{"idtype":"probe","label":"Affy Human 500K array (hg18) e.g. SNP_A-1909444","author":"Chris Szeto","name":"probeMap/probeAffy500K","assembly":"hg18","type":"probeMap","wrangler":"Chris Szeto","version":"2012-06-14","notes":"did not double check hg18"}

{"longTitle":"Child T-ALL 500K CGH (Mullighan et al. 2008)","cohort":"Acute lymphoblastic leukemia (Mullighan 2008)","url":"http://www.ncbi.nlm.nih.gov/pubmed/19039135","probeMap":"probeMap/probeAffy500K","dataSubType":"copy number","citation":"Science 2008 Nov 28;322(5906):1377-80","label":"Mullighan CGH 500K","articletitle":"Genomic analysis of the clonal origins of relapsed acute lymphoblastic leukemia.","tags":["white blood cell","cancer"],"anatomical_origin":["Blood"],"name":"mullighan2008_public/mullighan2008_500K_genomicMatrix","dataproducer":"Mullighan CG, Phillips LA, Su X, Ma J, Miller CB, Shurtleff SA, Downing JR.","wrangling_procedure":"Wrangled from separate 250K_sty and 250K_nsp CEL files using the R aroma.affymetrix package. Quantile normalization was performed, then copy number analyzed using RMA. Chip and fragment length effects were normalized out. A GLAD model was then fitted to make gain and loss calls. Finally, raw copy numbers were extracted for each probeset. The results from each platform were then combined into a 500K file.","sample_type":["tumor"],"type":"genomicMatrix","wrangler":"Chris Szeto","version":"2011-11-01","primary_disease":"acute lymphoblastic leukemia"}

Child T-ALL 500K CGH (Mullighan et al. 2008)

{"cohort":"Acute lymphoblastic leukemia (Mullighan 2008)","dataSubType":"phenotype","label":"Phenotypes","tags":["cancer"],"name":"mullighan2008_public/mullighan2008_public_clinicalMatrix","clinicalfeature":"mullighan2008_public/mullighan2008_public_clinicalFeature","type":"clinicalMatrix","wrangler":"Chris Szeto","version":"2011-11-11"}

{"idtype":"probe","userlevel":"basic","label":"Affy Human SNP6 array (hg18) e.g. CN_473963","author":"Chris Szeto","name":"probeMap/probesAffySNP6","assembly":"hg18","type":"probeMap","wrangler":"Chris Szeto","version":"2012-06-14"}