Chromatin accessibility profiling by ATAC-seq

FC Grandi, H Modi, L Kampman, MR Corces - Nature protocols, 2022 - nature.com
The assay for transposase-accessible chromatin using sequencing (ATAC-seq) provides a
simple and scalable way to detect the unique chromatin landscape associated with a cell …

In vitro selection of aptamers and their applications

MC DeRosa, A Lin, P Mallikaratchy… - Nature Reviews …, 2023 - nature.com
The introduction of the in vitro evolution method known as SELEX (systematic evolution of
ligands by exponential enrichment) more than 30 years ago led to the conception of …

Absolute quantification of single-base m6A methylation in the mammalian transcriptome using GLORI

C Liu, H Sun, Y Yi, W Shen, K Li, Y Xiao, F Li, Y Li… - Nature …, 2023 - nature.com
Abstract N 6-methyladenosine (m6A) is the most abundant RNA modification in mammalian
cells and the best-studied epitranscriptomic mark. Despite the development of various tools …

Transcription factors interact with RNA to regulate genes

O Oksuz, JE Henninger, R Warneford-Thomson… - Molecular cell, 2023 - cell.com
Transcription factors (TFs) orchestrate the gene expression programs that define each cell's
identity. The canonical TF accomplishes this with two domains, one that binds specific DNA …

Complementary Alu sequences mediate enhancer–promoter selectivity

L Liang, C Cao, L Ji, Z Cai, D Wang, R Ye, J Chen… - Nature, 2023 - nature.com
Enhancers determine spatiotemporal gene expression programs by engaging with long-
range promoters,,–. However, it remains unknown how enhancers find their cognate …

Single-cell CUT&Tag profiles histone modifications and transcription factors in complex tissues

M Bartosovic, M Kabbe, G Castelo-Branco - Nature biotechnology, 2021 - nature.com
In contrast to single-cell approaches for measuring gene expression and DNA accessibility,
single-cell methods for analyzing histone modifications are limited by low sensitivity and …

p21 produces a bioactive secretome that places stressed cells under immunosurveillance

I Sturmlechner, C Zhang, CC Sine, EJ van Deursen… - Science, 2021 - science.org
INTRODUCTION Complex multicellular organisms are subject to a myriad of cellular
stresses, which can be managed through cell-intrinsic adaptation and repair mechanisms …

A prenylated dsRNA sensor protects against severe COVID-19

A Wickenhagen, E Sugrue, S Lytras, S Kuchi… - Science, 2021 - science.org
INTRODUCTION Interferons (IFNs) are cytokines that are rapidly deployed in response to
invading pathogens. By initiating a signaling cascade that stimulates the expression of …

Direct pathogen-induced assembly of an NLR immune receptor complex to form a holoenzyme

S Ma, D Lapin, LI Liu, Y Sun, W Song, X Zhang… - Science, 2020 - science.org
INTRODUCTION Discrimination of self from nonself is pivotal for cellular organisms, as it
allows the perception of pathogenic invaders that might otherwise multiply unchecked and …

Identification of LZTFL1 as a candidate effector gene at a COVID-19 risk locus

DJ Downes, AR Cross, P Hua, N Roberts… - Nature …, 2021 - nature.com
The severe acute respiratory syndrome coronavirus 2 (SARS‑CoV‑2) disease (COVID-19)
pandemic has caused millions of deaths worldwide. Genome-wide association studies …