Nicholas I Brodie
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Explore the profile of Nicholas I Brodie including associated specialties, affiliations and a list of published articles.
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9
Citations
166
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Recent Articles
1.
Brodie N, Sarpe V, Crowder D, Schriemer D
J Am Soc Mass Spectrom
. 2023 Aug;
34(10):2146-2155.
PMID: 37590165
Crosslinking mass spectrometry (XL-MS) supports structure analysis of individual proteins and highly complex whole-cell interactomes. The identification of crosslinked peptides from enzymatic digests remains challenging, especially at the cell level....
2.
Crowder D, Sarpe V, Amaral B, Brodie N, Michael A, Schriemer D
Anal Chem
. 2023 Apr;
95(15):6425-6432.
PMID: 37022750
Crosslinking mass spectrometry (XL-MS) is a valuable technique for generating point-to-point distance measurements in protein space. However, cell-based XL-MS experiments require efficient software that can detect crosslinked peptides with sensitivity...
3.
Makepeace K, Brodie N, Popov K, Gudavicius G, Nelson C, Petrotchenko E, et al.
J Proteomics
. 2019 Nov;
211:103544.
PMID: 31683063
For disordered proteins, ligand binding can be a critical event that changes their structural dynamics. The ability to characterize such changes would facilitate the development of drugs designed to stabilize...
4.
Brodie N, Popov K, Petrotchenko E, Dokholyan N, Borchers C
PLoS Comput Biol
. 2019 Mar;
15(3):e1006859.
PMID: 30917118
Combining structural proteomics experimental data with computational methods is a powerful tool for protein structure prediction. Here, we apply a recently-developed approach for de novo protein structure determination based on...
5.
Brodie N, Huguet R, Zhang T, Viner R, Zabrouskov V, Pan J, et al.
Anal Chem
. 2018 Jan;
90(5):3079-3082.
PMID: 29336549
Top-down hydrogen-deuterium exchange (HDX) analysis using electron capture or transfer dissociation Fourier transform mass spectrometry (FTMS) is a powerful method for the analysis of secondary structure of proteins in solution....
6.
Brodie N, Popov K, Petrotchenko E, Dokholyan N, Borchers C
Sci Adv
. 2017 Jul;
3(7):e1700479.
PMID: 28695211
We present an integrated experimental and computational approach for de novo protein structure determination in which short-distance cross-linking data are incorporated into rapid discrete molecular dynamics (DMD) simulations as constraints,...
7.
Brodie N, Petrotchenko E, Borchers C
J Proteomics
. 2016 Mar;
149:69-76.
PMID: 26931439
Biological Significance: The isotopically labeled short-range non-specific crosslinker TATA-C/C was characterized for use in crosslinking-based protein structural studies. The crosslinking products of TATA can provide a distance constraint of merely...
8.
Brodie N, Makepeace K, Petrotchenko E, Borchers C
J Proteomics
. 2014 Sep;
118:12-20.
PMID: 25192908
Biological Significance: Structural proteomics can be used for studying protein structures which may be difficult to examine by traditional structural biology methods such as NMR or X-ray crystallography. Crosslinking in...
9.
Petrotchenko E, Serpa J, Makepeace K, Brodie N, Borchers C
J Proteomics
. 2014 Jun;
109:104-10.
PMID: 24972318
Biological Significance: The new (14)N(15)N DXMSMS Match software program is a practical tool for the efficient assignment of crosslinks from LC-MS/MS experiments using an equimolar mixture of non-labeled and (15)N...