Literature DB >> 31394001

SimpleDSFviewer: A tool to analyze and view differential scanning fluorimetry data for characterizing protein thermal stability and interactions.

Changye Sun1,2, Yong Li2, Edwin A Yates2, David G Fernig2.   

Abstract

Differential scanning fluorimetry (DSF) is a widely used thermal shift assay for measuring protein stability and protein-ligand interactions that are simple, cheap, and amenable to high throughput. However, data analysis remains a challenge, requiring improved methods. Here, the program SimpleDSFviewer, a user-friendly interface, is described to help the researchers who apply DSF technique in their studies. SimpleDSFviewer integrates melting curve (MC) normalization, smoothing, and melting temperature (Tm) analysis and directly previews analyzed data, providing an efficient analysis tool for DSF. SimpleDSFviewer is developed in Matlab, and it is freely available for all users to use in Matlab workspace or with Matlab Runtime. It is easy to use and an efficient tool for researchers to preview and analyze their data in a very short time.
© 2019 The Protein Society.

Keywords:  data analysis; differential scanning fluorimetry; protein melting curve; protein melting temperature

Mesh:

Substances:

Year:  2019        PMID: 31394001      PMCID: PMC6933846          DOI: 10.1002/pro.3703

Source DB:  PubMed          Journal:  Protein Sci        ISSN: 0961-8368            Impact factor:   6.725


  13 in total

1.  DMAN: a Java tool for analysis of multi-well differential scanning fluorimetry experiments.

Authors:  Conan K Wang; Saroja K Weeratunga; Chris M Pacheco; Andreas Hofmann
Journal:  Bioinformatics       Date:  2011-11-30       Impact factor: 6.937

2.  The use of differential scanning fluorimetry to detect ligand interactions that promote protein stability.

Authors:  Frank H Niesen; Helena Berglund; Masoud Vedadi
Journal:  Nat Protoc       Date:  2007       Impact factor: 13.491

3.  Diversity selection, screening and quantitative structure-activity relationships of osmolyte-like additive effects on the thermal stability of a monoclonal antibody.

Authors:  Olubukayo-Opeyemi Oyetayo; Oscar Méndez-Lucio; Andreas Bender; Hans Kiefer
Journal:  Eur J Pharm Sci       Date:  2016-11-16       Impact factor: 4.384

4.  MTSA--a Matlab program to fit thermal shift data.

Authors:  Michèle N Schulz; Jens Landström; Roderick E Hubbard
Journal:  Anal Biochem       Date:  2012-10-22       Impact factor: 3.365

5.  The Tribbles 2 (TRB2) pseudokinase binds to ATP and autophosphorylates in a metal-independent manner.

Authors:  Fiona P Bailey; Dominic P Byrne; Krishnadev Oruganty; Claire E Eyers; Christopher J Novotny; Kevan M Shokat; Natarajan Kannan; Patrick A Eyers
Journal:  Biochem J       Date:  2015-04-01       Impact factor: 3.857

6.  Differential scanning fluorimetry: rapid screening of formulations that promote the stability of reference preparations.

Authors:  Kiran Malik; Paul Matejtschuk; Craig Thelwell; Chris J Burns
Journal:  J Pharm Biomed Anal       Date:  2013-01-08       Impact factor: 3.935

7.  Study of the "molten globule" intermediate state in protein folding by a hydrophobic fluorescent probe.

Authors:  G V Semisotnov; N A Rodionova; O I Razgulyaev; V N Uversky; A F Gripas'; R I Gilmanshin
Journal:  Biopolymers       Date:  1991-01       Impact factor: 2.505

8.  TSA-CRAFT: A Free Software for Automatic and Robust Thermal Shift Assay Data Analysis.

Authors:  Po-Hsien Lee; Xi Xiao Huang; Bin Tean Teh; Ley-Moy Ng
Journal:  SLAS Discov       Date:  2019-02-11       Impact factor: 3.341

9.  Determination of protein-ligand interactions using differential scanning fluorimetry.

Authors:  Mirella Vivoli; Halina R Novak; Jennifer A Littlechild; Nicholas J Harmer
Journal:  J Vis Exp       Date:  2014-09-13       Impact factor: 1.355

10.  Heparin binding preference and structures in the fibroblast growth factor family parallel their evolutionary diversification.

Authors:  Yong Li; Changye Sun; Edwin A Yates; Chao Jiang; Mark C Wilkinson; David G Fernig
Journal:  Open Biol       Date:  2016-03       Impact factor: 6.411

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  4 in total

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Journal:  HardwareX       Date:  2022-01-07

Review 2.  Selective Modulation of Dynamic Protein Complexes.

Authors:  Julie M Garlick; Anna K Mapp
Journal:  Cell Chem Biol       Date:  2020-08-11       Impact factor: 8.116

3.  The in-vitro effect of famotidine on sars-cov-2 proteases and virus replication.

Authors:  Madeline Loffredo; Hector Lucero; Da-Yuan Chen; Aoife O'Connell; Simon Bergqvist; Ahmad Munawar; Asanga Bandara; Steff De Graef; Stephen D Weeks; Florian Douam; Mohsan Saeed; Ali H Munawar
Journal:  Sci Rep       Date:  2021-03-08       Impact factor: 4.379

4.  Processing binding data using an open-source workflow.

Authors:  Errol L G Samuel; Secondra L Holmes; Damian W Young
Journal:  J Cheminform       Date:  2021-12-11       Impact factor: 5.514

  4 in total

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