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Julian Uszkoreit
Julian Uszkoreit
Medizinisches Proteom-Center, Ruhr University Bochum
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The PRIDE database and related tools and resources in 2019: improving support for quantification data
Y Perez-Riverol, A Csordas, J Bai, M Bernal-Llinares, S Hewapathirana, ...
Nucleic acids research 47 (D1), D442-D450, 2019
45072019
BioContainers: an open-source and community-driven framework for software standardization
F da Veiga Leprevost, BA Grüning, S Alves Aflitos, HL Röst, J Uszkoreit, ...
Bioinformatics 33 (16), 2580-2582, 2017
1652017
Ten simple rules for taking advantage of Git and GitHub
Y Perez-Riverol, L Gatto, R Wang, T Sachsenberg, J Uszkoreit, ...
PLoS computational biology 12 (7), e1004947, 2016
1112016
PRIDE inspector toolsuite: moving toward a universal visualization tool for proteomics data standard formats and quality assessment of ProteomeXchange datasets
Y Perez-Riverol, QW Xu, R Wang, J Uszkoreit, J Griss, A Sanchez, ...
Molecular & Cellular Proteomics 15 (1), 305-317, 2016
1032016
A combined laser microdissection and mass spectrometry approach reveals new disease relevant proteins accumulating in aggregates of filaminopathy patients
RA Kley, A Maerkens, Y Leber, V Theis, A Schreiner, PFM van der Ven, ...
Molecular & cellular proteomics 12 (1), 215-227, 2013
782013
Differential proteomic analysis of abnormal intramyoplasmic aggregates in desminopathy
A Maerkens, RA Kley, M Olivé, V Theis, PFM van der Ven, J Reimann, ...
Journal of proteomics 90, 14-27, 2013
682013
The mzquantml data standard for mass spectrometry–based quantitative studies in proteomics
M Walzer, D Qi, G Mayer, J Uszkoreit, M Eisenacher, T Sachsenberg, ...
Molecular & Cellular Proteomics 12 (8), 2332-2340, 2013
622013
PIA: an intuitive protein inference engine with a web-based user interface
J Uszkoreit, A Maerkens, Y Perez-Riverol, HE Meyer, K Marcus, ...
Journal of proteome research 14 (7), 2988-2997, 2015
612015
Proteomics of rimmed vacuoles define new risk allele in inclusion body myositis
AK Güttsches, S Brady, K Krause, A Maerkens, J Uszkoreit, M Eisenacher, ...
Annals of neurology 81 (2), 227-239, 2017
572017
Sense and nonsense of pathway analysis software in proteomics
T Müller, A Schrötter, C Loosse, S Helling, C Stephan, M Ahrens, ...
Journal of proteome research 10 (12), 5398-5408, 2011
522011
Reproducibility, specificity and accuracy of relative quantification using spectral library-based data-independent acquisition
K Barkovits, S Pacharra, K Pfeiffer, S Steinbach, M Eisenacher, K Marcus, ...
Molecular & Cellular Proteomics 19 (1), 181-197, 2020
472020
In-depth analysis of protein inference algorithms using multiple search engines and well-defined metrics
E Audain, J Uszkoreit, T Sachsenberg, J Pfeuffer, X Liang, H Hermjakob, ...
Journal of proteomics 150, 170-182, 2017
472017
New insights into the protein aggregation pathology in myotilinopathy by combined proteomic and immunolocalization analyses
A Maerkens, M Olivé, A Schreiner, S Feldkirchner, J Schessl, J Uszkoreit, ...
Acta neuropathologica communications 4 (1), 1-20, 2016
462016
The mzIdentML data standard version 1.2, supporting advances in proteome informatics
JA Vizcaíno, G Mayer, S Perkins, H Barsnes, M Vaudel, Y Perez-Riverol, ...
Molecular & cellular proteomics 16 (7), 1275-1285, 2017
432017
Amyloid beta a4 precursor protein-binding family B member 1 (FE65) interactomics revealed synaptic vesicle glycoprotein 2A (SV2A) and sarcoplasmic/endoplasmic reticulum calcium …
FM Nensa, MHD Neumann, A Schrötter, A Przyborski, T Mastalski, ...
Molecular & Cellular Proteomics 13 (2), 475-488, 2014
382014
FE65 regulates and interacts with the Bloom syndrome protein in dynamic nuclear spheres–potential relevance to Alzheimer’s disease
A Schrötter, T Mastalski, FM Nensa, M Neumann, C Loosse, K Pfeiffer, ...
Journal of cell science 126 (11), 2480-2492, 2013
302013
ms-data-core-api: an open-source, metadata-oriented library for computational proteomics
Y Perez-Riverol, J Uszkoreit, A Sanchez, T Ternent, N Del Toro, ...
Bioinformatics 31 (17), 2903-2905, 2015
252015
Protein inference using PIA workflows and PSI standard file formats
J Uszkoreit, Y Perez-Riverol, B Eggers, K Marcus, M Eisenacher
Journal of proteome research 18 (2), 741-747, 2018
222018
BioInfra. Prot: A comprehensive proteomics workflow including data standardization, protein inference, expression analysis and data publication
M Turewicz, M Kohl, M Ahrens, G Mayer, J Uszkoreit, W Naboulsi, ...
Journal of biotechnology 261, 116-125, 2017
222017
Characterization of cerebrospinal fluid via data-independent acquisition mass spectrometry
K Barkovits, A Linden, S Galozzi, L Schilde, S Pacharra, B Mollenhauer, ...
Journal of proteome research 17 (10), 3418-3430, 2018
202018
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