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[IDF]
#
# MAGE-TAB Submission 'Test UHTS template generation', generated at 2009-06-18T15:30:42Z
#
# Please save this page to disk, and edit it using any spreadsheet program (e.g.,
# Microsoft Excel, OpenOffice.org Calc). This file can be imported into either of
# these applications as a tab-delimited text file. It is highly recommended that
# you set the cell format to plain text throughout the spreadsheet, to avoid
# 'helpful' changes made by the spreadsheet application. Once you have completed
# this spreadsheet please upload it using the submissions webpage alongside your
# data files:
#    http://www.ebi.ac.uk/cgi-bin/microarray/magetab.cgi
#
# Please see http://tab2mage.sourceforge.net/docs/magetab_subs.html for
# information on filling in the IDF and SDRF sections below.
#
# All lines beginning with the '#' character are treated as comments and ignored.


# This section contains the top-level information for your experiment.
Investigation Title	Test UHTS template generation
Experiment Description	
Experimental Design	strain_or_line_design	in_vitro_design	co-expression_design	high_throughput_sequencing_design

# Please create as many Experimental Factors here as you need to
# describe the variables investigated by your experiment.
Experimental Factor Name	STRAINORLINE
Experimental Factor Type	strain_or_line

# Quality Control Type examples: dye_swap_quality_control, biological_replicate, technical_replicate
Quality Control Type	

# Dates should be entered in the form YYYY-MM-DD. If you are using MS Excel,
# it is recommended that you set your spreadsheet to 'text' format throughout
# to help avoid any unwanted changes made by Excel.
Public Release Date	

# Please list contact details in columns, below:
Person Last Name	Test submitter	
Person First Name		
Person Mid Initials		
Person Email	noreply@ebi.ac.uk	
Person Phone		
Person Address		
Person Affiliation		
Person Roles	submitter	

# Please list all publications associated with this submission, in columns:
PubMed ID	
Publication Author List	
Publication Title	
Publication Status	

# The next section describes the protocols used in your
# experiment. Please select your own Protocol Names (e.g. 'GROWTH',
# 'TREATMENT') for use within this spreadsheet, or re-use ArrayExpress
# protocols by using the assigned ArrayExpress protocol accession
# numbers in your SDRF. If you have already submitted protocols to
# ArrayExpress, you can retrieve these using this web page:
#    http://www.ebi.ac.uk/aerep/
Protocol Name	GROWTH	TREATMENT	EXTRACTION	SEQUENCING	DATA_GENERATION	NORMALIZATION	TRANSFORMATION
Protocol Type	grow	specified_biomaterial_action	nucleic_acid_extraction	sequencing	scanning	bioassay_data_transformation	bioassay_data_transformation
Protocol Description	<your growth protocol text here>	<your treatment protocol text here>	<your nucleic acid extraction protocol text here>	<your sequencing protocol text here>	<your data generation protocol text here>	<your normalization protocol text here>	<your transformation protocol text here>
# You MUST sepcify the sequencing platform used, e.g. Illumina Genome Analyzer II, on the line below
Protocol Hardware				<enter name of sequencing platform here>

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[SDRF]
# The SDRF section contains all the information linking your samples
# to your data files. Please feel free to add as many new
# Characteristics[] or FactorValue[] columns as necessary to
# completely describe your experiment. See this web page for help with
# supported data file formats:
#   http://tab2mage.sourceforge.net/docs/datafiles.html
#
# The first line below has been filled in with example terms, where possible:
Source Name	Material Type	Characteristics[Organism]	Characteristics[Age]	Unit[TimeUnit]	Characteristics[CellLine]	Characteristics[Sex]	Characteristics[StrainOrLine]	Characteristics[BioSourceType]	Characteristics[CellType]	Characteristics[BioSourceProvider]	Protocol REF	Protocol REF	Protocol REF	Extract Name	Comment[LIBRARY_LAYOUT]	Comment[LIBRARY_SOURCE]	Comment[LIBRARY_STRATEGY]	Comment[LIBRARY_SELECTION]	Protocol REF	Assay Name	Technology Type	Protocol REF	Array Data File	Protocol REF	Derived Array Data File	Protocol REF	Derived Array Data Matrix File	Factor Value[STRAINORLINE]
# Unique IDs for biosources (experimental starting materials)	# MaterialType term from MGED ontology	# Sample latin species name	# Sample Age value, e.g. 20 years	# Time units for Characteristic	# Sample CellLine value	# Sample Sex value	# Sample StrainOrLine value	# Sample BioSourceType value	# Sample CellType value	# Sample BioSourceProvider value	# Growth protocol, where applicable	# Sample treatment protocol	# RNA/DNA extraction	# Unique IDs for extracts (RNA or DNA)	# either SINGLE or PAIRED	# one of GENOMIC, NON GENOMIC, SYNTHETIC, VIRAL RNA, OTHER	# one of WGS, WCS, CLONE, POOLCLONE, AMPLICON, BARCODE, CLONEEND, FINISHING, ChIP-Seq, MNase-Seq, EST, FL-cDNA, CTS, OTHER	# one of RANDOM, PCR, RANDOM PCR, RT-PCR, HMPR, MF, CF-S, CF-M, CF-H, CF-T, MSLL, cDNA, ChIP, MNase, other, unspecified	# Sequencing protocol	# Unique IDs for assays	# Type of assay	# Data generation protocol	# Unprocessed data file e.g. SRF	# Data normalization	# Normalized data	# Protocol producing final data matrix file	# Final data matrix file(s)	# Value for STRAINORLINE Experimental Factor
Cell culture 1	cell	Homo sapiens		hours							GROWTH	TREATMENT	EXTRACTION	RNA Extract 1	SINGLE	GENOMIC	WGS	RANDOM	SEQUENCING	assay 1	high_throughput_sequencing	DATA_GENERATION		NORMALIZATION		TRANSFORMATION