Investigation Title	Transcription profiling of karp under hypoxic conditions
Comment[Submitted Name]	Jane Fraser's Hypoxia in Carp
Experimental Design	stimulus_or_stress_design	growth_condition_design	transcription profiling by array
Experimental Design Term Source REF	The MGED Ontology	The MGED Ontology	EFO
Comment[ArrayExpressReleaseDate]
Comment[AEMIAMESCORE]	2
Comment[ArrayExpressAccession]	E-MAXD-10
Comment[MAGETAB TimeStamp_Version]	2010-09-07 12:34:59 Last Changed Rev: 13833
Experimental Factor Name	change_biomaterial_characteristics	acclimatization	change_temperature
Experimental Factor Type	change_biomaterial_characteristics	acclimatization	change_temperature
Experimental Factor Term Source REF
Person Last Name	Fraser	unknown
Person First Name	Jane	unknown
Person Mid Initials
Person Email
Person Phone
Person Fax
Person Address
Person Affiliation	University of Liverpool
Person Roles	submitter
Person Roles Term Source REF
Quality Control Type	biological_replicate
Quality Control Term Source REF	The MGED Ontology
Replicate Type	dye_swap_replicate	biological_replicate
Replicate Term Source REF	The MGED Ontology	The MGED Ontology
Normalization Type
Normalization Term Source REF
Date of Experiment
Public Release Date	2005-01-01
PubMed ID	16469844
Publication DOI	16469844
Publication Author List	Fraser, Jane; Vieira de Mello, Luciane; Ward, Deborah; Rees, Huw H.; Williams, Daryl R.; Fang, Yongchang; Brass, Andrew; Gracey, Andrew Y.; Cossins, Andrew R.
Publication Title	From The Cover: Hypoxia-inducible myoglobin expression in nonmuscle tissues
Publication Status	journal_article
Publication Status Term Source REF
Experiment Description
Protocol Name	uk.ac.man.bioinf.maxdLoad2:cossins.hypoxia-1:[SamplingProtocol]Acclimate_17C/0	uk.ac.man.bioinf.maxdLoad2:cossins.hypoxia-1:[SamplingProtocol]Acclimate_30C/1	uk.ac.man.bioinf.maxdLoad2:cossins.hypoxia-1:[TreatmentProtocol]D8_17C-tank/4	uk.ac.man.bioinf.maxdLoad2:cossins.hypoxia-1:[TreatmentProtocol]D5_17C-tank/3	uk.ac.man.bioinf.maxdLoad2:cossins.hypoxia-1:[TreatmentProtocol]D0_30C-tank/5	uk.ac.man.bioinf.maxdLoad2:cossins.hypoxia-1:[TreatmentProtocol]D1_30C-tank/6	uk.ac.man.bioinf.maxdLoad2:cossins.hypoxia-1:[TreatmentProtocol]D3_30C-tank/7	uk.ac.man.bioinf.maxdLoad2:cossins.hypoxia-1:[TreatmentProtocol]D0_17C-tank/0	uk.ac.man.bioinf.maxdLoad2:cossins.hypoxia-1:[TreatmentProtocol]D1_17C-tank/1	uk.ac.man.bioinf.maxdLoad2:cossins.hypoxia-1:[TreatmentProtocol]D3_17C-tank/2	uk.ac.man.bioinf.maxdLoad2:cossins.hypoxia-1:[TreatmentProtocol]D5_30C-tank/8	uk.ac.man.bioinf.maxdLoad2:cossins.hypoxia-1:[TreatmentProtocol]D8_30C-tank/9	uk.ac.man.bioinf.maxdLoad2:cossins.hypoxia-1:[ExtractionProtocol]IntestineExtract/2	uk.ac.man.bioinf.maxdLoad2:cossins.hypoxia-1:[ExtractionProtocol]MuscleExtract/4	uk.ac.man.bioinf.maxdLoad2:cossins.hypoxia-1:[ExtractionProtocol]HeartExtract/1	uk.ac.man.bioinf.maxdLoad2:cossins.hypoxia-1:[ExtractionProtocol]LiverExtract/3	uk.ac.man.bioinf.maxdLoad2:cossins.hypoxia-1:[ExtractionProtocol]BrainExtract/0	uk.ac.man.bioinf.maxdLoad2:cossins.hypoxia-1:[LabellingProtocol]Labelling/0	uk.ac.man.bioinf.maxdLoad2:cossins.hypoxia-1:[ImageAnalysisProtocol]ImageAnalysis/0
Protocol Type	acclimatization	acclimatization	behavioral_stimulus	behavioral_stimulus	behavioral_stimulus	behavioral_stimulus	behavioral_stimulus	behavioral_stimulus	behavioral_stimulus	behavioral_stimulus	behavioral_stimulus	behavioral_stimulus	nucleic_acid_extraction	nucleic_acid_extraction	nucleic_acid_extraction	nucleic_acid_extraction	nucleic_acid_extraction	labeling	feature_extraction
Protocol Description	Title: Acclimate_17C. Description: Common Carp were acclimated in a tank at 17°C ± 0.5°C for a 2 month period iin large 2,000-l aquaria. The carp were fed twice daily on trout pellets (Trouw, Preston, United Kingdom). They were then transferred to 1,000-l tanks.	Title: Acclimate_30C. Description: Common Carp were acclimated in a tank at 30°C ± 0.5°C for a 2 month period iin large 2,000-l aquaria. The carp were fed twice daily on trout pellets (Trouw, Preston, United Kingdom). They were then transferred to 1,000-l tanks.	Title: D8_17C-tank. Description: Carp were removed from the 17°C Tank 8 days after the tank was reduced to 0.8mg/l (8% normoxia) over a 3 hour period.	Title: D5_17C-tank. Description: Carp were removed from the 17°C Tank 5 days after the tank was reduced to 0.8mg/l (8% normoxia) over a 3 hour period.	Title: D0_30C-tank. Description: Carp were removed from the 30°C Tank before the tank's oxygen level was reduced to 0.8mg/l (10% normoxia) over a 3-hour period	Title: D1_30C-tank. Description: Carp were removed from the 30°C Tank 1 day after the tank was reduced to 0.8mg/l (10% normoxia) over a 3 hour period.	Title: D3_30C-tank. Description: Carp were removed from the 30°C Tank 3 days after the tank was reduced to 0.8mg/l (10% normoxia) over a 3 hour period.	Title: D0_17C-tank. Description: Carp were removed from the 17°C Tank before the tank's oxygen level was reduced to 0.8mg/l (8% normoxia) over a 3-hour period	Title: D1_17C-tank. Description: Carp were removed from the 17°C Tank 1 day after the tank was reduced to 0.8mg/l (8% normoxia) over a 3 hour period.	Title: D3_17C-tank. Description: Carp were removed from the 17°C Tank 3 days after the tank was reduced to 0.8mg/l (8% normoxia) over a 3 hour period.	Title: D5_30C-tank. Description: Carp were removed from the 30°C Tank 5 days after the tank was reduced to 0.8mg/l (10% normoxia) over a 3 hour period.	Title: D8_30C-tank. Description: Carp were removed from the 30°C Tank 8 days after the tank was reduced to 0.8mg/l (10% normoxia) over a 3 hour period.	Title: IntestineExtract. Description: The intestines were dissected from the a fish and total RNA was extracted from tissues by using TRIzol (Invitrogen) according to the manufacturers instructions. The poly(A)+ RNA was purified over silicabased columns (Nucleospin RNA II kit, Clontech) according to the manufacturers instructions.	Title: MuscleExtract. Description: The skeletal muscle was excised epaxially adjacent to the dorsal fin from the a fish and total RNA was extracted from tissues by using TRIzol (Invitrogen) according to the manufacturers instructions. The poly(A)+ RNA was purified over silicabased columns (Nucleospin RNA II kit, Clontech) according to the manufacturers instructions.	Title: HeartExtract. Description: The heart was dissected from the a fish and total RNA was extracted from tissues by using TRIzol (Invitrogen) according to the manufacturers instructions. The poly(A)+ RNA was purified over silicabased columns (Nucleospin RNA II kit, Clontech) according to the manufacturers instructions.	Title: LiverExtract. Description: The liver was dissected from the a fish and total RNA was extracted from tissues by using TRIzol (Invitrogen) according to the manufacturers instructions. The poly(A)+ RNA was isolated over oligo-dT resin (Ambion, Austin, TX) according to the manufacturers instructions.	Title: BrainExtract. Description: The brain was dissected from the a fish and total RNA was extracted from tissues by using TRIzol (Invitrogen) according to the manufacturers instructions. The poly(A)+ RNA was purified over silicabased columns (Nucleospin RNA II kit, Clontech) according to the manufacturers instructions.	Title: Labelling. Description: Fluorescently labeled cDNA was synthesized by using amino-allyl adducts coupled to Cy3 and Cy5 fluors (according to protocol available at www.microarrays.org).	Title: ImageAnalysis. Description: Array images were extracted by using the GENEPIX 3.0 software (Axon Instruments) with default settings
Protocol Parameters
Protocol Hardware
Protocol Software
Protocol Contact
Protocol Term Source REF	mo	mo	mo	mo	mo	mo	mo	mo	mo	mo	mo	mo
SDRF File	E-MAXD-10.sdrf.txt
Term Source Name	mo	ArrayExpress	The MGED Ontology	EFO	mo
Term Source File	http://mged.sourceforge.net/ontologies/MGEDontology.php	http://www.ebi.ac.uk/arrayexpress	http://mged.sourceforge.net/ontologies/MGEDontology.php	http://www.ebi.ac.uk/efo/	http://mged.sourceforge.net/ontologies/MGEDontology.php
Term Source Version