CGH (Chin, Caldas et al. Genome Bio 2007)

{"idtype":"probe","userlevel":"basic","label":"Agilent Human 1A array (hg18) e.g. A_23_P149050","author":"Jing Zhu","name":"probeMap/probesAgilent1AWholeGenome_hg18","assembly":"hg18","type":"probeMap","wrangler":"Jing Zhu","version":"2012-06-14"}

{"longTitle":"Gene Expression (Naderi, Caldas et al. Oncogene 2007)","cohort":"Breast Cancer (Caldas 2007)","url":"http://www.ncbi.nlm.nih.gov/pubmed/16936776","probeMap":"probeMap/probesAgilent1AWholeGenome_hg18","dataSubType":"gene expression","citation":"Oncogene. 2007 Mar 1;26(10):1507-16. Epub 2006 Aug 28.","label":"Caldas, Naderi Gene Exp","articletitle":"A gene-expression signature to predict survival in breast cancer across independent data sets.","tags":["cancer"],"anatomical_origin":["Breast"],"name":"Caldas2007/naderi2007Exp_genomicMatrix","dataproducer":"Naderi A, Teschendorff AE, Barbosa-Morais NL, Pinder SE, Green AR, Powe DG, Robertson JF, Aparicio S, Ellis IO, Brenton JD, Caldas C.","wrangling_procedure":"Acquired Human1A (V2) array annotation from Agilent website and formatted its data into bed12 format. Since agilent information is in hg17 coordinates, the bed12 file is converted to hg18 coordinates. Genomic data from Naderi et al. publication was obtained from MIAMExpress at EBI using accession number E-UCon-1. Expression data was  mapped via probe ID to entries in bed12 data file. The dye-swap information was obtained from publication website subpplemental data, dye-swap signal is inversed (sign changed in log space signal) accordingly. Data from same patient are integrated by taking mean of all values.   ","sample_type":["tumor"],"type":"genomicMatrix","wrangler":"Jing Zhu","version":"2011-11-01","gdata_tags":["transcription","mRNA"],"primary_disease":"breast cancer"}

Gene Expression (Naderi, Caldas et al. Oncogene 2007)

{"longTitle":"Gene Expression (Chin et al. Cancer Cell 2006)","cohort":"Breast Cancer (Chin 2006)","url":"http://www.ncbi.nlm.nih.gov/pubmed/17157792","probeMap":"probeMap/affyU133_ucscGenomeBrowser_hg18.probeMap","dataSubType":"gene expression","citation":"Cancer Cell. 2006 Dec;10(6):529-41.","label":"Gene expression","articletitle":"Genomic and transcriptional aberrations linked to breast cancer pathophysiologies.","tags":["cancer"],"anatomical_origin":["Breast"],"name":"chin2006_public/chin2006Exp_genomicMatrix","dataproducer":"Chin K et. al.","sample_type":["tumor"],"type":"genomicMatrix","version":"2011-11-01","gdata_tags":["transcription","mRNA"],"primary_disease":"breast cancer"}