Source Name	Comment [Sample_description]	Comment [Sample_source_name]	Comment [Sample_title]	Characteristics [composition]	Characteristics [infection]	Characteristics [organism]	Term Source REF	Term Accession Number	Characteristics [organism part]	Term Source REF	Term Accession Number	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	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]	FactorValue [TREATMENT]
GSM1002005 1	CR [miRNA]	common reference	common reference (CR)	equal amounts of total RNA of each ileum pool and additional total RNA from ascending colon	  	Sus scrofa	EFO	http://purl.obolibrary.org/obo/NCBITaxon_9823	  	  	  	P-GSE40803-2	ArrayExpress	P-GSE40803-3	ArrayExpress	GSM1002005 extract 1	total RNA	P-GSE40803-4	ArrayExpress	GSM1002005 LE 1	biotin	P-GSE40803-5	ArrayExpress	GSM1002005	A-GEOD-16044	ArrayExpress	array assay	P-GSE40803-6	ArrayExpress	GSM1002005_CR_miRNA.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.raw.1.zip	P-GSE40803-1	ArrayExpress	GSM1002005_sample_table.txt norm	GSM1002005_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.processed.1.zip	not specified	not specified	not specified
GSM1002004 1	29d p.i. SP [miRNA]	S.typhimurium infected + Enterococcus faecium treatment	28d p.i. Salmonella + E.Faecium	  	S.typhimurium	Sus scrofa	EFO	http://purl.obolibrary.org/obo/NCBITaxon_9823	ileum	EFO	EFO_0001334	P-GSE40803-2	ArrayExpress	P-GSE40803-3	ArrayExpress	GSM1002004 extract 1	total RNA	P-GSE40803-4	ArrayExpress	GSM1002004 LE 1	biotin	P-GSE40803-5	ArrayExpress	GSM1002004	A-GEOD-16044	ArrayExpress	array assay	P-GSE40803-6	ArrayExpress	GSM1002004_28d_SP_miRNA.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.raw.1.zip	P-GSE40803-1	ArrayExpress	GSM1002004_sample_table.txt norm	GSM1002004_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.processed.1.zip	S.typhimurium	28d	E.faecium
GSM1002003 1	28d p.i. S [miRNA]	S.typhimurium infected	28d p.i. Salmonella	  	S.typhimurium	Sus scrofa	EFO	http://purl.obolibrary.org/obo/NCBITaxon_9823	ileum	EFO	EFO_0001334	P-GSE40803-2	ArrayExpress	P-GSE40803-3	ArrayExpress	GSM1002003 extract 1	total RNA	P-GSE40803-4	ArrayExpress	GSM1002003 LE 1	biotin	P-GSE40803-5	ArrayExpress	GSM1002003	A-GEOD-16044	ArrayExpress	array assay	P-GSE40803-6	ArrayExpress	GSM1002003_28d_S_miRNA.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.raw.1.zip	P-GSE40803-1	ArrayExpress	GSM1002003_sample_table.txt norm	GSM1002003_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.processed.1.zip	S.typhimurium	28d	no treatment
GSM1002002 1	28d p.i. C [miRNA]	non-infected control	28d p.i. Control	  	non infected control	Sus scrofa	EFO	http://purl.obolibrary.org/obo/NCBITaxon_9823	ileum	EFO	EFO_0001334	P-GSE40803-2	ArrayExpress	P-GSE40803-3	ArrayExpress	GSM1002002 extract 1	total RNA	P-GSE40803-4	ArrayExpress	GSM1002002 LE 1	biotin	P-GSE40803-5	ArrayExpress	GSM1002002	A-GEOD-16044	ArrayExpress	array assay	P-GSE40803-6	ArrayExpress	GSM1002002_28d_C_miRNA.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.raw.1.zip	P-GSE40803-1	ArrayExpress	GSM1002002_sample_table.txt norm	GSM1002002_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.processed.1.zip	non infected control	28d	no treatment
GSM1002001 1	3d p.i. SP [miRNA]	S.typhimurium infected + Enterococcus faecium treatment	3d p.i. Salmonella + E.faecium	  	S.typhimurium	Sus scrofa	EFO	http://purl.obolibrary.org/obo/NCBITaxon_9823	ileum	EFO	EFO_0001334	P-GSE40803-2	ArrayExpress	P-GSE40803-3	ArrayExpress	GSM1002001 extract 1	total RNA	P-GSE40803-4	ArrayExpress	GSM1002001 LE 1	biotin	P-GSE40803-5	ArrayExpress	GSM1002001	A-GEOD-16044	ArrayExpress	array assay	P-GSE40803-6	ArrayExpress	GSM1002001_3d_SP_miRNA.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.raw.1.zip	P-GSE40803-1	ArrayExpress	GSM1002001_sample_table.txt norm	GSM1002001_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.processed.1.zip	S.typhimurium	3d	E.faecium
GSM1002000 1	3d p.i. S [miRNA]	S.typhimurium infected	3d p.i. Salmonella	  	S.typhimurium	Sus scrofa	EFO	http://purl.obolibrary.org/obo/NCBITaxon_9823	ileum	EFO	EFO_0001334	P-GSE40803-2	ArrayExpress	P-GSE40803-3	ArrayExpress	GSM1002000 extract 1	total RNA	P-GSE40803-4	ArrayExpress	GSM1002000 LE 1	biotin	P-GSE40803-5	ArrayExpress	GSM1002000	A-GEOD-16044	ArrayExpress	array assay	P-GSE40803-6	ArrayExpress	GSM1002000_3d_S_miRNA.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.raw.1.zip	P-GSE40803-1	ArrayExpress	GSM1002000_sample_table.txt norm	GSM1002000_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.processed.1.zip	S.typhimurium	3d	no treatment
GSM1001999 1	3d p.i. C [miRNA]	non-infected control	3d p.i. Control	  	non infected control	Sus scrofa	EFO	http://purl.obolibrary.org/obo/NCBITaxon_9823	ileum	EFO	EFO_0001334	P-GSE40803-2	ArrayExpress	P-GSE40803-3	ArrayExpress	GSM1001999 extract 1	total RNA	P-GSE40803-4	ArrayExpress	GSM1001999 LE 1	biotin	P-GSE40803-5	ArrayExpress	GSM1001999	A-GEOD-16044	ArrayExpress	array assay	P-GSE40803-6	ArrayExpress	GSM1001999_3d_C_miRNA.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.raw.1.zip	P-GSE40803-1	ArrayExpress	GSM1001999_sample_table.txt norm	GSM1001999_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.processed.1.zip	non infected control	3d	no treatment
GSM1001998 1	3h p.i. SP [miRNA]	S.typhimurium infected + Enterococcus faecium treatment	3h p.i. Salmonella + E.faecium	  	S.typhimurium	Sus scrofa	EFO	http://purl.obolibrary.org/obo/NCBITaxon_9823	ileum	EFO	EFO_0001334	P-GSE40803-2	ArrayExpress	P-GSE40803-3	ArrayExpress	GSM1001998 extract 1	total RNA	P-GSE40803-4	ArrayExpress	GSM1001998 LE 1	biotin	P-GSE40803-5	ArrayExpress	GSM1001998	A-GEOD-16044	ArrayExpress	array assay	P-GSE40803-6	ArrayExpress	GSM1001998_3h_SP_miRNA.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.raw.1.zip	P-GSE40803-1	ArrayExpress	GSM1001998_sample_table.txt norm	GSM1001998_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.processed.1.zip	S.typhimurium	3h	E.faecium
GSM1001997 1	3h p.i. S [miRNA]	S.typhimurium infected	3h p.i. Salmonella	  	S.typhimurium	Sus scrofa	EFO	http://purl.obolibrary.org/obo/NCBITaxon_9823	ileum	EFO	EFO_0001334	P-GSE40803-2	ArrayExpress	P-GSE40803-3	ArrayExpress	GSM1001997 extract 1	total RNA	P-GSE40803-4	ArrayExpress	GSM1001997 LE 1	biotin	P-GSE40803-5	ArrayExpress	GSM1001997	A-GEOD-16044	ArrayExpress	array assay	P-GSE40803-6	ArrayExpress	GSM1001997_3h_S_miRNA.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.raw.1.zip	P-GSE40803-1	ArrayExpress	GSM1001997_sample_table.txt norm	GSM1001997_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.processed.1.zip	S.typhimurium	3h	no treatment
GSM1001996 1	3h p.i. C [miRNA]	non-infected control	3h p.i. Control	  	non infected control	Sus scrofa	EFO	http://purl.obolibrary.org/obo/NCBITaxon_9823	ileum	EFO	EFO_0001334	P-GSE40803-2	ArrayExpress	P-GSE40803-3	ArrayExpress	GSM1001996 extract 1	total RNA	P-GSE40803-4	ArrayExpress	GSM1001996 LE 1	biotin	P-GSE40803-5	ArrayExpress	GSM1001996	A-GEOD-16044	ArrayExpress	array assay	P-GSE40803-6	ArrayExpress	GSM1001996_3h_C_miRNA.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.raw.1.zip	P-GSE40803-1	ArrayExpress	GSM1001996_sample_table.txt norm	GSM1001996_sample_table.txt	ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-40803/E-GEOD-40803.processed.1.zip	non infected control	3h	no treatment