@BlaineyLab

Official Twitter account of the Blainey Lab @broadinstitute

 Cambridge, MA
blainey.mit.edu/
Joined December 2020
  • Tweets59
  • Following64
  • Followers1.1K
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And in an excellent news piece from @broadinstitute more context on our cellular self-reporting platform published in @CellCellPress broadinstitute.org/news/new-…

New method allows scientists to follow gene activity over time in the same cells

In the new method, cells package and export their RNA, enabling researchers to sequence and analyze the RNA without killing the cells.

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Out now in @CellCellPress our approach for cellular-self reporting: live-cell transcriptomics with engineered virus-like particles in collab w/ @LindaGGriffith1 lab @MIT @broadinstitute cell.com/cell/fulltext/S0092…

Live-cell transcriptomics with engineered virus-like particles

Najia, Le, Borrajo et al. establish “cellular self-reporting,” a technology to export molecular analytes from cells in virus-like particles. The authors demonstrate how mRNA export enables longitud...

cell.com
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Blainey Lab retweeted
Cell@CellCellPressSep 1
Now online! Live-cell transcriptomics with engineered virus-like particles dlvr.it/TVH0VM

Live-cell transcriptomics with engineered virus-like particles

Najia, Le, Borrajo et al. establish “cellular self-reporting,” a technology to export molecular analytes from cells in virus-like particles. The authors demonstrate how mRNA export enables longitud...

cell.com
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Now online in @genomebi a genome-wide screen in 8 days with the OttoSeq automated OPS platform, in collaboration with @mat10_d @cheeseman @broadinstitute link.springer.com/article/10…

A one-week automated genome-wide optical pooled screen using OttoSeq

Genome Biology - Optical pooled screens (OPS) are bottlenecked by labor-intensive in situ sequencing and analysis protocols. Here, we present OttoSeq, an automated OPS platform combining the Otto2...

link.springer.com
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Exciting new open science venture from lab alum @beccajcarlson and colleagues
Becca J. Carlson@beccajcarlsonMay 27
AI has transformed how we design therapeutics. But targeted delivery is still an expensive guessing game. Today @BobbyHollings and I are launching @deliverome with @beckypferdehirt and @radialscience at @AsteraInstitute, to fix that. 🧵
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Using an image-based screening method, Broad and Boston University researchers found potential new drug targets for reducing Ebola infection severity, uncovering human genes that, when silenced, impaired Ebola’s ability to replicate. broad.io/Ebola-News-0724
A micrograph showing an Ebola virus particle in yellow on a purple background

ALT A micrograph showing an Ebola virus particle in yellow on a purple background

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Out now in @NatureMicrobiol @beccajcarlson and our lab collab w/ Rob Davey's lab @neidl on high-content image-based perturbational screening for regulators of Ebola virus infection @broadinstitute nature.com/articles/s41564-0…

Single-cell image-based screens identify host regulators of Ebola virus infection dynamics

Nature Microbiology - A single-cell resolution image-based genome-wide CRISPR screen, analysed with deep learning and random forest models, identified host factors regulating Ebola virus infection...

nature.com
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We’re @BlaineyLab sharing a major update to CROPseq-multi, our versatile system for CRISPR screens that is compatible with individual and combinatorial perturbations, diverse SpCas9-based technologies, and multiple high-content, single-cell readouts. biorxiv.org/content/10.1101/…
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Out now in @CellReports our collab w/ @BiedererLab on image-based pooled genetic screening to identify regulators of synapse formation cell.com/cell-reports/fullte…

High-content image-based pooled screens reveal regulators of synaptogenesis

Le et al. performed image-based pooled CRISPR screens to elucidate mechanisms driving synapse formation. This work established a scalable approach to map functional interactions guiding the activity...

cell.com
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Researchers at the @broadinstitute have created a pipeline for discovering unique combinations of molecules that increase the effectiveness of #antibiotics against drug-resistant bacteria. ✏️ Abstract: bit.ly/4kry8lu 📰 Press Release: bit.ly/3T5TSap
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Blainey Lab retweeted
Julie Chen@jc_JulieChen7 Jun 2025
Excited to share my primary PhD work! Vibrio isolates can produce peptide deformylase inhibitors that induce prophages in their lysogenic competitors. Not only is it SOS-independent, but also serves as the first example linking translational stress with prophage induction 👀 1/
bioRxiv Microbiology@biorxiv_micrbio7 Jun 2025
Bacterial peptide deformylase inhibitors induce prophages in competitors biorxiv.org/content/10.1101/… #biorxiv_micrbio

Bacterial peptide deformylase inhibitors induce prophages in competitors

While antibiotics mediate chemical warfare among microbes, their roles in the wild extend beyond direct growth inhibition( [1][1] ). Some antibiotics have the potential to mediate interference...

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Recently published in @PNASNews our high-throughput screen of 1.3M+ antibiotic combos identified P2-56 as a rifampin potentiator against A. baumannii & K. pneumoniae. pnas.org/doi/10.1073/pnas.24…

Large-scale combination screens reveal small-molecule sensitization of antibiotic-resistant...

Antibiotic resistance, especially in multidrug-resistant ESKAPE pathogens, remains a worldwide problem. Combination antimicrobial therapies may be ...

pnas.org
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Excited to share the 1st of several stories dissecting TEs + chromatin in normal/malignant hematopoiesis. We identified histone demethylases KDM4A/C as vulnerabilities in DLBCL + discovered novel KDM4 inhibitors. Preprint👇 @broadinstitute @BostonChildrens biorxiv.org/content/10.1101/…

Heterochromatin fidelity is a therapeutic vulnerability in lymphoma and other human cancers

Genes involved in the regulation of chromatin structure are frequently disrupted in cancer, contributing to an aberrant transcriptome and phenotypic plasticity. Yet, therapeutics targeting mutant...

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Excited to see the work from @mgentili_ @beccajcarlson and others from our collab with the Hacohen lab @broadinstitute out now!
Becca J. Carlson@beccajcarlson9 Dec 2024
Our image-based genome-wide screen identifying new regulators of STING localization is now online at @CellSystemsCP! authors.elsevier.com/c/1kEhc…
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Blainey Lab retweeted
William Allen@weallen121 Nov 2024
In collaboration with Reuben Saunders, @JswLab, and Xiaowei Zhuang, we are very excited to release Perturb-Multi: a platform for pooled multimodal genetic screens in intact mammalian tissue. Check it out! biorxiv.org/content/10.1101/…

A platform for multimodal in vivo pooled genetic screens reveals regulators of liver function

Organ function requires coordinated activities of thousands of genes in distinct, spatially organized cell types. Understanding the basis of emergent tissue function requires approaches to dissect...

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In collaboration with @weallen1 and Xiaowei Zhuang, we have developed Perturb-multi: biorxiv.org/content/10.1101/…

A platform for multimodal in vivo pooled genetic screens reveals regulators of liver function

Organ function requires coordinated activities of thousands of genes in distinct, spatially organized cell types. Understanding the basis of emergent tissue function requires approaches to dissect...

biorxiv.org
William Allen@weallen121 Nov 2024
In collaboration with Reuben Saunders, @JswLab, and Xiaowei Zhuang, we are very excited to release Perturb-Multi: a platform for pooled multimodal genetic screens in intact mammalian tissue. Check it out! biorxiv.org/content/10.1101/…

A platform for multimodal in vivo pooled genetic screens reveals regulators of liver function

Organ function requires coordinated activities of thousands of genes in distinct, spatially organized cell types. Understanding the basis of emergent tissue function requires approaches to dissect...

biorxiv.org
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Available now via @biorxivpreprint is our preprint on live-cell transcriptomics with engineered virus-like particles @broadinstitute biorxiv.org/content/10.1101/…

Live-cell transcriptomics with engineered virus-like particles

The transcriptional state of a cell provides a multi-parameter representation of gene expression programs that reflect its identity and phenotype. However, current transcriptomic profiling technolo...

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Out now in @cellcellpress - our story about metabolic differences in the vaginal microbiome led by @mzhu_ology @broadinstitute in collaboration with the @kwonlab at @ragoninstitute and others: cell.com/cell/fulltext/S0092…

Vaginal Lactobacillus fatty acid response mechanisms reveal a metabolite-targeted strategy for...

Vaginal microbiota dominance by Lactobacillus iners is associated with recurrence of bacterial vaginosis (BV), a widely prevalent syndrome, whereas microbiota dominance by other Lactobacillus species...

cell.com
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We're hiring for a postdoc to work with us on the technical development and deployment of optical pooled screening (OPS) technology! Details and apply here: broadinstitute.avature.net/e…
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We're hiring! We are seeking an exceptional postdoc associate to help us work on solving the antibiotic resistance crisis, details and apply here: broadinstitute.avature.net/e…
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