Source Name	Material Type	Characteristics[organism]	Provider	Characteristics[organism part]	Characteristics[sex]	Characteristics[genotype]	Protocol REF	Protocol REF	Sample Name	Material Type	Characteristics[cell type]	Characteristics[time]	Unit[time unit]	Characteristics[stimulus]	Protocol REF	Extract Name	Material Type	Protocol REF	Term Source REF	LabeledExtract Name	Label	Protocol REF	Term Source REF	Hybridization Name	Array Design REF	Protocol REF	Term Source REF	Array Data File	Comment [ArrayExpress FTP file]	Protocol REF	Term Source REF	Derived Array Data File	Comment [Derived ArrayExpress FTP file]	Factor Value[time]	Unit[time unit]	Factor Value[stimulus]
24hr PG bead control 1	organism part	Mus musculus	Charles River Breading Labs or Taconic	bone marrow	female	C57BL/6	P-MTAB-30682	P-MTAB-30683	24hr PG bead control 1	cell	primary macrophage	24	hour	phosphatidylglycerol (PG) control	P-MTAB-30681	24hr PG bead control 1	total_RNA	P-AFFY-2	ArrayExpress	24hr PG bead control 1	biotin	Affymetrix:Protocol:Hybridization-Unknown	ArrayExpress	24hr PG bead control 1	A-AFFY-36	P-AFFY-6	ArrayExpress	24hrPGcontrol1.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.raw.1.zip	Affymetrix:Protocol:MAS4:ExpressionCall	ArrayExpress	24hrPGcontrol1.CHP	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.processed.1.zip	24	hour	phosphatidylglycerol (PG) control
24hr PG bead control 2	organism part	Mus musculus	Charles River Breading Labs or Taconic	bone marrow	female	C57BL/6	P-MTAB-30682	P-MTAB-30683	24hr PG bead control 2	cell	primary macrophage	24	hour	phosphatidylglycerol (PG) control	P-MTAB-30681	24hr PG bead control 2	total_RNA	P-AFFY-2	ArrayExpress	24hr PG bead control 2	biotin	Affymetrix:Protocol:Hybridization-Unknown	ArrayExpress	24hr PG bead control 2	A-AFFY-36	P-AFFY-6	ArrayExpress	24hrPGcontrol2.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.raw.1.zip	Affymetrix:Protocol:MAS4:ExpressionCall	ArrayExpress	24hrPGcontrol2.CHP	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.processed.1.zip	24	hour	phosphatidylglycerol (PG) control
24hr PG bead control 3	organism part	Mus musculus	Charles River Breading Labs or Taconic	bone marrow	female	C57BL/6	P-MTAB-30682	P-MTAB-30683	24hr PG bead control 3	cell	primary macrophage	24	hour	phosphatidylglycerol (PG) control	P-MTAB-30681	24hr PG bead control 3	total_RNA	P-AFFY-2	ArrayExpress	24hr PG bead control 3	biotin	Affymetrix:Protocol:Hybridization-Unknown	ArrayExpress	24hr PG bead control 3	A-AFFY-36	P-AFFY-6	ArrayExpress	24hrPGcontrol3.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.raw.1.zip	Affymetrix:Protocol:MAS4:ExpressionCall	ArrayExpress	24hrPGcontrol3.CHP	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.processed.1.zip	24	hour	phosphatidylglycerol (PG) control
24hr TDM bead treated 1	organism part	Mus musculus	Charles River Breading Labs or Taconic	bone marrow	female	C57BL/6	P-MTAB-30682	P-MTAB-30683	24hr TDM bead treated 1	cell	primary macrophage	24	hour	trehalose dimycolated (TDM)	P-MTAB-30681	24hr TDM bead treated 1	total_RNA	P-AFFY-2	ArrayExpress	24hr TDM bead treated 1	biotin	Affymetrix:Protocol:Hybridization-Unknown	ArrayExpress	24hr TDM bead treated 1	A-AFFY-36	P-AFFY-6	ArrayExpress	24hrTDMbeadtreated1.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.raw.1.zip	Affymetrix:Protocol:MAS4:ExpressionCall	ArrayExpress	24hrTDMbeadtreated1.CHP	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.processed.1.zip	24	hour	trehalose dimycolated (TDM)
24hr TDM bead treated 2	organism part	Mus musculus	Charles River Breading Labs or Taconic	bone marrow	female	C57BL/6	P-MTAB-30682	P-MTAB-30683	24hr TDM bead treated 2	cell	primary macrophage	24	hour	trehalose dimycolated (TDM)	P-MTAB-30681	24hr TDM bead treated 2	total_RNA	P-AFFY-2	ArrayExpress	24hr TDM bead treated 2	biotin	Affymetrix:Protocol:Hybridization-Unknown	ArrayExpress	24hr TDM bead treated 2	A-AFFY-36	P-AFFY-6	ArrayExpress	24hrTDMbeadtreated2.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.raw.1.zip	Affymetrix:Protocol:MAS4:ExpressionCall	ArrayExpress	24hrTDMbeadtreated2.CHP	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.processed.1.zip	24	hour	trehalose dimycolated (TDM)
24hr TDM bead treated 3	organism part	Mus musculus	Charles River Breading Labs or Taconic	bone marrow	female	C57BL/6	P-MTAB-30682	P-MTAB-30683	24hr TDM bead treated 3	cell	primary macrophage	24	hour	trehalose dimycolated (TDM)	P-MTAB-30681	24hr TDM bead treated 3	total_RNA	P-AFFY-2	ArrayExpress	24hr TDM bead treated 3	biotin	Affymetrix:Protocol:Hybridization-Unknown	ArrayExpress	24hr TDM bead treated 3	A-AFFY-36	P-AFFY-6	ArrayExpress	24hrTDMbeadtreated3.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.raw.1.zip	Affymetrix:Protocol:MAS4:ExpressionCall	ArrayExpress	24hrTDMbeadtreated3.CHP	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.processed.1.zip	24	hour	trehalose dimycolated (TDM)
2hr PG control 1	organism part	Mus musculus	Charles River Breading Labs or Taconic	bone marrow	female	C57BL/6	P-MTAB-30682	P-MTAB-30683	2hr PG control 1	cell	primary macrophage	2	hour	phosphatidylglycerol (PG) control	P-MTAB-30681	2hr PG control 1	total_RNA	P-AFFY-2	ArrayExpress	2hr PG control 1	biotin	Affymetrix:Protocol:Hybridization-Unknown	ArrayExpress	2hr PG control 1	A-AFFY-36	P-AFFY-6	ArrayExpress	2hrPGcontrol1.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.raw.1.zip	Affymetrix:Protocol:MAS4:ExpressionCall	ArrayExpress	2hrPGcontrol1.CHP	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.processed.1.zip	2	hour	phosphatidylglycerol (PG) control
2hr PG control 2	organism part	Mus musculus	Charles River Breading Labs or Taconic	bone marrow	female	C57BL/6	P-MTAB-30682	P-MTAB-30683	2hr PG control 2	cell	primary macrophage	2	hour	phosphatidylglycerol (PG) control	P-MTAB-30681	2hr PG control 2	total_RNA	P-AFFY-2	ArrayExpress	2hr PG control 2	biotin	Affymetrix:Protocol:Hybridization-Unknown	ArrayExpress	2hr PG control 2	A-AFFY-36	P-AFFY-6	ArrayExpress	2hrPGcontrol2.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.raw.1.zip	Affymetrix:Protocol:MAS4:ExpressionCall	ArrayExpress	2hrPGcontrol2.CHP	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.processed.1.zip	2	hour	phosphatidylglycerol (PG) control
2hr PG control 3	organism part	Mus musculus	Charles River Breading Labs or Taconic	bone marrow	female	C57BL/6	P-MTAB-30682	P-MTAB-30683	2hr PG control 3	cell	primary macrophage	2	hour	phosphatidylglycerol (PG) control	P-MTAB-30681	2hr PG control 3	total_RNA	P-AFFY-2	ArrayExpress	2hr PG control 3	biotin	Affymetrix:Protocol:Hybridization-Unknown	ArrayExpress	2hr PG control 3	A-AFFY-36	P-AFFY-6	ArrayExpress	2hrPGcontrol3.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.raw.1.zip	Affymetrix:Protocol:MAS4:ExpressionCall	ArrayExpress	2hrPGcontrol3.CHP	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.processed.1.zip	2	hour	phosphatidylglycerol (PG) control
2hr TDM bead treated 1	organism part	Mus musculus	Charles River Breading Labs or Taconic	bone marrow	female	C57BL/6	P-MTAB-30682	P-MTAB-30683	2hr TDM bead treated 1	cell	primary macrophage	2	hour	trehalose dimycolated (TDM)	P-MTAB-30681	2hr TDM bead treated 1	total_RNA	P-AFFY-2	ArrayExpress	2hr TDM bead treated 1	biotin	Affymetrix:Protocol:Hybridization-Unknown	ArrayExpress	2hr TDM bead treated 1	A-AFFY-36	P-AFFY-6	ArrayExpress	2hrTDMbeadtreated1.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.raw.1.zip	Affymetrix:Protocol:MAS4:ExpressionCall	ArrayExpress	2hrTDMbeadtreated1.CHP	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.processed.1.zip	2	hour	trehalose dimycolated (TDM)
2hr TDM bead treated 2	organism part	Mus musculus	Charles River Breading Labs or Taconic	bone marrow	female	C57BL/6	P-MTAB-30682	P-MTAB-30683	2hr TDM bead treated 2	cell	primary macrophage	2	hour	trehalose dimycolated (TDM)	P-MTAB-30681	2hr TDM bead treated 2	total_RNA	P-AFFY-2	ArrayExpress	2hr TDM bead treated 2	biotin	Affymetrix:Protocol:Hybridization-Unknown	ArrayExpress	2hr TDM bead treated 2	A-AFFY-36	P-AFFY-6	ArrayExpress	2hrTDMbeadtreated2.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.raw.1.zip	Affymetrix:Protocol:MAS4:ExpressionCall	ArrayExpress	2hrTDMbeadtreated2.CHP	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.processed.1.zip	2	hour	trehalose dimycolated (TDM)
2hr TDM bead treated 3	organism part	Mus musculus	Charles River Breading Labs or Taconic	bone marrow	female	C57BL/6	P-MTAB-30682	P-MTAB-30683	2hr TDM bead treated 3	cell	primary macrophage	2	hour	trehalose dimycolated (TDM)	P-MTAB-30681	2hr TDM bead treated 3	total_RNA	P-AFFY-2	ArrayExpress	2hr TDM bead treated 3	biotin	Affymetrix:Protocol:Hybridization-Unknown	ArrayExpress	2hr TDM bead treated 3	A-AFFY-36	P-AFFY-6	ArrayExpress	2hrTDMbeadtreated3.CEL	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.raw.1.zip	Affymetrix:Protocol:MAS4:ExpressionCall	ArrayExpress	2hrTDMbeadtreated3.CHP	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/MEXP/E-MEXP-3814/E-MEXP-3814.processed.1.zip	2	hour	trehalose dimycolated (TDM)