Source Name Characteristics [Organism] Term Source REF Term Accession Number Description Sample Name Extract Name Material Type Labeled Extract Name Label Material Type Protocol REF Hybridization Name Array Design REF Protocol REF Scan Name Array Data File Comment [ArrayExpress FTP file] Derived Array Data Matrix File Comment [Derived ArrayExpress FTP file] GSE5198GSM117165 Mus musculus EFO http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090 Ileum of adult mouse colonized for 14 days with a conventional mouse microbiota: Ileum of adult mouse colonized for 14 days with a conventional mouse microbiota. Strain: NMRI,; Age: Adult,; Tissue: Ileum,; Microbial colonization state: colonized with conventional mouse microbiota,; Days post-colonization: 14, ; Replicate: 3 of 5 GSE5198GSM117165 sample GSE5198GSM117165 extract total_RNA GSE5198GSM117165 LE biotin synthetic_RNA Affymetrix:Protocol:Hybridization-Unknown Ileum_Mouse-microbiota-colonized_rep3_9788 A-AFFY-45 P-AFFY-6 Ileum_Mouse-microbiota-colonized_rep3_9788 GSM117165.CEL ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.raw.1.zip E-GEOD-5198-processed-data-1628318944.txt ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.processed.1.zip GSE5198GSM117173 Mus musculus EFO http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090 Ileum of adult mouse colonized for 14 days with a conventional mouse microbiota: Ileum of adult mouse colonized for 14 days with a conventional mouse microbiota. Strain: NMRI,; Age: Adult,; Tissue: Ileum,; Microbial colonization state: colonized with conventional mouse microbiota,; Days post-colonization: 14, ; Replicate: 4 of 5 GSE5198GSM117173 sample GSE5198GSM117173 extract total_RNA GSE5198GSM117173 LE biotin synthetic_RNA Affymetrix:Protocol:Hybridization-Unknown Ileum_Mouse-microbiota-colonized_rep4_9789 A-AFFY-45 P-AFFY-6 Ileum_Mouse-microbiota-colonized_rep4_9789 GSM117173.CEL ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.raw.1.zip E-GEOD-5198-processed-data-1628318944.txt ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.processed.1.zip GSE5198GSM117110 Mus musculus EFO http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090 Ileum of adult mouse colonized for 14 days with P. aeruginosa PA01: Ileum of adult mouse colonized for 14 days with P. aeruginosa PA01. Strain: NMRI,; Age: Adult,; Tissue: Ileum,; Microbial colonization state: colonized with Pseudomonas aeruginosa PAO1,; Days post-colonization: 14, ; Replicate: 4 of 5 GSE5198GSM117110 sample GSE5198GSM117110 extract total_RNA GSE5198GSM117110 LE biotin synthetic_RNA Affymetrix:Protocol:Hybridization-Unknown Ileum_PA01-colonized_rep4_9779 A-AFFY-45 P-AFFY-6 Ileum_PA01-colonized_rep4_9779 GSM117110.CEL ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.raw.1.zip E-GEOD-5198-processed-data-1628318944.txt ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.processed.1.zip GSE5198GSM117119 Mus musculus EFO http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090 Ileum of adult mouse colonized for 14 days with P. aeruginosa PA01: Ileum of adult mouse colonized for 14 days with P. aeruginosa PA01. Strain: NMRI,; Age: Adult,; Tissue: Ileum,; Microbial colonization state: colonized with Pseudomonas aeruginosa PAO1,; Days post-colonization: 14, ; Replicate: 5 of 5 GSE5198GSM117119 sample GSE5198GSM117119 extract total_RNA GSE5198GSM117119 LE biotin synthetic_RNA Affymetrix:Protocol:Hybridization-Unknown Ileum_PA01-colonized_rep5_9780 A-AFFY-45 P-AFFY-6 Ileum_PA01-colonized_rep5_9780 GSM117119.CEL ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.raw.1.zip E-GEOD-5198-processed-data-1628318944.txt ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.processed.1.zip GSE5198GSM117090 Mus musculus EFO http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090 Ileum of adult mouse colonized for 14 days with P. aeruginosa PA01: Ileum of adult mouse colonized for 14 days with P. aeruginosa PA01. Strain: NMRI,; Age: Adult,; Tissue: Ileum,; Microbial colonization state: colonized with Pseudomonas aeruginosa PAO1,; Days post-colonization: 14, ; Replicate: 2 of 5 GSE5198GSM117090 sample GSE5198GSM117090 extract total_RNA GSE5198GSM117090 LE biotin synthetic_RNA Affymetrix:Protocol:Hybridization-Unknown Ileum_PA01-colonized_rep2_9777 A-AFFY-45 P-AFFY-6 Ileum_PA01-colonized_rep2_9777 GSM117090.CEL ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.raw.1.zip E-GEOD-5198-processed-data-1628318944.txt ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.processed.1.zip GSE5198GSM117096 Mus musculus EFO http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090 Ileum of adult mouse colonized for 14 days with P. aeruginosa PA01: Ileum of adult mouse colonized for 14 days with P. aeruginosa PA01. Strain: NMRI,; Age: Adult,; Tissue: Ileum,; Microbial colonization state: colonized with Pseudomonas aeruginosa PAO1,; Days post-colonization: 14, ; Replicate: 3 of 5 GSE5198GSM117096 sample GSE5198GSM117096 extract total_RNA GSE5198GSM117096 LE biotin synthetic_RNA Affymetrix:Protocol:Hybridization-Unknown Ileum_PA01-colonized_rep3_9778 A-AFFY-45 P-AFFY-6 Ileum_PA01-colonized_rep3_9778 GSM117096.CEL ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.raw.1.zip E-GEOD-5198-processed-data-1628318944.txt ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.processed.1.zip GSE5198GSM117089 Mus musculus EFO http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090 Ileum of adult mouse colonized for 14 days with P. aeruginosa PA01: Ileum of adult mouse colonized for 14 days with P. aeruginosa PA01. Strain: NMRI,; Age: Adult,; Tissue: Ileum,; Microbial colonization state: colonized with Pseudomonas aeruginosa PAO1,; Days post-colonization: 14, ; Replicate: 1 of 5 GSE5198GSM117089 sample GSE5198GSM117089 extract total_RNA GSE5198GSM117089 LE biotin synthetic_RNA Affymetrix:Protocol:Hybridization-Unknown Ileum_PA01-colonized_rep1_9776 A-AFFY-45 P-AFFY-6 Ileum_PA01-colonized_rep1_9776 GSM117089.CEL ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.raw.1.zip E-GEOD-5198-processed-data-1628318944.txt ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.processed.1.zip GSE5198GSM117161 Mus musculus EFO http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090 Ileum of adult mouse colonized for 14 days with a conventional mouse microbiota: Ileum of adult mouse colonized for 14 days with a conventional mouse microbiota. Strain: NMRI,; Age: Adult,; Tissue: Ileum,; Microbial colonization state: colonized with conventional mouse microbiota,; Days post-colonization: 14, ; Replicate: 1 of 5 GSE5198GSM117161 sample GSE5198GSM117161 extract total_RNA GSE5198GSM117161 LE biotin synthetic_RNA Affymetrix:Protocol:Hybridization-Unknown Ileum_Mouse-microbiota-colonized_rep1_9786 A-AFFY-45 P-AFFY-6 Ileum_Mouse-microbiota-colonized_rep1_9786 GSM117161.CEL ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.raw.1.zip E-GEOD-5198-processed-data-1628318944.txt ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.processed.1.zip GSE5198GSM116744 Mus musculus EFO http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090 Ileum of adult germ-free mouse : Ileum of adult germ-free mouse . Strain: NMRI,; Age: Adult,; Tissue: Ileum,; Microbial colonization state: Germ-free,; Days post-colonization: N/A,; Replicate: 2 of 5 GSE5198GSM116744 sample GSE5198GSM116744 extract total_RNA GSE5198GSM116744 LE biotin synthetic_RNA Affymetrix:Protocol:Hybridization-Unknown Ileum_Germ-free_rep2_9772 A-AFFY-45 P-AFFY-6 Ileum_Germ-free_rep2_9772 GSM116744.CEL ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.raw.1.zip E-GEOD-5198-processed-data-1628318944.txt ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.processed.1.zip GSE5198GSM117189 Mus musculus EFO http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090 Ileum of adult mouse colonized for 14 days with a conventional zebrafish microbiota: Ileum of adult mouse colonized for 14 days with a conventional mouse microbiota. Strain: NMRI,; Age: Adult,; Tissue: Ileum,; Microbial colonization state: colonized with conventional zebrafish microbiota,; Days post-colonization: 14, ; Replicate: 1 of 3 GSE5198GSM117189 sample GSE5198GSM117189 extract total_RNA GSE5198GSM117189 LE biotin synthetic_RNA Affymetrix:Protocol:Hybridization-Unknown Ileum_Zebrafish-microbiota-colonized_rep1_9791 A-AFFY-45 P-AFFY-6 Ileum_Zebrafish-microbiota-colonized_rep1_9791 GSM117189.CEL ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.raw.1.zip E-GEOD-5198-processed-data-1628318944.txt ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.processed.1.zip GSE5198GSM117205 Mus musculus EFO http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090 Ileum of adult mouse colonized for 14 days with a conventional zebrafish microbiota: Ileum of adult mouse colonized for 14 days with a conventional mouse microbiota. Strain: NMRI,; Age: Adult,; Tissue: Ileum,; Microbial colonization state: colonized with conventional zebrafish microbiota,; Days post-colonization: 14, ; Replicate: 3 of 3 GSE5198GSM117205 sample GSE5198GSM117205 extract total_RNA GSE5198GSM117205 LE biotin synthetic_RNA Affymetrix:Protocol:Hybridization-Unknown Ileum_Zebrafish-microbiota-colonized_rep3_9793 A-AFFY-45 P-AFFY-6 Ileum_Zebrafish-microbiota-colonized_rep3_9793 GSM117205.CEL ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.raw.1.zip E-GEOD-5198-processed-data-1628318944.txt ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.processed.1.zip GSE5198GSM116746 Mus musculus EFO http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090 Ileum of adult germ-free mouse : Ileum of adult germ-free mouse . Strain: NMRI,; Age: Adult,; Tissue: Ileum,; Microbial colonization state: Germ-free,; Days post-colonization: N/A, ; Replicate: 4 of 5 GSE5198GSM116746 sample GSE5198GSM116746 extract total_RNA GSE5198GSM116746 LE biotin synthetic_RNA Affymetrix:Protocol:Hybridization-Unknown Ileum_Germ-free_rep4_9774 A-AFFY-45 P-AFFY-6 Ileum_Germ-free_rep4_9774 GSM116746.CEL ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.raw.1.zip E-GEOD-5198-processed-data-1628318944.txt ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.processed.1.zip GSE5198GSM116743 Mus musculus EFO http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090 Ileum of adult germ-free mouse : Ileum of adult germ-free mouse . Strain: NMRI,; Age: Adult,; Tissue: Ileum,; Microbial colonization state: Germ-free,; Days post-colonization: N/A,; Replicate: 1 of 5 GSE5198GSM116743 sample GSE5198GSM116743 extract total_RNA GSE5198GSM116743 LE biotin synthetic_RNA Affymetrix:Protocol:Hybridization-Unknown Ileum_Germ-free_rep1_9771 A-AFFY-45 P-AFFY-6 Ileum_Germ-free_rep1_9771 GSM116743.CEL ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.raw.1.zip E-GEOD-5198-processed-data-1628318944.txt ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.processed.1.zip GSE5198GSM117164 Mus musculus EFO http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090 Ileum of adult mouse colonized for 14 days with a conventional mouse microbiota: Ileum of adult mouse colonized for 14 days with a conventional mouse microbiota. Strain: NMRI,; Age: Adult,; Tissue: Ileum,; Microbial colonization state: colonized with conventional mouse microbiota,; Days post-colonization: 14, ; Replicate: 2 of 5 GSE5198GSM117164 sample GSE5198GSM117164 extract total_RNA GSE5198GSM117164 LE biotin synthetic_RNA Affymetrix:Protocol:Hybridization-Unknown Ileum_Mouse-microbiota-colonized_rep2_9787 A-AFFY-45 P-AFFY-6 Ileum_Mouse-microbiota-colonized_rep2_9787 GSM117164.CEL ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.raw.1.zip E-GEOD-5198-processed-data-1628318944.txt ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.processed.1.zip GSE5198GSM116745 Mus musculus EFO http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090 Ileum of adult germ-free mouse : Ileum of adult germ-free mouse . Strain: NMRI,; Age: Adult,; Tissue: Ileum,; Microbial colonization state: Germ-free,; Days post-colonization: N/A, ; Replicate: 3 of 5 GSE5198GSM116745 sample GSE5198GSM116745 extract total_RNA GSE5198GSM116745 LE biotin synthetic_RNA Affymetrix:Protocol:Hybridization-Unknown Ileum_Germ-free_rep3_9773 A-AFFY-45 P-AFFY-6 Ileum_Germ-free_rep3_9773 GSM116745.CEL ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.raw.1.zip E-GEOD-5198-processed-data-1628318944.txt ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.processed.1.zip GSE5198GSM117180 Mus musculus EFO http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090 Ileum of adult mouse colonized for 14 days with a conventional mouse microbiota: Ileum of adult mouse colonized for 14 days with a conventional mouse microbiota. Strain: NMRI,; Age: Adult,; Tissue: Ileum,; Microbial colonization state: colonized with conventional mouse microbiota,; Days post-colonization: 14, ; Replicate: 5 of 5 GSE5198GSM117180 sample GSE5198GSM117180 extract total_RNA GSE5198GSM117180 LE biotin synthetic_RNA Affymetrix:Protocol:Hybridization-Unknown Ileum_Mouse-microbiota-colonized_rep5_9790 A-AFFY-45 P-AFFY-6 Ileum_Mouse-microbiota-colonized_rep5_9790 GSM117180.CEL ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.raw.1.zip E-GEOD-5198-processed-data-1628318944.txt ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.processed.1.zip GSE5198GSM117197 Mus musculus EFO http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090 Ileum of adult mouse colonized for 14 days with a conventional zebrafish microbiota: Ileum of adult mouse colonized for 14 days with a conventional mouse microbiota. Strain: NMRI,; Age: Adult,; Tissue: Ileum,; Microbial colonization state: colonized with conventional zebrafish microbiota,; Days post-colonization: 14, ; Replicate: 2 of 3 GSE5198GSM117197 sample GSE5198GSM117197 extract total_RNA GSE5198GSM117197 LE biotin synthetic_RNA Affymetrix:Protocol:Hybridization-Unknown Ileum_Zebrafish-microbiota-colonized_rep2_9792 A-AFFY-45 P-AFFY-6 Ileum_Zebrafish-microbiota-colonized_rep2_9792 GSM117197.CEL ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.raw.1.zip E-GEOD-5198-processed-data-1628318944.txt ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.processed.1.zip GSE5198GSM116747 Mus musculus EFO http://purl.org/obo/owl/NCBITaxon#NCBITaxon_10090 Ileum of adult germ-free mouse : Ileum of adult germ-free mouse . Strain: NMRI,; Age: Adult,; Tissue: Ileum,; Microbial colonization state: Germ-free,; Days post-colonization: N/A, ; Replicate: 5 of 5 GSE5198GSM116747 sample GSE5198GSM116747 extract total_RNA GSE5198GSM116747 LE biotin synthetic_RNA Affymetrix:Protocol:Hybridization-Unknown Ileum_Germ-free_rep5_9775 A-AFFY-45 P-AFFY-6 Ileum_Germ-free_rep5_9775 GSM116747.CEL ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.raw.1.zip E-GEOD-5198-processed-data-1628318944.txt ftp://ftp.ebi.ac.uk/pub/databases/microarray/data/experiment/GEOD/E-GEOD-5198/E-GEOD-5198.processed.1.zip