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Jan 28, 2025 | 
nature.com | Methodios Ximerakis |Richard M. Giadone |Samara Santiago |Kavya Shah |Aviv Regev |Joshua Levin
Correction to: Nature Aging https://doi.org/10.1038/s43587-023-00373-6, published online 9 March 2023. Following publication, the authors were alerted to a potential duplication in two of the micrographs shown in the paper. After a detailed review, it appears that two probes (Hspa1a and Pecam1) in an RNA in situ hybridization experiment were unintentionally swapped in the representative images shown in Figs. 5c and 8b of the published manuscript.
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Jan 14, 2025 | 
biorxiv.org | Sarah Chen |Aviv Regev |Anne Condon |Jiarui Ding
AbstractSingle-cell RNA-seq data have provided new insights into intracellular and intercellular processes. Because multiple processes are active in each cell simultaneously, such as its cell type program, differentiation, the cell cycle, and environmental responses, their respective signals can confound one another, requiring methods that can separate and filter different complex biological signals.
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Dec 5, 2024 | 
nature.com | Hojun Li |Katie Frenis |Mayuri Tanaka-Yano |Giuseppe Tarantino |Vincent L. Butty |Marcelo Falchetti | +7 more
AbstractOver a lifetime, hematopoietic stem cells (HSCs) adjust their lineage output to support age-aligned physiology. In model organisms, stereotypic waves of hematopoiesis have been observed corresponding to defined age-biased HSC hallmarks. However, how the properties of hematopoietic stem and progenitor cells change over the human lifespan remains unclear.
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Nov 11, 2024 | 
nature.com | Carman Man-Chung Li |Francesca Silvestri |Nomeda Girnius |Aviv Regev |Alyssa Cordes |S. Cigall Kadoch
AbstractGermline BRCA1 mutation carriers face a high breast cancer risk; however, the underlying mechanisms for this risk are not completely understood. Using a new genetically engineered mouse model of germline Brca1 heterozygosity, we demonstrate that early tumor onset in a Brca1 heterozygous background cannot be fully explained by the conventional ‘two-hit’ hypothesis, suggesting the existence of inherent tumor-promoting alterations in the Brca1 heterozygous state.
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Oct 16, 2024 | 
nature.com | Martin W. LaFleur |Rocky M. Barilla |Ayshwarya Subramanian |Yoon-Chul Kye |John G. Doench |Isaac M. Chiu | +2 more
AbstractThe balance between T helper type 1 (TH1) cells and other TH cells is critical for antiviral and anti-tumour responses1,2,3, but how this balance is achieved remains poorly understood. Here we dissected the dynamic regulation of TH1 cell differentiation during in vitro polarization, and during in vivo differentiation after acute viral infection.
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Oct 11, 2024 | 
nature.com | Abdul Rafi |Daria Nogina |Dohoon Lee |Il-youp Kwak |Arsenii Zinkevich |Eeshit Dhaval Vaishnav | +4 more
AbstractA systematic evaluation of how model architectures and training strategies impact genomics model performance is needed. To address this gap, we held a DREAM Challenge where competitors trained models on a dataset of millions of random promoter DNA sequences and corresponding expression levels, experimentally determined in yeast. For a robust evaluation of the models, we designed a comprehensive suite of benchmarks encompassing various sequence types.
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Oct 7, 2024 | 
nature.com | Antonio Rios |Melanie Heinlein |paula coelho |Jose Sergio Hleap |Aviv Regev
AbstractOptical pooled screening (OPS) is a scalable method for linking image-based phenotypes with cellular perturbations. However, it has thus far been restricted to relatively low-plex phenotypic readouts in cancer cell lines in culture due to limitations associated with in situ sequencing of perturbation barcodes.
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Aug 26, 2024 | 
biorxiv.org | Adam Rubin |Aviv Regev |Tyler T Dao |Amelia V Schueppert
AbstractImmune cells transduce environmental stimuli into responses essential for host health via complex signaling cascades. T cells, in particular, leverage their unique T cell receptors (TCRs) to detect specific Human Leukocyte Antigen (HLA)-presented peptides. TCR activation is then relayed via linker for activation of T cells (LAT), a TCR-proximal disordered adapter protein, which organizes protein partners and mediates the propagation of signals down diverse pathways including NFAT and AP-1.
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Aug 9, 2024 | 
ted.com | Aviv Regev
By Aviv Regev Get a daily email featuring the latest talk, plus a quick mix of trending content. By subscribing, you understand and agree that we will store, process and manage your personal information according to our Privacy Policy
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Apr 17, 2024 | 
nature.com | Jiarui Ding |John Garber |Grace Carter |Toni Delorey |Orit Rozenblatt-Rosen |Daniel Graham | +2 more
AbstractCoordinated cell interactions within the esophagus maintain homeostasis, and disruption can lead to eosinophilic esophagitis (EoE), a chronic inflammatory disease with poorly understood pathogenesis. We profile 421,312 individual cells from the esophageal mucosa of 7 healthy and 15 EoE participants, revealing 60 cell subsets and functional alterations in cell states, compositions, and interactions that highlight previously unclear features of EoE.
