Imaging the unimaginable: leveraging signal generation of CRISPR-Cas for sensitive genome imaging

C Van Tricht, T Voet, J Lammertyn, D Spasic - Trends in Biotechnology, 2023 - cell.com
Fluorescence in situ hybridization (FISH) is the gold standard for visualizing genomic DNA in
fixed cells and tissues, but it is incompatible with live-cell imaging, and its combination with …

Open-ST: High-resolution spatial transcriptomics in 3D

M Schott, D León-Periñán, E Splendiani, L Strenger… - Cell, 2024 - cell.com
Spatial transcriptomics (ST) methods unlock molecular mechanisms underlying tissue
development, homeostasis, or disease. However, there is a need for easy-to-use, high …

Spatially resolved transcriptomic profiling of degraded and challenging fresh frozen samples

R Mirzazadeh, Z Andrusivova, L Larsson… - Nature …, 2023 - nature.com
Spatially resolved transcriptomics has enabled precise genome-wide mRNA expression
profiling within tissue sections. The performance of methods targeting the polyA tails of …

Computational cell–cell interaction technologies drive mechanistic and biomarker discovery in the tumor microenvironment

A Pong, CK Mah, GW Yeo, NE Lewis - Current Opinion in Biotechnology, 2024 - Elsevier
Highlights•Tumor-immune CCIs can be investigated using scRNA-seq and ST
strategies.•CCI studies elucidate fundamental mechanisms in disease state.•Open-source …

Advances and challenges in spatial transcriptomics for developmental biology

K Choe, U Pak, Y Pang, W Hao, X Yang - Biomolecules, 2023 - mdpi.com
Development from single cells to multicellular tissues and organs involves more than just the
exact replication of cells, which is known as differentiation. The primary focus of research …

Multi-omics techniques for soybean molecular breeding

P Cao, Y Zhao, F Wu, D Xin, C Liu, X Wu, J Lv… - International Journal of …, 2022 - mdpi.com
Soybean is a major crop that provides essential protein and oil for food and feed. Since its
origin in China over 5000 years ago, soybean has spread throughout the world, becoming …

Scaling biological discovery at the interface of deep learning and cellular imaging

M Schwartz, U Israel, X Wang, E Laubscher, C Yu… - Nature …, 2023 - nature.com
Concurrent advances in imaging technologies and deep learning have transformed the
nature and scale of data that can now be collected with imaging. Here we discuss the …

Spatial co-transcriptomics reveals discrete stages of the arbuscular mycorrhizal symbiosis

K Serrano, M Bezrutczyk, D Goudeau, T Dao… - Nature Plants, 2024 - nature.com
The symbiotic interaction of plants with arbuscular mycorrhizal (AM) fungi is ancient and
widespread. Plants provide AM fungi with carbon in exchange for nutrients and water …

Aquila: a spatial omics database and analysis platform

Y Zheng, Y Chen, X Ding, KH Wong… - Nucleic Acids …, 2023 - academic.oup.com
Spatial omics is a rapidly evolving approach for exploring tissue microenvironment and
cellular networks by integrating spatial knowledge with transcript or protein expression …

SpaRx: Elucidate single-cell spatial heterogeneity of drug responses for personalized treatment

Z Tang, X Liu, Z Li, T Zhang, B Yang… - Briefings in …, 2023 - academic.oup.com
Spatial cellular authors heterogeneity contributes to differential drug responses in a tumor
lesion and potential therapeutic resistance. Recent emerging spatial technologies such as …