From raw files, MS/MS spectra were exported as dta (text format) files using the script extract_msn.exe (Thermo Fisher Scientific) under the following settings: peptide mass range: 500 3500; minimal total ion intensity threshold: 1000; minimal number of fragment ions: 15; precursor mass tolerance: 1.4 amu; group scan: 1; minimum group count: 1.
From raw files, MS/MS spectra were exported as individual files in DTA format using extract_msn.exe program contained within Bioworks v3.2 software (Thermo Electron) under the following settings: peptide mass range: 500 4000; minimal total ion intensity threshold: 10000; minimal number of fragment ions: 15; precursor mass tolerance: ± 1.4 amu; group scan: one; with a minimum group count of one.
The covariance value is the maximal covariance of the target mass and all other mass values; maximal covariance is the minimal total covariance of the matrix used on the target mass.
The NLP problem is based on criterion of minimal total holding time (MTHT), kefir grain mass balances in CSTB and parameters of the growth and pH models.
From raw files, tandem MS spectra were exported as individual files in.dta format with the following settings: peptide mass range, 400 3500 Da; minimal total ion intensity, 500; and minimal number of fragment ions, 12.
Though recent observations by SOIR on Venus Express suggest that particles may exist at altitudes above 80 km (Wilquet et al. 2012), and possibly above 90 km (Wilquet et al. 2009), their total mass hence total contribution to the cloud structure will be minimal, so it is expected that this simplification will have a minimal effect on our results.
These form similar ring structures in both U1 and U4 snRNP, and have a total mass of ∼70 kDa, which is more than half the mass of the minimal U1 snRNP (∼120 kDa).
The first strategy can be applied with minimal a-priori information on the masses (i.e. using a parameter that quantifies an eventual relative modification of the total mass of the structure before and after damage).
However, recent research shows that the total mass of gastroliths carried by one animal is usually only one or two percent of the body mass, and that the impact of gastroliths on buoyancy is minimal (Henderson, 2003).
