Characterizing cis-regulatory elements using single-cell epigenomics

S Preissl, KJ Gaulton, B Ren - Nature Reviews Genetics, 2023 - nature.com
Cell type-specific gene expression patterns and dynamics during development or in disease
are controlled by cis-regulatory elements (CREs), such as promoters and enhancers …

A guide to systems-level immunomics

L Bonaguro, J Schulte-Schrepping, T Ulas… - Nature …, 2022 - nature.com
The immune system is highly complex and distributed throughout an organism, with
hundreds to thousands of cell states existing in parallel with diverse molecular pathways …

Cepharanthine analogs mining and genomes of Stephania accelerate anti-coronavirus drug discovery

L Leng, Z Xu, B Hong, B Zhao, Y Tian, C Wang… - Nature …, 2024 - nature.com
Cepharanthine is a secondary metabolite isolated from Stephania. It has been reported that
it has anti-conronaviruses activities including severe acute respiratory syndrome …

Single-cell measurement of higher-order 3D genome organization with scSPRITE

MV Arrastia, JW Jachowicz, N Ollikainen… - Nature …, 2022 - nature.com
Abstract Although three-dimensional (3D) genome organization is central to many aspects of
nuclear function, it has been difficult to measure at the single-cell level. To address this, we …

Next-generation forward genetic screens: uniting high-throughput perturbations with single-cell analysis

JA Morris, JS Sun, NE Sanjana - Trends in Genetics, 2024 - cell.com
Programmable genome-engineering technologies, such as CRISPR (clustered regularly
interspaced short palindromic repeats) nucleases and massively parallel CRISPR screens …

The Metasequoia genome and evolutionary relationships among redwoods

F Fu, C Song, C Wen, L Yang, Y Guo, X Yang… - Plant …, 2023 - cell.com
Abstract Redwood trees (Sequoioideae), including Metasequoia glyptostroboides (dawn
redwood), Sequoiadendron giganteum (giant sequoia), and Sequoia sempervirens (coast …

The 3D genome structure of single cells

T Zhou, R Zhang, J Ma - Annual review of biomedical data …, 2021 - annualreviews.org
The spatial organization of the genome in the cell nucleus is pivotal to cell function.
However, how the 3D genome organization and its dynamics influence cellular phenotypes …

[HTML][HTML] X-chromosome regulation and sex differences in brain anatomy

A Raznahan, CM Disteche - Neuroscience & Biobehavioral Reviews, 2021 - Elsevier
Humans show reproducible sex-differences in cognition and psychopathology that may be
contributed to by influences of gonadal sex-steroids and/or sex-chromosomes on regional …

[HTML][HTML] tagHi-C reveals 3D chromatin architecture dynamics during mouse hematopoiesis

C Zhang, Z Xu, S Yang, G Sun, L Jia, Z Zheng, Q Gu… - Cell reports, 2020 - cell.com
Spatiotemporal chromatin reorganization during hematopoietic differentiation has not been
comprehensively characterized, mainly because of the large numbers of starting cells …

Transcription factors: building hubs in the 3D space

DC Di Giammartino, A Polyzos, E Apostolou - Cell Cycle, 2020 - Taylor & Francis
The hierarchical three-dimensional folding of the mammalian genome constitutes an
important regulatory layer of gene expression and cell fate control during processes such as …