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The resulting peptide spectra were interpreted with Micromass proteinprobe software and analyzed with MASCOT peptide mass fingerprint software and databases (both available at http://www.matrixscience.com).com
The Mowse scoring algorithm in a probabilistic framework of the Mascot Peptide Mass Fingerprint software (Matrix Science) was used as search tool.
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Peptide mass fingerprint analysis by software FindPept and FindMod (http://www.expasy.org/) of the peptides mass derived after tryptic digestion on the native protein corresponded to the acquired Ts-PCHTP sequence (Table S2).
The peak lists of the mass spectra were the basis for peptide mass fingerprint analyses with the Mascot software (Matrix Science; http:www.matrixscience.com/search_form_select.html) and profound (prowl; http://prowl.rockefeller.edu/profound_bin/WebProFound.exe) using the NCBI sequence database.
The peak lists of the mass spectra were used for peptide mass fingerprint analyses with the Mascot software (Matrix Science; http:www.matrixscience.com/search_form_select.html) and profound (prowl; http://prowl.rockefeller.edu/profound_bin/WebProFound.exe) together with the NCBI sequence database.
MS data were analysed by PMF (peptide mass fingerprinting) using MASCOT software.
In peptide mass fingerprint (PMF) map database searching, Mascot Distiller software was used to determine the monoisotopic peak list from the raw mass spectrometry files.
The data were recorded and processed with Agilent MassHunter Workstation Software to obtain the Peptide Mass Fingerprint (PMF).
After air drying, the plate was analysed using MALDI TOF/TOF ultraflex III instrument and further analysis was done with flex analysis software for obtaining the peptide mass fingerprint.
For protein identification, the combined peptide mass fingerprint and MS/MS data search was performed using GPS Explorer™ software v3.6 (Applied Biosystems) against the NCBInr database using MASCOT 2.1 software (Matrix Science, London, UK).
For peptide mass fingerprint data, peak picking was conducted using GPS Explorer software version 3.6 (Applied Biosystems, Foster City, CA).
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