Cheetah-MS: a web server to model protein complexes using tandem cross-linking mass spectrometry data
(2021) In Bioinformatics 37(24). p.4871-4872- Abstract
SUMMARY: Protein-protein interactions (PPI) are central in many biological processes but difficult to characterize, especially in complex, unfractionated samples. Chemical cross-linking combined with mass spectrometry (MS) and computational modeling is gaining recognition as a viable tool in protein interaction studies. Here, we introduce Cheetah-MS, a web server for predicting the PPIs in a complex mixture of samples. It combines the capability and sensitivity of MS to analyze complex samples with the power and resolution of protein-protein docking. It produces the quaternary structure of the PPI of interest by analyzing tandem MS/MS data (also called MS2). Combining MS analysis and modeling increases the sensitivity and, importantly,... (More)
SUMMARY: Protein-protein interactions (PPI) are central in many biological processes but difficult to characterize, especially in complex, unfractionated samples. Chemical cross-linking combined with mass spectrometry (MS) and computational modeling is gaining recognition as a viable tool in protein interaction studies. Here, we introduce Cheetah-MS, a web server for predicting the PPIs in a complex mixture of samples. It combines the capability and sensitivity of MS to analyze complex samples with the power and resolution of protein-protein docking. It produces the quaternary structure of the PPI of interest by analyzing tandem MS/MS data (also called MS2). Combining MS analysis and modeling increases the sensitivity and, importantly, facilitates the interpretation of the results.
AVAILABILITY: Cheetah-MS is freely available as a web server at https://www.txms.org.
SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
(Less)
- author
- Khakzad, Hamed ; Happonen, Lotta LU ; Malmström, Johan LU and Malmström, Lars LU
- organization
- publishing date
- 2021-06-15
- type
- Contribution to journal
- publication status
- published
- subject
- in
- Bioinformatics
- volume
- 37
- issue
- 24
- pages
- 2 pages
- publisher
- Oxford University Press
- external identifiers
-
- scopus:85121988793
- pmid:34128979
- ISSN
- 1367-4803
- DOI
- 10.1093/bioinformatics/btab449
- language
- English
- LU publication?
- yes
- id
- 39eb0d0b-5026-46d2-b062-17b1c2defdf9
- date added to LUP
- 2021-06-21 08:25:21
- date last changed
- 2024-09-12 00:27:52
@article{39eb0d0b-5026-46d2-b062-17b1c2defdf9, abstract = {{<p>SUMMARY: Protein-protein interactions (PPI) are central in many biological processes but difficult to characterize, especially in complex, unfractionated samples. Chemical cross-linking combined with mass spectrometry (MS) and computational modeling is gaining recognition as a viable tool in protein interaction studies. Here, we introduce Cheetah-MS, a web server for predicting the PPIs in a complex mixture of samples. It combines the capability and sensitivity of MS to analyze complex samples with the power and resolution of protein-protein docking. It produces the quaternary structure of the PPI of interest by analyzing tandem MS/MS data (also called MS2). Combining MS analysis and modeling increases the sensitivity and, importantly, facilitates the interpretation of the results.</p><p>AVAILABILITY: Cheetah-MS is freely available as a web server at https://www.txms.org.</p><p>SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.</p>}}, author = {{Khakzad, Hamed and Happonen, Lotta and Malmström, Johan and Malmström, Lars}}, issn = {{1367-4803}}, language = {{eng}}, month = {{06}}, number = {{24}}, pages = {{4871--4872}}, publisher = {{Oxford University Press}}, series = {{Bioinformatics}}, title = {{Cheetah-MS: a web server to model protein complexes using tandem cross-linking mass spectrometry data}}, url = {{http://dx.doi.org/10.1093/bioinformatics/btab449}}, doi = {{10.1093/bioinformatics/btab449}}, volume = {{37}}, year = {{2021}}, }