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12,237 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 …
Reconstructing the maize leaf regulatory network using ChIP-seq data of 104 transcription factors.
Tu X, Mejía-Guerra MK, Valdes Franco JA, Tzeng D, Chu PY, Shen W, Wei Y, Dai X, Li P, Buckler ES, Zhong S. Tu X, et al. Nat Commun. 2020 Oct 9;11(1):5089. doi: 10.1038/s41467-020-18832-8. Nat Commun. 2020. PMID: 33037196 Free PMC article.
However, TF binding studies in plants are too few in number to produce a general picture of this complex network. In this study, we use large-scale ChIP-seq to reconstruct it in the maize leaf, and train machine-learning models to predict TF binding and co-localizat …
However, TF binding studies in plants are too few in number to produce a general picture of this complex network. In this study, we use larg …
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 …
Bibliometric review of ATAC-Seq and its application in gene expression.
Luo L, Gribskov M, Wang S. Luo L, et al. Brief Bioinform. 2022 May 13;23(3):bbac061. doi: 10.1093/bib/bbac061. Brief Bioinform. 2022. PMID: 35255493 Free PMC article. Review.
An assay for transposase-accessible chromatin using sequencing (ATAC-seq), which uses Tn5 transposase to sequence protein-free binding regions of the genome, can be combined with chromatin immunoprecipitation coupled with deep sequencing …
An assay for transposase-accessible chromatin using sequencing (ATAC-seq), which uses Tn5 transposase to sequence prote …
ChIP-Seq Assays from Mammalian Cartilage and Chondrocytes.
Yamakawa A, Hojo H, Ohba S. Yamakawa A, et al. Methods Mol Biol. 2021;2245:167-178. doi: 10.1007/978-1-0716-1119-7_12. Methods Mol Biol. 2021. PMID: 33315202
Chromatin immunoprecipitation followed by sequencing (ChIP-seq) is a powerful tool to identify binding profiles of transcriptional regulators and chromatin regulators as well as histone modification patterns in a genome-wide manner. Ch …
Chromatin immunoprecipitation followed by sequencing (ChIP-seq) is a powerful tool to identify binding pr …
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 …
Genome-wide global identification of NRF2 binding sites in A549 non-small cell lung cancer cells by ChIP-Seq reveals NRF2 regulation of genes involved in focal adhesion pathways.
Namani A, Liu K, Wang S, Zhou X, Liao Y, Wang H, Wang XJ, Tang X. Namani A, et al. Aging (Albany NY). 2019 Dec 28;11(24):12600-12623. doi: 10.18632/aging.102590. Epub 2019 Dec 28. Aging (Albany NY). 2019. PMID: 31884422 Free PMC article.
We investigated the global NRF2 genomic binding sites using the high-throughput ChIP-Seq technique in KEAP1 (Kelch-like ECH-associated protein 1)-mutated A549 (NSCLC) cells. We next carried out an integrated analysis of the ChIP-Seq data with transcrip …
We investigated the global NRF2 genomic binding sites using the high-throughput ChIP-Seq technique in KEAP1 (Kelch-like ECH-as …
12,237 results
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