RNA polymerase II speed: a key player in controlling and adapting transcriptome composition

L Muniz, E Nicolas, D Trouche - The EMBO journal, 2021 - embopress.org
Abstract RNA polymerase II (RNA Pol II) speed or elongation rate, ie, the number of
nucleotides synthesized per unit of time, is a major determinant of transcriptome …

'Multi-omics' data integration: applications in probiotics studies

ID Kwoji, OA Aiyegoro, M Okpeku, MA Adeleke - npj Science of Food, 2023 - nature.com
The concept of probiotics is witnessing increasing attention due to its benefits in influencing
the host microbiome and the modulation of host immunity through the strengthening of the …

Spatial epitranscriptomics reveals A-to-I editome specific to cancer stem cell microniches

AC Lee, Y Lee, A Choi, HB Lee, K Shin, H Lee… - Nature …, 2022 - nature.com
Epitranscriptomic features, such as single-base RNA editing, are sources of transcript
diversity in cancer, but little is understood in terms of their spatial context in the tumour …

Intricacies of single-cell multi-omics data integration

P Rautenstrauch, AHC Vlot, S Saran, U Ohler - Trends in Genetics, 2022 - cell.com
A wealth of single-cell protocols makes it possible to characterize different molecular layers
at unprecedented resolution. Integrating the resulting multimodal single-cell data to find cell …

Comprehensive mapping of alternative polyadenylation site usage and its dynamics at single-cell resolution

J Wang, W Chen, W Yue, W Hou… - Proceedings of the …, 2022 - National Acad Sciences
Alternative polyadenylation (APA) plays an important role in posttranscriptional gene
regulation such as transcript stability and translation efficiency. However, our knowledge …

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 …

The glycopatterns of Pseudomonas aeruginosa as a potential biomarker for its carbapenem resistance

J Dang, J Shu, R Wang, H Yu, Z Chen… - Microbiology …, 2023 - Am Soc Microbiol
Multidrug-resistant (MDR) Pseudomonas aeruginosa infections pose a significant challenge
to effective treatment. Although carbapenems were once considered the primary therapeutic …

[HTML][HTML] Single-cell molecular barcoding to decode multimodal information defining cell states

IS Kim - Molecules and cells, 2023 - Elsevier
Single-cell research has provided a breakthrough in biology to understand heterogeneous
cell groups, such as tissues and organs, in development and disease. Molecular barcoding …

CamoTSS: analysis of alternative transcription start sites for cellular phenotypes and regulatory patterns from 5'scRNA-seq data

R Hou, CC Hon, Y Huang - Nature Communications, 2023 - nature.com
Five-prime single-cell RNA-seq (scRNA-seq) has been widely employed to profile cellular
transcriptomes, however, its power of analysing transcription start sites (TSS) has not been …

MOJITOO: a fast and universal method for integration of multimodal single-cell data

M Cheng, Z Li, IG Costa - Bioinformatics, 2022 - academic.oup.com
Motivation The advent of multi-modal single-cell sequencing techniques have shed new
light on molecular mechanisms by simultaneously inspecting transcriptomes, epigenomes …