ONTOLOGY SOURCE REFERENCE
Term Source Name	"EFO"	"BTO"	"BAO"	"CPT"	"MP"	"DOID"	"XCO"	
Term Source File	"http://efo.svn.sourceforge.net/viewvc/efo/trunk/src/efoinowl/efo.owl"	"http://bioportal.bioontology.org/ontologies/50231"	"http://bioportal.bioontology.org/ontologies/49576"	"http://bioportal.bioontology.org/ontologies/42853"	"http://www.ebi.ac.uk/ontology-lookup/browse.do?ontName=MP"	"http://bioportal.bioontology.org/ontologies/50310"	"http://bioportal.bioontology.org/ontologies/50409"	
Term Source Version	""	"50231"	"49576"	"42853"	"Jun 2010"	"50310"	"50409"	
Term Source Description	""	"BRENDA Tissue and Enzyme Source Ontology"	"BioAssay Ontology"	"Current Procedural Terminology"	"Mammalian Phenotype"	"Human Disease Ontology"	"Experimental Conditions Ontology"	
INVESTIGATION
Investigation Identifier	""
Investigation Title	""
Investigation Description	""
Investigation Submission Date	""
Investigation Public Release Date	""
Comment [Created with configuration]	""
Comment [Last Opened With Configuration]	""
INVESTIGATION PUBLICATIONS
Investigation PubMed ID	""
Investigation Publication DOI	""
Investigation Publication Author List	""
Investigation Publication Title	""
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Investigation Publication Status Term Accession Number	""
Investigation Publication Status Term Source REF	""
INVESTIGATION CONTACTS
Investigation Person Last Name	""
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Investigation Person Roles Term Accession Number	""
Investigation Person Roles Term Source REF	""
STUDY
Study Identifier	"E-GEOD-20881"
Study Title	"Colon biopsies from Crohns patients and healthy controls. Patients report being on a number of NSAIDs and other medicines."
Study Description	"The aim of this study was to investigate differential intestinal gene expression in patients with Crohn's disease (CD) and controls. 172 biopsies from CD and control subjects were studied. Endoscopic biopsies were taken at ileocolonoscopy from five specific anatomical locations including the terminal ileum for RNA extraction. Biopsies from one of four anatomic locations, from healthy controls and treated (with non-biologic standard of care) or untreated CD patients."
Comment[Study Grant Number]	""
Comment[Study Funding Agency]	""
Study Submission Date	""
Study Public Release Date	"2010-07-19"
Study File Name	"s_E-GEOD-20881_study_samples.txt"
STUDY DESIGN DESCRIPTORS
Study Design Type	"transcription profiling by array"
Study Design Type Term Accession Number	""
Study Design Type Term Source REF	""
STUDY PUBLICATIONS
Study PubMed ID	"20848455"
Study Publication DOI	"10.1002/ibd.21263"
Study Publication Author List	"Noble CL, Abbas AR, Lees CW, Cornelius J, Toy K, Modrusan Z, Clark HF, Arnott ID, Penman ID, Satsangi J, Diehl L"
Study Publication Title	"Characterization of intestinal gene expression profiles in Crohn's disease by genome-wide microarray analysis."
Study Publication Status	""
Study Publication Status Term Accession Number	""
Study Publication Status Term Source REF	""
STUDY FACTORS
Study Factor Name	"treatment"	"anatomic location"	"treatment response"	"disease"
Study Factor Type	"treatment"	"anatomic location"	"treatment response"	"disease"
Study Factor Type Term Accession Number	""	""	""	""
Study Factor Type Term Source REF	""	""	""	""
STUDY ASSAYS
Study Assay File Name	"a_E-GEOD-20881_GeneChip_assay.txt"
Study Assay Measurement Type	"transcription profiling"
Study Assay Measurement Type Term Accession Number	""
Study Assay Measurement Type Term Source REF	""
Study Assay Technology Type	"DNA microarray"
Study Assay Technology Type Term Accession Number	""
Study Assay Technology Type Term Source REF	""
Study Assay Technology Platform	""
STUDY PROTOCOLS
Study Protocol Name	"P-GSE20881-1"	"P-GSE20881-7"	"P-GSE20881-3"	"P-GSE20881-9"	"P-GSE20881-8"	"P-GSE20881-2"	"P-GSE20881-4"	"P-GSE20881-6"	"P-GSE20881-5"
Study Protocol Type	"bioassay_data_transformation"	"hybridization"	"grow"	"feature_extraction"	"image_aquisition"	"specified_biomaterial_action"	"nucleic_acid_extraction"	"nucleic_acid_extraction"	"labeling"
Study Protocol Type Term Accession Number	""	""	""	""	""	""	""	""	""
Study Protocol Type Term Source REF	""	""	""	""	""	""	""	""	""
Study Protocol Description	"ID_REF = <br>VALUE = log2 ratio (test/reference)"	"18 hours at 60¡C with constant rotation on Agilent WHG"	"N/A"	"The data were extracted and normalized according to the default settings of Agilent Feature Extraction 7.5. LOWESS normalization, background subtraction, and ratio computation."	"Agilent scanner according to the manufacturer's protocol"	"N/A"	"micro total RNA isolation from animal tissues protocol (Qiagen, Valencia, CA)"	"not applicable, Universal Human Reference RNA (Catalog #740000) purchased from Stratagene"	"T7 RNA polymerase single round of linear amplification"
Study Protocol URI	""	""	""	""	""	""	""	""	""
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Study Protocol Parameters Name Term Accession Number	""	""	""	""	""	""	""	""	""
Study Protocol Parameters Name Term Source REF	""	""	""	""	""	""	""	""	""
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STUDY CONTACTS
Study Person Last Name	"Abbas"	"Noble"	"Abbas"	"Lees"	"Cornelius"	"Toy"	"Modrusan"	"Clark"	"Arnott"	"Penman"	"Satsangi"	"Diehl"
Study Person First Name	"Alex"	"Colin"	"Alexander"	"Charles"	"Jennine"	"Karen"	"Zora"	"Hilary"	"Ian"	"Ian"	"Jack"	"Lauri"
Study Person Mid Initials	""	"L"	"R"	"W"	""	""	""	"F"	"D"	"D"	""	""
Study Person Email	"abbas@gene.com"	""	""	""	""	""	""	""	""	""	""	""
Study Person Phone	""	""	""	""	""	""	""	""	""	""	""	""
Study Person Fax	""	""	""	""	""	""	""	""	""	""	""	""
Study Person Address	"Bioinformatics, Genentech, Inc., 1 DNA Way, South San Francisco, CA, USA"	""	""	""	""	""	""	""	""	""	""	""
Study Person Affiliation	"Genentech, Inc."	""	""	""	""	""	""	""	""	""	""	""
Study Person Roles	"submitter"	""	""	""	""	""	""	""	""	""	""	""
Study Person Roles Term Accession Number	""	""	""	""	""	""	""	""	""	""	""	""
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Comment[Study Person REF]	""	""	""	""	""	""	""	""	""	""	""	""