# Simple example summary spreadsheet for tab2mage.pl script.																					
# This file illustrates how to incorporate normalized data into the spreadsheet.																					
# Lines starting with a '#' are treated as comments and are ignored.																					
																					
Experiment section																					
domain	ebi.ac.uk																				
accession	E-EXML-4																				
quality_control	dye_swap_quality_control																				
experiment_design_type	strain_or_line_design																				
name	Transcriptome analysis of invasive verses non-invasive strains of budding yeast 																				
description	An experiment was performed to...																				
release_date	2004-08-30																				
submission_date	2004-07-28																				
submitter	John Falstaff																				
# The publication details below are fictitious																					
publication_title	Comparison of the transcriptomes of invasive verses non-invasive strains of budding yeast 																				
authors	John Falstaff; Robin Goodfellow																				
journal	Nature Genetics																				
volume	12																				
issue	4																				
pages	123-456																				
year	2004																				
																					
# Protocol text may be formatted using standard HTML tags																					
Protocol section																					
accession	text	name																			
P-EXML-1	Cells were grown in YPD (1% yeast extract/2% peptone/2% glucose) to an OD600 of approximately 0.8	Yeast growth																			
P-EXML-2	Your protocol text here	Yeast cell harvesting																			
P-EXML-3	Your protocol text here	Cell lysis and RNA prep																			
P-EXML-4	Your protocol text here	cDNA labeling																			
P-EXML-5	Your protocol text here	Hybridization																			
P-EXML-6	Your protocol text here	Scanning																			
P-EXML-7	Your protocol text here	Log Ratio Normalization																			
																					
Hybridization section																					
File[raw]	File[normalized]	NormalizationType	Protocol[normalization]	Array[accession]	Array[serial]	Protocol[grow]	Protocol[treatment]	Protocol[extraction]	Protocol[labeling]	Protocol[hybridization]	Protocol[scanning]	BioSource	BioSourceMaterial	SampleMaterial	ExtractMaterial	LabeledExtractMaterial	Dye	FactorValue[StrainOrLine]	BioMaterialCharacteristics[Organism]	BioMaterialCharacteristics[StrainOrLine]	BioMaterialCharacteristics[Sex]
Data1.txt	NormData1.txt	log_ratio	P-EXML-7	A-EXML-1	244532	P-EXML-1	P-EXML-2	P-EXML-3	P-EXML-4	P-EXML-5	P-EXML-6	S288C	whole_organism	whole_organism	total_RNA	synthetic_DNA	Cy5	S288C	Saccharomyces cerevisiae	S288C	mating_type_a
Data1.txt	NormData1.txt	log_ratio	P-EXML-7	A-EXML-1	244532	P-EXML-1	P-EXML-2	P-EXML-3	P-EXML-4	P-EXML-5	P-EXML-6	Sigma1278b	whole_organism	whole_organism	total_RNA	synthetic_DNA	Cy3	Sigma1278b	Saccharomyces cerevisiae	Sigma1278b	mating_type_a
Data2.txt	NormData2.txt	log_ratio	P-EXML-7	A-EXML-1	244533	P-EXML-1	P-EXML-2	P-EXML-3	P-EXML-4	P-EXML-5	P-EXML-6	S288C	whole_organism	whole_organism	total_RNA	synthetic_DNA	Cy3	S288C	Saccharomyces cerevisiae	S288C	mating_type_a
Data2.txt	NormData2.txt	log_ratio	P-EXML-7	A-EXML-1	244533	P-EXML-1	P-EXML-2	P-EXML-3	P-EXML-4	P-EXML-5	P-EXML-6	Sigma1278b	whole_organism	whole_organism	total_RNA	synthetic_DNA	Cy5	Sigma1278b	Saccharomyces cerevisiae	Sigma1278b	mating_type_a