Puram, Tirosh, Parikh, et al. from the Bernstein and Regev labs have completed a detailed single cell transcriptomic analysis of matched primary tumor and metastatic lymph nodes in head and neck squamous cell carcinoma patients, defining the landscape of tumor heterogeneity. The research team has identified a subpopulation of malignant cells which express a partial … Continued
In a Review in Science this week, Flavahan et al. lay out a case for how epigenetic plasticity can lead to all the key hallmarks of cancer. Summary – Reprint – Full Text
Drier et al. describe how enhancer hijacking rewires the regulation of the oncogenic transcription factor MYB and drives adenoid cystic carcinoma. Translocation of MYB near super-enhancers that are themselves bound by MYB creates a vicious cycle where MYB drives its own transcription. MYB also binds enhancers that drive different regulatory programs in alternate cell lineages in … Continued
Will Flavahan, Yotam Drier, et al. demonstrate that hypermethylation-induced loss of genomic insulator function causes the development of oncogenic genome topology configurations in IDH1-mutant glioma. This topological restructuring allows a constitutive housekeeping enhancer to interact with and drive the potent glioma oncogene PDGFRA. Key Findings: -The hypermethylator phenotype observed in IDH1-mutant glioma extends to CpGs … Continued
van Galen et al. introduce Mint-ChIP, an approach for multiplexed ChIP-seq on small cell numbers. The approach allows quantitative comparisons of global and locus-specific histone modification levels. The technology is demonstrated by mapping hematopoietic stem cell chromatin landscapes and quantifying changes in leukemia cells treated with epigenetic inhibitors. Detailed protocol now available on the Resources page. … Continued
Russell Ryan and Yotam Drier describe PEAR-ChIP, a novel approach for the detection of genomic rearrangements associated with acetylated chromatin. The authors apply this technology to patient samples from several distinct subtypes of B cell lymphoma, revealing therapeutically targetable rearrangements, and uncovering novel mechanisms by which the oncogenes MYC and BCL6 are regulated via native … Continued
Dylan joins us as a new Research Assistant, Sara joins us as a new PhD student, while Sarah, Sid and Anuraag join us as new postdoctoral fellows. Welcome all!
Happy Holidays from the Bernstein lab and friends!
Laura joins us as the new Lab Manager. Peter joins us from John Dick’s lab at the University of Toronto. Will is coming to us from Jeremy Rich’s lab at the Cleveland Clinic. Welcome!