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Author Details

Timo Sachsenberg
Institute for Bioinformatics and Medical Informatics, University of Tubingen
2008
40
22
PMIDPaper TitleJournal TitlePublished Year
36755313Ultra-sensitive isotope probing to quantify activity and substrate assimilation in microbiomes.Microbiome2023
37488995Tissue-based absolute quantification using large-scale TMT and LFQ experiments.Proteomics2023
37220883LFQ-Based Peptide and Protein Intensity Differential Expression Analysis.J Proteome Res2023
37173725UmetaFlow: an untargeted metabolomics workflow for high-throughput data processing and analysis.J Cheminform2023
36755313Ultra-sensitive isotope probing to quantify activity and substrate assimilation in microbiomes.Microbiome2023
36688502Unified and Standardized Mass Spectrometry Data Processing in Python Using spectrum_utils.J Proteome Res2023
37488995Tissue-based absolute quantification using large-scale TMT and LFQ experiments.Proteomics2023
37220883LFQ-Based Peptide and Protein Intensity Differential Expression Analysis.J Proteome Res2023
37173725UmetaFlow: an untargeted metabolomics workflow for high-throughput data processing and analysis.J Cheminform2023
36688502Unified and Standardized Mass Spectrometry Data Processing in Python Using spectrum_utils.J Proteome Res2023
35549218A Comprehensive Evaluation of Consensus Spectrum Generation Methods in Proteomics.J Proteome Res2022
35549218A Comprehensive Evaluation of Consensus Spectrum Generation Methods in Proteomics.J Proteome Res2022
34153189DIAproteomics: A Multifunctional Data Analysis Pipeline for Data-Independent Acquisition Proteomics and Peptidomics.J Proteome Res2021
34615866A proteomics sample metadata representation for multiomics integration and big data analysis.Nat Commun2021
34153189DIAproteomics: A Multifunctional Data Analysis Pipeline for Data-Independent Acquisition Proteomics and Peptidomics.J Proteome Res2021
34615866A proteomics sample metadata representation for multiomics integration and big data analysis.Nat Commun2021
32467047Corrigendum to Tracing incorporation of heavy water into proteins for species-specific metabolic activity in complex communities.J Proteomics2020
33269929SmartPeak Automates Targeted and Quantitative Metabolomics Data Processing.Anal Chem2020
33067435Analysis of protein-DNA interactions in chromatin by UV induced cross-linking and mass spectrometry.Nat Commun2020
33067342OpenPepXL: An Open-Source Tool for Sensitive Identification of Cross-Linked Peptides in XL-MS.Mol Cell Proteomics2020
32467047Corrigendum to Tracing incorporation of heavy water into proteins for species-specific metabolic activity in complex communities.J Proteomics2020
32335296Tracing incorporation of heavy water into proteins for species-specific metabolic activity in complex communities.J Proteomics2020
32066737A computational platform for high-throughput analysis of RNA sequences and modifications by mass spectrometry.Nat Commun2020
31975601EPIFANY: A Method for Efficient High-Confidence Protein Inference.J Proteome Res2020
32066737A computational platform for high-throughput analysis of RNA sequences and modifications by mass spectrometry.Nat Commun2020
31975601EPIFANY: A Method for Efficient High-Confidence Protein Inference.J Proteome Res2020
33269929SmartPeak Automates Targeted and Quantitative Metabolomics Data Processing.Anal Chem2020
33067435Analysis of protein-DNA interactions in chromatin by UV induced cross-linking and mass spectrometry.Nat Commun2020
33067342OpenPepXL: An Open-Source Tool for Sensitive Identification of Cross-Linked Peptides in XL-MS.Mol Cell Proteomics2020
32335296Tracing incorporation of heavy water into proteins for species-specific metabolic activity in complex communities.J Proteomics2020
30688441mzTab-M: A Data Standard for Sharing Quantitative Results in Mass Spectrometry Metabolomics.Anal Chem2019
30688441mzTab-M: A Data Standard for Sharing Quantitative Results in Mass Spectrometry Metabolomics.Anal Chem2019
30395289The PRIDE database and related tools and resources in 2019: improving support for quantification data.Nucleic Acids Res2019
31589052MHCquant: Automated and Reproducible Data Analysis for Immunopeptidomics.J Proteome Res2019
31589052MHCquant: Automated and Reproducible Data Analysis for Immunopeptidomics.J Proteome Res2019
30395289The PRIDE database and related tools and resources in 2019: improving support for quantification data.Nucleic Acids Res2019
30270626Expanding the Use of Spectral Libraries in Proteomics.J Proteome Res2018
30270626Expanding the Use of Spectral Libraries in Proteomics.J Proteome Res2018
30078747Comprehensive Analysis of Alternative Splicing Across Tumors from 8,705 Patients.Cancer Cell2018
30078747Comprehensive Analysis of Alternative Splicing Across Tumors from 8,705 Patients.Cancer Cell2018
27498275In-depth analysis of protein inference algorithms using multiple search engines and well-defined metrics.J Proteomics2017
28885003Differential Enzymatic <sup>16</sup>O/<sup>18</sup>O Labeling for the Detection of Cross-Linked Nucleic Acid-Protein Heteroconjugates.Anal Chem2017
28559010OpenMS - A platform for reproducible analysis of mass spectrometry data.J Biotechnol2017
28379341BioContainers: an open-source and community-driven framework for software standardization.Bioinformatics2017
27498275In-depth analysis of protein inference algorithms using multiple search engines and well-defined metrics.J Proteomics2017
28379341BioContainers: an open-source and community-driven framework for software standardization.Bioinformatics2017
28885003Differential Enzymatic <sup>16</sup>O/<sup>18</sup>O Labeling for the Detection of Cross-Linked Nucleic Acid-Protein Heteroconjugates.Anal Chem2017
28559010OpenMS - A platform for reproducible analysis of mass spectrometry data.J Biotechnol2017
27575624OpenMS: a flexible open-source software platform for mass spectrometry data analysis.Nat Methods2016
27575624OpenMS: a flexible open-source software platform for mass spectrometry data analysis.Nat Methods2016
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Collaborators

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Max Planck Institute for Developmental Biology
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Juan Antonio Vizca??no
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Henning Urlaub
Max Planck Institute for Multidisciplinary Sciences
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Julian Uszkoreit
Ruhr University Bochum
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Gunnar R??tsch
ETH Zurich
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Mingze Bai
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Leibniz Institute for Plant Biochemistry
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Lev I Levitsky
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Felipe da Veiga Leprevost
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J??rgen Cox
Max-Planck Institute of Biochemistry
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Alvis Brazma
European Bioinformatics Institute
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Tobias Ternent
European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 2
Henning Hermjakob
European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 2
Mingxun Wang
Co-authored papers 2
Pierre-Alain Binz
Co-authored papers 1
Christian G Huber
University of Salzburg
Co-authored papers 1
Tom J Pollard
Massachusetts Institute of Technology, Scientific Data - Nature, Software Sustainability Institute, University College London, University of Law - London Bloomsbury Centre
Co-authored papers 1
Irene Papatheodorou
Co-authored papers 1
Robert M Flight
University of Kentucky
Co-authored papers 1
Andr?? Kahles
ETH Zurich
Co-authored papers 1
Benjamin A Garcia
University of Pennsylvania
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Release 1.2