Pengxu Qian

1 month ago | nature.com | Wenchang Qian |Penglei Jiang |Mingming Niu |Yujuan Fu |Deyu Huang |Dong Zhang | +12 more

DNA methylation is a significant component in proximal chromatin regulation and plays crucial roles in regulating gene expression and maintaining the repressive state of retrotransposon elements. However, accurate profiling of the proteomics which simultaneously identifies specific DNA sequences and their associated epigenetic modifications remains a challenge. Here, we report a strategy termed SelectID (selective profiling of epigenetic control at genome targets identified by dCas9), which introduces methylated DNA binding domain into dCas9-mediated proximity labeling system to enable in situ protein capture at repetitive elements with 5-methylcytosine (5mC) modifications. SelectID is demonstrated as feasible as dCas9-TurboID system at specific DNA methylation regions, such as the chromosome 9 satellite. Using SelectID, we successfully identify CHD4 as potential repressors of methylated long interspersed nuclear element-1 (LINE-1) retrotransposon through direct binding at the 5’ untranslated region (5’UTR) of young LINE-1 elements. Overall, our SelectID approach has opened up avenues for uncovering potential regulators of specific DNA regions with DNA methylation, which will greatly facilitate future studies on epigenetic regulation. The authors introduce SelectID, an approach combining CRISPR-guided targeting with methylation-sensitive labeling to identify proteins interacting with methylated repetitive sequences. They suggest that CHD4 directly binds young LINE-1 retrotransposons, suppressing their activity.

Oct 7, 2024 | nature.com | Weixin Chen |Jiyang Chen |Ben Wang |Xi Jin |Pengxu Qian

AbstractPrimary biliary cholangitis (PBC) is a chronic autoimmune liver disease characterized by multilineage immune dysregulation, which subsequently causes inflammation, fibrosis, and even cirrhosis of liver. Due to the limitation of traditional assays, the local hepatic immunopathogenesis of PBC has not been fully characterized. Here, we utilize single-cell RNA sequencing technology to depict the immune cell landscape and decipher the molecular mechanisms of PBC patients.

Jan 2, 2024 | nature.com | Xia Li |Ming Chen |Pengxu Qian

AbstractHematopoietic stem and progenitor cells generate all the lineages of blood cells throughout the lifespan of vertebrates. The emergence of hematopoietic stem and progenitor cells is finely tuned by a variety of signaling pathways. Previous studies have revealed the roles of pattern-recognition receptors such as Toll-like receptors and RIG-I-like receptors in hematopoiesis.

Jun 8, 2023 | nature.com | Yanan Wang |Pengxu Qian

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