Results 41 to 50 of about 642,878 (258)

Stably expressed genes in single-cell RNA-sequencing [PDF]

Journal of Bioinformatics and Computational Biology, 2018
AbstractMotivationIn single-cell RNA-sequencing (scRNA-seq) experiments, RNA transcripts are extracted and measured from isolated cells to understand gene expression at the cellular level. Measurements from this technology are affected by many technical artifacts, including batch effects.
Deeke, Julie M., Gagnon-Bartsch, Johann A.   +1 more
openaire   +2 more sources

Crosstalk between the ribosome quality control‐associated E3 ubiquitin ligases LTN1 and RNF10

FEBS Letters, EarlyView.
Loss of the E3 ligase LTN1, the ubiquitin‐like modifier UFM1, or the deubiquitinating enzyme UFSP2 disrupts endoplasmic reticulum–ribosome quality control (ER‐RQC), a pathway that removes stalled ribosomes and faulty proteins. This disruption may trigger a compensatory response to ER‐RQC defects, including increased expression of the E3 ligase RNF10 ...
Yuxi Huang, Satoshi Hashimoto, Sota Ito, Chisato Kikuguchi, Miho Hoshi, Kiyoshi Yamaguchi, Yoichi Furukawa, Toru Suzuki, Toshifumi Inada   +8 more
wiley   +1 more source

Comparative Analysis of Single-cell and Single-nucleus RNA-sequencing in a Rabbit Model of Retinal Detachment-related Proliferative Vitreoretinopathy

Ophthalmology Science, 2023
Purpose: Proliferative vitreoretinopathy (PVR) is the most common cause of failure of retinal reattachment surgery, and the molecular changes leading to this aberrant wound healing process are currently unknown.
Clayton P. Santiago, PhD, MS, Megan Y. Gimmen, BSc, Yuchen Lu, BSc, Minda M. McNally, MS, Leighton H. Duncan, MA, BSc, Tyler J. Creamer, PhD, Linda D. Orzolek, MS, Seth Blackshaw, PhD, Mandeep S. Singh, MD, PhD   +8 more
doaj   +1 more source

Interplay between circadian and other transcription factors—Implications for cycling transcriptome reprogramming

FEBS Letters, EarlyView.
This perspective highlights emerging insights into how the circadian transcription factor CLOCK:BMAL1 regulates chromatin architecture, cooperates with other transcription factors, and coordinates enhancer dynamics. We propose an updated framework for how circadian transcription factors operate within dynamic and multifactorial chromatin landscapes ...
Xinyu Y. Nie, Jerome S. Menet
wiley   +1 more source

Single-cell transcriptome analysis for cancer and biology of the pancreas: A review on recent progress

Frontiers in Genetics, 2023
Single-cell sequencing has become one of the most used techniques across the wide field of biology. It has enabled researchers to investigate the whole transcriptome at the cellular level across tissues, which unlocks numerous potentials for basic and ...
Mona Tamaddon, Mostafa Azimzadeh, Mostafa Azimzadeh, Mostafa Azimzadeh, Peyman Gifani, Peyman Gifani, Seyed Mohammad Tavangar, Seyed Mohammad Tavangar   +7 more
doaj   +1 more source

Disordered but rhythmic—the role of intrinsic protein disorder in eukaryotic circadian timing

FEBS Letters, EarlyView.
Unstructured domains known as intrinsically disordered regions (IDRs) are present in nearly every part of the eukaryotic core circadian oscillator. IDRs enable many diverse inter‐ and intramolecular interactions that support clock function. IDR conformations are highly tunable by post‐translational modifications and environmental conditions, which ...
Emery T. Usher, Jacqueline F. Pelham
wiley   +1 more source

Gene length is a pivotal feature to explain disparities in transcript capture between single transcriptome techniques

Frontiers in Bioinformatics, 2023
The scale and capability of single-cell and single-nucleus RNA-sequencing technologies are rapidly growing, enabling key discoveries and large-scale cell mapping operations.
Ricardo R. Pavan, Fabiola Diniz, Samir El-Dahr, Giovane G. Tortelote   +3 more
doaj   +1 more source

Protein pyrophosphorylation by inositol pyrophosphates — detection, function, and regulation

FEBS Letters, EarlyView.
Protein pyrophosphorylation is an unusual signaling mechanism that was discovered two decades ago. It can be driven by inositol pyrophosphate messengers and influences various cellular processes. Herein, we summarize the research progress and challenges of this field, covering pathways found to be regulated by this posttranslational modification as ...
Sarah Lampe, Tanmay Kumar Mohanty, Rashna Bhandari, Dorothea Fiedler   +3 more
wiley   +1 more source

Mesothelioma cell heterogeneity identified by single cell RNA sequencing

Scientific Reports
Mesothelioma cell heterogeneity encompasses diverse morphological and molecular characteristics observed within tumors, significantly impacting disease progression, treatment outcomes, and the development of targeted therapies.
Licun Wu, Zongjie Wang, Amin Zia, Shana O. Kelley, Marc de Perrot   +4 more
doaj   +1 more source

Automatic cell type identification methods for single-cell RNA sequencing

Computational and Structural Biotechnology Journal, 2021
Single-cell RNA sequencing (scRNA-seq) has become a powerful tool for scientists of many research disciplines due to its ability to elucidate the heterogeneous and complex cell-type compositions of different tissues and cell populations. Traditional cell-
Bingbing Xie, Qin Jiang, Antonio Mora, Xuri Li   +3 more
doaj   +1 more source