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UniDec specifications

Information


Unique identifier OMICS_29035
Name UniDec
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C, Python
License BSD 3-clause “New” or “Revised” License
Computer skills Advanced
Version 2.6
Stability Stable
Maintained Yes

Subtool


  • MetaUniDec

Versioning


No version available

Maintainers


  • person_outline Carol Robinson
  • person_outline Michael Marty

Publications for UniDec

UniDec citations

 (5)
call_split

Lipids Shape the Electron Acceptor Binding Site of the Peripheral Membrane Protein Dihydroorotate Dehydrogenase

2018
Cell Chem Biol
PMCID: 5856493
PMID: 29358052
DOI: 10.1016/j.chembiol.2017.12.012
call_split See protocol

[…] a resolution of 60 000 at m/z 200 with a high mass mode acquisition window of 1000-6000 m/z and an AGC target of 1 000 000. Data were analysed using the Xcalibur 3.0 (Thermo Scientific, Waltham, MA), UniDec (www.unidec.chem.ox.ac.uk) and mMass software packages (http://www.mmass.org) (, ). The appearance of DHODH in the mass spectra was invariant between different protein preparations and could be […]

library_books

Allosteric modulation of protein protein interactions by individual lipid binding events

2017
Nat Commun
PMCID: 5736629
PMID: 29259178
DOI: 10.1038/s41467-017-02397-0

[…] Native MS data were processed using the software program Pulsar and deconvoluted using Unidec software with the following settings: no smoothing, m/z range 6000–12,000, charge range 10–30, mass sampling of 5 Da, and peak FWHM of 1. The intensities of apo AmtB (A) and AmtB–GlnK (AG) and […]

call_split

Alzheimer’s disease and cigarette smoke components: effects of nicotine, PAHs, and Cd(II), Cr(III), Pb(II), Pb(IV) ions on amyloid β peptide aggregation

2017
Sci Rep
PMCID: 5663743
PMID: 29089568
DOI: 10.1038/s41598-017-13759-5
call_split See protocol

[…] l/min, capillary voltage 2.5 kV, cone voltage 40 V. Analysis was done in high-resolution mode (average resolution of 30 000) in the 500–4000 m/z range.Data processing was done using the Proteowizard, UniDec, and mMass softwares. Peaks were identified by comparison between raw experimental data and generated theoretical peak lists, and by analysis of isotopic patterns (Supp. Fig. ). All data were n […]

library_books

A new class of hybrid secretion system is employed in Pseudomonas amyloid biogenesis

2017
Nat Commun
PMCID: 5557850
PMID: 28811582
DOI: 10.1038/s41467-017-00361-6

[…] et to 200 V, c-trap entrance lens was set to 5.8 V, orbitrap resolution was at 17,500 and microscans were set to 10. Instrument was calibrated using cesium iodide. Data analysis was carried out using UniDec. Ion-mobility mass spectrometry measurements were performed on a high mass modified Synapt high definition mass spectrometry G1 (Waters). Backing pressure was at 5.3 mBar, capillary voltage was […]

library_books

The human Na+/H+ exchanger 1 is a membrane scaffold protein for extracellular signal regulated kinase 2

2016
BMC Biol
PMCID: 4833948
PMID: 27083547
DOI: 10.1186/s12915-016-0252-7

[…] d at 10 V, with an argon collision gas at 6.6 × 10-2 mbar. Backing pressure in the early ion optics was increased to 5.5 mbar to improve transmission of high m/z ions. Spectra were assigned using the UniDec software as previously described []. […]

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UniDec institution(s)
Department of Chemistry, Physical and Theoretical Chemistry Laboratory, University of Oxford, Oxford, UK
UniDec funding source(s)
Supported by Carl Trygger’s Foundation for Scientific Research, an EPSRC studentship, a program grant G1000819 from the Medical Research Council, and by European Research Council Investigator Award (IMPRESSS, grant no. 268851).

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