Results 31 to 40 of about 211,756 (347)

Mass Spectrometry-Based Protein Footprinting for High Order Structure Analysis: Fundamentals and Applications

Chemical Reviews, 2020
Proteins adopt different higher order structures (HOS) to enable their unique biological functions. Understanding the complexities of protein higher order structures and dynamics requires integrated approaches, where mass spectrometry (MS) is now ...
Xiaoran Roger Liu, M. Zhang, M. Gross
semanticscholar   +1 more source

Multiplex chemical labeling of amino acids for protein footprinting structure assessment

, 2022
Protein footprinting with mass spectrometry is an established structural biology technique for mapping solvent accessibility and assessing molecular-level interactions of proteins.
Nanak, Dhillon, Janna, Kiselar, Erik, Farquhar, Rohit, Jain, Mark, Chance, Benlian, Wang, Xiaolin, Li   +6 more
core   +1 more source

The impact of surgery on global climate: a carbon footprinting study of operating theatres in three health systems.

Lancet Planetary Health, 2017
BACKGROUND Climate change is a major global public health priority. The delivery of health-care services generates considerable greenhouse gas emissions.
Andrea J MacNeill, R. Lillywhite, C. Brown   +2 more
semanticscholar   +1 more source

DNase I footprinting.

Methods in molecular biology, 2020
The association of proteins with the DNA double helix can interfere with the accessibility of the latter to nucleases. This is particularly true when using bulky nucleases such as DNAse I. The DNAse I footprinting method was developed to make use of this
B. Leblanc, T. Moss
semanticscholar   +1 more source

Wellington : a novel method for the accurate identification of digital genomic footprints from DNase-seq data [PDF]

, 2013
The expression of eukaryotic genes is regulated by cis-regulatory elements such as promoters and enhancers, which bind sequence-specific DNA-binding proteins.
Bonifer, Constanze, Piper, Jason, Cockerill, Peter N., Elze, Markus C., Cockerill, Peter N, Bonifer, Constanze; id_orcid, Ott, Sascha, Elze, Markus C, Cauchy, Pierre   +8 more
core   +1 more source

Footprinting Using Nmap

, 2022
Nmap is inbuilt in Kali Linux that is utilized by the organization to identify the weakness and remediate it. There are different sorts of subtleties that Nmap offers in the wake of filtering the objective.
Singh, Yuvraj, Dr. Pawan Singh, Sinha, Garima   +2 more
core   +1 more source

Beyond accessibility: ATAC-seq footprinting unravels kinetics of transcription factor binding during zygotic genome activation

bioRxiv, 2019
While footprinting analysis of ATAC-seq data can theoretically enable investigation of transcription factor (TF) binding, the lack of a computational tool able to conduct different levels of footprinting analysis has so-far hindered the widespread ...
Mette Bentsen, Philipp Goymann, H. Schultheis, K. Klee, Anastasiia Petrova, R. Wiegandt, A. Fust, J. Preussner, C. Kuenne, T. Braun, Johnny Kim, M. Looso   +11 more
semanticscholar   +1 more source

Permanganate/S1 nuclease footprinting reveals non-B DNA structures with regulatory potential across a mammalian genome

Cell Systems, 2017
SUMMARY DNA in cells is predominantly B-form double helix. Though certain DNA sequences in vitro may fold into other structures, such as triplex, left-handed Z-form, or quadruplex DNA, the stability and prevalence of these structures in vivo are not ...
Fedor Kouzine, Damian Wójtowicz, Laura Baranello, Arito Yamane, Steevenson Nelson, W. Resch, Kyong-Rim Kieffer-Kwon, C. Benham, R. Casellas, T. Przytycka, D. Levens   +10 more
semanticscholar   +1 more source

Genome-wide Single-Molecule Footprinting Reveals High RNA Polymerase II Turnover at Paused Promoters

Molecules and Cells, 2017
Summary Transcription initiation entails chromatin opening followed by pre-initiation complex formation and RNA polymerase II recruitment. Subsequent polymerase elongation requires additional signals, resulting in increased residence time downstream of ...
A. Krebs, Dilek Imanci, Leslie Hoerner, Dimos Gaidatzis, Lukas Burger, D. Schübeler   +5 more
semanticscholar   +1 more source

Reproducible inference of transcription factor footprints in ATAC-seq and DNase-seq datasets using protocol-specific bias modeling

Genome Biology, 2019
Background DNase-seq and ATAC-seq are broadly used methods to assay open chromatin regions genome-wide. The single nucleotide resolution of DNase-seq has been further exploited to infer transcription factor binding sites (TFBSs) in regulatory regions ...
Aslıhan Karabacak Calviello, Antje Hirsekorn, Ricardo Wurmus, Dilmurat Yusuf, Uwe Ohler   +4 more
doaj   +1 more source