Investigation Title	Transcription profiling of human paediatric acute lymphoblastic leukaemia	
Comment[Submitted Name]	Gene expression analysis of paediatric acute lymphoblastic leukaemia	
Experimental Design	unknown_experiment_design_type	transcription profiling by array	
Experimental Design Term Source REF		EFO	
Comment[AEMIAMESCORE]	3	
Comment[SecondaryAccession]	GSE13280	
Comment[ArrayExpressReleaseDate]	2008-11-13	
Comment[ArrayExpressAccession]	E-GEOD-13280	
Comment[MAGETAB TimeStamp_Version]	2010-07-30 10:02:39 Last Changed Rev: 13058	
Experimental Factor Name	
Experimental Factor Type	
Experimental Factor Term Source REF	
Person Last Name	McConville	
Person First Name	Carmel	
Person Mid Initials	
Person Email	c.mcconville@bham.ac.uk	
Person Phone	
Person Fax	
Person Address	School of Cancer Sciences, University of Birmingham, Vincent Drive, Birmingham, B15 2TT, United Kingdom	
Person Affiliation	University of Birmingham	
Person Roles	submitter	
Person Roles Term Source REF	The MGED Ontology	
Quality Control Type	
Quality Control Term Source REF	
Replicate Type	
Replicate Term Source REF	
Normalization Type	
Normalization Term Source REF	
Date of Experiment	
Public Release Date	2008-11-13	
PubMed ID	18941120	
Publication DOI	18941120	
Publication Author List	Weston Marston, Maina Jesson, Agathanggelou McConville, Mapp Skowronska, Powell Sameith, Kearns Lawson, Taylor Falciani,  Stankovic	
Publication Title	Stratification of paediatric ALL by in vitro cellular responses to DNA double strand breaks provides insight into the molecular mechanisms underlying clinical response.	
Publication Status	journal_article	
Publication Status Term Source REF	The MGED Ontology	
Experiment Description	We addressed the clinical significance and mechanisms behind in vitro cellular responses to ionising radiation (IR)-induced DNA double strand breaks in 74 paediatric ALL patients. We found an apoptosis-resistant response in 36% of patients and an apoptosis-sensitive response in the remaining 64% of leukaemias. Global gene expression profiling of 11 apoptosis-resistant and 11 apoptosis-sensitive ALLs revealed abnormal up-regulation of multiple pro-survival pathways in response to IR in apoptosis-resistant leukaemias and differential post-transcriptional activation of the PI3-Akt pathway was observed in representative resistant cases. It is possible that abnormal pro-survival responses to DNA damage provide one of the mechanisms of primary resistance in ALL . Experiment Overall Design: Twenty two B-precursor ALL tumours (11 responsive to IR-induced DNA damage and 11 resistant) were analysed before and 8 hours after exposure to 5 Gy IR, using the Affymetrix HG_U133A (GPL96) platform.	
Protocol Name	P-G13280-1	P-G13280-2	P-G13280-4	P-G13280-3	P-AFFY-6	
Protocol Type	grow	specified_biomaterial_action	nucleic_acid_extraction	labeling	feature_extraction	
Protocol Description	Mononuclear cells were isolated from bone marrow aspirate using Ficoll-Paque (Amersham Biosciences, Piscataway, NJ), and cells were cultured in RPMI 1640. Only samples with more than 90% of blast cells were used for analysis.	Cells were irradiated and maintained in culture for 8 hours, or maintained for 8 h without irradiation.	Standard Affymetrix protocol	Standard Affymetrix protocol	Title: Affymetrix CEL analysis. Description: 	
Protocol Parameters	
Protocol Hardware	
Protocol Software					MicroArraySuite 5.0	
Protocol Contact	
Protocol Term Source REF	
SDRF File	E-GEOD-13280.sdrf.txt	
Term Source Name	ncbitax		The MGED Ontology	ArrayExpress	EFO	The MGED Ontology	
Term Source File	http://www.ncbi.nlm.nih.gov/Taxonomy/taxonomyhome.html		http://mged.sourceforge.net/ontologies/MGEDontology.php	http://www.ebi.ac.uk/arrayexpress	http://www.ebi.ac.uk/efo/	http://mged.sourceforge.net/ontologies/MGEDontology.php	
Term Source Version