Chromatin Immunoprecipitation for Identification of Protein-DNA Interactions in Human Cells.
Sign Up to like & getrecommendations! Published in 2018 at "Methods in molecular biology"
DOI: 10.1007/978-1-4939-7871-7_24
Abstract: Chromatin immunoprecipitation (ChIP) is a powerful technique allowing for investigation of protein-DNA interactions in living cells. Here, we provide a detailed step-by-step protocol for ChIP and highlight important considerations, challenges and pitfalls often encountered in… read more here.
Keywords: protein dna; dna interactions; chromatin immunoprecipitation; chip ... See more keywords
DMS-Seq for In Vivo Genome-wide Mapping of Protein-DNA Interactions and Nucleosome Centers.
Sign Up to like & getrecommendations! Published in 2017 at "Cell reports"
DOI: 10.1016/j.celrep.2017.09.035
Abstract: Protein-DNA interactions provide the basis for chromatin structure and gene regulation. Comprehensive identification of protein-occupied sites is thus vital to an in-depth understanding of genome function. Dimethyl sulfate (DMS) is a chemical probe that has… read more here.
Keywords: protein; protein dna; dms seq; dna interactions ... See more keywords
Antiproliferative Activity and Associated DNA Interactions of [Co2L3]6+ Cylinders Derived from Bis(bidentate) 2-Pyridyl-1,2,3-triazole Ligands
Sign Up to like & getrecommendations! Published in 2020 at "Organometallics"
DOI: 10.1021/acs.organomet.0c00146
Abstract: Antineoplastic activity and DNA interactions of kinetically inert dicobalt(III) [Co2(Lpytrz)3](OTf)6 type cylinders containing ligands consisting of 1,2,3-triazoles linked with either methylene (1)... read more here.
Keywords: associated dna; activity associated; dna interactions; antiproliferative activity ... See more keywords
Rapid Biosensing Method for Detecting Protein-DNA Interactions.
Sign Up to like & getrecommendations! Published in 2022 at "ACS sensors"
DOI: 10.1021/acssensors.1c01579
Abstract: Identifying and investigating protein-DNA interactions, which play significant roles in many biological processes, is essential for basic and clinical research. Current techniques for identification of protein-DNA interactions are laborious, time-consuming, and suffer from nonspecific binding… read more here.
Keywords: dna; rapid biosensing; protein dna; method ... See more keywords
Quantum biology. π–π entanglement signatures in protein-DNA interactions
Sign Up to like & getrecommendations! Published in 2022 at "Physical Biology"
DOI: 10.1088/1478-3975/ac5bda
Abstract: The biological functions of DNA are carried out by individual proteins that interact with specific sequences along the DNA in order to prime the molecular processes required by the cellular metabolism. Protein-DNA interactions include DNA… read more here.
Keywords: dna; protein dna; dna interactions; entanglement electrons ... See more keywords
A universal model of RNA.DNA:DNA triplex formation accurately predicts genome-wide RNA–DNA interactions
Sign Up to like & getrecommendations! Published in 2022 at "Briefings in Bioinformatics"
DOI: 10.1093/bib/bbac445
Abstract: Abstract RNA.DNA:DNA triple helix (triplex) formation is a form of RNA–DNA interaction which regulates gene expression but is difficult to study experimentally in vivo. This makes accurate computational prediction of such interactions highly important in… read more here.
Keywords: dna interactions; rna dna; dna; triplex formation ... See more keywords
Computational modeling of in vivo and in vitro protein‐DNA interactions by multiple instance learning
Sign Up to like & getrecommendations! Published in 2017 at "Bioinformatics"
DOI: 10.1093/bioinformatics/btx115
Abstract: Motivation: The study of transcriptional regulation is still difficult yet fundamental in molecular biology research. While the development of both in vivo and in vitro profiling techniques have significantly enhanced our knowledge of transcription factor… read more here.
Keywords: vivo vitro; dna interactions; instance learning; dna ... See more keywords
Interactions between identical DNA double helices.
Sign Up to like & getrecommendations! Published in 2020 at "Physical Review E"
DOI: 10.1103/physreve.101.032414
Abstract: The molecular mechanism of specific interactions between double stranded DNA molecules has been investigated for many years. Problems remain in how confinement, ions, and condensing agents change the interactions. We consider how the orientational alignment… read more here.
Keywords: interactions identical; dna; double helices; dna double ... See more keywords
DNB-based on-chip motif finding: A high-throughput method to profile different types of protein-DNA interactions
Sign Up to like & getrecommendations! Published in 2020 at "Science Advances"
DOI: 10.1126/sciadv.abb3350
Abstract: DocMF uses HT DNB sequencing and sequential imaging to detect the cleavage/binding motifs involved in protein-DNA interactions. Here, we report a sensitive DocMF system that uses next-generation sequencing chips to profile protein-DNA interactions. Using DocMF,… read more here.
Keywords: motif; dnb based; protein dna; dna interactions ... See more keywords
An improved bind-n-seq strategy to determine protein-DNA interactions validated using the bacterial transcriptional regulator YipR
Sign Up to like & getrecommendations! Published in 2020 at "BMC Microbiology"
DOI: 10.1186/s12866-019-1672-7
Abstract: BackgroundInteractions between transcription factors and DNA lie at the centre of many biological processes including DNA recombination, replication, repair and transcription. Most bacteria encode diverse proteins that act as transcription factors to regulate various traits.… read more here.
Keywords: protein; dna; dna interactions; bind seq ... See more keywords
Specificity of protein-DNA interactions in hypersaline environment: structural studies on complexes of Halobacterium salinarum oxidative stress-dependent protein hsRosR.
Sign Up to like & getrecommendations! Published in 2019 at "Nucleic Acids Research"
DOI: 10.2210/pdb6qh0/pdb
Abstract: Interactions between proteins and DNA are crucial for all biological systems. Many studies have shown the dependence of protein-DNA interactions on the surrounding salt concentration. How these interactions are maintained in the hypersaline environments that… read more here.
Keywords: dna; protein dna; hsrosr; dna interactions ... See more keywords