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Martin Eisenacher

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Swaantje Casjens; Angelika Eckert; Martin Eisenacher; Gisa Ellrichmann; Caroline May; Helmut E Meyer; Christian Stephan; Michael Turewicz; Dirk Woitalla; Thomas Brüning; Beate Pesch
Diagnostic value of the impairment of olfaction in Parkinson's disease.
Gerhard Mayer; Helmut E Meyer; Luisa Montecchi-Palazzi; Sandra Orchard; David Ovelleiro; James Shofstahl; Christian Stephan; Juan Antonio Vizcaíno; Pierre-Alain Binz; Matthew Chambers; Eric Deutsch; Martin Eisenacher; Henning Hermjakob; Andrew R Jones; Marius Kallhardt; Fredrik Levander
The HUPO proteomics standards initiative- mass spectrometry controlled vocabulary.
Thomas Gronemeyer; Heiko Hayen; Helmut E Meyer; Rob Ofman; Magdalena Pawlas; Christian Stephan; Ronald J Wanders; Christian Bunse; Martin Eisenacher; Ralf Erdmann; Hans R Waterham; Sebastian Wiese; Bettina Warscheid
The proteome of human liver peroxisomes: identification of five new peroxisomal constituents by a label-free quantitative proteomics survey.

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All Publications

2013: Swaantje Casjens; Angelika Eckert; Martin Eisenacher; Gisa Ellrichmann; Caroline May; Helmut E Meyer; Christian Stephan; Michael Turewicz; Dirk Woitalla; Thomas Brüning; Beate Pesch
Diagnostic value of the impairment of olfaction in Parkinson's disease.
PloS one 2013;8(5):e64735.
2013: Gerhard Mayer; Helmut E Meyer; Luisa Montecchi-Palazzi; Sandra Orchard; David Ovelleiro; James Shofstahl; Christian Stephan; Juan Antonio Vizcaíno; Pierre-Alain Binz; Matthew Chambers; Eric Deutsch; Martin Eisenacher; Henning Hermjakob; Andrew R Jones; Marius Kallhardt; Fredrik Levander
The HUPO proteomics standards initiative- mass spectrometry controlled vocabulary.
Database : the journal of biological databases and curation 2013;2013():bat009.
2013: Thomas Gronemeyer; Heiko Hayen; Helmut E Meyer; Rob Ofman; Magdalena Pawlas; Christian Stephan; Ronald J Wanders; Christian Bunse; Martin Eisenacher; Ralf Erdmann; Hans R Waterham; Sebastian Wiese; Bettina Warscheid
The proteome of human liver peroxisomes: identification of five new peroxisomal constituents by a label-free quantitative proteomics survey.
PloS one 2013;8(2):e57395.
2012: Kerstin E Geillinger; Katja Kuhlmann; Helmut E Meyer; Hannelore Daniel; Martin Eisenacher; Britta Spanier
Dynamic changes of the Caenorhabditis elegans proteome during ontogenesis assessed by quantitative analysis with 15N metabolic labeling.
Journal of proteome research 2012;11(9):4594-604.
2012: Martin Eisenacher; Romano Hebeler; Michael Kohl; Helmut E Meyer; Bettina Warscheid; Sebastian Wiese; Christian Stephan
Find pairs: the module for protein quantification of the PeakQuant software suite.
Omics : a journal of integrative biology 2012;16(9):457-67.
2012: Andrew R Jones; Randall Julian; Oliver Kohlbacher; Gerhard Mayer; Angel Pizarro; Florian Reisinger; Brian C Searle; Julian N Selley; Sean L Seymour; James Shofstahl; Jennifer Siepen; Juan Antonio Vizcaino; Eric Deutsch; Martin Eisenacher; Johannes Griss; Henning Hermjakob; Simon Hubbard; Pierre-Alain Binz; Matthew Chambers; David Creasy
The mzIdentML data standard for mass spectrometry-based proteomics results.
Molecular & cellular proteomics : MCP 2012;11(7):M111.014381.
2012: Sandra Orchard; Juan Antonio Vizcaino; Salvador Martínez-Bartolomé; Juan Pablo Albar; Pierre-Alain Binz; Eric Deutsch; Martin Eisenacher; Henning Hermjakob
From proteomics data representation to public data flow: a report on the HUPO-PSI workshop September 2011, Geneva, Switzerland.
Proteomics 2012;12(3):351-5.
2012: Martin Eisenacher; Markus-Hermann Koch; Michael Kohl; Michael Turewicz; Julian Uszkoreit; Christian Stephan
Search and decoy: the automatic identification of mass spectra.
Methods in molecular biology (Clifton, N.J.) 2012;893():445-88.
2012: Katharina Podwojski; Christian Stephan; Martin Eisenacher
Important issues in planning a proteomics experiment: statistical considerations of quantitative proteomic data.
Methods in molecular biology (Clifton, N.J.) 2012;893():3-21.
2011: Thorsten Müller; Andreas Schrötter; Christian Stephan; Julian Uszkoreit; Maike Ahrens; Martin Eisenacher; Stefan Helling; Christina Loosse; Helmut E Meyer; Katrin Marcus
Sense and nonsense of pathway analysis software in proteomics.
Journal of proteome research 2011;10(12):5398-408.
2011: Sandra Orchard; Juan Antonio Vizcaino; Juan Pablo Albar; Eric Deutsch; Martin Eisenacher; Henning Hermjakob
Enabling BioSharing - a report on the Annual Spring Workshop of the HUPO-PSI April 11-13, 2011, EMBL-Heidelberg, Germany.
Proteomics 2011;11(22):4284-90.
2011: Martin Eisenacher; Anke Schnabel; Christian Stephan
Quality meets quantity - quality control, data standards and repositories.
Proteomics 2011;11(6):1031-6.
2011: Michael Hamacher; Bernd Gröttrup; Martin Eisenacher; Katrin Marcus; Young Mok Park; Helmut E Meyer; Kyung-Hoon Kwon; Christian Stephan
Inter-lab proteomics: data mining in collaborative projects on the basis of the HUPO brain proteome project's pilot studies.
Methods in molecular biology (Clifton, N.J.) 2011;696():235-46.
2011: Martin Eisenacher
mzIdentML: an open community-built standard format for the results of proteomics spectrum identification algorithms.
Methods in molecular biology (Clifton, N.J.) 2011;696():161-77.
2010: Bernd Gröttrup; Martin Eisenacher; Christian Stephan; Katrin Marcus; Bonghee Lee; Helmut E Meyer; Young Mok Park
Human Brain Proteome Project - 12th HUPO BPP Workshop. 26 September 2009, Toronto, Canada.
Proteomics 2010;10(11):2071-3.
2010: Sandra Orchard; Juan Pablo Albar; Eric Deutsch; Martin Eisenacher; Pierre-Alain Binz; Henning Hermjakob
implementing data standards: a report on the HUPOPSI workshop September 2009, Toronto, Canada.
Proteomics 2010;10(10):1895-8.
2010: Katharina Podwojski; Martin Eisenacher; Michael Kohl; Michael Turewicz; Helmut E Meyer; Jörg Rahnenführer; Christian Stephan
Peek a peak: a glance at statistics for quantitative label-free proteomics.
Expert review of proteomics 2010;7(2):249-61.
2010: Christian Stephan; Michael Kohl; Michael Turewicz; Katharina Podwojski; Helmut E Meyer; Martin Eisenacher
Using Laboratory Information Management Systems as central part of a proteomics data workflow.
Proteomics 2010;10(6):1230-49.
2010: Christian Stephan; Martin Eisenacher; Michael Kohl; Helmut E Meyer
Proteomics data collection (ProDaC): publishing and collecting proteomics data sets in public repositories using standard formats.
Methods in molecular biology (Clifton, N.J.) 2010;604():345-68.
2009: Young Hye Kim; Katrin Marcus; Lea Tenenholz Grinberg; Heike Goehler; Jens Wiltfang; Christian Stephan; Martin Eisenacher; Tanja Hardt; Lennart Martens; Michael J Dunn; Young Mok Park; Helmut E Meyer
Toward a Successful Clinical Neuroproteomics The 11th HUPO Brain Proteome Project Workshop 3 March, 2009, Kolymbari, Greece.
Proteomics. Clinical applications 2009;3(9):1012-6.
2009: Martin Eisenacher; Lennart Martens; Tanja Hardt; Michael Kohl; Harald Barsnes; Kenny Helsens; Jari Häkkinen; Fredrik Levander; Ruedi Aebersold; Joël Vandekerckhove; Michael J Dunn; Frederique Lisacek; Jennifer A Siepen; Simon J Hubbard; Pierre-Alain Binz; Martin Blüggel; Herbert Thiele; John Cottrell; Helmut E Meyer; Rolf Apweiler; Christian Stephan
Getting a grip on proteomics data - Proteomics Data Collection (ProDaC).
Proteomics 2009;9(15):3928-33.
2009: Heiner Nattkämper; Hartmut Halfter; Mohammad R Khazaei; Tina Lohmann; Burkhard Gess; Martin Eisenacher; Edith Willscher; Peter Young
Varying survival of motoneurons and activation of distinct molecular mechanism in response to altered peripheral myelin protein 22 gene dosage.
Journal of neurochemistry 2009;110(3):935-46.
2009: Martin Eisenacher; Lennart Martens; Harald Barsnes; Tanja Hardt; Michael Kohl; Jari Häkkinen; Rolf Apweiler; Helmut E Meyer; Christian Stephan
Proteomics Data Collection - 5th ProDaC Workshop: 4 March 2009, Kolympari, Crete, Greece.
Proteomics 2009;9(14):3626-9.
2009: Michael Hamacher; Christian Stephan; Helmut E Meyer; Martin Eisenacher
Data handling and processing in proteomics.
Expert review of proteomics 2009;6(3):217-9.
2009: Andrew R Jones; Allyson L Lister; Leandro Hermida; Peter Wilkinson; Martin Eisenacher; Khalid Belhajjame; Frank Gibson; Phil Lord; Matthew Pocock; Heiko Rosenfelder; Javier Santoyo-Lopez; Anil Wipat; Norman W Paton
Modeling and managing experimental data using FuGE.
Omics : a journal of integrative biology 2009;13(3):239-51.
2009: Sandra Orchard; Christine Hoogland; Amos Bairoch; Martin Eisenacher; Hans-Joachim Kraus; Pierre-Alain Binz
Managing the data explosion. A report on the HUPO-PSI Workshop. August 2008, Amsterdam, The Netherlands.
Proteomics 2009;9(3):499-501.
2009: Martin Eisenacher; Michael Kohl; Lennart Martens; Harald Barsnes; Tanja Hardt; Fredrik Levander; Jari Häkkinen; Rolf Apweiler; Helmut E Meyer; Christian Stephan
Proteomics data collection--4th ProDaC workshop 15 August 2008, Amsterdam, The Netherlands.
Proteomics 2009;9(2):218-22.
2008: Michael Hamacher; Martin Eisenacher; Helmut E Meyer; Christian Stephan
Proteomics today: bioinformatics at its best. Proteomics and Bioinformatics -- an inseparable couple.
Proteomics 2008;8(22):4616-7.
2008: Michael Hamacher; Martin Eisenacher; Florian Tribl; Christian Stephan; Katrin Marcus; Tanja Hardt; Jens Wiltfang; Lennart Martens; Dominic Desiderio; Howard B Gutstein; Young Mok Park; Helmut E Meyer
The HUPO Brain Proteome project wish list--summary of the 9(th) HUPO BPP Workshop 9-10 January 2008, Barbados.
Proteomics 2008;8(11):2160-4.
2008: Michael Hamacher; Christian Stephan; Tanja Hardt; Martin Eisenacher; Andreas Henkel; Jens Wiltfang; Connie R Jimenez; Young Mok Park; Katrin Marcus; Helmut E Meyer
Applications in brain proteomics: 8(th) HUPO Brain Proteome Project Workshop 7 October 2007, Seoul, Korea.
Proteomics 2008;8(9):1750-3.
2008: Michael Hamacher; Christian Stephan; Martin Eisenacher; Tanja Hardt; Katrin Marcus; Helmut E Meyer
Maintaining standardization: an update of the HUPO Brain Proteome Project.
Expert review of proteomics 2008;5(2):165-73.
2008: Martin Eisenacher; Tanja Hardt; Michael Hamacher; Lennart Martens; Jari Häkkinen; Fredrik Levander; Rolf Apweiler; Helmut E Meyer; Christian Stephan
Proteomics Data Collection - 2nd ProDaC Workshop 5 October 2007, Seoul, Korea.
Proteomics 2008;8(7):1326-30.
2008: Kai A Reidegeld; Martin Eisenacher; Michael Kohl; Daniel C Chamrad; Gerhard Körting; Martin Blüggel; Helmut E Meyer; Christian Stephan
An easy-to-use Decoy Database Builder software tool, implementing different decoy strategies for false discovery rate calculation in automated MS/MS protein identifications.
Proteomics 2008;8(6):1129-37.
2008: Karl-Ludwig Schaefer; Martin Eisenacher; Yvonne Braun; Kristin Brachwitz; Daniel Wai; Uta Dirksen; Claudia Lanvers-Kaminsky; Herbert Juergens; David Herrero; Sabine Stegmaier; Ewa Koscielniak; Angelika Eggert; Michaela Nathrath; Georg Gosheger; Dominik Schneider; Carsten Bury; Raihanatou Diallo-Danebrock; Laura Ottaviano; Helmut E Gabbert; Christopher Poremba
Microarray analysis of Ewing's sarcoma family of tumours reveals characteristic gene expression signatures associated with metastasis and resistance to chemotherapy.
European journal of cancer (Oxford, England : 1990) 2008;44(5):699-709.
2008: Thomas Beikler; Ulrike Peters; Karola Prior; Martin Eisenacher; Thomas F Flemmig
Gene expression in periodontal tissues following treatment.
BMC medical genomics 2008;1():30.
2008: Bayram Edemir; Sunil M Kurian; Martin Eisenacher; Detlef Lang; Carsten Müller-Tidow; Gert Gabriëls; Daniel R Salomon; Eberhard Schlatter
Activation of counter-regulatory mechanisms in a rat renal acute rejection model.
BMC genomics 2008;9():71.
2008: Romano Hebeler; Silke Oeljeklaus; Kai A Reidegeld; Martin Eisenacher; Christian Stephan; Barbara Sitek; Kai Stühler; Helmut E Meyer; Marcel J G Sturre; Paul P Dijkwel; Bettina Warscheid
Study of early leaf senescence in Arabidopsis thaliana by quantitative proteomics using reciprocal 14N/15N labeling and difference gel electrophoresis.
Molecular & cellular proteomics : MCP 2008;7(1):108-20.
2007: Sebastian Wiese; Thomas Gronemeyer; Rob Ofman; Markus Kunze; Cláudia P Grou; José A Almeida; Martin Eisenacher; Christian Stephan; Heiko Hayen; Lukas Schollenberger; Thomas Korosec; Hans R Waterham; Wolfgang Schliebs; Ralf Erdmann; Johannes Berger; Helmut E Meyer; Wilhelm Just; Jorge E Azevedo; Ronald J A Wanders; Bettina Warscheid
Proteomics characterization of mouse kidney peroxisomes by tandem mass spectrometry and protein correlation profiling.
Molecular & cellular proteomics : MCP 2007;6(12):2045-57.
2007: Martin Eisenacher; Tanja Hardt; Michael Hamacher; Lennart Martens; Jari Häkkinen; Fredrik Levander; Rolf Apweiler; Helmut E Meyer; Christian Stephan
Proteomics Data Collection - the 1st ProDaC workshop 26 April 2007 Ecole Normale Supérieur, Lyon, France.
Proteomics 2007;7(17):3034-7.
2007: Michael Hamacher; Christian Stephan; Martin Eisenacher; Piotr Lewczuk; Jens Wiltfang; Lennart Martens; Juan Antonio Vizcaino; Kyung-Hoon Kwon; Jong Shin Yoo; Young Mok Park; Johannes Beckers; Marion Horsch; Martin Hrabé De Angelis; Zang-Hee Cho; Rolf Apweiler; Helmut E Meyer
High Performance Proteomics: 7th HUPO Brain Proteome Project Workshop March 7-9, 2007 Wellcome Trust Conference Centre, Hinxton, UK.
Proteomics 2007;7(15):2490-6.
2007: Michael Hamacher; Christian Stephan; Martin Eisenacher; Andre van Hall; Katrin Marcus; Lennart Martens; Young Mok Park; Howard B Gutstein; Friedrich W Herberg; Helmut E Meyer
Proteomics for everyday use: activities of the HUPO Brain Proteome Project during the 5th HUPO World Congress.
Proteomics 2007;7(7):1012-5.
2007: Dirk Domagk; Karl-Ludwig Schaefer; Martin Eisenacher; Yvonne Braun; Daniel Wai; Christina Schleicher; Raihanatou Diallo-Danebrock; Hans Bojar; Gernot Roeder; Helmut E Gabbert; Wolfram Domschke; Christopher Poremba
Expression analysis of pancreatic cancer cell lines reveals association of enhanced gene transcription and genomic amplifications at the 8q22.1 and 8q24.22 loci.
Oncology reports 2007;17(2):399-407.
2007: Jan Ehrchen; Lars Steinmüller; Katarzyna Barczyk; Klaus Tenbrock; Wolfgang Nacken; Martin Eisenacher; Ursula Nordhues; Clemens Sorg; Cord Sunderkötter; Johannes Roth
Glucocorticoids induce differentiation of a specifically activated, anti-inflammatory subtype of human monocytes.
Blood 2007;109(3):1265-74.
2007: Thomas Liedtke; Rita Naskar; Martin Eisenacher; Solon Thanos
Transformation of adult retina from the regenerative to the axonogenesis state activates specific genes in various subsets of neurons and glial cells.
Glia 2007;55(2):189-201.
2006: Jochen Seggewiss; Karsten Becker; Oliver Kotte; Martin Eisenacher; Mohammad Reza Khoschkhoi Yazdi; Andreas Fischer; Peter McNamara; Nahed Al Laham; Richard Proctor; Georg Peters; Matthias Heinemann; Christof von Eiff
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.
Journal of bacteriology 2006;188(22):7765-77.
2006: Thomas Beikler; Stefan Schnitzer; Ghiath Abdeen; Benjamin Ehmke; Martin Eisenacher; Thomas F Flemmig
Sampling strategy for intraoral detection of periodontal pathogens before and following periodontal therapy.
Journal of periodontology 2006;77(8):1323-32.
2006: Martin Eisenacher; Jürgen de Braaf; Simone Koenig
Mass analysis peptide sequence prediction (MAPSP).
Bioinformatics (Oxford, England) 2006;22(8):1002-3.
2004: Wolfgang Köpcke; Susanne Ahrens; Martin Eisenacher; S Seuchter
Mathematical-statistical concepts for modelling and prediction of longterm follow-up.
Pharmacopsychiatry 2004;37 Suppl 2():S98-102.
2004: Karl-Ludwig Schaefer; Kristin Brachwitz; Daniel Wai; Yvonne Braun; Raihanatou Diallo; Eberhard Korsching; Martin Eisenacher; Reinhard Voss; Frans van Valen; Claudia Baer; Barbara Selle; Laura Spahn; Shuen-kuei Liao; Kevin A W Lee; Pancras Hogendoorn; Guido Reifenberger; Helmut E Gabbert; Christopher Poremba
Expression profiling of t(12;22) positive clear cell sarcoma of soft tissue cell lines reveals characteristic up-regulation of potential new marker genes including ERBB3.
Cancer research 2004;64(10):3395-405.
2004: S A Seuchter; Martin Eisenacher; Mathias Riesbeck; W Gaebel; Wolfgang Köpcke
Methods for predictor analysis of repeated measurements: application to psychiatric data.
Methods of information in medicine 2004;43(2):184-91.
2002: Eberhard Korsching; Jens Packeisen; Konstantin Agelopoulos; Martin Eisenacher; Reinhard Voss; Jorma Isola; Paulus van Diest; Burkhard Brandt; Werner Boecker; Horst Buerger
Cytogenetic alterations and cytokeratin expression patterns in breast cancer: integrating a new model of breast differentiation into cytogenetic pathways of breast carcinogenesis.
Laboratory investigation; a journal of technical methods and pathology 2002;82(11):1525-33.