Alex Featured in Cell Systems

Alex Featured in Cell Systems

Mar 18, 2021

Alex was recently features in Cell Systems’ “Voices” piece on the future of understanding cell behavior and cellular communities. Read his opinion, and that of other leading voices in the field, here.

Seq-Well S^3 Released

Seq-Well S^3 Released

Oct 13, 2020

Our improvements to the Seq-Well scRNA-seq platform were release today – read the publication in Immunity here and the press release here.

Study Describing ACE2 as an Interferon-Stimulated Gene Out in Cell

Study Describing ACE2 as an Interferon-Stimulated Gene Out in Cell

Apr 21, 2020

Our study showing ACE2, the entry receptor for SARS-CoV-2, as an interferon-stimulated gene is now out in Cell here. Read about the study in The Boston Globe and MIT News, C&EN, NIH Director’s blog, among others. Datasets analyzed in this study are described here and can be downloaded from our single-cell portal here. We hope […]

New Study on Increased TB Vaccine Efficacy Now Out

New Study on Increased TB Vaccine Efficacy Now Out

Jan 02, 2020

Our paper on increased tuberculosis (TB) vaccine efficacy with intravenous injection in nonhuman primates is now out in Nature. With collaborators at the National Institutes of Health’s National Institute of Allergy and Infectious Diseases and others, we show greatly enhanced immune protection and outcome compared to traditional intradermal injection of the TB vaccine BCG, which […]

Paired Single-cell Transcriptome-TCR Methods in Nature Immunology

Paired Single-cell Transcriptome-TCR Methods in Nature Immunology

Nov 19, 2019

Our recent paper details a strategy, co-developed with the Love Lab at MIT, for pairing TCR sequencing with whole-transcriptome profiling in single-cells via 3′-barcoded techniques. Using a targeted pulldown and amplification method, we are able to sequence TCR CDR3 regions from pre-existing scRNA-seq libraries, increasing the amount of orthogonal information recoverable from archived samples. Read […]

New Paper on Neuroimmune Interactions on BioRxiv

New Paper on Neuroimmune Interactions on BioRxiv

Nov 13, 2019

We’re stoked to have this paper up! We present our work finding new roles for sensory neurons within inflammatory responses and previously unappreciated axes of neuro-immune crosstalk. Led by Shalek lab MD-PhD student Carly Ziegler and post doc Tracy Huang with Uli von Andrian, we find that lymph nodes are not only innervated by sensory […]

Our Paper on Tuberculosis Infection Featured in NIH News

Our Paper on Tuberculosis Infection Featured in NIH News

Jun 06, 2019

A recent paper published in Nature from the Shalek lab and collaborators was featured in NIH News. Ardain et. al. demonstrate that group 3 innate lymphoid cells localize to the lungs soon after M. tuberculosis infection, providing an early line of defense against tuberculosis (TB). This understanding of the initial immune response to TB may […]

Alex Shalek Featured in Immunity Voices: “The Next Quarter Century”

Alex Shalek Featured in Immunity Voices: “The Next Quarter Century”

Apr 17, 2019

Immunity celebrates its 25th anniversary at an exciting time in immunology, marked by the advent of new, door-opening approaches and a deeper understanding of the centrality of the immune system to both health and disease. Alex is among 25 investigators asked to look forward and share a vision of the next quarter century of immunology […]

New Paper on Ulcerative Colitis on BioRxiv

New Paper on Ulcerative Colitis on BioRxiv

Oct 29, 2018

Our collaborative work with the Regev and Xavier labs is now available as a pre-print. Read the abstract below or read the complete version on the BioRxiv. Abstract Genome-wide association studies (GWAS) have revealed risk alleles for ulcerative colitis (UC), but their cell type and pathway specificities are often unknown. Here, we generate an atlas of […]

Our paper highlighted in Immunity

Our paper highlighted in Immunity

Oct 16, 2018

Our paper on basal cell memory in type 2 inflammation published in a recent issue of Nature is the subject of a preview article in Immunity: “In a recent issue of Nature, Ordovas-Montanes et al. (2018) used cutting-edge genomic, epigenetic, and interventional techniques to characterize the cellular ecosystem in allergic chronic rhinosinusitis. They showed that basal epithelial cells “remember” type […]

Seq-Well featured in MIT News

Seq-Well featured in MIT News

Feb 13, 2017

The Shalek Lab’s latest publication in Nature Methods describes Seq-Well, a portable, low-cost platform for single-cell RNA-sequencing that was developed in collaboration with the Love lab.

Shalek & Manalis Lab Research Featured on MIT News

Shalek & Manalis Lab Research Featured on MIT News

Jan 07, 2016

A recent Nature Communications publication between the Shalek and Manalis labs has been featured in MIT news. Kimmerling et al., demonstrate a micro-fluidic device capable of tracking of gene expression in single cells as cells divide and generate progeny. While the technology has several potential applications, Kimmerling explains one focus of interest: “In the future, this […]