Masslynx 4.1 waters

Manufactured by Waters Corporation

MassLynx 4.1 is a software package developed by Waters Corporation for the control and operation of its mass spectrometry instruments. It provides the user interface and data processing tools to acquire, analyze, and manage mass spectrometry data.

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Lab products found in correlation

Waters synapt g2 qtof, by Waters Corporation (1 mentions) Plgs software, by Waters Corporation (1 mentions)

2 protocols using masslynx 4.1 waters

Comprehensive Peptide Identification Pipeline

Cited 1 time

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Ten microliters of the cleaned sample was injected onto a BHE C18 UPLC column for separation of peptides (Supplementary Table), followed by analysis on a Waters Synapt G2 Q-TOF instrument for MS and MS/MS with an ESI source. The raw data were analyzed to obtain the complete integrated sequence of the sample by MassLynx 4.1 WATERS, peptide editor software. The individual peptide MSMS spectra were matched to the database sequence with the help of PLGS software, WATERS. The instrument used for acquiring mass spectrometry data was UPLC connected with Waters Synapt G2 (QTOF). The parameters used for identification are already mentioned, such as peptide mass tolerance at the MS1 level of 50 ppm and fragment mass tolerance at the MS2 level of 100 ppm. During the processing of the sample, cysteine sites were modified to carbamidomethylated cysteine, and the methionine sites were prone to oxidation, which was considered a variable modification to the mass (55 (link)–57 (link)). Quantitive details are given in Table S2.

Singh V., Singh R., Kushwaha R., Verma S.P., Tripathi A.K, & Mahdi A.A. (2022). The Molecular Role of HIF1α Is Elucidated in Chronic Myeloid Leukemia. Frontiers in Oncology, 12, 912942.

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Comprehensive Membrane Protein Identification

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The goal of this study was to comprehensive identification of integral membrane proteins. 100μg of roots protein sample was taken for digestion; the volume was made up to 100μl with 50mM NH4HCO3. The sample was treated with 100mM DTT at 95 0 C for 1 hour, followed by 250mM Iodoacidamid (IA) at room temperature in the dark for 45 min. The sample was then digested with trypsin and incubated overnight at 37 0 C. The sample was vacuum dried and dissolved in 10μl of 0.1% formic acid in water. After centrifugation at 10000 x gs, the supernatant was collected into the separate tube. 1μl injection volume was used on C18 nUPLC column for separation of peptides, and then followed by analysis on the Water Synapt G2 Q-TOF instrument for MS and MSMS. The raw data was processed by MassLynx 4.1 WATERS. The individual peptides MS/MS spectra were matched to the database sequence for proteins identification on PLGS software, WATERS. For Protein identification Database used UNIPROT, Mass Tolerance; 50ppm and Peptide mass tolerance; 100ppm for the search to proceed. Specific modification; Carbamidomethyl and variable modification; Oxidation (M). Result based on the Scores of the matching protein masses and probable peptides was given as output.

Rafique S., & Nasrullah N. (2020). Characterization of plasma membrane proteins from maize roots (Zea mays L.) under multiple abiotic stresses using LC-MS/MS technique.

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