mMass protocols

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mMass specifications


Unique identifier OMICS_03357
Name mMass
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Python
Computer skills Advanced
Stability Stable
Maintained Yes


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  • person_outline Martin Strohalm <>

Publication for mMass

mMass in pipelines

PMCID: 5647560
PMID: 28938074
DOI: 10.1021/acs.analchem.7b01581

[…] one at higher energy in the collision cell for fragments from sites 6–79, and one at lower energy for fragments from sites 114–130. data analysis was performed with xtract (thermo scientific) or mmass software, and graphical fragment maps were created with prosight lite. all intensity values used for the determination of weighted-average charges were normalized by charge to account […]

PMCID: 5140025
PMID: 27976756
DOI: 10.21956/wellcomeopenres.10667.r17585

[…] on an elementary computational tool, xiq . a later application relied on manual data analysis, a subsequent protocol conspicuously left out the computational aspects . a workflow using software mmass has been demonstrated using a calmodulin (17kda) in presence and absence of ca2+ . it remains to be seen if the approach scales to larger protein system. now that qclms data appear to become […]

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mMass in publications

PMCID: 5906754
PMID: 29570976
DOI: 10.1021/acs.analchem.7b05215

[…] then imported to scils software v.2016a (scils, bremen, germany) where they were together normalized by total ion count. the overall mean spectrum from all 23 samples was extracted and exported to mmass v.5.5 where it was subjected to autoscaling, baseline subtraction, and smoothing (gaussian algorithm with window size of 0.1 m/z and 2 cycles). peak picking was performed on the spectrum […]

PMCID: 5947327
PMID: 29780442
DOI: 10.1002/2017MS001162

[…] pointing vertical unit factor.κvon kármán constant ( κ=0.41).llatent heat of vaporization.λmonin‐obukhov length.leddy mixing length.leinternal eddy mixing length.lssurface‐based eddy mixing length.mmass flux.ptotal pressure.〈ph〉domain‐mean hydrostatic pressure.p†departure of pressure from domain‐mean hydrostatic pressure.qlliquid water specific humidity.qssaturation specific humidity.qttotal […]

PMCID: 5856493
PMID: 29358052
DOI: 10.1016/j.chembiol.2017.12.012

[…] 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 ( and mmass software packages ( (, ). the appearance of dhodh in the mass spectra was invariant between different protein preparations and could be reproduced by using […]

PMCID: 5854381
PMID: 29543870
DOI: 10.1371/journal.pone.0194425

[…] the cases where peptides were overlapping, spectra were collected using ion-mobility spectrometry to separate peptides based on their size, shape and charge., digested peptides were identified using mmass [] and corresponding masses were analyzed using the findpept tool on the expasy proteomics server (mass tolerance ± 0.5 da) to determine peptide sequences. peptides that could not be confirmed […]

PMCID: 5823468
PMID: 29425229
DOI: 10.1371/journal.ppat.1006870

[…] in milli-q h2o, mixed to a saturated solution of α-cyano-4-hydroxycinnaminic acid, spotted on a maldi sample plate, and dried at room temperature. all resulting data was analyzed manually using both mmass and flex analysis 3.0 (bruker daltonics) softwares. also, the secondary structure of the refolded protein was investigated by circular dichroism using a jasco-j815 spectropolarimeter (jasco […]

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mMass institution(s)
Institute of Microbiology, Academy of Sciences of the Czech Republic, vvi; Videnska, Prague, Czech Republic

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