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DamID profiling of dynamic Polycomb-binding sites in Drosophila imaginal disc development and tumorigenesis.
La Fortezza M, Grigolon G, Cosolo A, Pindyurin A, Breimann L, Blum H, van Steensel B, Classen AK. La Fortezza M, et al. Epigenetics Chromatin. 2018 Jun 5;11(1):27. doi: 10.1186/s13072-018-0196-y. Epigenetics Chromatin. 2018. PMID: 29871666 Free PMC article.
However, limited availability and heterogeneous tissue composition of in vivo source material impose challenges on many experimental approaches. RESULTS: Here we adapt cell-type-specific DamID-seq profiling for use in Drosophila imaginal discs and make FLP/FRT-based …
However, limited availability and heterogeneous tissue composition of in vivo source material impose challenges on many experimental approac …
DamID: a methylation-based chromatin profiling approach.
Orian A, Abed M, Kenyagin-Karsenti D, Boico O. Orian A, et al. Methods Mol Biol. 2009;567:155-69. doi: 10.1007/978-1-60327-414-2_11. Methods Mol Biol. 2009. PMID: 19588092 Review.
It is highly valuable for mapping proteins that associate with the genome indirectly or loosely (e.g., co-factors). DamID is based on the ability to fuse a bacterial Dam-methylase to a protein of interest and subsequently mark the factor's genomic binding site by ad …
It is highly valuable for mapping proteins that associate with the genome indirectly or loosely (e.g., co-factors). DamID is based on …
DamID as a versatile tool for understanding gene regulation.
Aughey GN, Cheetham SW, Southall TD. Aughey GN, et al. Development. 2019 Mar 15;146(6):dev173666. doi: 10.1242/dev.173666. Development. 2019. PMID: 30877125 Free PMC article. Review.
Recently, DamID has been adapted for applications beyond simple assaying of protein-DNA interactions, such as for studying RNA-chromatin interactions, chromatin accessibility and long-range chromosome interactions. Here, we provide an overview of DamID and introduce …
Recently, DamID has been adapted for applications beyond simple assaying of protein-DNA interactions, such as for studying RNA-chroma …
Inducible DamID systems for genomic mapping of chromatin proteins in Drosophila.
Pindyurin AV, Pagie L, Kozhevnikova EN, van Arensbergen J, van Steensel B. Pindyurin AV, et al. Nucleic Acids Res. 2016 Jul 8;44(12):5646-57. doi: 10.1093/nar/gkw176. Epub 2016 Mar 21. Nucleic Acids Res. 2016. PMID: 27001518 Free PMC article.
Dam identification (DamID) is a powerful technique to generate genome-wide maps of chromatin protein binding. ...We demonstrate the utility of the latter by generating a glia-specific map of Polycomb in small samples of brain tissue. These new DamID tools will be va …
Dam identification (DamID) is a powerful technique to generate genome-wide maps of chromatin protein binding. ...We demonstrate the u …
A non-parametric peak calling algorithm for DamID-Seq.
Li R, Hempel LU, Jiang T. Li R, et al. PLoS One. 2015 Mar 18;10(3):e0117415. doi: 10.1371/journal.pone.0117415. eCollection 2015. PLoS One. 2015. PMID: 25785608 Free PMC article.
In order to identify transcription factor binding sites (TFBS) of double sex (DSX)-an important transcription factor in sex determination, we applied the DNA adenine methylation identification (DamID) technology to the fat body tissue of Drosophila, followed by deep …
In order to identify transcription factor binding sites (TFBS) of double sex (DSX)-an important transcription factor in sex determination, w …
Data analysis algorithm for DamID-seq profiling of chromatin proteins in Drosophila melanogaster.
Maksimov DA, Laktionov PP, Belyakin SN. Maksimov DA, et al. Chromosome Res. 2016 Dec;24(4):481-494. doi: 10.1007/s10577-016-9538-4. Epub 2016 Oct 21. Chromosome Res. 2016. PMID: 27766446
For this purpose, chromatin immunoprecipitation (ChIP) and Dam identification (DamID) methods can be applied to cell lines, whole organisms, or enriched cell populations. In this work, we present modifications to the experimental DamID protocol, as well as a custom …
For this purpose, chromatin immunoprecipitation (ChIP) and Dam identification (DamID) methods can be applied to cell lines, whole org …
RNA-DamID reveals cell-type-specific binding of roX RNAs at chromatin-entry sites.
Cheetham SW, Brand AH. Cheetham SW, et al. Nat Struct Mol Biol. 2018 Jan;25(1):109-114. doi: 10.1038/s41594-017-0006-4. Epub 2017 Dec 18. Nat Struct Mol Biol. 2018. PMID: 29323275 Free PMC article.
One of the mechanisms by which lncRNAs function is through the modulation of chromatin states. To assess the functions of lncRNAs, we developed RNA-DamID, a novel approach that detects lncRNA-genome interactions in a cell-type-specific manner in vivo with high sensitivity …
One of the mechanisms by which lncRNAs function is through the modulation of chromatin states. To assess the functions of lncRNAs, we develo …
DamID: mapping of in vivo protein-genome interactions using tethered DNA adenine methyltransferase.
Greil F, Moorman C, van Steensel B. Greil F, et al. Methods Enzymol. 2006;410:342-59. doi: 10.1016/S0076-6879(06)10016-6. Methods Enzymol. 2006. PMID: 16938559 Review.
A large variety of proteins bind to specific parts of the genome to regulate gene expression, DNA replication, and chromatin structure. DamID is a powerful method used to map the genomic interaction sites of these proteins in vivo. ...This chapter discusses DamID te …
A large variety of proteins bind to specific parts of the genome to regulate gene expression, DNA replication, and chromatin structure. D
Genome-Wide Cell Type-Specific Mapping of In Vivo Chromatin Protein Binding Using an FLP-Inducible DamID System in Drosophila.
Pindyurin AV. Pindyurin AV. Methods Mol Biol. 2017;1654:99-124. doi: 10.1007/978-1-4939-7231-9_7. Methods Mol Biol. 2017. PMID: 28986785
A thorough study of the genome-wide binding patterns of chromatin proteins is essential for understanding the regulatory mechanisms of genomic processes in eukaryotic nuclei, including DNA replication, transcription, and repair. The DNA adenine methyltransferase identification ( …
A thorough study of the genome-wide binding patterns of chromatin proteins is essential for understanding the regulatory mechanisms of genom …
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