raw.1.zip	P-GSE42737-1	ArrayExpress	GSM1048973_sample_table.txt norm	GSM1048973_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.processed.1.zip	untreated	16
GSM1048973 2	Infected vs. control at day 16 Infected vs. control dye Swap at day 16 US45102989_13730770_S01_crop_Exiqon_KBB3.txt: CD16_Hy3vsCDH16_Hy5 US45102989_13730771_S01_crop_Exiqon_KBB3.txt: CDH16_Hy3vsCD16_Hy5	CDH16	CD16 vs CDH16 (dye swap reps)	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	CD4+CD8- cells from pooled plasma	HIV1 infected	16	P-GSE42737-2	ArrayExpress	P-GSE42737-3	ArrayExpress	P-GSE42737-4	ArrayExpress	GSM1048973 extract 2	total RNA	P-GSE42737-5	ArrayExpress	GSM1048973 LE 2	Hy3, Hy5	P-GSE42737-6	ArrayExpress	GSM1048973	A-MEXP-1501	ArrayExpress	hybridization	P-GSE42737-7	ArrayExpress	P-GSE42737-8	ArrayExpress	GSM1048973_US45102989_13730771_S01_crop_Exiqon_KBB3.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.raw.1.zip	P-GSE42737-1	ArrayExpress	GSM1048973_sample_table.txt norm	GSM1048973_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.processed.1.zip	HIV1 infected	16
GSM1048973 2	Infected vs. control at day 16 Infected vs. control dye Swap at day 16 US45102989_13730770_S01_crop_Exiqon_KBB3.txt: CD16_Hy3vsCDH16_Hy5 US45102989_13730771_S01_crop_Exiqon_KBB3.txt: CDH16_Hy3vsCD16_Hy5	CDH16	CD16 vs CDH16 (dye swap reps)	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	CD4+CD8- cells from pooled plasma	HIV1 infected	16	P-GSE42737-2	ArrayExpress	P-GSE42737-3	ArrayExpress	P-GSE42737-4	ArrayExpress	GSM1048973 extract 2	total RNA	P-GSE42737-5	ArrayExpress	GSM1048973 LE 2	Hy3, Hy5	P-GSE42737-6	ArrayExpress	GSM1048973	A-MEXP-1501	ArrayExpress	hybridization	P-GSE42737-7	ArrayExpress	P-GSE42737-8	ArrayExpress	GSM1048973_US45102989_13730770_S01_crop_Exiqon_KBB3.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.raw.1.zip	P-GSE42737-1	ArrayExpress	GSM1048973_sample_table.txt norm	GSM1048973_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.processed.1.zip	HIV1 infected	16
GSM1048972 2	Infected vs. control at day 15	CDH15	CD15 vs CDH15	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	CD4+CD8- cells from pooled plasma	HIV1 infected	15	P-GSE42737-2	ArrayExpress	P-GSE42737-3	ArrayExpress	P-GSE42737-4	ArrayExpress	GSM1048972 extract 2	total RNA	P-GSE42737-5	ArrayExpress	GSM1048972 LE 2	Hy5	P-GSE42737-6	ArrayExpress	GSM1048972	A-MEXP-1501	ArrayExpress	hybridization	P-GSE42737-7	ArrayExpress	P-GSE42737-8	ArrayExpress	GSM1048972_US45102989_13741765_CD15-vs-CDH15_crop_Exiqon_KBB3.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.raw.1.zip	P-GSE42737-1	ArrayExpress	GSM1048972_sample_table.txt norm	GSM1048972_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.processed.1.zip	HIV1 infected	15
GSM1048972 1	Infected vs. control at day 15	CD15	CD15 vs CDH15	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	CD4+CD8- cells from pooled plasma	untreated	15	P-GSE42737-2	ArrayExpress	P-GSE42737-3	ArrayExpress	P-GSE42737-4	ArrayExpress	GSM1048972 extract 1	total RNA	P-GSE42737-5	ArrayExpress	GSM1048972 LE 1	Hy3	P-GSE42737-6	ArrayExpress	GSM1048972	A-MEXP-1501	ArrayExpress	hybridization	P-GSE42737-7	ArrayExpress	P-GSE42737-8	ArrayExpress	GSM1048972_US45102989_13741765_CD15-vs-CDH15_crop_Exiqon_KBB3.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.raw.1.zip	P-GSE42737-1	ArrayExpress	GSM1048972_sample_table.txt norm	GSM1048972_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.processed.1.zip	untreated	15
GSM1048971 2	Infected vs. control at day 12	CDH12	CD12 vs CDH12	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	CD4+CD8- cells from pooled plasma	HIV1 infected	12	P-GSE42737-2	ArrayExpress	P-GSE42737-3	ArrayExpress	P-GSE42737-4	ArrayExpress	GSM1048971 extract 2	total RNA	P-GSE42737-5	ArrayExpress	GSM1048971 LE 2	Hy5	P-GSE42737-6	ArrayExpress	GSM1048971	A-MEXP-1501	ArrayExpress	hybridization	P-GSE42737-7	ArrayExpress	P-GSE42737-8	ArrayExpress	GSM1048971_US45102989_13741764_CD12-vs-CDH12_crop_Exiqon_KBB3.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.raw.1.zip	P-GSE42737-1	ArrayExpress	GSM1048971_sample_table.txt norm	GSM1048971_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.processed.1.zip	HIV1 infected	12
GSM1048971 1	Infected vs. control at day 12	CD12	CD12 vs CDH12	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	CD4+CD8- cells from pooled plasma	untreated	12	P-GSE42737-2	ArrayExpress	P-GSE42737-3	ArrayExpress	P-GSE42737-4	ArrayExpress	GSM1048971 extract 1	total RNA	P-GSE42737-5	ArrayExpress	GSM1048971 LE 1	Hy3	P-GSE42737-6	ArrayExpress	GSM1048971	A-MEXP-1501	ArrayExpress	hybridization	P-GSE42737-7	ArrayExpress	P-GSE42737-8	ArrayExpress	GSM1048971_US45102989_13741764_CD12-vs-CDH12_crop_Exiqon_KBB3.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.raw.1.zip	P-GSE42737-1	ArrayExpress	GSM1048971_sample_table.txt norm	GSM1048971_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.processed.1.zip	untreated	12
GSM1048970 2	Infected vs. control at day 10 Infected vs. control dye swap at day 10 US45102989_13730768_crop_Exiqon_KBB3.txt: CD10_Hy3vsCDH10_Hy5 US45102989_13730769_S01_Cropped_Exiqon_KBB3.txt: CDH10_Hy3vsCD10_Hy5	CDH10	CD10 vs CDH10 (dye swap reps)	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	CD4+CD8- cells from pooled plasma	HIV1 infected	10	P-GSE42737-2	ArrayExpress	P-GSE42737-3	ArrayExpress	P-GSE42737-4	ArrayExpress	GSM1048970 extract 2	total RNA	P-GSE42737-5	ArrayExpress	GSM1048970 LE 2	Hy3, Hy5	P-GSE42737-6	ArrayExpress	GSM1048970	A-MEXP-1501	ArrayExpress	hybridization	P-GSE42737-7	ArrayExpress	P-GSE42737-8	ArrayExpress	GSM1048970_US45102989_13730769_S01_Cropped_Exiqon_KBB3.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.raw.1.zip	P-GSE42737-1	ArrayExpress	GSM1048970_sample_table.txt norm	GSM1048970_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.processed.1.zip	HIV1 infected	10
GSM1048970 2	Infected vs. control at day 10 Infected vs. control dye swap at day 10 US45102989_13730768_crop_Exiqon_KBB3.txt: CD10_Hy3vsCDH10_Hy5 US45102989_13730769_S01_Cropped_Exiqon_KBB3.txt: CDH10_Hy3vsCD10_Hy5	CDH10	CD10 vs CDH10 (dye swap reps)	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	CD4+CD8- cells from pooled plasma	HIV1 infected	10	P-GSE42737-2	ArrayExpress	P-GSE42737-3	ArrayExpress	P-GSE42737-4	ArrayExpress	GSM1048970 extract 2	total RNA	P-GSE42737-5	ArrayExpress	GSM1048970 LE 2	Hy3, Hy5	P-GSE42737-6	ArrayExpress	GSM1048970	A-MEXP-1501	ArrayExpress	hybridization	P-GSE42737-7	ArrayExpress	P-GSE42737-8	ArrayExpress	GSM1048970_US45102989_13730768_crop_Exiqon_KBB3.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.raw.1.zip	P-GSE42737-1	ArrayExpress	GSM1048970_sample_table.txt norm	GSM1048970_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.processed.1.zip	HIV1 infected	10
GSM1048970 1	Infected vs. control at day 10 Infected vs. control dye swap at day 10 US45102989_13730768_crop_Exiqon_KBB3.txt: CD10_Hy3vsCDH10_Hy5 US45102989_13730769_S01_Cropped_Exiqon_KBB3.txt: CDH10_Hy3vsCD10_Hy5	CD10	CD10 vs CDH10 (dye swap reps)	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	CD4+CD8- cells from pooled plasma	untreated	10	P-GSE42737-2	ArrayExpress	P-GSE42737-3	ArrayExpress	P-GSE42737-4	ArrayExpress	GSM1048970 extract 1	total RNA	P-GSE42737-5	ArrayExpress	GSM1048970 LE 1	Hy3, Hy5	P-GSE42737-6	ArrayExpress	GSM1048970	A-MEXP-1501	ArrayExpress	hybridization	P-GSE42737-7	ArrayExpress	P-GSE42737-8	ArrayExpress	GSM1048970_US45102989_13730769_S01_Cropped_Exiqon_KBB3.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.raw.1.zip	P-GSE42737-1	ArrayExpress	GSM1048970_sample_table.txt norm	GSM1048970_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.processed.1.zip	untreated	10
GSM1048970 1	Infected vs. control at day 10 Infected vs. control dye swap at day 10 US45102989_13730768_crop_Exiqon_KBB3.txt: CD10_Hy3vsCDH10_Hy5 US45102989_13730769_S01_Cropped_Exiqon_KBB3.txt: CDH10_Hy3vsCD10_Hy5	CD10	CD10 vs CDH10 (dye swap reps)	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	CD4+CD8- cells from pooled plasma	untreated	10	P-GSE42737-2	ArrayExpress	P-GSE42737-3	ArrayExpress	P-GSE42737-4	ArrayExpress	GSM1048970 extract 1	total RNA	P-GSE42737-5	ArrayExpress	GSM1048970 LE 1	Hy3, Hy5	P-GSE42737-6	ArrayExpress	GSM1048970	A-MEXP-1501	ArrayExpress	hybridization	P-GSE42737-7	ArrayExpress	P-GSE42737-8	ArrayExpress	GSM1048970_US45102989_13730768_crop_Exiqon_KBB3.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.raw.1.zip	P-GSE42737-1	ArrayExpress	GSM1048970_sample_table.txt norm	GSM1048970_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.processed.1.zip	untreated	10
GSM1048969 2	Infected vs. control at day 3	CDH3	CD3 vs CDH3	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	CD4+CD8- cells from pooled plasma	HIV1 infected	3	P-GSE42737-2	ArrayExpress	P-GSE42737-3	ArrayExpress	P-GSE42737-4	ArrayExpress	GSM1048969 extract 2	total RNA	P-GSE42737-5	ArrayExpress	GSM1048969 LE 2	Hy5	P-GSE42737-6	ArrayExpress	GSM1048969	A-MEXP-1501	ArrayExpress	hybridization	P-GSE42737-7	ArrayExpress	P-GSE42737-8	ArrayExpress	GSM1048969_US45102989_13741763_CD3-vs_CDH3_crop_Exiqon_KBB3.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.raw.1.zip	P-GSE42737-1	ArrayExpress	GSM1048969_sample_table.txt norm	GSM1048969_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.processed.1.zip	HIV1 infected	3
GSM1048969 1	Infected vs. control at day 3	CD3	CD3 vs CDH3	Homo sapiens	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_9606	CD4+CD8- cells from pooled plasma	untreated	3	P-GSE42737-2	ArrayExpress	P-GSE42737-3	ArrayExpress	P-GSE42737-4	ArrayExpress	GSM1048969 extract 1	total RNA	P-GSE42737-5	ArrayExpress	GSM1048969 LE 1	Hy3	P-GSE42737-6	ArrayExpress	GSM1048969	A-MEXP-1501	ArrayExpress	hybridization	P-GSE42737-7	ArrayExpress	P-GSE42737-8	ArrayExpress	GSM1048969_US45102989_13741763_CD3-vs_CDH3_crop_Exiqon_KBB3.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.raw.1.zip	P-GSE42737-1	ArrayExpress	GSM1048969_sample_table.txt norm	GSM1048969_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-42737/E-GEOD-42737.processed.1.zip	untreated	3