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Citations per year

Number of citations per year for the bioinformatics software tool MS-Bridge

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This map represents all the scientific publications referring to MS-Bridge per scientific context
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MS-Bridge specifications


Unique identifier OMICS_27506
Name MS-Bridge
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes


  • person_outline Robert Chalkley

Additional information

Publications for MS-Bridge

MS-Bridge citations


The γ33 subunit of R phycoerythrin from Gracilaria chilensis has a typical double linked phycourobilin similar to γ subunit

PLoS One
PMCID: 5892909
PMID: 29634783
DOI: 10.1371/journal.pone.0195656
call_split See protocol

[…] xameric complex described above. The purified proteolytic fragments obtained after digestion, were characterized by spectroscopy and analyzed by Mass Spectrometry (MS) at the University of Edinburgh. MS-bridge prospector platform ( was used for search and identification. The elemental composition of modified cysteines and/or the chromophore as crosslinking agent were use […]


Screening of Drugs Inhibiting In vitro Oligomerization of Cu/Zn Superoxide Dismutase with a Mutation Causing Amyotrophic Lateral Sclerosis

Front Mol Biosci
PMCID: 4977284
PMID: 27556028
DOI: 10.3389/fmolb.2016.00040

[…] tesque) as internal standards and with α-cyano-4-hydroxycinnamic acid (Wako) as a matrix. Spectra were obtained using Ultraflex™ (Bruker Daltonics) in linear mode, and mass peaks were assigned using MS Bridge (University of California, San Francisco, CA). […]


Characterization of the MUC1 C Cytoplasmic Domain as a Cancer Target

PLoS One
PMCID: 4534190
PMID: 26267657
DOI: 10.1371/journal.pone.0135156

[…] GO-203 with MUC1-CD, GO-203 was incubated with purified GST-MUC1-CD. The complexes were separated by SDS-PAGE and tryptic digests were analyzed by MALDI-TOF-MS (). Peptide identification was based on MS-bridge analysis of the tryptic digest MALDI-TOF data against the sequences of the 2 known components of the reaction, i.e. GST-MUC1-CD () and GO-203. The peptide dimer with a single disulfide bridg […]


Developing New Isotope Coded Mass Spectrometry Cleavable Cross Linkers for Elucidating Protein Structures

Anal Chem
PMCID: 3985771
PMID: 24471733
DOI: 10.1021/ac403636b
call_split See protocol

[…] remnant moieties for d0- (i.e., A, S, T) or d10-DMSSO (i.e., A*, S*, T*) cross-linker, respectively. Initial acceptance criteria for peptide identification required a reported expectation value ≤0.1.MS-Bridge was used to confirm the identification of cross-linked peptides by mass mapping against bovine cytochrome C with the parent mass error set as ±10 ppm. The in-house program Link-Hunter is a r […]


The monomeric GIY YIG homing endonuclease I BmoI uses a molecular anchor and a flexible tether to sequentially nick DNA

Nucleic Acids Res
PMCID: 3664794
PMID: 23558745
DOI: 10.1093/nar/gkt186

[…] on Regional Proteomics Facility. Recovered peptides were subjected to matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) mass spectrometry, and the results analyzed using the UCSF MS-Bridge webpage. To delineate the boundary of the trypsin- and elastase-stable catalytic domain, liquid chromatography (LC) mass spectrometry was performed on a 3Q mass spectrometer (Micromass) equi […]


Probing Native Protein Structures by Chemical Cross linking, Mass Spectrometry, and Bioinformatics*

PMCID: 2938055
PMID: 20360032
DOI: 10.1074/mcp.R000001-MCP201

[…] ss-links. For example, not all possible ion types for each peptide are considered.Another strategy that, up to now, has only been used with restricted databases is implemented in the tools Batch-Tag, MS-Bridge, and MS-Product that are part of the Protein Prospector package () and Popitam (CXMS pipeline) (). Both are based on the rationale that cross-linked peptides may be considered as a single li […]

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MS-Bridge institution(s)
Mass Spectrometry Facility, Departments of Pharmaceutical Chemistry and Biochemistry and Biophysics, Howard Hughes Medical Institute, University of California, San Francisco-University of California, Berkeley, CA, USA
MS-Bridge funding source(s)
Supported by National Institutes of Health Grants NCRR 01614, NCRR 12961, and NCRR 15804 from the National Center for Research Resources.

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