ups: Spiked-in data set of peptides

In baldur: Bayesian Hierarchical Modeling for Label-Free Proteomics

Spiked-in data set of peptides

Description

A dataset containing quantification of peptides using Progenesis. True positives peptides spiked-in from the Universal Proteomics Standard Set 1 (UPS1) at three different concentrations and true negatives from Chlamydomonas reinhardtii with the same concentration in all samples. You can find true positives with stringr::str_detect(ups$identifier, 'UPS'). For details see \insertCiteberg2019evaluation;textualbaldur and if you use this dataset please cite the same paper.

Usage

ups

Format

A data frame with 10599 rows and 13 variables:

identifier

id column for features, true positives contains UPS and true negatives contains Cre

fmol25_1,fmol25_2,fmol25_3,fmol25_4

Technical replicates with true positives spiked-in from 25 fmol UPS1 peptides

fmol50_1,fmol50_2,fmol50_3,fmol50_4

Technical replicate with true positives spiked-in from 50 fmol UPS1 peptides

fmol100_1,fmol100_2,fmol100_3,fmol100_4

Technical replicate with true positives spiked-in from 100 fmol UPS1 peptides

Source

https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-019-2619-6

References

\insertAllCited

baldur documentation built on Sept. 18, 2023, 9:07 a.m.