Results 31 to 40 of about 104,409 (252)

Impact of chromatin structures on DNA processing for genomic analyses. [PDF]

PLoS ONE, 2009
Chromatin has an impact on recombination, repair, replication, and evolution of DNA. Here we report that chromatin structure also affects laboratory DNA manipulation in ways that distort the results of chromatin immunoprecipitation (ChIP) experiments. We
Leonid Teytelman, Bilge Ozaydin, Oliver Zill, Philippe Lefrançois, Michael Snyder, Jasper Rine, Michael B Eisen   +6 more
doaj   +1 more source

Chromatin state analysis of the barley epigenome reveals a higher-order structure defined by H3K27me1 and H3K27me3 abundance [PDF]

, 2015
This work was supported by grant BBSRC BB/I1022899/1 ‘The diversity and evolution of the gene component of the barley pericentromeric heterochromatin’.Combinations of histones carrying different covalent modifications are a major component of epigenetic ...
Dhillon, Taniya, Milne, Iain, Katie Baker, Baker, Katie, Colas, Isabelle, Taniya Dhillon, Micha Bayer, Bayer, Micha, Milne, Linda, Linda Milne, Flavell, Andrew J., Iain Milne, Andrew J. Flavell, Cook, Nicola, Nicola Cook, Isabelle Colas   +15 more
core   +1 more source

Development of an efficient chromatin immunoprecipitation method to investigate protein-DNA interaction in oleaginous castor bean seeds. [PDF]

PLoS ONE, 2018
Chromatin immunoprecipitation (ChIP) is usually a reliable technique to find the binding sites of a transcription factor. In the current study, we developed a suitable ChIP method using developing castor bean seeds.
Mohammad Enamul Haque, Bing Han, Bin Wang, Yue Wang, Aizhong Liu   +4 more
doaj   +1 more source

Chromatin immunoprecipitation with mouse adipocytes using hypotonic buffer to enrich nuclear fraction before fixation

STAR Protocols, 2023
Summary: Chromatin immunoprecipitation (ChIP) experiments with differentiated adipocytes are challenging because lipid droplets interfere with immunoprecipitation efficiency. Here, the author describes optimized procedures to minimize the burden of lipid
Yuta Hiraike
doaj   +1 more source

ChIP-seq Analysis in R (CSAR): An R package for the statistical detection of protein-bound genomic regions

, 2011
Background In vivo detection of protein-bound genomic regions can be achieved by combining chromatin-immunoprecipitation with next-generation sequencing technology (ChIP-seq). The large amount of sequence data produced by this method needs to be analyzed
Muino, J.M., Angenent, G.C., Krajewski Pawel, Angenent Gerco C, Roeland CHJ van Ham, Pawel Krajewski, Muiño Jose M, Ham, R.C.H.J., van, Kaufmann, K., van Ham Roeland CHJ, Jose M Muiño, Kaufmann Kerstin, van Ham, R.C.H.J., Krajewski, P., Kerstin Kaufmann, Gerco C Angenent   +15 more
core   +1 more source

Epigenomic profiling of archived FFPE tissues by enhanced PAT-ChIP (EPAT-ChIP) technology

Clinical Epigenetics, 2018
Background The introduction of pathology tissue-chromatin immunoprecipitation (PAT-ChIP), a technique allowing chromatin immunoprecipitation (ChIP) from formalin-fixed paraffin-embedded (FFPE) tissues, has extended the application of chromatin studies to
Stefano Amatori, Giuseppe Persico, Claudio Paolicelli, Roman Hillje, Nora Sahnane, Francesco Corini, Daniela Furlan, Lucilla Luzi, Saverio Minucci, Marco Giorgio, Pier Giuseppe Pelicci, Mirco Fanelli   +11 more
doaj   +1 more source

PRI-CAT: a web-tool for the analysis, storage and visualization of plant ChIP-seq experiments.

, 2011
Although several tools for the analysis of ChIP-seq data have been published recently, there is a growing demand, in particular in the plant research community, for computational resources with which such data can be processed, analyzed, stored ...
Muino, J.M., Marlous Hoogstraat, Dijk, A.D.J., van, Roeland C. H. J. van Ham, Ham, R.C.H.J., van, van Dijk, A.D.J., van Ham, R.C.H.J., Jose M. Muiño, Aalt D. J. van Dijk, Hoogstraat, M.   +9 more
core   +1 more source

Protocol for chromatin immunoprecipitation of histone modifications in frozen adipose tissue

STAR Protocols
Summary: Chromatin immunoprecipitation (ChIP) combined with sequencing has revolutionized our understanding of gene regulation; however, its application to frozen adipose tissue presents unique challenges due to the high levels of lipid content. Here, we
Akin Cayir, Tone M. Tannæs, Sadia Saeed, Matthias Blüher, Yvonne Böttcher   +4 more
doaj   +1 more source

Dual agarose magnetic (DAM) ChIP

BMC Research Notes, 2009
Background Chromatin immunoprecipitation (ChIP) has become a very popular technique to study epigenetic regulation because it can be used to identify proteins and protein modifications present at specific locations in chromatin.
Balakrishnan Lata, Milavetz Barry
doaj   +1 more source

Distinct distribution of ectopically expressed histone variants H2A.Bbd and MacroH2A in open and closed chromatin domains. [PDF]

PLoS ONE, 2012
BACKGROUND:It becomes increasingly evident that nuclesomes are far from being identical to each other. This nucleosome diversity is due partially to the existence of histone variants encoded by separate genes.
Elena S Ioudinkova, Ana Barat, Andrey Pichugin, Elena Markova, Ilya Sklyar, Iryna Pirozhkova, Chloe Robin, Marc Lipinski, Vasily Ogryzko, Yegor S Vassetzky, Sergey V Razin   +10 more
doaj   +1 more source