Mathias Walzer

发表

OpenMS: a flexible open-source software platform for mass spectrometry data analysis

K. Reinert, R. Aebersold, O. Kohlbacher, 2016, Nature Methods.

Multi-omics discovery of exome-derived neoantigens in hepatocellular carcinoma

H. Rammensee, S. Stevanović, B. Maček, 2019, Genome Medicine.

Immunotherapy of Renal Cell Carcinoma – From Antigen Identification to Patient Treatment

S. Stevanović, Mathias Walzer, H. Schuster, 2012 .

Implementing the reuse of public DIA proteomics datasets: from the PRIDE database to Expression Atlas

P. Moreno, S. Hubbard, I. Papatheodorou, 2021, Scientific Data.

The mzTab Data Exchange Format: Communicating Mass-spectrometry-based Proteomics and Metabolomics Experimental Results to a Wider Audience*

Jun Fan, Christoph Steinbeck, Johannes Griss, 2014, Molecular & Cellular Proteomics.

Erratum to “Personalized peptide vaccine-induced immune response associated with long-term survival of a metastatic cholangiocarcinoma patient”

H. Rammensee, S. Stevanović, O. Kohlbacher, 2016, Journal of hepatology.

Supporting Advances in Proteome Informatics*□S

Andrew R. Jones, E. Deutsch, O. Kohlbacher, 2020 .

Proteomics Standards Initiative at Twenty Years: Current Activities and Future Work

Silvio C. E. Tosatto, Andrew R. Jones, Tytus D. Mak, 2023, Journal of proteome research.

The PRIDE database resources in 2022: a hub for mass spectrometry-based proteomics evidences

A. Brazma, J. Vizcaíno, Mathias Walzer, 2021, Nucleic Acids Res..

The PRIDE database and related tools and resources in 2019: improving support for quantification data

Martin Eisenacher, Johannes Griss, Juan Antonio Vizcaíno, 2018, Nucleic Acids Res..

OpenMS - A platform for reproducible analysis of mass spectrometry data.

Knut Reinert, Oliver Kohlbacher, Timo Sachsenberg, 2017, Journal of biotechnology.

ImmunoNodes – graphical development of complex immunoinformatics workflows

Benjamin Schubert, Oliver Kohlbacher, Mathias Walzer, 2017, BMC Bioinformatics.

Multi-omics discovery of exome-derived neoantigens in hepatocellular carcinoma

H. Rammensee, S. Stevanović, B. Maček, 2019, Genome medicine.

Personalized peptide vaccine-induced immune response associated with long-term survival of a metastatic cholangiocarcinoma patient

Oliver Kohlbacher, Sven Nahnsen, Mathias Walzer, 2016, Journal of hepatology.

Review of Issues and Solutions to Data Analysis Reproducibility and Data Quality in Clinical Proteomics.

Juan Antonio Vizcaíno, Mathias Walzer, J. Vizcaíno, 2020, Methods in molecular biology.

A community proposal to integrate proteomics activities in ELIXIR

Lennart Martens, Martin Eisenacher, Wout Bittremieux, 2017, F1000Research.

The Human Proteome Organization-Proteomics Standards Initiative Quality Control Working Group: Making Quality Control More Accessible for Biological Mass Spectrometry.

Martin Eisenacher, Wout Bittremieux, Mathias Walzer, 2017, Analytical chemistry.

Mouse urinary peptides provide a molecular basis for genotype discrimination by nasal sensory neurons

F. Zufall, H. Rammensee, S. Stevanović, 2013, Nature Communications.

ThermoRawFileParser: modular, scalable and cross-platform RAW file conversion

Lennart Martens, Harald Barsnes, Yasset Perez-Riverol, 2019, bioRxiv.

Implementing the reuse of public DIA proteomics datasets: from the PRIDE database to Expression Atlas

P. Moreno, S. Hubbard, I. Papatheodorou, 2022, Scientific Data.

Expression Atlas update: gene and protein expression in multiple species

J. Marioni, A. Brazma, M. Tello-Ruiz, 2021, Nucleic Acids Res..

Expanding the Use of Spectral Libraries in Proteomics.

Johannes Griss, Yasset Perez-Riverol, Juan Antonio Vizcaíno, 2018, Journal of proteome research.

Proteomics Standards Initiative: Fifteen Years of Progress and Future Work

Martin Eisenacher, Wout Bittremieux, Yasset Perez-Riverol, 2017, Journal of proteome research.

Recognizing millions of consistently unidentified spectra across hundreds of shotgun proteomics datasets

Johannes Griss, Yasset Perez-Riverol, Juan Antonio Vizcaíno, 2016, Nature Methods.

FRED 2: an immunoinformatics framework for Python

Benjamin Schubert, Oliver Kohlbacher, Mathias Walzer, 2016, Bioinform..

The mzQuantML Data Standard for Mass Spectrometry–based Quantitative Studies in Proteomics

Martin Eisenacher, Jun Fan, Juan Antonio Vizcaíno, 2013, Molecular & Cellular Proteomics.

The mzIdentML Data Standard Version 1.2, Supporting Advances in Proteome Informatics*

Harald Barsnes, Martin Eisenacher, Yasset Perez-Riverol, 2017, Molecular & Cellular Proteomics.

qcML: An Exchange Format for Quality Control Metrics from Mass Spectrometry Experiments*

Lennart Martens, Wout Bittremieux, Juan Antonio Vizcaíno, 2014, Molecular & Cellular Proteomics.

OpenPepXL: An Open-Source Tool for Sensitive Identification of Cross-Linked Peptides in XL-MS

Oliver Kohlbacher, Timo Sachsenberg, Mathias Walzer, 2020, Molecular & Cellular Proteomics.

Workflows for automated downstream data analysis and visualization in large-scale computational mass spectrometry

Knut Reinert, Erhan Kenar, Timo Sachsenberg, 2015, Proteomics.

OpenMS: a flexible open-source software platform for mass spectrometry data analysis

K. Reinert, R. Aebersold, O. Kohlbacher, 2016, Nature Methods.

TopDownApp: An open and modular platform for analysis and visualisation of top-down proteomics data.

D. Tabb, J. Vizcaíno, Mathias Walzer, 2023, Proteomics.

OpenPepXL: An Open-Source Tool for Sensitive Identification of Cross-Linked Peptides in XL-MS.

T. Dijkstra, O. Kohlbacher, H. Urlaub, 2020, Molecular & cellular proteomics : MCP.