Mass spec-compatible Yeast digest was purchased from Promega. The E. coli, yeast and HEK293T digest were resuspended to 1 mg/mL in 30% ACN/0.1% FA. Four samples, with sample composition described in Fig. S2 , were generated for the benchmarking dataset. A fifth sample that had the same quantity of protein of each proteome was also generated to obtain the spectral library. To generate the samples, the volume of each proteome digest corresponding to the desired protein quantity were mixed together, vacuum-concentrated to dryness, and resuspended to 500 ng/ul in 5% ACN/0.1%TFA. The 4 samples for the DIA benchmarking dataset were analyzed in DIA mode in 4 replicates. In total 16 runs were analyzed.
Mass spec compatible yeast digest
Manufactured by Promega
Mass spec-compatible Yeast digest is a laboratory product designed for use in mass spectrometry applications. It provides a consistent and reliable source of peptides derived from the digestion of yeast proteins.
Automatically generated - may contain errors
3 protocols using mass spec compatible yeast digest
1
Benchmarking DIA Proteomics Dataset
2
Preparation of Controlled Protein Digest Samples
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The controlled samples A and B were prepared from the Pierce HeLa Protein Digest Standard (Thermo Fisher Scientific), the Mass Spec-Compatible Yeast Digest (Promega), and the MassPREP E. coli Digest Standard (Waters). Each digest was resuspended at a concentration of 1 µg µL−1 with HPLC-grade water containing 0.1% (v/v) formic acid. Sample A was prepared by mixing human, yeast, and E. coli protein digests at 65%, 15%, and 20% w/w, respectively. Sample B was prepared by mixing human, yeast, and E. coli protein digests at 65%, 30%, and 5% w/w, respectively. The iRT kit (Biognosys) was added to each of the controlled samples at a ratio 1:30 v/v. For analysis, 2 µl of each sample was injected. The detailed preparation instructions are described in Supplementary Note 1 .
3
Benchmarking DIA Proteomics Dataset
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
Mass spec-compatible Yeast digest was purchased from Promega. The E. coli, yeast and HEK293T digest were resuspended to 1 mg/mL in 30% ACN/0.1% FA. Four samples, with sample composition described in Fig. S2 , were generated for the benchmarking dataset. A fifth sample that had the same quantity of protein of each proteome was also generated to obtain the spectral library. To generate the samples, the volume of each proteome digest corresponding to the desired protein quantity were mixed together, vacuum-concentrated to dryness, and resuspended to 500 ng/ul in 5% ACN/0.1%TFA. The 4 samples for the DIA benchmarking dataset were analyzed in DIA mode in 4 replicates. In total 16 runs were analyzed.
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