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TranscriptomicsTranscription profiling of CaCo-2 cells differentiated to M cells - establishing and characterizing a cell culture model for M cells
M cells are special cells in the epithelium of the small intestinal bowel and play an important role during the initiation of a primary, fast immune response. On a Costar-Transwell filter cells of a colon adeno carcinoma cell line (Caco-2) are growing until differentiation. Then on the other side of...
ORGANISM(S): Homo sapiens 
2008-06-12 | E-GEOD-3054 | biostudies-arrayexpress
ProteomicsPhosphoprojekt - Comparison of Alternative MS/MS and Bioinformatics Approaches for Confident Phosphorylation Site Localization
Not available
ORGANISM(S): Homo sapiens (Human) 
2014-03-26 | PRD000284 | Pride
UnknownOpen source libraries and frameworks for mass spectrometry based proteomics: a developer's perspective.
Not available
S-EPMC3898926 | biostudies-literature
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 - 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 - 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 
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 
ProteomicsTranscriptome and proteome analysis in LUHMES cells overexpressing alpha-synculein
LUHMES cells share many characteritics with human dopamingeric neurons in the substantia nigra, the cells whose demise is responsible for the motor symptoms in Parkinson’s disease (PD). LUHMES cells can therefore be used bona fide as a model to study pathophysiological processes involved in PD. Prev...
ORGANISM(S): Homo sapiens (Human) 
2022-05-19 | PXD028322 | Pride
Snca Parkinson’s disease (pd) Luhmes cells Alpha-synculein Neurodegenerative diseases Proteome Transcriptome 
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