HDX Workbench: Software for the Analysis of H/D Exchange MS Data

By B. Pascal, S. Willis, Janelle L Lauer, Rachelle R. Landgraf, Graham M. West, D. Marciano, S. Novick, Devrishi Goswami, Michael J. Chalmers, P. Griffin. 2012

300 citations recorded by the source corpus.

Hydrogen/deuterium exchange mass spectrometry (HDX-MS) is an established method for the interrogation of protein conformation and dynamics. While the data analysis challenge of HDX-MS has been addressed by a number of software packages, new computational tools are needed to keep pace with the improved methods and throughput of this technique. To address these needs, we report an integrated desktop program titled HDX Workbench, which facilitates automation, management, visualization, and statistical cross-comparison of large HDX data sets. Using the software, validated data analysis can be achieved at the rate of generation. The application is available at the project home page http://hdx.florida.scripps.edu.

Subfields: Computer Networks and Communications, Spectroscopy

Citations in the corpus

• Analysis of Overlapped and Noisy Hydrogen/Deuterium Exchange Mass Spectra (2013, unknown): “In the last decade, many H/D analysis software packages have emerged, both open source and commercial; AutoHD [5], HX-Express [6], DEX [7], Hydra [8], HeXicon [9], Ex-MS [10], HD-Benchtop [11], Mass Analyzer [12], HD-examiner (Sierra Analytics), and DynamX (Waters), to name a few.”
• Transcriptome engineering with RNA-targeting Type VI-D CRISPR effectors (2018, unknown): “ID=KRE6P5E8Z COOT Emsley et al., 2010 https://www2.mrc-lmb.cam.ac.uk/personal/ pemsley/coot/ PHENIX Adams et al., 2010 http://www.phenix-online.org/ PyMOL Open-Source PyMOL 1.8.x http://www.pymol.org/ UCSF Chimera Pettersen et al., 2004 https://www.cgl.ucsf.edu/chimera/ Leginon Suloway et al., 2005 ”