{"database":"EGA","file_versions":[],"scores":null,"additional":{"omics_type":["Genomics"],"dataset_type":["N/A"],"full_dataset_link":["https://ega-archive.org/datasets/EGAD00001006307"],"sample_count":["117"],"description":["EGA dataset EGAD00001006307"],"repository":["EGA"],"title":["RNA-SEQ for the Caldas Lab breast cancer PDTX collection"],"pubmed_abstract":["The inter- and intra-tumor heterogeneity of breast cancer needs to be adequately captured in pre-clinical models. We have created a large collection of breast cancer patient-derived tumor xenografts (PDTXs), in which the morphological and molecular characteristics of the originating tumor are preserved through passaging in the mouse. An integrated platform combining in vivo maintenance of these PDTXs along with short-term cultures of PDTX-derived tumor cells (PDTCs) was optimized. Remarkably, the intra-tumor genomic clonal architecture present in the originating breast cancers was mostly preserved upon serial passaging in xenografts and in short-term cultured PDTCs. We assessed drug responses in PDTCs on a high-throughput platform and validated several ex vivo responses in vivo. The biobank represents a powerful resource for pre-clinical breast cancer pharmacogenomic studies (http://caldaslab.cruk.cam.ac.uk/bcape), including identification of biomarkers of response or resistance."],"pubmed_title":["A Biobank of Breast Cancer Explants with Preserved Intra-tumor Heterogeneity to Screen Anticancer Compounds."],"pubmed_authors":["Bruna Alejandra A, Rueda Oscar M OM, Greenwood Wendy W, Batra Ankita Sati AS, Callari Maurizio M, Batra Rajbir Nath RN, Pogrebniak Katherine K, Sandoval Jose J, Cassidy John W JW, Tufegdzic-Vidakovic Ana A, Sammut Stephen-John SJ, Jones Linda L, Provenzano Elena E, Baird Richard R, Eirew Peter P, Hadfield James J, Eldridge Matthew M, McLaren-Douglas Anne A, Barthorpe Andrew A, Lightfoot Howard H, O'Connor Mark J MJ, Gray Joe J, Cortes Javier J, Baselga Jose J, Marangoni Elisabetta E, Welm Alana L AL, Aparicio Samuel S, Serra Violeta V, Garnett Mathew J MJ, Caldas Carlos C"],"additional_accession":[]},"is_claimable":false,"name":"ena-DATASET-CRUK-CI-22-07-2020-08:24:26:904-1617 - samples","description":"RNA-SEQ for the Caldas Lab breast cancer PDTX collection. \nThis includes both single and paired end runs","dates":{"updated":"2021-07-19 13:37:47"},"accession":"EGAD00001006307","cross_references":{"TAXONOMY":["9606"],"pubmed":["27641504"],"EGA":["EGAC00001000540","EGAS00001001913"]}}