scGPT: toward building a foundation model for single-cell multi-omics using generative AI
Generative pretrained models have achieved remarkable success in various domains such
as language and computer vision. Specifically, the combination of large-scale diverse …
as language and computer vision. Specifically, the combination of large-scale diverse …
Exploration of cell state heterogeneity using single-cell proteomics through sensitivity-tailored data-independent acquisition
V Petrosius, P Aragon-Fernandez, N Üresin… - Nature …, 2023 - nature.com
Single-cell resolution analysis of complex biological tissues is fundamental to capture cell-
state heterogeneity and distinct cellular signaling patterns that remain obscured with …
state heterogeneity and distinct cellular signaling patterns that remain obscured with …
Mitigation of chromosome loss in clinical CRISPR-Cas9-engineered T cells
CRISPR-Cas9 genome editing has enabled advanced T cell therapies, but occasional loss
of the targeted chromosome remains a safety concern. To investigate whether Cas9-induced …
of the targeted chromosome remains a safety concern. To investigate whether Cas9-induced …
WikiPathways 2024: next generation pathway database
WikiPathways (wikipathways. org) is an open-source biological pathway database.
Collaboration and open science are pivotal to the success of WikiPathways. Here we …
Collaboration and open science are pivotal to the success of WikiPathways. Here we …
A population-level digital histologic biomarker for enhanced prognosis of invasive breast cancer
Breast cancer is a heterogeneous disease with variable survival outcomes. Pathologists
grade the microscopic appearance of breast tissue using the Nottingham criteria, which are …
grade the microscopic appearance of breast tissue using the Nottingham criteria, which are …
Custom microfluidic chip design enables cost-effective three-dimensional spatiotemporal transcriptomics with a wide field of view
Spatial transcriptomic techniques offer unprecedented insights into the molecular
organization of complex tissues. However, integrating cost-effectiveness, high throughput, a …
organization of complex tissues. However, integrating cost-effectiveness, high throughput, a …
Precise identification of cell states altered in disease using healthy single-cell references
Joint analysis of single-cell genomics data from diseased tissues and a healthy reference
can reveal altered cell states. We investigate whether integrated collections of data from …
can reveal altered cell states. We investigate whether integrated collections of data from …
Construction of a 3D whole organism spatial atlas by joint modelling of multiple slices with deep neural networks
Spatial transcriptomics (ST) technologies are revolutionizing the way to explore the spatial
architecture of tissues. Currently, ST data analysis is often restricted to a single two …
architecture of tissues. Currently, ST data analysis is often restricted to a single two …
Dissolution of oncofusion transcription factor condensates for cancer therapy
Cancer-associated chromosomal rearrangements can result in the expression of numerous
pathogenic fusion proteins. The mechanisms by which fusion proteins contribute to …
pathogenic fusion proteins. The mechanisms by which fusion proteins contribute to …
CD8+ lymphocytes are critical for early control of tuberculosis in macaques
CG Winchell, SK Nyquist, MC Chao, P Maiello… - Journal of Experimental …, 2023 - rupress.org
The functional role of CD8+ lymphocytes in tuberculosis remains poorly understood. We
depleted innate and/or adaptive CD8+ lymphocytes in macaques and showed that loss of all …
depleted innate and/or adaptive CD8+ lymphocytes in macaques and showed that loss of all …