Investigation Title	Solexa analysis of Galapagos finches		
Experiment Description	Solexa analysis of Galapagos finches		
Experimental Design	growth_condition_design	replicate_design	co-expression_design

Experimental Factor Name	STRAINORLINE		
Experimental Factor Type	strain_or_line		
Experimental Factor Term Source REF	MGED Ontology		

Quality Control Type	biological_replicate		

Public Release Date	2008-01-01		

Person Last Name	Darwin		
Person First Name	Charles		
Person Mid Initials			
Person Email	Charles@darwin.com		
Person Phone				
Person Address	"Beagle Institute of Theoretical Experiments, Down House, Downe, Kent, UK"			
Person Affiliation	Beagle Institute of Theoretical Experiments			
Person Roles	submitter			

PubMed ID				
Publication Author List	"Darwin, C"			
Publication Title	Solexa analysis of Galapagos finches			
Publication Status	Submitted			

Protocol Name	EXTRACTION	NORMALIZATION	SOLEXA SEQ	SOLEXA DATA ACQUISITION
Protocol Type	nucleic_acid_extraction	bioassay_data_transformation	sequencing	
Protocol Description	"All cDNA samples were prepared by treating ~1 mg of total RNA for 30 min with amplification grade RNase-free DNase (Invitrogen), according to the manufacturer's protocols. PolyA enriched RNA was then prepared using an oligo(dT) selection kit (Oligotex Direct mRNA MiniKit, Qiagen). The resulting poly(A)-enriched RNA was then converted to double-stranded cDNA using a cDNA synthesis kit (Superscript choice system for cDNA synthesis, Invitrogen)."	"FASTQ files of sequencing reads were retrieved from the sequencing machine and converted into FASTA files. FASTA sequences were filtered, aligned to the genome and relative gene expression scores calculated based on a finch reference genome."		
Protocol Hardware			Solexa 1G Genome Analyzer	
Protocol Term Source REF	MGED Ontology			

Term Source Name	MGED Ontology
Term Source File	http://mged.sourceforge.net/ontologies/MGEDontology.php
Term Source Version	1.3.0.1

SDRF File	solexa_example.sdrf.txt