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14,233 results

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Page 1
Methods for ChIP-seq analysis: A practical workflow and advanced applications.
Nakato R, Sakata T. Nakato R, et al. Methods. 2021 Mar;187:44-53. doi: 10.1016/j.ymeth.2020.03.005. Epub 2020 Mar 30. Methods. 2021. PMID: 32240773 Free article. Review.
Chromatin immunoprecipitation followed by sequencing (ChIP-seq) is a central method in epigenomic research. ...In this review, we first present a typical ChIP-seq analysis workflow, from quality assessment to chromatin-state …
Chromatin immunoprecipitation followed by sequencing (ChIP-seq) is a central method in epigenomic researc …
Sequential ChIP-Seq.
Schinderle JD, Bochkis IM. Schinderle JD, et al. Methods Mol Biol. 2024;2846:109-121. doi: 10.1007/978-1-0716-4071-5_7. Methods Mol Biol. 2024. PMID: 39141232
ChIP-Seq has been used extensively to profile genome-wide transcription factor binding and post-translational histone modifications. ...In this chapter, we combine the two protocols in Sequential ChIP-Seq, a method for identifying genome-wide sites of …
ChIP-Seq has been used extensively to profile genome-wide transcription factor binding and post-translational histone modifica …
ChIP-seq and RNA-seq Reveal the Involvement of Histone Lactylation Modification in Gestational Diabetes Mellitus.
Huang X, Yip K, Nie H, Chen R, Wang X, Wang Y, Lin W, Li R. Huang X, et al. J Proteome Res. 2024 Jun 7;23(6):1937-1947. doi: 10.1021/acs.jproteome.3c00727. Epub 2024 May 22. J Proteome Res. 2024. PMID: 38776154
This study aims to elucidate the histone lactylation modification landscapes of GDM patients and explore lactylation-modification-related genes involved in GDM. We employed a combination of RNA-seq analysis and chromatin immunoprecipitation sequencing …
This study aims to elucidate the histone lactylation modification landscapes of GDM patients and explore lactylation-modification-related ge …
STAT3 Facilitates Super Enhancer Formation to Promote Fibroblast-To-Myofibroblast Differentiation by the Analysis of ATAC-Seq, RNA-Seq and ChIP-Seq.
Wang Y, Zhao Y, Cao G, Jiang M, Yuan X, Li H, Song X, Zhang J, Lv C, Zhang S. Wang Y, et al. J Cell Mol Med. 2025 Jun;29(11):e70639. doi: 10.1111/jcmm.70639. J Cell Mol Med. 2025. PMID: 40464702 Free PMC article. Review.
They achieve this by facilitating the differentiation of fibroblasts into myofibroblasts, as analysed through ATAC-seq and RNA-seq. Additionally, STAT3 ChIP-seq showed that STAT3 is significantly concentrated in accessible chromatin regions, inc …
They achieve this by facilitating the differentiation of fibroblasts into myofibroblasts, as analysed through ATAC-seq and RNA-seq …
Proximity Ligation-Assisted ChIP-Seq (PLAC-Seq).
Yu M, Juric I, Abnousi A, Hu M, Ren B. Yu M, et al. Methods Mol Biol. 2021;2351:181-199. doi: 10.1007/978-1-0716-1597-3_10. Methods Mol Biol. 2021. PMID: 34382190
Proximity ligation-assisted ChIP-Seq (PLAC-Seq), also known as HiChIP, is a method to detect and quantify chromatin contacts anchored at genomic regions bound by specific proteins or histone modifications. ...PLAC-Seq is able to identify long-ra …
Proximity ligation-assisted ChIP-Seq (PLAC-Seq), also known as HiChIP, is a method to detect and quantify chromatin …
Statistical Analysis in ChIP-seq-Related Applications.
Teng M. Teng M. Methods Mol Biol. 2023;2629:169-181. doi: 10.1007/978-1-0716-2986-4_9. Methods Mol Biol. 2023. PMID: 36929078
Chromatin immunoprecipitation sequencing (ChIP-seq) has been widely performed to identify protein binding information along the genome. ...We discuss the key solutions in addressing eight routine questions in ChIP-seq applications. …
Chromatin immunoprecipitation sequencing (ChIP-seq) has been widely performed to identify protein binding …
ChIP-Seq Occupancy Mapping of the Archaeal Transcription Machinery.
Blombach F, Smollett KL, Werner F. Blombach F, et al. Methods Mol Biol. 2022;2522:209-222. doi: 10.1007/978-1-0716-2445-6_13. Methods Mol Biol. 2022. PMID: 36125752
The primary method to determine genome-wide occupancies is chromatin immunoprecipitation combined with deep sequencing (ChIP-seq). Archaea possess a transcription machinery that is evolutionarily closer related to its eukaryotic counterpart but …
The primary method to determine genome-wide occupancies is chromatin immunoprecipitation combined with deep sequencing …
Bioinformatics Core Workflow for ChIP-Seq Data Analysis.
Schauer T. Schauer T. Methods Mol Biol. 2024;2846:47-62. doi: 10.1007/978-1-0716-4071-5_4. Methods Mol Biol. 2024. PMID: 39141229
Chromatin immunoprecipitation (ChIP) followed by next-generation sequencing (-seq) has been the most common genomics method for studying DNA-protein interactions in the last decade. ChIP-seq technology became standard both experime …
Chromatin immunoprecipitation (ChIP) followed by next-generation sequencing (-seq) has been the most comm …
ChIP-Seq Protocol for In Vitro Cell Differentiation Systems.
Copeland J, Merkuri F, Simoes-Costa M. Copeland J, et al. Methods Mol Biol. 2023;2599:49-58. doi: 10.1007/978-1-0716-2847-8_5. Methods Mol Biol. 2023. PMID: 36427142
Here, we provide a comprehensive protocol for the preparation and analysis of ChIP-seq libraries for human-induced neural crest cells (hiNCCs) from human embryonic stem cells (hESCs). ...
Here, we provide a comprehensive protocol for the preparation and analysis of ChIP-seq libraries for human-induced neural cres …
Review and Evaluate the Bioinformatics Analysis Strategies of ATAC-seq and CUT&Tag Data.
Cheng S, Miao B, Li T, Zhao G, Zhang B. Cheng S, et al. Genomics Proteomics Bioinformatics. 2024 Sep 13;22(3):qzae054. doi: 10.1093/gpbjnl/qzae054. Genomics Proteomics Bioinformatics. 2024. PMID: 39255248 Free PMC article. Review.
Based on Tn5, the Assay for Transposase-Accessible Chromatin using sequencing (ATAC-seq) and the Cleavage Under Targets and Tagmentation (CUT&Tag) were developed to measure chromatin accessibility and detect DNA-protein interactions. ...Therefore, …
Based on Tn5, the Assay for Transposase-Accessible Chromatin using sequencing (ATAC-seq) and the Cleavage Under Targets …
14,233 results
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