[HTML][HTML] Applications of single-cell RNA sequencing in drug discovery and development

B Van de Sande, JS Lee, E Mutasa-Gottgens… - Nature Reviews Drug …, 2023 - nature.com
Single-cell technologies, particularly single-cell RNA sequencing (scRNA-seq) methods,
together with associated computational tools and the growing availability of public data …

Spatial components of molecular tissue biology

G Palla, DS Fischer, A Regev, FJ Theis - Nature Biotechnology, 2022 - nature.com
Methods for profiling RNA and protein expression in a spatially resolved manner are rapidly
evolving, making it possible to comprehensively characterize cells and tissues in health and …

[HTML][HTML] Deep autoencoder for interpretable tissue-adaptive deconvolution and cell-type-specific gene analysis

Y Chen, Y Wang, Y Chen, Y Cheng, Y Wei, Y Li… - Nature …, 2022 - nature.com
Single-cell RNA-sequencing has become a powerful tool to study biologically significant
characteristics at explicitly high resolution. However, its application on emerging data is …

[HTML][HTML] Directionality of developing skeletal muscles is set by mechanical forces

K Sunadome, AG Erickson, D Kah, B Fabry… - Nature …, 2023 - nature.com
Formation of oriented myofibrils is a key event in musculoskeletal development. However,
the mechanisms that drive myocyte orientation and fusion to control muscle directionality in …

Deep learning in single-cell analysis

D Molho, J Ding, W Tang, Z Li, H Wen, Y Wang… - ACM Transactions on …, 2024 - dl.acm.org
Single-cell technologies are revolutionizing the entire field of biology. The large volumes of
data generated by single-cell technologies are high dimensional, sparse, and …

Fourteen years of cellular deconvolution: methodology, applications, technical evaluation and outstanding challenges

H Nguyen, H Nguyen, D Tran, S Draghici… - Nucleic Acids …, 2024 - academic.oup.com
Single-cell RNA sequencing (scRNA-Seq) is a recent technology that allows for the
measurement of the expression of all genes in each individual cell contained in a sample …

[HTML][HTML] Loss of Krüppel-like factor 9 deregulates both physiological gene expression and development

L Drepanos, IM Gans, J Grendler, S Guitar… - Scientific Reports, 2023 - nature.com
Krüppel-like factor 9 (Klf9) is a ubiquitously expressed transcription factor that is a
feedforward regulator of multiple stress-responsive and endocrine signaling pathways. We …

Highly Accurate Estimation of Cell Type Abundance in Bulk Tissues Based on Single‐Cell Reference and Domain Adaptive Matching

X Guo, Z Huang, F Ju, C Zhao, L Yu - Advanced Science, 2024 - Wiley Online Library
Accurately identifies the cellular composition of complex tissues, which is critical for
understanding disease pathogenesis, early diagnosis, and prevention. However, current …

[HTML][HTML] Cellular crosstalk of macrophages and therapeutic implications in non-small cell lung cancer revealed by integrative inference of single-cell transcriptomics

L Wu, W Xia, Y Hua, K Fan, Y Lu, M Wang… - Frontiers in …, 2023 - frontiersin.org
Introduction: Non-small cell lung cancer (NSCLC) exhibits heterogeneity with diverse
immune cell infiltration patterns that can influence tumor cell behavior and immunotherapy …

[HTML][HTML] Machine learning integrative approaches to advance computational immunology

F Curion, FJ Theis - Genome Medicine, 2024 - ncbi.nlm.nih.gov
The study of immunology, traditionally reliant on proteomics to evaluate individual immune
cells, has been revolutionized by single-cell RNA sequencing. Computational …