[HTML][HTML] Mechanisms of lncRNA biogenesis as revealed by nascent transcriptomics

T Nojima, NJ Proudfoot - Nature reviews Molecular cell biology, 2022 - nature.com
Mammalian genomes express two principal gene categories through RNA polymerase II-
mediated transcription: protein-coding transcription units and non-coding RNA transcription …

[HTML][HTML] Causes and consequences of RNA polymerase II stalling during transcript elongation

M Noe Gonzalez, D Blears, JQ Svejstrup - Nature reviews Molecular …, 2021 - nature.com
The journey of RNA polymerase II (Pol II) as it transcribes a gene is anything but a smooth
ride. Transcript elongation is discontinuous and can be perturbed by intrinsic regulatory …

From telomere to telomere: The transcriptional and epigenetic state of human repeat elements

SJ Hoyt, JM Storer, GA Hartley, PGS Grady… - Science, 2022 - science.org
Mobile elements and repetitive genomic regions are sources of lineage-specific genomic
innovation and uniquely fingerprint individual genomes. Comprehensive analyses of such …

Key progresses of MOE key laboratory of macromolecular synthesis and functionalization in 2022

X Deng, K Chen, K Pang, X Liu, M Gao, J Ren… - Chinese Chemical …, 2024 - Elsevier
Abstract In 2022, The MOE Key Laboratory of Macromolecular Synthesis and
Functionalization in Zhejiang University had achieved several important results. First, a …

Transcriptional elongation control in developmental gene expression, aging, and disease

Y Aoi, A Shilatifard - Molecular cell, 2023 - cell.com
The elongation stage of transcription by RNA polymerase II (RNA Pol II) is central to the
regulation of gene expression in response to developmental and environmental cues in …

Chloroplast gene expression: Recent advances and perspectives

Y Zhang, L Tian, C Lu - Plant Communications, 2023 - cell.com
Chloroplasts evolved from an ancient cyanobacterial endosymbiont more than 1.5 billion
years ago. During subsequent coevolution with the nuclear genome, the chloroplast …

SPT6 functions in transcriptional pause/release via PAF1C recruitment

Y Aoi, AP Shah, S Ganesan, SHA Soliman, BK Cho… - Molecular cell, 2022 - cell.com
It is unclear how various factors functioning in the transcriptional elongation by RNA
polymerase II (RNA Pol II) cooperatively regulate pause/release and productive elongation …

Defining R-loop classes and their contributions to genome instability

D Castillo-Guzman, F Chédin - DNA repair, 2021 - Elsevier
R-loops are non-B DNA structures that form during transcription when the nascent RNA
anneals to the template DNA strand forming a RNA: DNA hybrid. Understanding the …

Principles and innovative technologies for decrypting noncoding RNAs: from discovery and functional prediction to clinical application

YM Sun, YQ Chen - Journal of hematology & oncology, 2020 - Springer
Noncoding RNAs (ncRNAs) are a large segment of the transcriptome that do not have
apparent protein-coding roles, but they have been verified to play important roles in diverse …

[HTML][HTML] Post-transcriptional splicing of nascent RNA contributes to widespread intron retention in plants

J Jia, Y Long, H Zhang, Z Li, Z Liu, Y Zhao, D Lu, X Jin… - Nature Plants, 2020 - nature.com
In eukaryotes, genes are transcribed by RNA polymerase-II (Pol-II) and introns are removed
by the spliceosome largely cotranscriptionally,–; analysis using long-read sequencing …