Searching journal content for articles similar to Liu et al. 28 (7): 998.

Displaying results 1-10 of 76

For checked items

view abstracts
download to citation manager

Select this article
Mini-Review: Evolution of genome-wide methylation profiling technologies
- Carolina Montano and
- Winston Timp
Genome Res. April 2025 35: 572-582; doi:10.1101/gr.278407.123
...detection of repeat counts combined with methylation over AR or RP2 CpG islands (Johansson et al. 2023) or even using chromatin accessibility (Lee et al. 2020; Vollger et al. 2025).Long cell-free DNACell-free DNA (cfDNA) fragments circulating in bodily fluids like plasma and urine carry unique methylation...
OPEN ACCESS ARTICLE
Select this article
Corrigendum: Corrigendum: Inherited DNA methylation primes the establishment of accessible chromatin during genome activation
- Guifen Liu,
- Wen Wang,
- Shengen Hu,
- Xiangxiu Wang,
- and Yong Zhang
Genome Res. March 2019 29: 520; doi:10.1101/gr.248732.119
...Corrigendum: Inherited DNA methylation primes the establishment of accessible chromatin during activation Guifen Liu, Wen Wang, Shengen Hu, Xiangxiu Wang and Yong Zhang Genome Research 28: 998–1007 (2018)In the above-mentioned article, two supplemental tables contained errors that have now been...
OPEN ACCESS ARTICLE
Select this article
Research: Revisiting chromatin packaging in mouse sperm
- Qiangzong Yin,
- Chih-Hsiang Yang,
- Olga S. Strelkova,
- Jingyi Wu,
- Yu Sun,
- Sneha Gopalan,
- Liyan Yang,
- Job Dekker,
- Thomas G. Fazzio,
- Xin Zhiguo Li,
- Johan Gibcus,
- and Oliver J. Rando
Genome Res. December 2023 33: 2079-2093; Published in Advance December 21, 2023, doi:10.1101/gr.277845.123
...the 0% or 100% methylation expected at imprinting control regions in germline samples. In contrast, the small fraction of GC-methylated reads, reflecting accessible cell-free chromatin, includes a mix of methylated and unmethylated ICRs consistent with a somatic origin for these DNA molecules. (C) ATAC...
Select this article
Research: DNA (de)methylation in embryonic stem cells controls CTCF-dependent chromatin boundaries
- Laura Wiehle,
- Graeme J. Thorn,
- Günter Raddatz,
- Christopher T. Clarkson,
- Karsten Rippe,
- Frank Lyko,
- Achim Breiling,
- and Vladimir B. Teif
Genome Res. May 2019 29: 750-761; Published in Advance April 4, 2019, doi:10.1101/gr.239707.118
..., nucleosome positioning, and chromatin binding of the architectural protein CTCF play an important role for establishing cell-type–specific chromatin states during differentiation. To elucidate molecular mechanisms that link these processes, we studied the perturbed DNA modification landscape in mouse...
OPEN ACCESS ARTICLE
Select this article
Research: Deciphering D4Z4 CpG methylation gradients in fascioscapulohumeral muscular dystrophy using nanopore sequencing
- Russell J. Butterfield,
- Diane M. Dunn,
- Brett Duval,
- Sarah Moldt,
- and Robert B. Weiss
Genome Res. September 2023 33: 1439-1454; Published in Advance October 5, 2023, doi:10.1101/gr.277871.123
...of a genomic boundary element (Darrow and Chadwick 2014). We also observed methylation gradients at the two ends of the Chr 1 5S rDNA cluster with of repeating 2.2 kb 5S-rRNA repeat, although in this case, the gradients were asymmetric. Several regions of the 45S rDNA clusters were in this extreme CpG density...
Select this article
Research: Tracing human stem cell lineage during development using DNA methylation
- Lucas A. Salas,
- John K. Wiencke,
- Devin C. Koestler,
- Ze Zhang,
- Brock C. Christensen,
- and Karl T. Kelsey
Genome Res. September 2018 28: 1285-1295; Published in Advance August 2, 2018, doi:10.1101/gr.233213.117
..., USA ↵8 These authors contributed equally to this work. ↵9 These authors contributed equally to this work. Corresponding author: john.wiencke@ucsf.eduAbstractStem cell maturation is a fundamental, yet poorly understood aspect of human development. We devised a DNA methylation signature deeply...
OPEN ACCESS ARTICLE
Select this article
Research: Chromatin architecture transitions from zebrafish sperm through early embryogenesis
- Candice L. Wike,
- Yixuan Guo,
- Mengyao Tan,
- Ryohei Nakamura,
- Dana Klatt Shaw,
- Noelia Díaz,
- Aneasha F. Whittaker-Tademy,
- Neva C. Durand,
- Erez Lieberman Aiden,
- Juan M. Vaquerizas,
- David Grunwald,
- Hiroyuki Takeda,
- and Bradley R. Cairns
Genome Res. June 2021 31: 981-994; Published in Advance May 18, 2021, doi:10.1101/gr.269860.120
...and developmental promoters and enhancers in zebrafish sperm lack DNA methylation and contain H3K4me3, H2A.Z/FV, H3K27ac, and (at developmental genes) H3K27me3 (Wu et al. 2011; Murphy et al. 2018; Zhang et al. 2018). Additionally, histone chromatin marks and DNA methylation are reprogrammed during pre-ZGA zebrafish...
OPEN ACCESS ARTICLE
Select this article
Research: Pou5f3, SoxB1, and Nanog remodel chromatin on high nucleosome affinity regions at zygotic genome activation
- Marina Veil,
- Lev Y. Yampolsky,
- Björn Grüning,
- and Daria Onichtchouk
Genome Res. March 2019 29: 383-395; Published in Advance January 23, 2019, doi:10.1101/gr.240572.118
...mechanisms are implemented in different animals.The basic units of chromatin structure are the nucleosomes, which restrict the in vivo access of most TFs to their target sites (Beato and Eisfeld 1997; Luo et al. 2014). Although many TFs cannot bind their target site in the context of nucleosome DNA in vitro...
Select this article
Research: Evolutionary expansion of DNA hypomethylation in the mammalian germline genome
- Jianghan Qu,
- Emily Hodges,
- Antoine Molaro,
- Pascal Gagneux,
- Matthew D. Dean,
- Gregory J. Hannon,
- and Andrew D. Smith
Genome Res. February 2018 28: 145-158; Published in Advance December 19, 2017, doi:10.1101/gr.225896.117
...Chase, Maryland 20815, USA; 7Cancer Research UK Cambridge Institute, Li Ka Shing Centre, University of Cambridge, Cambridge CB2 0RE, United Kingdom; 8The New York Genome Center, New York, New York 10013, USA Corresponding author: andrewds@usc.eduAbstractDNA methylation in the germline is among the most...
Select this article
Resource: Dynamic transcriptional and chromatin accessibility landscape of medaka embryogenesis
- Yingshu Li,
- Yongjie Liu,
- Hang Yang,
- Ting Zhang,
- Kiyoshi Naruse,
- and Qiang Tu
Genome Res. June 2020 30: 924-937; Published in Advance June 26, 2020, doi:10.1101/gr.258871.119
...research resources is a big challenge.The ENCODE Consortium uses a set of genomic assays as the standard, including DNA binding (ChIP-seq for histones and TFs), DNA accessibility (ATAC-seq, DNase-seq), DNA methylation (WGBS), 3D chromatin structure (ChIA-PET, Hi-C), transcription (bulk RNA-seq, long read...
OPEN ACCESS ARTICLE

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Liu et al. 28 (7): 998.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: