Comment[ArrayExpressAccession]	E-GEOD-45298
MAGE-TAB Version	1.1			
Public Release Date	2013-03-26
Investigation Title	RNA-seq analysis of Xenorhabdus nematophila			
Comment[Submitted Name]	RNA-seq analysis of Xenorhabdus nematophila
Experiment Description	Analysis of size selected RNA samples to identify sRNAs using wild-type and rpoS mutant strains. Four experiments, two from each of two strains using two protocols.			
Term Source Name	ArrayExpress	EFO
Term Source File	http://www.ebi.ac.uk/arrayexpress/	http://www.ebi.ac.uk/efo/efo.owl		
Person Last Name	Tjaden	Goodrich-Blair	Lu	Tjaden
Person First Name	Brian	H	X	B
Person Email	geo@ncbi.nlm.nih.gov			
Person Affiliation	Wellesley College			
Person Address	Wellesley College, 106 Central Street, Wellesley, MA, USA			
Person Roles	submitter			
Protocol Name	P-GSE45298-1	P-GSE45298-3	P-GSE45298-2	P-GSE45298-4
Protocol Description	To reduce potential interference from tRNAs and 5S rRNAs, a stable RNA depletion protocol was included.	The mirVan miRNA Isolation Kit (Ambion) was used to isolate and enrich sRNAs, 3 mg of which were used for sRNA library construction. Libraries of sRNAs ranging from 18-200 bp were constructed by using the Small RNA Sample Prep Kit (Illumina) following the standard manufacturer's protocol (Illumina Small RNA Sample Preparation Guide).	LB broth. Late exponential phase.	Rockhopper version 1.20 (manuscript submitted) was used for alignment, normalization, and quantification. Rockhopper is available for download from http://cs.wellesley.edu/~btjaden/Rockhopper Genome_build: Xenorhabdus nematophila ATCC 19061 (NC_014228.1) Supplementary_files_format_and_content: Tab delimited text files containing transcription coordinates and abundance estimates.
Protocol Type	specified_biomaterial_action	nucleic acid library construction protocol	grow	feature_extraction
Experimental Factor Name	ILLUMINA PROTOCOL	GENOTYPE		
Experimental Factor Type	illumina protocol	genotype		
Comment[SecondaryAccession]	GSE45298			
Comment[GEOReleaseDate]	2013-03-26			
Comment[ArrayExpressSubmissionDate]	2013-03-19			
Comment[GEOLastUpdateDate]	2013-03-26			
Comment[AEExperimentType]	RNA-seq of non coding RNA			
Comment[AdditionalFile:Data1]	GSE45298_Operons.txt			
Comment[AdditionalFile:Data2]	GSE45298_Summary.txt			
Comment[AdditionalFile:Data3]	GSE45298_Transcripts.txt			
Comment[SecondaryAccession]	SRP019788			
Comment[SequenceDataURI]	http://www.ebi.ac.uk/ena/data/view/SRR786945-SRR786948			
SDRF File	E-GEOD-45298.sdrf.txt