Sentence examples for minimum protein probability from inspiring English sources

Using MudPIT ESI- ion trap MS/MS proteomic profiling approach 857 proteins were identified with the minimum protein probability score of 0.9 (estimated FDR of less than 1%); 67% (574) of them were identified in common between control and androgen-treated samples, while 126 proteins and 157 proteins were identified only in control and androgen-treated samples, respectively (Figure 2B).

False discovery rates (FDR) were determined by ProteinProphet and minimum protein probability cut-offs resulting in a 1% FDR were selected individually for each experiment.

Quantification parameters included: reporter ion tolerance – 0.05 Da; minimum peptide length – 6 amino acids; minimum # of spectra – 2; minimum # of peptides – 2; minimum peptide probability – 0.05; minimum protein probability – 0.5 and data centroided.

Scaffold data analysis (Proteome Software, Version 2.2.03) was conducted using Bioworks search file results with a high stringency filter with a 99% minimum protein ID probability, a minimum number of two unique peptides for each protein identified, and with a minimum peptide ID probability of 95%.

Protein identification required a minimum of 2 peptides of greater than 95% probability and a minimum of 99% protein probability.

Minimum peptide and protein probabilities were set at 80 and 99%, respectively, with a minimum of five unique peptide matches per protein.

Parameters included the following: mass tolerance of 20 ppm, minimum peptide length of 6 amino acids, protein probability of 0.5, and peptide probability of 0.05.

A p values of < 0.05 was considered significant, lists of identified proteins were made under the criterions, peptide probability >95%, protein probability >99% and 2 minimum unique peptides, and then were merged into a master file where the primary accession numbers and entry names from UniProtKB were used.

Criteria for protein identification were: minimum of two peptides, each with a probability of >80% and an overall protein probability of >95%.

Peptide and protein probability was set at 90 and 99%, respectively and reported proteins required a minimum of two peptides.

The following settings were applied: minimum protein score >53, minimum number of peptides ≥1.