Martin Eisenacher

发表

An easy‐to‐use Decoy Database Builder software tool, implementing different decoy strategies for false discovery rate calculation in automated MS/MS protein identifications

Kai A Reidegeld, Martin Eisenacher, Michael Kohl, 2008, Proteomics.

Let me infuse this for you – A way to solve the first YPIC challenge

Martin Eisenacher, Britta Eggers, Sandra Pacharra, 2019, EuPA open proteomics.

Adjusted Confidence Intervals for the Expression Change of Proteins Observed in 2-Dimensional Difference Gel Electrophoresis

Kai Stühler, Martin Eisenacher, Klaus Jung, 2009 .

Proteomics Standards Initiative: Fifteen Years of Progress and Future Work

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

Boolean modeling techniques for protein co-expression networks in systems medicine

Martin Eisenacher, Michael Kohl, Katrin Marcus, 2016, Expert review of proteomics.

Data handling and processing in proteomics

Helmut E Meyer, Martin Eisenacher, Christian Stephan, 2009, Expert review of proteomics.

Reproducibility, Specificity and Accuracy of Relative Quantification Using Spectral Library-based Data-independent Acquisition*

Martin Eisenacher, Katrin Marcus, Sandra Pacharra, 2019, Molecular & Cellular Proteomics.

PRIDE Inspector Toolsuite: Moving Toward a Universal Visualization Tool for Proteomics Data Standard Formats and Quality Assessment of ProteomeXchange Datasets

Martin Eisenacher, Johannes Griss, Yasset Perez-Riverol, 2015, Molecular & Cellular Proteomics.

A generally applicable lightweight method for calculating a value structure for tools and services in bioinformatics infrastructure projects

Uwe Scholz, Martin Eisenacher, Frank Oliver Glöckner, 2019, Briefings Bioinform..

Creation of Reusable Bioinformatics Workflows for Reproducible Analysis of LC-MS Proteomics Data

Martin Eisenacher, Katrin Marcus, Julian Uszkoreit, 2017 .

PAA: an R/bioconductor package for biomarker discovery with protein microarrays

Martin Eisenacher, Katrin Marcus, Maike Ahrens, 2016, Bioinform..

Poster abstracts of GCB 2015

Martin Eisenacher, Sven Rahmann, Jörg Rahnenführer, 2015, PeerJ Prepr..

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

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

Invited presentations, junior research groups and research highlights at GCB 2015

Martin Eisenacher, Sven Rahmann, Jörg Rahnenführer, 2015, PeerJ Prepr..

mzIdentML: an open community-built standard format for the results of proteomics spectrum identification algorithms.

Martin Eisenacher, M. Eisenacher, 2011, Methods in molecular biology.

Applications in Brain Proteomics: 8th HUPO Brain Proteome Project Workshop 7 October 2007, Seoul, Korea

Helmut E Meyer, Martin Eisenacher, Christian Stephan, 2008, Proteomics.

Enabling BioSharing – a report on the Annual Spring Workshop of the HUPO‐PSI April 11–13, 2011, EMBL‐Heidelberg, Germany

Martin Eisenacher, Henning Hermjakob, Eric W Deutsch, 2011, Proteomics.

ProCon - PROteomics CONversion tool.

Helmut E Meyer, Martin Eisenacher, Michael Kohl, 2015, Journal of proteomics.

Development of data representation standards by the human proteome organization proteomics standards initiative

Martin Eisenacher, Juan Antonio Vizcaíno, Juan P. Albar, 2015, J. Am. Medical Informatics Assoc..

Implementing Data Standards: A report on the HUPOPSI Workshop September 2009, Toronto, Canada

Martin Eisenacher, Henning Hermjakob, Eric W. Deutsch, 2010, Proteomics.

Proteomics for everyday use: Activities of the HUPO Brain Proteome Project during the 5th HUPO World Congress

Lennart Martens, Helmut E Meyer, Martin Eisenacher, 2007, Proteomics.

The mzIdentML Data Standard for Mass Spectrometry-Based Proteomics Results

Martin Eisenacher, Johannes Griss, Juan Antonio Vizcaíno, 2012, Molecular & Cellular Proteomics.

Modeling and managing experimental data using FuGE.

Martin Eisenacher, Andrew R Jones, Anil Wipat, 2009, Omics : a journal of integrative biology.

The HUPO proteomics standards initiative- mass spectrometry controlled vocabulary

Martin Eisenacher, Juan Antonio Vizcaíno, Henning Hermjakob, 2013, Database J. Biol. Databases Curation.

Proteomics Data Collection – 4th ProDaC Workshop 15 August 2008, Amsterdam, The Netherlands

Lennart Martens, Harald Barsnes, Helmut E Meyer, 2009, Proteomics.

The amino acid's backup bone - storage solutions for proteomics facilities.

Martin Eisenacher, Michael Kohl, Christian Stephan, 2014, Biochimica et biophysica acta.

Quality meets quantity – quality control, data standards and repositories

Martin Eisenacher, Christian Stephan, Anke Schnabel, 2011, Proteomics.

A standardized framing for reporting protein identifications in mzIdentML 1.2

Martin Eisenacher, Juan Antonio Vizcaíno, Andrew R Jones, 2014, Proteomics.

CalibraCurve: A Tool for Calibration of Targeted MS‐Based Measurements

Barbara Sitek, Martin Eisenacher, Michael Kohl, 2020, Proteomics.

Data mining in proteomics : from standards to applications

Martin Eisenacher, Christian Stephan, Michael Hamacher, 2011 .

Important Issues in Planning a Proteomics Experiment: Statistical Considerations of Quantitative Proteomic Data

Martin Eisenacher, Christian Stephan, Katharina Podwojski, 2012, Quantitative Methods in Proteomics.

From Proteomics Data Representation to Public Data Flow: A Report on the HUPO‐PSI Workshop September 2011, Geneva, Switzerland

Martin Eisenacher, Juan Antonio Vizcaíno, Henning Hermjakob, 2012, Proteomics.

PIA: An Intuitive Protein Inference Engine with a Web-Based User Interface.

Martin Eisenacher, Yasset Perez-Riverol, Katrin Marcus, 2015, Journal of proteome research.

In-depth analysis of protein inference algorithms using multiple search engines and well-defined metrics.

Martin Eisenacher, Yasset Perez-Riverol, Knut Reinert, 2017, Journal of proteomics.

Ontological analysis of controlled vocabularies used in PSI/MSI supported XML standards

Martin Eisenacher, Daniel Schober, Steffen Neumann, 2013, GI-Jahrestagung.

Proteomics Data Collection – 5th ProDaC Workshop 4 March 2009, Kolympari, Crete, Greece

Lennart Martens, Harald Barsnes, Helmut E Meyer, 2009, Proteomics.

Proteomics Data Collection – 3rd ProDaC Workshop April 22nd 2008, Toledo, Spain

Lennart Martens, Helmut E Meyer, Martin Eisenacher, 2008, Proteomics.

Erratum to: Creation of Reusable Bioinformatics Workflows for Reproducible Analysis of LC-MS Proteomics Data

Martin Eisenacher, Katrin Marcus, Julian Uszkoreit, 2017 .

Find pairs: the module for protein quantification of the PeakQuant software suite.

Helmut E Meyer, Martin Eisenacher, Michael Kohl, 2012, Omics : a journal of integrative biology.

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..

Protein inference using PIA workflows and PSI standard file formats

Martin Eisenacher, Yasset Perez-Riverol, Britta Eggers, 2018 .

ProDac (Proteomics data collection); Coordinated action within the 6th EU framework programme

Martin Eisenacher, Martin Blüggel, Christian Stephan, 2006 .

BioInfra.Prot: Bioinformatics Services for Proteomics and Biomedical Research Including Tools Based on Text Mining

Martin Eisenacher, Katrin Marcus, Michael Turewicz, 2020 .

High Performance Proteomics: 7th HUPO Brain Proteome Project Workshop March 7–9, 2007 Wellcome Trust Conference Centre, Hinxton, UK

Lennart Martens, Helmut E Meyer, Martin Eisenacher, 2007, Proteomics.

Mass Analysis Peptide Sequence Prediction (MAPSP)

Martin Eisenacher, Jürgen de Braaf, Simone König, 2006, Bioinform..

Controlled vocabularies and ontologies in proteomics: Overview, principles and practice

Martin Eisenacher, Christian Stephan, Juan Antonio Vizcaíno, 2014, Biochimica et biophysica acta.

BioInfra.Prot: A comprehensive proteomics workflow including data standardization, protein inference, expression analysis and data publication.

Barbara Sitek, Martin Eisenacher, Michael Kohl, 2017, Journal of biotechnology.

Protein inference using PIA workflows and PSI standard file formats

Martin Eisenacher, Yasset Perez-Riverol, Katrin Marcus, 2018, bioRxiv.

Proteomics Data Collection – 2nd ProDaC Workshop 5 October 2007, Seoul, Korea

Lennart Martens, Helmut E Meyer, Martin Eisenacher, 2008, Proteomics.

Search and Decoy: The Automatic Identification of Mass Spectra

Martin Eisenacher, Michael Kohl, Christian Stephan, 2012, Quantitative Methods in Proteomics.

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

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

Guidelines for reporting quantitative mass spectrometry based experiments in proteomics.

Martin Eisenacher, Salvador Martínez-Bartolomé, Pierre-Alain Binz, 2013, Journal of proteomics.

Improving the default data analysis workflow for large autoimmune biomarker discovery studies with ProtoArrays

Helmut E Meyer, Martin Eisenacher, Christian Stephan, 2013, Proteomics.

Proteomics Data Collection – The 1st ProDaC workshop 26 April 2007 Ecole Normale Supérieur, Lyon, France

Lennart Martens, Helmut E Meyer, Martin Eisenacher, 2007, Proteomics.

Proteomics Data Collection (ProDaC): Publishing and Collecting Proteomics Data Sets in Public Repositories Using Standard Formats

Martin Eisenacher, Michael Kohl, Christian Stephan, 2010, Proteome Bioinformatics.

Inter-lab proteomics: data mining in collaborative projects on the basis of the HUPO brain proteome project's pilot studies.

Helmut E Meyer, Martin Eisenacher, Christian Stephan, 2011, Methods in molecular biology.

Managing the Data Explosion A Report on the HUPO‐PSI Workshop August 2008, Amsterdam, The Netherlands

Martin Eisenacher, Hans-Joachim Kraus, Amos Bairoch, 2009, Proteomics.

Data Mining in Proteomics

Martin Eisenacher, Christian Stephan, Michael Hamacher, 2011, Methods in Molecular Biology.

Proteomics Standards Initiative Extended FASTA Format (PEFF)

Harald Barsnes, Martin Eisenacher, Yasset Perez-Riverol, 2019, bioRxiv.

A practical data processing workflow for multi-OMICS projects.

Barbara Sitek, Helmut E Meyer, Martin Eisenacher, 2014, Biochimica et biophysica acta.

The HUPO Brain Proteome Project Wish List – Summary of the 9th HUPO BPP Workshop 9–10 January 2008, Barbados

Lennart Martens, Helmut E Meyer, Martin Eisenacher, 2008, Proteomics.

Sense and nonsense of pathway analysis software in proteomics.

Helmut E Meyer, Martin Eisenacher, Christian Stephan, 2011, Journal of proteome research.

Proteomics Standards Initiative Extended FASTA Format (PEFF)

Harald Barsnes, Martin Eisenacher, Yasset Perez-Riverol, 2019, bioRxiv.

Implementing FAIR data management within the German Network for Bioinformatics Infrastructure (de.NBI) exemplified by selected use cases

Uwe Scholz, Roland Eils, Matthias Lange, 2021, Briefings Bioinform..

Cytogenetic Alterations and Cytokeratin Expression Patterns in Breast Cancer: Integrating a New Model of Breast Differentiation into Cytogenetic Pathways of Breast Carcinogenesis

Martin Eisenacher, Jorma Isola, Horst Buerger, 2002, Laboratory Investigation.

FE65 regulates and interacts with the Bloom syndrome protein in dynamic nuclear spheres – potential relevance to Alzheimer’s disease

Martin Eisenacher, Katrin Marcus, Julian Uszkoreit, 2013, Journal of Cell Science.

A community proposal to integrate proteomics activities in ELIXIR

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

Protein variability in cerebrospinal fluid and its possible implications for neurological protein biomarker research

Martin Eisenacher, Katrin Marcus, Caroline May, 2018, PloS one.

Proteomics of rimmed vacuoles define new risk allele in inclusion body myositis

Martin Eisenacher, Katrin Marcus, Martin Tegenthoff, 2017, Annals of neurology.

Quantitative Tissue Proteomics Analysis Reveals Versican as Potential Biomarker for Early-Stage Hepatocellular Carcinoma.

Barbara Sitek, Martin Eisenacher, Michael Kohl, 2016, Journal of proteome research.

Reporter Metabolite Analysis of Transcriptional Profiles of a Staphylococcus aureus Strain with Normal Phenotype and Its Isogenic hemB Mutant Displaying the Small-Colony-Variant Phenotype

Martin Eisenacher, Georg Peters, Matthias Heinemann, 2006, Journal of bacteriology.

Automated Calculation of Unique Peptide Sequences for Unambiguous Identification of Highly Homologous Proteins by Mass Spectrometry

Martin Eisenacher, Michael Kohl, Christian Stephan, 2008 .

Spatial and molecular resolution of diffuse malignant mesothelioma heterogeneity by integrating label-free FTIR imaging, laser capture microdissection and proteomics

Barbara Sitek, Martin Eisenacher, Katrin Marcus, 2017, Scientific Reports.

Detection of Patient Subgroups with Differential Expression in Omics Data: A Comprehensive Comparison of Univariate Measures

Martin Eisenacher, Christian Stephan, Maike Ahrens, 2013, PloS one.

Amyloid Beta A4 Precursor Protein-binding Family B Member 1 (FE65) Interactomics Revealed Synaptic Vesicle Glycoprotein 2A (SV2A) and Sarcoplasmic/Endoplasmic Reticulum Calcium ATPase 2 (SERCA2) as New Binding Proteins in the Human Brain*

Martin Eisenacher, Katrin Marcus, Julian Uszkoreit, 2013, Molecular & Cellular Proteomics.

Characterization of Cerebrospinal Fluid via Data-Independent Acquisition Mass Spectrometry.

Martin Eisenacher, Katrin Marcus, Sandra Pacharra, 2018, Journal of proteome research.

Autoimmune profiling with protein microarrays in clinical applications.

Martin Eisenacher, Caroline May, Michael Turewicz, 2014, Biochimica et biophysica acta.

mzTab-M: A Data Standard for Sharing Quantitative Results in Mass Spectrometry Metabolomics

Martin Eisenacher, Yasset Perez-Riverol, Juan Antonio Vizcaíno, 2019, Analytical chemistry.

Using Laboratory Information Management Systems as central part of a proteomics data workflow

Martin Eisenacher, Michael Kohl, Christian Stephan, 2010, Proteomics.

The bacterial proteogenomic pipeline

Martin Eisenacher, Katrin Marcus, Julian Uszkoreit, 2014, BMC Genomics.

Toward a Successful Clinical Neuroproteomics The 11th HUPO Brain Proteome Project Workshop 3 March, 2009, Kolymbari, Greece

Lennart Martens, Martin Eisenacher, Christian Stephan, 2009, Proteomics. Clinical applications.

Peek a peak: a glance at statistics for quantitative label-free proteomics

Martin Eisenacher, Michael Kohl, Christian Stephan, 2010, Expert review of proteomics.

Integrated Fourier Transform Infrared Imaging and Proteomics for Identification of a Candidate Histochemical Biomarker in Bladder Cancer.

Barbara Sitek, Martin Eisenacher, Katrin Marcus, 2019, The American journal of pathology.

Getting a grip on proteomics data – Proteomics Data Collection (ProDaC)

Lennart Martens, Harald Barsnes, Martin Eisenacher, 2009, Proteomics.

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.

Developing New Methods to Answer Old and New Questions in Neurodegenerative Diseases

Martin Eisenacher, Peter Nilsson, Lea T Grinberg, 2014, Proteomics.

Circulating U2 small nuclear RNA fragments as a diagnostic and prognostic biomarker in lung cancer patients

Martin Eisenacher, Maike Ahrens, Stefan Welter, 2016, Journal of Cancer Research and Clinical Oncology.

Proteomics today: Bioinformatics at its best. Proteomics and Bioinformatics – an inseparable couple

Martin Eisenacher, Christian Stephan, Michael Hamacher, 2008, Proteomics.

Study of Early Leaf Senescence in Arabidopsis thaliana by Quantitative Proteomics Using Reciprocal 14N/15N Labeling and Difference Gel Electrophoresis*S

Barbara Sitek, Kai Stühler, Kai A Reidegeld, 2008, Molecular & Cellular Proteomics.