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ProteomicsMachine Learning Based Classification of Diffuse Large B-cell Lymphoma Patients by their Protein Expression Profiles
Characterization of tumors at the molecular level has improved our knowledge of cancer causation and progression. Proteomic analysis of their signaling pathways promises to enhance our understanding of cancer aberrations at the functional level, but this requires accurate and robust tools. Here, we ...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-03-30 | MSV000080813 | MassIVE
ProteomicsMaxQuant software for ion mobility enhanced shotgun proteomics
Ion mobility can add a dimension to LC-MS based shotgun proteomics which has the potential to boost proteome coverage, quantification accuracy and dynamic range. Required for this is suitable software that extracts the information contained in the four-dimensional (4D) data space spanned by m/z, re...
ORGANISM(S): Homo sapiens (Human) Escherichia coli Saccharomyces cerevisiae (Baker's yeast) 
2020-04-23 | PXD014777 | Pride
Tims Human Yeast Maxquant Hela Ecoli 
OtherMachine Learning Based Classification of Diffuse Large B-cell Lymphoma Patients by their Protein Expression Profiles.
Data from ProteomeXchange, PXD ID: PXD002052. Experiment: TRR37, file: folder summary. Published as part of Mol Cell Proteomics. 2015 Aug 26 . From the Abstract: {{i}} ... Here, we develop a state of the art quantitative mass spectrometric pipeline to characterize formalin-fixed paraffin-embedded (...
ORGANISM(S): Homo_sapiens_viruses, Human 
GPM32320017943 | GPMDB
Resource Reanalysis 
ProteomicsReanalysis of a proteome-wide level study with MaxLynx
Reanalysis of the publicly available proteome-wide level dataset with DSBU from Goetze et al., Anal Chem. 2019 (PXD012546).
ORGANISM(S): Homo sapiens (Human) 
2022-01-11 | PXD027188 | Pride
Maxquant Cross-linking Maxlynx 
ProteomicsReanalysis of a synthetic cross-linked peptide library with MaxLynx
Reanalysis of a synthetic crosslinked peptide library datasets with DSS (non-cleavable), DSSO and DSBU (MS-cleavable) cross linkers from Beveridge et al., Nat. Commun., 2020 (PXD014337)
ORGANISM(S): Streptococcus pyogenes ABC020006030 
2022-01-11 | PXD027159 | Pride
Crosslinking 
ProteomicsOriginal TIMS-TOF pro BSA data sets for MaxLynx, a novel computational proteomics workflow for XL-MS integrated into the MaxQuant environment.
Cross-linking combined with mass spectrometry (XL-MS) provides a wealth of information about the 3D structure of proteins and their interactions. We introduce MaxLynx, a novel computational proteomics workflow for XL-MS integrated into the MaxQuant environment and here we have tested the performance...
ORGANISM(S): Bos taurus (Bovine) 
2022-01-11 | PXD027161 | Pride
Cross-linking 
ProteomicsReanalysis of publicly available medium size protein complex data set with MaxLynx
Reanalysis of the publicly available medium size protein complex data set by Kokic and co-workers, Nat Commun. 2019 (PXD013947)
ORGANISM(S): Homo sapiens (Human) 
2022-01-11 | PXD030578 | Pride
Maxquant Cross-linking Maxlynx 
ProteomicsS.cerevisiae - Whole organism, Intensity (Nagaraj,mcp,2012)
abundance based on MAPPED_BY_AUTHORS, intensity, Interaction consistency score: 11.4, Coverage: 59
ORGANISM(S): 4932 
2012-00-00 | 2521601554 | PAXDB
ProteomicsHigh quality MS/MS spectrum prediction for data-dependent and -independent acquisition data analysis
Peptide fragmentation spectra are routinely predicted in the interpretation of mass spectrometry-based proteomics data. Unfortunately, the generation of fragment ions is not well enough understood to estimate fragment ion intensities accurately. Here, we demonstrate that machine learning can predict...
ORGANISM(S): Homo sapiens (Human) 
2019-03-13 | PXD010382 | Pride
Deep learning Dia Machine learning Intensity prediction Andromeda 
ProteomicsEleven_COM_CellLine
Comparative proteomic analysis of eleven common cell lines
ORGANISM(S): Homo Sapiens (human) 
2012-12-31 | PAe003664 | PeptideAtlas
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