Single-cell and spatial transcriptomics: Bridging current technologies with long-read sequencing

CU Yuan, FX Quah, M Hemberg - Molecular Aspects of Medicine, 2024 - Elsevier
Single-cell technologies have transformed biomedical research over the last decade,
opening up new possibilities for understanding cellular heterogeneity, both at the genomic …

Unveiling aging dynamics in the hematopoietic system insights from single-cell technologies

X Jin, R Zhang, Y Fu, Q Zhu, L Hong… - Briefings in …, 2024 - academic.oup.com
As the demographic structure shifts towards an aging society, strategies aimed at slowing
down or reversing the aging process become increasingly essential. Aging is a major …

[HTML][HTML] Deciphering the spatiotemporal transcriptional and chromatin accessibility of human retinal organoid development at the single-cell level

B Dorgau, J Collin, A Rozanska, V Boczonadi… - Iscience, 2024 - cell.com
Molecular information on the early stages of human retinal development remains scarce due
to limitations in obtaining early human eye samples. Pluripotent stem cell-derived retinal …

Interrogations of single-cell RNA splicing landscapes with SCASL define new cell identities with physiological relevance

X Xiang, Y He, Z Zhang, X Yang - Nature Communications, 2024 - nature.com
RNA splicing shapes the gene regulatory programs that underlie various physiological and
disease processes. Here, we present the SCASL (single-cell clustering based on alternative …

Advances in single-cell long-read sequencing technologies

P Gupta, H O'Neill, EJ Wolvetang… - NAR Genomics and …, 2024 - academic.oup.com
With an increase in accuracy and throughput of long-read sequencing technologies, they
are rapidly being assimilated into the single-cell sequencing pipelines. For transcriptome …

Maternal Innate Immune Reprogramming After Complicated Pregnancy

NA Lodge‐Tulloch, JF Paré, C Couture… - American Journal of …, 2024 - Wiley Online Library
Problem Preeclampsia (PE) and fetal growth restriction (FGR) are often associated with
maternal inflammation and an increased risk of cardiovascular and metabolic disease in the …

stMMR: accurate and robust spatial domain identification from spatially resolved transcriptomics with multi-modal feature representation

D Zhang, N Yu, W Li, X Sun, Q Zou, X Li, Z Liu, Z Yuan… - bioRxiv, 2024 - biorxiv.org
Deciphering spatial domains using spatially resolved transcriptomics (SRT) is of great value
for the characterizing and understanding of tissue architecture. However, the inherent …

[HTML][HTML] Long-read single-cell RNA sequencing enables the study of cancer subclone-specific genotype and phenotype in chronic lymphocytic leukemia

GS Black, X Huang, Y Qiao, P Moos, D Sampath… - bioRxiv, 2024 - ncbi.nlm.nih.gov
Bruton's tyrosine kinase (BTK) inhibitors are effective for the treatment of chronic lymphocytic
leukemia (CLL) due to BTK's role in B cell survival and proliferation. Treatment resistance is …

[HTML][HTML] Splicing the Difference: Harnessing the complexity of the transcriptome in hematopoiesis

HM Maul-Newby, S Halene - Experimental Hematology, 2024 - Elsevier
Alternative splicing has long been recognized as a powerful tool to expand the diversity of
the transcriptome and the proteome. The study of hematopoiesis, from hematopoietic stem …

Data-guided direct reprogramming of human fibroblasts into the hematopoietic lineage

C Stansbury, J Cwycyshyn, J Pickard, W Meixner… - bioRxiv, 2024 - biorxiv.org
Direct reprogramming of human fibroblasts into hematopoietic stem cells (HSCs) presents a
promising strategy for overcoming the limitations of traditional bone-marrow transplantation …