ONTOLOGY SOURCE REFERENCE
Term Source Name	"CHEBI"	"BTO"	"NCBITAXON"	"PATO"	"NCIT"	"XCO"	"UO"	
Term Source File	"http://data.bioontology.org/ontologies/CHEBI"	"http://data.bioontology.org/ontologies/BTO"	"http://data.bioontology.org/ontologies/NCBITAXON"	"http://data.bioontology.org/ontologies/PATO"	"http://data.bioontology.org/ontologies/NCIT"	"http://data.bioontology.org/ontologies/XCO"	"http://data.bioontology.org/ontologies/UO"	
Term Source Version	"78"	"20"	"2"	"160"	"24"	"33"	"42"	
Term Source Description	"Chemical Entities of Biological Interest Ontology"	"BRENDA Tissue and Enzyme Source Ontology"	"National Center for Biotechnology Information (NCBI) Organismal Classification"	"Phenotypic Quality Ontology"	"National Cancer Institute Thesaurus"	"Experimental Conditions Ontology"	"Units of Measurement Ontology"	
INVESTIGATION
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INVESTIGATION PUBLICATIONS
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INVESTIGATION CONTACTS
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STUDY
Study Identifier	"E-GEOD-53851"
Study Title	"A probiotics strain attenuating the effects of aspirin in the gut"
Study Description	"Transcriptional profiling of mouse gut after feeding the animals aspirin, teprenone, or Lactobacillus. [original description: Transcriptome analysis of partially degraded and fragmented RNA samples from mus musculus gut Global gene expression profiling has shown the gut transcripts changes through administration of aspirin while probiotics strain administration beforehand attenuates the effect more than teprenone. We analyzed five groups of mice gut using the Affymetrix Mouse Gene 1.0 ST platform. Array data was processed by Affymetrix Exon Array Computational Tool. No technical replicates were performed.]"
Comment[Study Grant Number]	""
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Study Public Release Date	"2014-01-07"
Study File Name	"s_E-GEOD-53851_study_samples.txt"
STUDY DESIGN DESCRIPTORS
Study Design Type	"transcription profiling by array"
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STUDY PUBLICATIONS
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STUDY FACTORS
Study Factor Name	"treatment"
Study Factor Type	"treatment"
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STUDY ASSAYS
Study Assay File Name	"a_E-GEOD-53851_GeneChip_assay.txt"
Study Assay Measurement Type	"transcription profiling"
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Study Assay Technology Type	"DNA microarray"
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STUDY PROTOCOLS
Study Protocol Name	"P-GSE53851-3"	"P-GSE53851-2"	"P-GSE53851-4"	"P-GSE53851-5"	"P-GSE53851-6"	"P-GSE53851-7"	"P-GSE53851-1"
Study Protocol Type	"growth protocol"	"sample treatment protocol"	"nucleic acid extraction protocol"	"labeling protocol"	"hybridization protocol"	"array scanning protocol"	"normalization data transformation protocol"
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Study Protocol Description	"5-week-old mice were kept at normal animal laboratory condition."	"Whole gut was collected from mice after the twice oral administrations of GA+GA (control), LG21+GA, GA+Asp, Tep+Asp, or LG21+Asp (GA; Gum Arabic, Asp; Aspirin, Tep; Teprenone, LG21; Lactobacillus gasseri OLL2716). Second oral administration was followed half an hour after the first administration. Gut collection was performed four hours after the final administration."	"RNA was isolated from half the size of the gut obtained from mice with the NucleoSpin RNA II (MACHEREY-NAGEL), according to the manufacturer’s instructions."	"Single-stranded cDNA was generated from the amplified cRNA with the WT cDNA Synthesis Kit (Affymetrix) and then fragmented and labeled with the WT Terminal Labeling Kit (Affymetrix)."	"Samples were hybridized to GeneChip Human Exon 1.0 ST Arrays (Affymetrix) and scanned at Meiji Microarray Facility."	"Array scanning was performed according to the manufacturer's instruction (Affymetrix)"	"Raw data were processed with the Exon Array Computational Tool (ExACT) (Affymetrix) for background correction and normalization. Data analysis and statistical evaluations were performed with customized R codes (version 2.3.1, http://www.r-project.org/). ID_REF =  VALUE = RMA signal"
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STUDY CONTACTS
Study Person Last Name	"Amafuji"	"Amafuji"	"Soeda"	"Honme"	"Yokoyama"
Study Person First Name	"Kimiko"	"Kimiko"	"Misato"	"Yoshiko"	"Minehiko"
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Study Person Email	"kimiko.amafuji@meiji.com"	""	""	""	""
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Study Person Address	"Meiji Co., Ltd., 540 Naruda, Odawara, Kanagawa, Japan"	""	""	""	""
Study Person Affiliation	"Meiji Co., Ltd."	""	""	""	""
Study Person Roles	"submitter"	""	""	""	""
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