Developmental disorders caused by haploinsufficiency of transcriptional regulators: a perspective based on cell fate determination

R Zug - Biology Open, 2022 - journals.biologists.com
Many human birth defects and neurodevelopmental disorders are caused by loss-of-function
mutations in a single copy of transcription factor (TF) and chromatin regulator genes …

Mapping and dynamics of regulatory DNA and transcription factor networks in A. thaliana

AM Sullivan, AA Arsovski, J Lempe, KL Bubb… - Cell reports, 2014 - cell.com
Our understanding of gene regulation in plants is constrained by our limited knowledge of
plant cis-regulatory DNA and its dynamics. We mapped DNase I hypersensitive sites (DHSs) …

Holimap: an accurate and efficient method for solving stochastic gene network dynamics

C Jia, R Grima - Nature Communications, 2024 - nature.com
Gene-gene interactions are crucial to the control of sub-cellular processes but our
understanding of their stochastic dynamics is hindered by the lack of simulation methods …

The maize SBP-box transcription factor encoded by tasselsheath4 regulates bract development and the establishment of meristem boundaries

G Chuck, C Whipple, D Jackson, S Hake - Development, 2010 - journals.biologists.com
Plant architecture consists of repeating units called phytomers, each containing an
internode, leaf and axillary meristem. The formation of boundaries within the phytomer is …

Decision making in living cells: lessons from a simple system

I Golding - Annual review of biophysics, 2011 - annualreviews.org
The life cycle of bacteriophage lambda serves as a simplified paradigm for cell-fate
decisions. The ongoing quantitative, high-resolution experimental investigation of this life …

CRX ChIP-seq reveals the cis-regulatory architecture of mouse photoreceptors

JC Corbo, KA Lawrence, M Karlstetter… - Genome …, 2010 - genome.cshlp.org
Approximately 98% of mammalian DNA is noncoding, yet we understand relatively little
about the function of this enigmatic portion of the genome. The cis-regulatory elements that …

Regulation of CHD2 expression by the Chaserr long noncoding RNA gene is essential for viability

A Rom, L Melamed, N Gil, MJ Goldrich, R Kadir… - Nature …, 2019 - nature.com
Chromodomain helicase DNA binding protein 2 (Chd2) is a chromatin remodeller implicated
in neurological disease. Here we show that Chaserr, a highly conserved long noncoding …

A bistable autoregulatory module in the developing embryo commits cells to binary expression fates

J Zhao, ML Perkins, M Norstad, HG Garcia - Current Biology, 2023 - cell.com
Bistable autoactivation has been proposed as a mechanism for cells to adopt binary fates
during embryonic development. However, it is unclear whether the autoactivating modules …

Genome-wide inference reveals that feedback regulations constrain promoter-dependent transcriptional burst kinetics

S Luo, Z Wang, Z Zhang, T Zhou… - Nucleic Acids …, 2023 - academic.oup.com
Gene expression in mammalian cells is highly variable and episodic, resulting in a series of
discontinuous bursts of mRNAs. A challenge is to understand how static promoter …

A small RNA-catalytic argonaute pathway tunes germline transcript levels to ensure embryonic divisions

A Gerson-Gurwitz, S Wang, S Sathe, R Green, GW Yeo… - Cell, 2016 - cell.com
Multiple division cycles without growth are a characteristic feature of early embryogenesis.
The female germline loads proteins and RNAs into oocytes to support these divisions, which …