Research in the Shalek Lab is directed towards the creation and implementation of new technologies to understand how cells collectively perform systems-level functions in healthy and diseased states. We employ a comprehensive, five-step approach , developing innovative methodologies and applying them across multiple systems to empower more mechanistic inquiry and a deeper understanding of the rules that govern ensemble cellular behaviors.
We analyze multiple datasets spanning organ systems in human and non-human primate to identify putative target cells of SARS-CoV-2. We establish the entry receptor, ACE2, to be an interferon-stimulated gene in human, but not murine, airway cells.
We profile the longitudinal immune dynamics of untreated HIV-1 infection in multiple individuals from pre-infection through chronic infection. We develop a framework to characterize temporally-correlated gene programs in different cell types.
We develop Seq-Well, a portable and inexpensive platform for high-throughput single-cell RNA sequencing. We report robust transcriptional profiling on cell lines and primary human cells - and envision its use in dissecting complex clinical samples.
Alex was recently featured in Nature on how he approaches writing recommendation letters for his trainees and students. Read it here!
Our very own Constantine Tzouanas has been named a 2020 Hertz Fellow! We're very excited for this achievement, and looking forward to what's in store. Read more about the Hertz Fellowship and Constantine here.
With Boston Children's Hospital PI (and former post-doc!) Jose Ordovas-Montanes, we will expand our COVID-19-related research to include understanding disease pathogenesis in a pediatric cohort - the data and findings of which will be readily accessible to the scientific community. Learn more about our and others' efforts from CZI here…