Scientific Articles Technology


Frantzi M, Latosinska A, Kontostathi G, Mischak H.

Clinical Proteomics: Closing the Gap from Discovery to Implementation.

Proteomics. 2018 Jul;18(14):e1700463. doi: 10.1002/pmic.201700463. Epub 2018 Jul 8.

PMID: 29785737

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Latosinska A, Vougas K, Makridakis M, Klein J, Mullen W, Abbas M, Stravodimos K, Katafigiotis I, Merseburger AS, Zoidakis J, Mischak H, Vlahou A, Jankowski V.
Comparative Analysis of Label-Free and 8-Plex iTRAQ Approach for Quantitative Tissue Proteomic Analysis.
PLoS One. 2015 Sep 2;10(9):e0137048. doi: 10.1371/journal.pone.0137048. eCollection 2015.

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Pejchinovski M, Klein J, Ramírez-Torres A, Bitsika V, Mermelekas G, Vlahou A, Mullen W, Mischak H, Jankowski V.
Comparison of higher-energy collisional dissociation and collision-induced dissociation MS/MS sequencing methods for identification of naturally occurring peptides in human urine.
Proteomics Clin Appl. 2015 Mar 27. doi: 10.1002/prca.201400163. [Epub ahead of print]

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Nally JE, Mullen W, Callanan JJ, Mischak H, Albalat A.
Detection of urinary biomarkers in reservoir hosts of leptospirosis by capillary electrophoresis mass spectrometry.
Proteomics Clin Appl. 2015 Mar 3. doi: 10.1002/prca.201400205. [Epub ahead of print]

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Pontillo C, Filip S, Borràs DM, Mullen W, Vlahou A, Mischak H. Proteomics Clin Appl. 2015 Jan 16. doi: 10.1002/prca.201400115. [Epub ahead of print]
CE-MS-based proteomics in biomarker discovery and clinical application.
Proteomics Clin Appl. 2015 Jan 16. doi: 10.1002/prca.201400115. [Epub ahead of print]

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Pejchinovski M, Hrnjez D, Ramírez-Torres A, Bitsika V, Mermelekas G, Vlahou A, Zürbig P, Mischak H, Metzger J, Koeck T.
Capillary zone electrophoresis on-line coupled to mass spectrometry: a perspective application for clinical proteomics.
Proteomics Clin Appl. 2015 Jan 16. doi: 10.1002/prca.201400113. [Epub ahead of print]

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Nkuipou-Kenfack E, Duranton F, Gayrard N, Argilés A, Lundin U, Weinberger KM, Dakna M, Delles C, Mullen W, Husi H, Klein J, Koeck T, Zürbig P, Mischak H.
Assessment of metabolomic and proteomic biomarkers in detection and prognosis of progression of renal function in chronic kidney disease.
PLoS One. 2014 May 9;9(5):e96955. doi: 10.1371/journal.pone.0096955. eCollection 2014.

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Mischak H1, Vlahou A2, Righetti PG3, Calvete JJ4.
Putting value in biomarker research and reporting.
J Proteomics. 2014 Jan 16;96:A1-3. doi: 10.1016/j.jprot.2013.12.002.

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Albalat A, Husi H, Stalmach A, Schanstra JP, Mischak H.
Classical MALDI-MS versus CE-based ESI-MS proteomic profiling in urine for clinical applications.
Bioanalysis. 2014 Jan;6(2):247-66. doi: 10.4155/bio.13.313.

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Klein J, Papadopoulos T, Mischak H, Mullen W.
Comparison of CE-MS/MS and LC-MS/MS sequencing demonstrates significant complementarity in natural peptide identification in human urine.
Electrophoresis. 2013 Oct 8. doi: 10.1002/elps.201300327. [Epub ahead of print]

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Mermelekas G, Makridakis M, Koeck T, Vlahou A.
Redox proteomics: from residue modifications to putative biomarker identification by gel- and LC-MS-based approaches.
PMID: 24206227 [PubMed - in process]

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Suárez ER, Siwy J, Zürbig P, Mischak H.
Urine as a source for clinical proteome analysis: From discovery to clinical application.
Biochim Biophys Acta. 2013 Jul 2. pii: S1570-9639(13)00253-7. doi: 10.1016/j.bbapap.2013.06.016. [Epub ahead of print]

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Klein G, Schanstra JP, Hoffmann J, Mischak H, Siwy J
Proteomics as a Quality Control Tool of Pharmaceutical Probiotic Bacterial Lysate Products
PLoS ONE 8(6): e66682. doi:10.1371/journal.pone.0066682

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Stalmach A, Albalat A, Mullen W, Mischak H.
Recent advances in capillary electrophoresis coupled to mass spectrometry for clinical proteomic applications.
Electrophoresis. 2013 Jun;34(11):1452-64. doi: 10.1002/elps.201200708. Epub 2013 May 8. 

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Klein J, Eales J, Zürbig P, Vlahou A, Mischak H, Stevens R.
Proteasix: a tool for automated and large-scale prediction of proteases involved in naturally-occurring peptide generation.
Proteomics. 2013 Apr;13(7):1077-82. doi: 10.1002/pmic.201200493. Epub 2013 Feb 26. 
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Mischak H, Vlahou A, Ioannidis JP.
Technical aspects and inter-laboratory variability in native peptide profiling: The CE-MS experience.
Clin Biochem. 2013 Apr;46(6):432-43. doi: 10.1016/j.clinbiochem.2012.09.025. Epub 2012 Oct 4.
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Albalat A, Franke J, Gonzalez J, Mischak H, Zürbig P.
Urinary proteomics based on capillary electrophoresis coupled to mass spectrometry in kidney disease.
Methods Mol Biol. 2013;919:203-13.
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 Molin L, Seraglia R, Lapolla A, Ragazzi E, Gonzalez J, Vlahou A, Schanstra JP, Albalat A, Dakna M, Siwy J, Jankowski J, Bitsika V, Mischak H, Zürbig P, Traldi P.
 A comparison between MALDI-MS and CE-MS data for biomarker assessment in chronic kidney diseases.
J Proteomics. 2012 Oct 22;75(18):5888-97. doi: 10.1016/j.jprot.2012.07.024. Epub 2012 Jul 26.
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Mischak H
How to get proteomics to the clinic? Issues in clinical proteomics, exemplified by CE-MS.
Proteomics Clin Appl. 2012 Jul 23. doi: 10.1002/prca.201200027. [Epub ahead of print]
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Mischak H, Ioannidis JP, Argiles A, Attwood TK, Bongcam-Rudloff E, Broenstrup M, Charonis A, Chrousos GP, Delles C, Dominiczak A, Dylag T, Ehrich J, Egido J, Findeisen P, Jankowski J, Johnson RW, Julien BA, Lankisch T, Leung HY, Maahs D, Magni F, Manns MP, Manolis E, Mayer G, Navis G, Novak J, Ortiz A, Persson F, Peter K, Riese HH, Rossing P, Sattar N, Spasovski G, Thongboonkerd V, Vanholder R, Schanstra JP, Vlahou A.
Implementation of proteomic biomarkers: making it work.
Eur J Clin Invest. 2012 Sep;42(9):1027-1036. doi: 10.1111/j.1365-2362.2012.02674.x. Epub 2012 Apr 21.          

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Mullen W, Albalat A, Gonzalez J, Zerefos P, Siwy J, Franke J, Mischak H.
Performance of different separation methods interfaced in the same MS-reflection TOF detector: A comparison of performance between CE versus HPLC for biomarker analysis.
Electrophoresis. 2012 Feb;33(4):567-74. doi: 10.1002/elps.201100415.
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Albalat A, Mischak H, Mullen W.
Clinical application of urinary proteomics/peptidomics.
Expert Rev Proteomics. 2011 Oct;8(5):615-29.
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Albalat A, Mischak H, Mullen W
Urine proteomics in clinical applications: technologies, principal considerations and clinical implementation.
Prilozi. 2011 Jul;32(1):13-44.
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Siwy J, Mullen W, Golovko I, Franke J, Zürbig P
Human urinary peptide database for multiple disease biomarker discovery.
Proteomics Clin Appl. 2011 Jun;5(5-6):367-74. doi: 10.1002/prca.201000155.
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Mayer G, Heinze G, Mischak H, Hellemons ME, Heerspink HJ, Bakker SJ, de Zeeuw D, Haiduk M, Rossing P, Oberbauer R
Omics-bioinformatics in the context of clinical data.
Methods Mol Biol. 2011;719:479-97
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Mischak H, Schanstra JP.
CE-MS in biomarker discovery, validation, and clinical application.
Proteomics Clin Appl. 2011 Feb;5(1-2):9-23. doi: 10.1002/prca.201000058. 11.
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Siwy J, Vlahou A, Zimmerli LU, Zürbig P, Schiffer E
Clinical proteomics: Current techniques and potential applications in the elderly
Maturitas. 2011 Mar;68(3):233-44
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Dakna M, Keith H, Kalousis A, Carpentier S, Kolch W, Schanstra JP, Haubitz M, Vlahou A, Mischak H, Girolami M.
Addressing the Challenge of Defining Valid Proteomic Biomarkers and Classifiers.
BMC Bioinformatics. 2010 Dec 10;11:594
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Mischak H, Kolch W, Aivaliotis M, Bouyssie D, Court M, Dihazi H, Dihazi GH, Franke J, Garin J, de Peredo AG, Iphoefer A, Jänsch L, Lacroix C, Makridakis M, Masselon C, Metzger J, Monsarrat B, Mrug M, Norling M, Novak J, Pich A, Pitt A, Bongcam-Rudloff E, Siwy J, Suzuki H, Thongboonkerd V, Wang L, Zoidakis J, Zuerbig P, Schanstra J, Vlahou A
Comprehensive human urine standards for comparability and standardization in clinical proteome analysis.
Proteomics Clinical Applications 2010; 4:464-478
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Griner EM, Caino MC, Sosa MS, Colon-Gonzalez F, Chalmers MJ, Mischak H, Kazanietz MG
A novel cross-talk in diacylglycerol signaling: the Rac-GAP {beta}2-chimaerin is negatively regulated by PKC{delta} mediated phosphorylation.
J Biol Chem. 2010 May 28;285(22):16931-41
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Mischak H, Allmaier G, Apweiler R, Attwood T, Baumann M, Benigni A, Bennett SE, Bischoff R, Bongcam-Rudloff E, Capasso G, Coon JJ, D’Haese P, Dominiczak AF, Dakna M, Dihazi H, Ehrich JH, Fernandez-Llama P, Fliser D, Frokiaer J, Garin J, Girolami M, Hancock WS, Haubitz M, Hochstrasser D, Holman R, Ioannidis JPA, Jankowski J, Julian BA, Klein JB, Kolch W, Luider T, Massy Z, Mattes WB, Molina F, Monsarrat B, Novak J, Peter K, Rossing P, Sánchez-Carbayo M, Schanstra JP, Semmes OJ, Spasovsk G, Theodorescu D, Thongboonkerd V, Vanholder R, Veenstra T, Weissinger E, Yamamoto T, Vlahou A
Recommendations for biomarker identification and qualification in clinical proteomics.
Science Translational Medicine Papers 2010
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Zürbig P, Schiffer E, Mischak H.
Capillary electrophoresis coupled to mass spectrometry for proteomic profiling of human urine and biomarker discovery
Methods Mol Biol. 2009;564:105-21
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Dhillona AS, Yipa YY, Grindlay GJ, Pakaya JL, Dangers M, Hillmann M, Clark W, Pitte A, Mischak H, Kolch W
The C-terminus of RAF-1 acts as a 14-3-3-dependent activation switch
Cell Signal. 2009 Nov;21(11):1645-51
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Jankowski V, Giet M, Mischak H, Morgan M, Zidekm W, Jankowski J
Dinucleoside polyphosphates: strong endogenous agonists of the purinergic system (review)
Br J Pharmacol 2009 Aug;157(7):1142-53
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Metzger J, Luppa PB, Good DM, Mischak H
Adapting mass spectrometry-based platforms for clinical proteomics applications: the capillary electrophoresis coupled mass spectrometry paradigm
Crit Rev Clin Lab Sci. 2009;46(3):129-52
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Dakna M, He Z, Yu WC, Mischak H, Kolch W
Technical, bioinformatical and statistical aspects of liquid chromatography-mass spectrometry (LC-MS) and capillary electrophoresis-mass spectrometry (CE-MS) based clinical proteomics: a critical assessment
Journal of Chromatography B 2009, 877(13): 1250-1258
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Schiffer E, Mischak H, Zimmerli LU
Proteomics in gerontology - current applications and future aspects
Gerontology. 2009;55(2):123-37. Epub 2009 Jan 9.
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Mischak H, Coon JJ, Novak J, Weissinger EM, Schanstra J, Dominiczak AF
Capillary electrophoresis–mass spectrometry as a powerful tool in biomarker discovery and clinical diagnosis: an update of recent developments
Mass Spectrom Rev. 2009 Sep-Oct;28(5):703-24.
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Metzger J, Schanstra JP, Mischak H
Capillary electrophoresis-mass spectrometry in urinary proteome analysis: current applications and future developments
Anal Bioanal Chem. 2009 Mar;393(5):1431-42. Epub 2008 Aug 15.
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Vlahou A, Schanstra J, Frokiaer J, El Nahas M, Spasovski G, Mischak H, Domon B, Allmaier G, Bongcam-Rudloff E, Attwood T; On behalf of the European Kidney and Urine Proteomics Network
Establishment of a European Network for Urine and Kidney Proteomics
J Proteomics 2008, 71(4): 490-492
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Decramer S, Gonzalez de Peredo A, Breuil B, Mischak H, Monsarrat B, Bascands JL, Schanstra JP
Urine in clinical proteomics
Mol Cell Proteomics 2008, 7(10): 1850-1862
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Jiang H, Schiffer E, Song Z, Wang J, Zurbig P, Thedieck K, Moes S, Bantel H, Saal N, Jantos J, Brecht M, Jenoe P, Hall MN, Hager K, Manns MP, Hecker H, Ganser A, Doehner K, Bartke A, Meissner C, Mischak H, Ju Z, Rudolph KL
Proteins induced by telomere dysfunction and DNA damage represent biomarkers of human aging and disease
Proc Natl Acad Sci (USA) 2008, 105(32): 11299-11304
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Vanholder R, Baurmeister U, Brunet P, Cohen G, Glorieux G, Jankowski J
A bench to bedside view of uremic toxins
J Am Soc Nephrol. 2008, 19: 863-870
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Coon JJ, Zurbig P, Dakna M, Dominiczak AF, Decramer S, Fliser D, Frommberger M, Golovko I, Good DM, Herget-Rosenthal S, Jankowski J, Julian BA, Kellmann M, Kolch W, Massy Z, Novak J, Rossing K, Schanstra JP, Schiffer E, Theodorescu D, Vanholder R, Weissinger EM, Mischak H, Schmitt-Kopplin P
CE-MS analysis of the human urinary proteome for biomarker discovery and disease diagnostics
PROTEOMICS - Clinical Applications 2008, 2(7-8): 964-973
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Mathivanan S, et al., Mischak H, et al., Zurbig P, Pandey A
Human Proteinpedia: A portal for sharing and integration of human protein data
Nature Biotechnology 2008, 26(2): 164-167
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Goodsaid F, Bandow JE, Mischak H
REPORT - Grand Rounds in Proteomics at the FDA (White Oak, Silver Spring, MD, USA, April 3, 2007)
PROTEOMICS - Clinical Applications 2007, 1: 1526-1531
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Good DM, Thongboonkerd V, Novak J, Bascands JL, Schanstra JP, Coon JJ, Dominiczak A, Mischak H
Body Fluid Proteomics for Biomarker Discovery: Lessons from the Past Hold the Key to Success in the Future
J Proteome Res. 2007, 6(12): 4549-4555
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Geppert HG, Mischak H
Klinische Proteomanalyse zur effektiven Gesundheitsvorsorge
journal of preventive medicine 2007, 3(3+4): 330-337
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Geppert HG
Polypeptide zeigen pathologische Prozesse
Nachrichten aus der Chemie 2007, 55: 1020-1021
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Theodorescu D, Mischak H
Mass spectrometry based proteomics in urine biomarker discovery
World J Urol. 2007, 25(5): 435-443
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Sniehotta M, Schiffer E, Zurbig P, Novak J, Mischak H
CE - a multifunctional application for clinical diagnosis
Electrophoresis 2007, 28(9): 1407-1417
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Ehrich J, Mischak A, Mischak H
Österreichische Ärztezeitung 2007, 6: 49-53
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Mischak H, Julian BA, Novak A
High-resolution proteome/peptidome analysis of peptides and low-molecular-weight proteins in urine
PROTEOMICS - Clinical Applications 2007, 1: 792-804
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Mischak H, Apweiler R, Banks RE, Conaway M, Coon J, Dominiczak A, Ehrich JHH, Fliser D, Girolami M, Hermjakob H, Hochstrasser D, Jankowski J, Julian BA, Kolch W, Massy ZA, Neusuess C, Novak J, Peter K, Rossing K, Schanstra J, Semmes OJ, Theodorescu D, Thongboonkerd V, Weissinger EM, van Eyk JE, Yamamoto T
Clinical Proteomics: a need to define the field and to begin to set adequate standards
PROTEOMICS - Clinical Applications 2007, 1: 148-156
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Schiffer E, Mischak H, Novak J
High resolution proteome/peptidome analysis of body fluids by capillary electrophoresis coupled with MS
Proteomics 2006, 6(20): 5615-5627
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Zurbig P, Renfrow MB, Schiffer E, Novak J, Walden M, Wittke S, Just I, Pelzing M, Neususs C, Theodorescu D, Root KE, Ross MM, Mischak H
Biomarker discovery by CE-MS enables sequence analysis via MS/MS with platform-independent separation
Electrophoresis 2006, 27(11): 2111-2125
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Thongboonkerd V, Cutillas PR, Unwin RJ, Schaub S, Nickerson P, Haubitz M, Mischak H, Nedelkov D, Kiernan U, Nelson RW
Proteomics of Human Urine
Thongboonkerd V (Ed.) 2006, Proteomics of Human Body Fluids: Principles, Methods, and Applications
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Girolami M, Mischak H, Krebs R
Analysis of complex, multidimensional datasets
Drug Dicovery Today: Analytical technologies 2006, 3(1): 13-19
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Kolch W, Neususs C, Pelzing M, Mischak H
Capillary electrophoresis-mass spectrometry as a powerful tool in clinical diagnosis and biomarker discovery
Mass Spectrom Rev. 2005, 24(6): 959-977
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Weissinger EM, Hertenstein B, Mischak H, Ganser A
Online coupling of capillary electrophoresis with mass spectrometry for the identification of biomarkers for clinical diagnosis
Expert Reviews In: Proteomics 2005, 2(5): 639-647
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Fliser D, Wittke S, Mischak H
Capillary electrophoresis coupled to mass spectrometry for clinical diagnostic purposes
Electrophoresis. 2005, 26(14): 2708-2716
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Walden M, Mischak H
Proteomanalyse mittels Kapillarelektrophorese-gekoppelter Massenspektrometrie - ein neues Routineverfahren in der klinischen Diagnostik?
Klinische Chemie Mitteilungen 2005, 36(5): 87-101
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Kolch W, Mischak H, Chalmers MJ, Pitt A, Marshall AG
Clinical proteomics: a question of technology
Rapid Commun Mass Spectrom. 2004, 18(19): 2365-2366
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Kaiser T, Wittke S, Just I, Krebs R, Bartel S, Fliser D, Mischak H, Weissinger EM
Capillary electrophoresis coupled to mass spectrometer for automated and robust polypeptide determination in body fluids for clinical use
Electrophoresis 2004, 25(13): 2044-2055
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Wittke S, Kaiser T, Mischak H
Differential polypeptide display: the search for the elusive target
J Chromatogr B Analyt Technol Biomed Life Sci. 2004, 803(1): 17-26
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Chalmers MJ, Kolch W, Emmett MR, Marshall AG, Mischak H
Identification and analysis of phosphopeptides
J Chromatogr B Analyt Technol Biomed Life Sci. 2004, 803(1): 111-120
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Neuhoff N, Kaiser T, Wittke S, Krebs R, Pitt A, Burchard A, Sundmacher A, Schlegelberger B, Kolch W, Mischak H
Mass spectrometry for the detection of differentially expressed proteins: a comparison of surface-enhanced laser desorption/ionization and capillary electrophoresis/mass spectrometry
Rapid Commun Mass Spectrom. 2004, 18(2): 149-156
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Wittke S, Fliser D, Haubitz M, Bartel S, Krebs R, Hausadel F, Hillmann M, Golovko I, Koester P, Haller H, Kaiser T, Mischak H, Weissinger EM
Determination of peptides and proteins in human urine with capillary electrophoresis-mass spectrometry, a suitable tool for the establishment of new diagnostic markers
J Chromatogr A. 2003, 1013(1-2): 173-181
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