Source Name	Comment [Sample_description]	Comment [Sample_source_name]	Comment [Sample_title]	Characteristics [Organism]	Term Source REF	Term Accession Number	Characteristics [cell type]	Characteristics [genotype]	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	Hybridization Name	Array Design REF	Term Source REF	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]	Factor Value [cell type]	Factor Value[genotype]
GSM999200 1	Spleen and Lymph Node sorted cells	GFP+ CD4+ T cells from Foxp3GFPKO/WT mice	GFPKO_rep3	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	CD4-positive T cell	GFP-positive from Foxp3 GFPKO/WT mice	P-GSE40685-2	ArrayExpress	P-GSE40685-3	ArrayExpress	GSM999200 extract 1	total RNA	P-GSE40685-4	ArrayExpress	GSM999200 LE 1	biotin	P-GSE40685-5	ArrayExpress	GSM999200	A-AFFY-45	ArrayExpress	P-GSE40685-6	ArrayExpress	P-GSE40685-7	ArrayExpress	GSM999200_RS_KIKOhet3_Mouse430_2.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.raw.1.zip	P-GSE40685-1	ArrayExpress	GSM999200_sample_table.txt norm	GSM999200_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.processed.1.zip	CD4-positive T cell	GFP-positive from Foxp3 GFPKO/WT mice
GSM999199 1	Spleen and Lymph Node sorted cells	GFP+ CD4+ T cells from Foxp3GFPKO/WT mice	GFPKO_rep2	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	CD4-positive T cell	GFP-positive from Foxp3 GFPKO/WT mice	P-GSE40685-2	ArrayExpress	P-GSE40685-3	ArrayExpress	GSM999199 extract 1	total RNA	P-GSE40685-4	ArrayExpress	GSM999199 LE 1	biotin	P-GSE40685-5	ArrayExpress	GSM999199	A-AFFY-45	ArrayExpress	P-GSE40685-6	ArrayExpress	P-GSE40685-7	ArrayExpress	GSM999199_RS_KIKOhet2_Mouse430_2.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.raw.1.zip	P-GSE40685-1	ArrayExpress	GSM999199_sample_table.txt norm	GSM999199_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.processed.1.zip	CD4-positive T cell	GFP-positive from Foxp3 GFPKO/WT mice
GSM999198 1	Spleen and Lymph Node sorted cells	GFP+ CD4+ T cells from Foxp3GFPKO/WT mice	GFPKO_rep1	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	CD4-positive T cell	GFP-positive from Foxp3 GFPKO/WT mice	P-GSE40685-2	ArrayExpress	P-GSE40685-3	ArrayExpress	GSM999198 extract 1	total RNA	P-GSE40685-4	ArrayExpress	GSM999198 LE 1	biotin	P-GSE40685-5	ArrayExpress	GSM999198	A-AFFY-45	ArrayExpress	P-GSE40685-6	ArrayExpress	P-GSE40685-7	ArrayExpress	GSM999198_RS_KIKOhet1_Mouse430_2.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.raw.1.zip	P-GSE40685-1	ArrayExpress	GSM999198_sample_table.txt norm	GSM999198_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.processed.1.zip	CD4-positive T cell	GFP-positive from Foxp3 GFPKO/WT mice
GSM999197 1	Spleen and Lymph Node sorted cells	Foxp3-positive CD4+ T cells	Treg_rep5	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	CD4-positive  regulatory T cell	Foxp3-positive	P-GSE40685-2	ArrayExpress	P-GSE40685-3	ArrayExpress	GSM999197 extract 1	total RNA	P-GSE40685-4	ArrayExpress	GSM999197 LE 1	biotin	P-GSE40685-5	ArrayExpress	GSM999197	A-AFFY-45	ArrayExpress	P-GSE40685-6	ArrayExpress	P-GSE40685-7	ArrayExpress	GSM999197_RS_Rtreg5_Mouse430_2.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.raw.1.zip	P-GSE40685-1	ArrayExpress	GSM999197_sample_table.txt norm	GSM999197_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.processed.1.zip	CD4-positive  regulatory T cell	Foxp3-positive
GSM999196 1	Spleen and Lymph Node sorted cells	Foxp3-positive CD4+ T cells	Treg_rep4	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	CD4-positive  regulatory T cell	Foxp3-positive	P-GSE40685-2	ArrayExpress	P-GSE40685-3	ArrayExpress	GSM999196 extract 1	total RNA	P-GSE40685-4	ArrayExpress	GSM999196 LE 1	biotin	P-GSE40685-5	ArrayExpress	GSM999196	A-AFFY-45	ArrayExpress	P-GSE40685-6	ArrayExpress	P-GSE40685-7	ArrayExpress	GSM999196_RS_Rtreg4_Mouse430_2.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.raw.1.zip	P-GSE40685-1	ArrayExpress	GSM999196_sample_table.txt norm	GSM999196_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.processed.1.zip	CD4-positive  regulatory T cell	Foxp3-positive
GSM999195 1	Spleen and Lymph Node sorted cells	Foxp3-positive CD4+ T cells	Treg_rep3	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	CD4-positive  regulatory T cell	Foxp3-positive	P-GSE40685-2	ArrayExpress	P-GSE40685-3	ArrayExpress	GSM999195 extract 1	total RNA	P-GSE40685-4	ArrayExpress	GSM999195 LE 1	biotin	P-GSE40685-5	ArrayExpress	GSM999195	A-AFFY-45	ArrayExpress	P-GSE40685-6	ArrayExpress	P-GSE40685-7	ArrayExpress	GSM999195_RS_Rtreg3_Mouse430_2.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.raw.1.zip	P-GSE40685-1	ArrayExpress	GSM999195_sample_table.txt norm	GSM999195_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.processed.1.zip	CD4-positive  regulatory T cell	Foxp3-positive
GSM999194 1	Spleen and Lymph Node sorted cells	Foxp3-positive CD4+ T cells	Treg_rep2	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	CD4-positive  regulatory T cell	Foxp3-positive	P-GSE40685-2	ArrayExpress	P-GSE40685-3	ArrayExpress	GSM999194 extract 1	total RNA	P-GSE40685-4	ArrayExpress	GSM999194 LE 1	biotin	P-GSE40685-5	ArrayExpress	GSM999194	A-AFFY-45	ArrayExpress	P-GSE40685-6	ArrayExpress	P-GSE40685-7	ArrayExpress	GSM999194_RS_Rtreg2_Mouse430_2.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.raw.1.zip	P-GSE40685-1	ArrayExpress	GSM999194_sample_table.txt norm	GSM999194_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.processed.1.zip	CD4-positive  regulatory T cell	Foxp3-positive
GSM999193 1	Spleen and Lymph Node sorted cells	Foxp3-positive CD4+ T cells	Treg_rep1	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	CD4-positive  regulatory T cell	Foxp3-positive	P-GSE40685-2	ArrayExpress	P-GSE40685-3	ArrayExpress	GSM999193 extract 1	total RNA	P-GSE40685-4	ArrayExpress	GSM999193 LE 1	biotin	P-GSE40685-5	ArrayExpress	GSM999193	A-AFFY-45	ArrayExpress	P-GSE40685-6	ArrayExpress	P-GSE40685-7	ArrayExpress	GSM999193_RS_Rtreg1_Mouse430_2.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.raw.1.zip	P-GSE40685-1	ArrayExpress	GSM999193_sample_table.txt norm	GSM999193_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.processed.1.zip	CD4-positive  regulatory T cell	Foxp3-positive
GSM999192 1	Spleen and Lymph Node sorted cells	Na�ve Foxp3-negative CD4+ T cells	TN_rep3	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	naive CD4-positive T cell	Foxp3-negative	P-GSE40685-2	ArrayExpress	P-GSE40685-3	ArrayExpress	GSM999192 extract 1	total RNA	P-GSE40685-4	ArrayExpress	GSM999192 LE 1	biotin	P-GSE40685-5	ArrayExpress	GSM999192	A-AFFY-45	ArrayExpress	P-GSE40685-6	ArrayExpress	P-GSE40685-7	ArrayExpress	GSM999192_RS_RTn3_Mouse430_2.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.raw.1.zip	P-GSE40685-1	ArrayExpress	GSM999192_sample_table.txt norm	GSM999192_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.processed.1.zip	naive CD4-positive T cell	Foxp3-negative
GSM999191 1	Spleen and Lymph Node sorted cells	Na�ve Foxp3-negative CD4+ T cells	TN_rep2	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	naive CD4-positive T cell	Foxp3-negative	P-GSE40685-2	ArrayExpress	P-GSE40685-3	ArrayExpress	GSM999191 extract 1	total RNA	P-GSE40685-4	ArrayExpress	GSM999191 LE 1	biotin	P-GSE40685-5	ArrayExpress	GSM999191	A-AFFY-45	ArrayExpress	P-GSE40685-6	ArrayExpress	P-GSE40685-7	ArrayExpress	GSM999191_RS_RTn2_Mouse430_2.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.raw.1.zip	P-GSE40685-1	ArrayExpress	GSM999191_sample_table.txt norm	GSM999191_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.processed.1.zip	naive CD4-positive T cell	Foxp3-negative
GSM999190 1	Spleen and Lymph Node sorted cells	Na�ve Foxp3-negative CD4+ T cells	TN_rep1	Mus musculus	EFO	http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090	naive CD4-positive T cell	Foxp3-negative	P-GSE40685-2	ArrayExpress	P-GSE40685-3	ArrayExpress	GSM999190 extract 1	total RNA	P-GSE40685-4	ArrayExpress	GSM999190 LE 1	biotin	P-GSE40685-5	ArrayExpress	GSM999190	A-AFFY-45	ArrayExpress	P-GSE40685-6	ArrayExpress	P-GSE40685-7	ArrayExpress	GSM999190_RS_RTn1_Mouse430_2.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.raw.1.zip	P-GSE40685-1	ArrayExpress	GSM999190_sample_table.txt norm	GSM999190_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40685/E-GEOD-40685.processed.1.zip	naive CD4-positive T cell	Foxp3-negative