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ProteomicsA protein standard that emulates homology for the characterization of protein inference algorithms
A natural way to benchmark the performance of an analytical experimental setup is to use samples of known content, and see to what degree one can correctly infer the content of such a sample from the data. For shotgun proteomics, one of the inherent problems of interpreting data is that the measured...
ORGANISM(S): Escherichia coli 
2017-12-12 | PXD008425 | Pride
Protein standard Lc-ms/ms Protein inference 
ProteomicsA protein standard that emulates homology for the characterization of protein inference algorithms
A natural way to benchmark the performance of an analytical experimental setup is to use samples of known content, and see to what degree one can correctly infer the content of such a sample from the data. For shotgun proteomics, one of the inherent problems of interpreting data is that the measured...
ORGANISM(S): Escherichia Coli (ncbitaxon:562) 
MSV000084315 | MassIVE
GenomicsInference of secreted protein signaling activities in intercellular communication
Inference of secreted protein signaling activities in intercellular communication
PRJNA1231421 | ENA
ProteomicsEPIC: Software Toolkit for Elution Profile-Based Inference of Protein Complexes
Heteromeric protein complexes are key macromolecular machines of the cell, but their description remains incomplete. We previously reported an experimental strategy for global characterization of native protein assemblies based on chromatographic fractionation of biological extracts coupled to preci...
ORGANISM(S): Caenorhabditis elegans 
2019-07-16 | PXD011182 | Pride
Cf/ms  epic  biochemical fractionation  worm interaction network  mass spectrometry  proteomics  protein complexes 
ProteomicsPyProteinInference: Configurable Protein Inference Analysis of Tandem Mass Spectrometry Data
PyProteinInference provides a comprehensive suite of tools to guide researchers through the application of multiple protein inference algorithms and computation of protein-level, set-based false discovery rates (FDR) from tandem mass spectrometry (MS/MS) data using a single interface. Here, we use a...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2022-06-21 | MSV000089698 | MassIVE
ProteomicsIn-depth Analysis of Protein Inference Algorithms using a Workflow Framework and Well-Defined Metrics - iPRG 2008 provided DB analysis
This dataset is no actual new study but the results of the benchmark of the iPRG2008 benchmark dataset used in the manuscript "In-depth Analysis of Protein Inference Algorithms using a Workflow Framework and Well-Defined Metrics".
ORGANISM(S): Mus musculus (Mouse) 
2016-08-10 | PXD003956 | Pride
Mouse Reanalysis 
ProteomicsIn-depth Analysis of Protein Inference Algorithms using a Workflow Framework and Well-Defined Metrics - iPRG 2008 Swiss-Prot analysis
This dataset is no actual new study but the results of the benchmark of the iPRG2008 benchmark dataset used in the manuscript "In-depth Analysis of Protein Inference Algorithms using a Workflow Framework and Well-Defined Metrics".
ORGANISM(S): Mus musculus (Mouse) 
2016-08-10 | PXD003953 | Pride
Mouse Reanalysis 
ProteomicsIn-depth Analysis of Protein Inference Algorithms using a Workflow Framework and Well-Defined Metrics - iPRG 2008 UniProt proteome analysis
This dataset is no actual new study but the results of the benchmark of the iPRG2008 benchmark dataset used in the manuscript "In-depth Analysis of Protein Inference Algorithms using a Workflow Framework and Well-Defined Metrics".
ORGANISM(S): Mus musculus (Mouse) 
2016-08-10 | PXD003954 | Pride
Mouse Reanalysis 
ProteomicsIn-depth Analysis of Protein Inference Algorithms using a Workflow Framework and Well-Defined Metrics - yeast UniProt proteome with isoforms analysis
This dataset is no actual new study but the results of the benchmark of the Yeast Gold Dataset used in the manuscript "In-depth Analysis of Protein Inference Algorithms using a Workflow Framework and Well-Defined Metrics".
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2016-08-10 | PXD003067 | Pride
Yeast Reanalysis 
ProteomicsIn-depth Analysis of Protein Inference Algorithms using a Workflow Framework and Well-Defined Metrics - PXD000603 UniProt proteome analysis
This dataset is no actual new study but the results of the benchmark against the PXD000603 used in the manuscript "In-depth Analysis of Protein Inference Algorithms using a Workflow Framework and Well-Defined Metrics".
ORGANISM(S): Homo sapiens (Human) 
2016-08-10 | PXD003072 | Pride
Human Reanalysis 
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