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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 - 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 
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 
UnknownBlood-based gene expression signatures of infants and toddlers with autism.
Not available
S-EPMC3756503 | biostudies-literature
ProteomicsMachine learning identifies clinical sepsis phenotypes that translate to the plasma proteome
Background: Sepsis therapy is still limited to the treatment of the underlying infection and supportive measures. Therapeutic options that address the molecular changes of sepsis have not yet been identified. With the aim of a future individualized therapy, we used unsupervised machine learning (ML)...
ORGANISM(S): Homo sapiens (Human) 
2025-12-08 | PXD058562 | Pride
Mass spectrometry Precision medicine Artificial intelligence Plasma Cluster analysis 
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 
ProteomicsPlasma proteomics identifies molecular subtypes in sepsis
Background The heterogeneity of sepsis represents a major problem for the development of personalized sepsis therapies. Thus, sepsis subtyping emerged as an important tool to approach this problem, but little progress was made due to insufficient molecular insights. Modern proteomics techniques allo...
ORGANISM(S): Homo sapiens (Human) 
2025-09-04 | PXD064125 | Pride
Machine learning Precision medicine Subclasses Plasma Hierarchical clustering Sepsis Clinical routine data 
UnknownCommon susceptibility variants are shared between schizophrenia and psoriasis in the Han Chinese population.
Not available
S-EPMC5082512 | biostudies-literature
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