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ProteomicsCharacterization of peptide-protein relationships in protein ambiguity groups via bipartite graphs (data set D1)
Motivation: In bottom-up mass spectrometry proteins are enzymatically digested before measurement. The relationship between proteins and peptides can be represented by bipartite graphs that can be split into connected components. This representation is useful to aid protein inference and quantificat...
ORGANISM(S): Mus musculus (Mouse) 
2021-07-30 | PXD024684 | Pride
Mus musculus Spike-in Label-free 
ProteomicsObservations from the proteomics bench - Quality Assessment / Experiment Reproducibility - PROETD2015
These project contains 10 technical replicate measurements of a standard sample, that is used to assess the quality control and instrument performance in between real project samples. It was used in a viewpoint paper to illustrate the challenges. The samples were measured with three different machin...
ORGANISM(S): Homo sapiens (Human) 
2024-02-28 | PXD048836 | Pride
Quality control Standard samples 
ProteomicsObservations from the proteomics bench - Quality Assessment / Experiment Reproducibility - QExHF2019
These project contains 10 technical replicate measurements of a standard sample, that is used to assess the quality control and instrument performance in between real project samples. It was used in a viewpoint paper to illustrate the challenges. The samples were measured with three different machin...
ORGANISM(S): Homo sapiens (Human) 
2024-02-28 | PXD048839 | Pride
Quality control Standard samples 
ProteomicsObservations from the proteomics bench - Quality Assessment / Experiment Reproducibility - EXIII2023
These project contains 10 technical replicate measurements of a standard sample, that is used to assess the quality control and instrument performance in between real project samples. It was used in a viewpoint paper to illustrate the challenges. The samples were measured with three different machin...
ORGANISM(S): Homo sapiens (Human) 
2024-02-28 | PXD048840 | Pride
Quality control Standard samples 
ProteomicsCharacterization of peptide-protein relationships in protein ambiguity groups via bipartite graphs - data set D3 (without and with isoforms)
Motivation: In bottom-up mass spectrometry proteins are enzymatically digested before measurement. The relationship between proteins and peptides can be represented by bipartite graphs that can be split into connected components. This representation is useful to aid protein inference and quantificat...
ORGANISM(S): Homo sapiens (Human) Escherichia coli 
2022-11-11 | PXD030603 | Pride
Human E.coli 
ProteomicsCharacterization of peptide-protein relationships in protein ambiguity groups via bipartite graphs - data set D2 (without isoforms)
Motivation: In bottom-up mass spectrometry proteins are enzymatically digested before measurement. The relationship between proteins and peptides can be represented by bipartite graphs that can be split into connected components. This representation is useful to aid protein inference and quantificat...
ORGANISM(S): Homo sapiens (Human) Saccharomyces cerevisiae (Baker's yeast) 
2022-11-11 | PXD030577 | Pride
Spike-in Yeast Ups1 
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