Comment[ArrayExpressAccession]	E-GEOD-45178
MAGE-TAB Version	1.1			
Public Release Date	2013-03-15
Investigation Title	Methylome of Salmonella enterica subsp. Enterica serovar Javiana str. CFSAN001992 by PacBio SMRT Sequencing			
Comment[Submitted Name]	Methylome of Salmonella enterica subsp. Enterica serovar Javiana str. CFSAN001992 by PacBio SMRT Sequencing
Experiment Description	Single-molecule read technologies allow for detection of epigenomic base modifications during routine sequencing by analysis of kinetic data during the reaction, including the duration between base incorporations at the elongation site (the "inter-pulse duration.") Methylome data associated with a closed de novo bacterial genome of Salmonella enterica subsp. enterica serovar Javiana str. CFSAN001992 was produced and submitted to the Gene Expression Omnibus. Single-sample sequencing and base modification detection of cultured isolate of a foodborne pathogen.			
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	Payne	Payne	Muruvanda	Allard
Person First Name	Justin	Justin	Tim	Marc
Person Mid Initials	St. Giles			
Person Email	Justin.Payne@fda.hhs.gov			
Person Affiliation	FDA/CFSAN			
Person Phone	2404025127			
Person Address	DM, FDA/CFSAN, 5100 Paint Branch Parkway, College Park, Maryland, USA			
Person Roles	submitter			
Protocol Name	P-GSE45178-1	P-GSE45178-2		
Protocol Description	Qiagen DNeasy Blood and Tissue Kit PacBio 10kb SMRTBell	Base calling, assembly, mapping, and inter-pulse duration/base modification analysis performed by Pacific Biosciences SMRT Analysis Suite 1.4.0 Supplementary_files_format_and_content: base modifications in GFF, base modification table in CSV, motif summary in CSV - methylome data		
Protocol Type	nucleic acid library construction protocol	feature_extraction		
Comment[SecondaryAccession]	GSE45178			
Comment[GEOReleaseDate]	2013-03-15			
Comment[ArrayExpressSubmissionDate]	2013-03-14			
Comment[GEOLastUpdateDate]	2013-03-16			
Comment[AEExperimentType]	methylation profiling by high throughput sequencing			
Comment[SecondaryAccession]	SRP017708			
SDRF File	E-GEOD-45178.sdrf.txt