Reciprocal regulation of chromatin state and architecture by HOTAIRM1 contributes to temporal collinear HOXA gene activation

XQD Wang, J Dostie - Nucleic acids research, 2017 - academic.oup.com
Real-time polymerase chain reaction (PCR) quantification … Following DNaseI treatment, 1
μg of RNA from each fraction … uncoupling of HOTAIRM1-regulated genes, we wondered if the …

High-throughput single-cell ChIP-seq identifies heterogeneity of chromatin states in breast cancer

K Grosselin, A Durand, J Marsolier, A Poitou… - Nature …, 2019 - nature.com
… In contrast, only a few studies have tracked the clonal evolution … 5a,b), which enables, in
three steps, the controlled production of … chromatin was then treated with RNase A, DNase and …

Capsid-mediated chromatin state of the AAV vector genome controls host species range

A Gonzalez-Sandoval, S Tsuji, F Zhang, KL Hung… - bioRxiv, 2022 - biorxiv.org
… of vector copies in DNase I treated vs untreated nuclear … between species by treating
transduced cells with DNase I prior … from degradation in the +DNase I condition in both species. …

Chromatin states define tumour-specific T cell dysfunction and reprogramming

M Philip, L Fairchild, L Sun, EL Horste, S Camara… - Nature, 2017 - nature.com
Control mice were treated with PBS and/or DMSO. … Additional PCR cycles were evaluated
by real time PCR. Final … were combined to create one signal track for each sample type. …

Dynamic chromatin technologies: from individual molecules to epigenomic regulation in cells

O Cuvier, B Fierz - Nature Reviews Genetics, 2017 - nature.com
… force spectroscopy and single-molecule tracking methods. … The establishment and maintenance
of chromatin states … the real-time dynamics of fluorescently labelled chromatin effectors …

Chromatin states shape insertion profiles of the piggyBac, Tol2 and Sleeping Beauty transposons and murine leukemia virus

J Yoshida, K Akagi, R Misawa, C Kokubu, J Takeda… - Scientific reports, 2017 - nature.com
… insertion sites and DNase I hypersensitive sites (DNase I HSs… were quantified by real-time
PCR using LightCycler FastStart DNA … We estimated the probability of success using control

Chromatin states responsible for the regulation of differentially expressed genes under 60Co~γ ray radiation in rice

X Pan, Y Fang, X Yang, D Zheng, L Chen, L Wang… - BMC genomics, 2017 - Springer
… of up-regulated genes, but only chromatin states, instead of any … assess IR-related changes
in real-time transcription genome-wide, … After DNaseI treatment, the total RNA was reversely …

Synthetic genome readers target clustered binding sites across diverse chromatin states

GS Erwin, MP Grieshop, D Bhimsaria… - Proceedings of the …, 2016 - National Acad Sciences
track of the polyamide not predicted to be bound as a control. (… DNase HS sites and chromatin
states, whereas 2 and 4 show … preference for DNase HS sites or specific chromatin states. …

Dual roles for ikaros in regulation of macrophage chromatin state and inflammatory gene expression

KS Oh, RA Gottschalk, NW Lounsbury… - The Journal of …, 2018 - journals.aai.org
… a MyIQ single color, real-time PCR detection system (Bio-Rad… the macrophage chromatin
state, we conducted DNase-seq … the shipment and tracking of the chromatin and RNA samples. …

m6A RNA methylation regulates the fate of endogenous retroviruses

T Chelmicki, E Roger, A Teissandier, M Dura… - Nature, 2021 - nature.com
… By monitoring chromatin states and mRNA stability upon … Reverse transcription and
real-time quantitative PCR were … Genomic DNA was removed by in solution DNaseI treatment (…