Dr. Sohrab Shah’s paper led by Salehi, et al. details their study where 42,000 genomes were generated from multi-year time-series single-cell whole-genome sequencing of breast epithelium and primary triple-negative breast cancer (TNBC) patient-derived xenografts (PDXs), revealing the nature of CNA-defined clonal fitness dynamics induced by TP53 mutation and cisplatin chemotherapy. Using a new Wright–Fisher population genetics model to...Read More

Dr. Elli Papaemmanuil‘s paper led by Bolton, et al. followed a large cohort (25K) of solid tumor patients retrospective including longitudinal samples from 525 individuals. They show how different oncologic therapies and other environmental stressors promotes the expansion of hematopoietic stem/progenitor cells bearing specific mutations. The group then went on to show what mutational features...Read More

Dr. Elli Papaemmanuil‘s large international study on myelodysplastic syndrome and acute myeloid leukemia revealed the impact of TP53 gene mutations on blood cancer severity. 25 centers from 12 different countries contributed clinical data for over 4,000 patients. Dr. Elsa Bernard, first author on the paper and a postdoc in Dr. Papaemmanuil’s lab, presenting the results...Read More

Research from Computational Oncology reports on the pervasive presence and function of composite mutations: two or more mutations to the same gene. They describe the myriad ways that these mutations interact to promote the development and progression of cancer. Dr. Ed Reznik explains more about his lab’s recent paper on his Twitter. Dr. Barry Taylor...Read More

Researchers at Memorial Sloan Kettering and the University of British Columbia/BC Cancer have developed a tool for sequencing the genomes of individual cancer cells on a massive scale. The resource will speed up scientists’ understanding of tumor evolution. For more information, please see this blog post. Dr. Sohrab Shah also explains DLP+ in brief on...Read More

Applications are invited from computer science & applied math undergraduate freshmen, sophomores, and juniors interested in pursuing research at the interface of computer science and biomedicine for a summer research experience. Applicants must have computer science experience and fluency. CBSP is sponsored by an NCI grant to Memorial Sloan Kettering Cancer Center (1 R25 CA233208-01)...Read More

Congratulations to Dr. Ed Reznik on his 2019 Young Investigator Award from the Kidney Cancer Association on Metabolic determinants of the tumor microenvironment and sensitivity to immunotherapy in ccRCC. The introduction of immunotherapy has transformed the management of advanced kidney cancer. Although many kidney cancer patients benefit from immunotherapy, there is a formidable gap in...Read More

Today our new computational method for assigning cell types of the tumour microenvironment has been published in Nature Methods. The microenvironment is the set of immune and structural cells that surround and interact with tumours, and has important consequences for both patient prognosis and response to therapy. Recently, single-cell RNA-sequencing (scRNA-seq) has given us the...Read More