Publications by authors named "Jacek R Wiśniewski"

100Publications

Proteomics-Informed Prediction of Rosuvastatin Plasma Profiles in Patients with a Wide Range of Body Weight.

Clin Pharmacol Ther 2020 Sep 24. Epub 2020 Sep 24.

Department of Pharmacy and Science for Life Laboratory, Uppsala University, Uppsala, Sweden.

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http://dx.doi.org/10.1002/cpt.2056DOI Listing
September 2020

Plasma fibrin clot proteomics in patients with acute pulmonary embolism: Association with clot properties.

J Proteomics 2020 Oct 16;229:103946. Epub 2020 Aug 16.

Institute of Cardiology, Jagiellonian University Medical College, Krakow, Poland; John Paul II Hospital, Krakow, Poland. Electronic address:

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http://dx.doi.org/10.1016/j.jprot.2020.103946DOI Listing
October 2020

Ultrasonic-Based Filter Aided Sample Preparation as the General Method to Sample Preparation in Proteomics.

Anal Chem 2020 07 11;92(13):9164-9171. Epub 2020 Jun 11.

BIOSCOPE Research Group, LAQV-REQUIMTE, Department of Chemistry, Faculty of Science and Technology, Universidade NOVA de Lisboa, Campus de Caparica, Caparica 2829-516, Portugal.

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http://dx.doi.org/10.1021/acs.analchem.0c01470DOI Listing
July 2020

Staurosporine and NEM mainly impair WNK-SPAK/OSR1 mediated phosphorylation of KCC2 and NKCC1.

PLoS One 2020 15;15(5):e0232967. Epub 2020 May 15.

Division of Neurogenetics, School of Medicine and Health Sciences, Carl von Ossietzky University Oldenburg, Oldenburg, Germany.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0232967PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7228128PMC
August 2020

Cell-type-resolved proteomic analysis of the human liver.

Liver Int 2020 07 12;40(7):1770-1780. Epub 2020 Apr 12.

Department of Pharmacy and Science for Life Laboratory, Uppsala University, Uppsala, Sweden.

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http://dx.doi.org/10.1111/liv.14452DOI Listing
July 2020

'Shotgun' proteomic analyses without alkylation of cysteine.

Anal Chim Acta 2020 Mar 4;1100:131-137. Epub 2019 Dec 4.

Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry, Am Klopferspitz 18, D-82152, Martinsried, Germany. Electronic address:

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http://dx.doi.org/10.1016/j.aca.2019.12.007DOI Listing
March 2020

Datasets: Sensitivity and protein digestion course of proteomic Filter Aided Sample Preparation.

Data Brief 2019 Oct 16;26:104530. Epub 2019 Sep 16.

Max Planck Institute of Biochemistry, 82152, Martinsried, Germany.

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http://dx.doi.org/10.1016/j.dib.2019.104530DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6811893PMC
October 2019

Filter Aided Sample Preparation - A tutorial.

Anal Chim Acta 2019 Dec 17;1090:23-30. Epub 2019 Aug 17.

Biochemical Proteomics Group, Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry, Am Klopferspitz 18, D-82152, Martinsried, Germany. Electronic address:

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http://dx.doi.org/10.1016/j.aca.2019.08.032DOI Listing
December 2019

Plasma fibrin clot proteomics in healthy subjects: Relation to clot permeability and lysis time.

J Proteomics 2019 09 16;208:103487. Epub 2019 Aug 16.

Institute of Cardiology, Jagiellonian University Medical College, Krakow, Poland; Krakow Center for Medical Research and Technology, John Paul II Hospital, Krakow, Poland. Electronic address:

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http://dx.doi.org/10.1016/j.jprot.2019.103487DOI Listing
September 2019

Snap-heated freeze-free preservation and processing of the urine proteome using the combination of stabilizor-based technology and filter aided sample preparation.

Anal Chim Acta 2019 Oct 24;1076:82-90. Epub 2019 May 24.

BIOSCOPE Research Group, LAQV-REQUIMTE, Department of Chemistry, Faculty of Science and Technology, Univesidade NOVA de Lisboa, 2829-516, Campus de Caparica, Portugal; PROTEOMASS Scientific Society, Madan Parque, Rua dos Inventores, 2825-182, Caparica, Portugal. Electronic address:

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http://dx.doi.org/10.1016/j.aca.2019.05.051DOI Listing
October 2019

Comparison of Proteome Composition of Serum Enriched in Extracellular Vesicles Isolated from Polycythemia Vera Patients and Healthy Controls.

Proteomes 2019 May 6;7(2). Epub 2019 May 6.

Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany.

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http://dx.doi.org/10.3390/proteomes7020020DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6631625PMC
May 2019

Selective Roles of Vertebrate PCF11 in Premature and Full-Length Transcript Termination.

Mol Cell 2019 04 25;74(1):158-172.e9. Epub 2019 Feb 25.

Sir William Dunn School of Pathology, University of Oxford, South Parks Road, Oxford OX1 3RE, UK. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2019.01.027DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6458999PMC
April 2019

A simple approach for restoration of differentiation and function in cryopreserved human hepatocytes.

Arch Toxicol 2019 03 17;93(3):819-829. Epub 2018 Dec 17.

Department of Pharmacy and Science for Life Laboratory, Uppsala University, Uppsala, Sweden.

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http://dx.doi.org/10.1007/s00204-018-2375-9DOI Listing
March 2019

Filter-Aided Sample Preparation for Proteome Analysis.

Methods Mol Biol 2018 ;1841:3-10

Biochemical Proteomics Group, Department of Proteomics and Signal Transduction, Max-Planck Institute for Biochemistry, Martinsried, Germany.

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http://link.springer.com/10.1007/978-1-4939-8695-8_1
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http://dx.doi.org/10.1007/978-1-4939-8695-8_1DOI Listing
April 2019

In-Depth Quantitative Proteomic Analysis of Trophozoites and Pseudocysts of Trichomonas vaginalis.

J Proteome Res 2018 11 3;17(11):3704-3718. Epub 2018 Oct 3.

Departamento de Medicina , Universidade Federal de São João del Rei , 36301-160 São João del Rei , Minas Gerais Brazil.

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http://pubs.acs.org/doi/10.1021/acs.jproteome.8b00343
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http://dx.doi.org/10.1021/acs.jproteome.8b00343DOI Listing
November 2018

Intracellular Drug Bioavailability: Effect of Neutral Lipids and Phospholipids.

Mol Pharm 2018 06 11;15(6):2224-2233. Epub 2018 May 11.

Department of Pharmacy , Uppsala University , Uppsala 75123 , Sweden.

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http://dx.doi.org/10.1021/acs.molpharmaceut.8b00064DOI Listing
June 2018

Aging-associated changes in hippocampal glycogen metabolism in mice. Evidence for and against astrocyte-to-neuron lactate shuttle.

Glia 2018 07 1;66(7):1481-1495. Epub 2018 Mar 1.

Department of Molecular Physiology and Neurobiology, University of Wroclaw, Sienkiewicza 21, Wroclaw, 50-335, Poland.

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http://dx.doi.org/10.1002/glia.23319DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6001795PMC
July 2018

Respiromics - An integrative analysis linking mitochondrial bioenergetics to molecular signatures.

Mol Metab 2018 03 5;9:4-14. Epub 2018 Jan 5.

Institute for Diabetes and Obesity, Helmholtz Diabetes Center, Helmholtz Zentrum München, 85764 Neuherberg, Germany. Electronic address:

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http://dx.doi.org/10.1016/j.molmet.2018.01.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5869730PMC
March 2018

Linking FOXO3, NCOA3, and TCF7L2 to Ras pathway phenotypes through a genome-wide forward genetic screen in human colorectal cancer cells.

Genome Med 2018 01 4;10(1). Epub 2018 Jan 4.

Department of Immunology, Science For Life Laboratory, Genetics and Pathology, Rudbeck Laboratory, Dag Hammarskjölds väg 21, Uppsala, 751 85, Sweden.

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http://dx.doi.org/10.1186/s13073-017-0511-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5755028PMC
January 2018

Optimization of quantitative proteomic analysis of clots generated from plasma of patients with venous thromboembolism.

Clin Proteomics 2017 28;14:38. Epub 2017 Nov 28.

Department of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Am Klopferspitz 18, Martinsried, 82152 Planegg, Germany.

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http://dx.doi.org/10.1186/s12014-017-9173-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5706328PMC
November 2017

Quantitative Analysis of Human Red Blood Cell Proteome.

J Proteome Res 2017 08 24;16(8):2752-2761. Epub 2017 Jul 24.

Biochemical Proteomics Group, Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry , Am Klopferspitz 18, 82152 Martinsried, Germany.

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http://dx.doi.org/10.1021/acs.jproteome.7b00025DOI Listing
August 2017

Label-Free Quantitative Analysis of Mitochondrial Proteomes Using the Multienzyme Digestion-Filter Aided Sample Preparation (MED-FASP) and "Total Protein Approach".

Methods Mol Biol 2017 ;1567:69-77

Biochemical Proteomics Group, Department of Proteomics and Signal Transduction, Max-Planck Institute for Biochemistry, Am Klopferspitz 18, D-82152, Martinsried, Germany.

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http://dx.doi.org/10.1007/978-1-4939-6824-4_6DOI Listing
February 2018

Subcellular fractionation of human liver reveals limits in global proteomic quantification from isolated fractions.

Anal Biochem 2016 09 14;509:82-88. Epub 2016 Jun 14.

Department of Pharmacy, Uppsala University, S-751 23 Uppsala, Sweden; Science for Life Laboratory, Uppsala University, S-751 23 Uppsala, Sweden.

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http://dx.doi.org/10.1016/j.ab.2016.06.006DOI Listing
September 2016

Proteomics Unveils Fibroblast-Cardiomyocyte Lactate Shuttle and Hexokinase Paradox in Mouse Muscles.

J Proteome Res 2016 08 24;15(8):2479-90. Epub 2016 Jun 24.

Biochemical Proteomics Group, Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry , Martinsried 82152, Germany.

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http://dx.doi.org/10.1021/acs.jproteome.5b01149DOI Listing
August 2016

A Proteomics Approach to the Protein Normalization Problem: Selection of Unvarying Proteins for MS-Based Proteomics and Western Blotting.

J Proteome Res 2016 07 23;15(7):2321-6. Epub 2016 Jun 23.

Biochemical Proteomics Group, ‡Department of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry , 82152 Martinsried, Germany.

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http://dx.doi.org/10.1021/acs.jproteome.6b00403DOI Listing
July 2016

Quantitative Evaluation of Filter Aided Sample Preparation (FASP) and Multienzyme Digestion FASP Protocols.

Anal Chem 2016 05 6;88(10):5438-43. Epub 2016 May 6.

Biochemical Proteomics Group, Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry , Am Klopferspitz 18, D-82152 Martinsried, Germany.

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http://dx.doi.org/10.1021/acs.analchem.6b00859DOI Listing
May 2016

The Proteome of Filter-Grown Caco-2 Cells With a Focus on Proteins Involved in Drug Disposition.

J Pharm Sci 2016 Feb 9;105(2):817-827. Epub 2016 Jan 9.

Department of Pharmacy, Uppsala University, 751 23 Uppsala, Sweden; Uppsala University Drug Optimization and Pharmaceutical Profiling Platform, Uppsala University, 751 23 Uppsala, Sweden; Science for Life Laboratory Drug Discovery and Development Platform, Uppsala University, 751 23 Uppsala, Sweden. Electronic address:

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http://dx.doi.org/10.1016/j.xphs.2015.10.030DOI Listing
February 2016

In-depth quantitative analysis and comparison of the human hepatocyte and hepatoma cell line HepG2 proteomes.

J Proteomics 2016 Mar 26;136:234-47. Epub 2016 Jan 26.

Department of Pharmacy, Uppsala University, Uppsala, Sweden; Science for Life Laboratory, Uppsala, Sweden.

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http://dx.doi.org/10.1016/j.jprot.2016.01.016DOI Listing
March 2016

Pattern of Melanotransferrin Expression in Human Colorectal Tissues: An Immunohistochemical Study on Potential Clinical Application.

Anticancer Res 2015 Dec;35(12):6551-61

Department of Pathology, Wrocław Medical University, Wrocław, Poland.

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December 2015

Absolute Proteome Analysis of Colorectal Mucosa, Adenoma, and Cancer Reveals Drastic Changes in Fatty Acid Metabolism and Plasma Membrane Transporters.

J Proteome Res 2015 Sep 17;14(9):4005-18. Epub 2015 Aug 17.

Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry , Am Klopferspitz 18, 82152 Martinsried, Germany.

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http://dx.doi.org/10.1021/acs.jproteome.5b00523DOI Listing
September 2015

Quantitative analysis of the Escherichia coli proteome.

Data Brief 2014 Dec 22;1:7-11. Epub 2014 Aug 22.

Department of Animal Molecular Physiology, Wroclaw University, Wroclaw, Poland.

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http://dx.doi.org/10.1016/j.dib.2014.08.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4459560PMC
December 2014

Addendum to 'Quantifying the impact of transporters on cellular drug permeability'.

Trends Pharmacol Sci 2015 Sep 24;36(9):559. Epub 2015 Jul 24.

Department of Pharmacy, Uppsala University, Box 580, SE-751 23 Uppsala, Sweden; Uppsala University Drug Optimization and Pharmaceutical Profiling Platform (UDOPP) - A Node of the Chemical Biology Consortium Sweden; Science for Life Laboratory Drug Discovery and Development Platform, Uppsala University, Uppsala, Sweden. Electronic address:

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http://dx.doi.org/10.1016/j.tips.2015.06.009DOI Listing
September 2015

Comparative Proteomic Analysis of Human Liver Tissue and Isolated Hepatocytes with a Focus on Proteins Determining Drug Exposure.

J Proteome Res 2015 Aug 20;14(8):3305-14. Epub 2015 Jul 20.

∥Uppsala University Drug Optimization and Pharmaceutical Profiling Platform (UDOPP), Chemical Biology Consortium, Science for Life Laboratory, 750 03 Uppsala, Sweden.

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http://dx.doi.org/10.1021/acs.jproteome.5b00334DOI Listing
August 2015

Integrating Proteomics and Enzyme Kinetics Reveals Tissue-Specific Types of the Glycolytic and Gluconeogenic Pathways.

J Proteome Res 2015 Aug 1;14(8):3263-73. Epub 2015 Jul 1.

‡Department of Animal Molecular Physiology, Wroclaw University, PL-50205 Wroclaw, Poland.

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http://dx.doi.org/10.1021/acs.jproteome.5b00276DOI Listing
August 2015

Homogenous Phase Enrichment of Cysteine-Containing Peptides for Improved Proteome Coverage.

Anal Chem 2015 Jul 10;87(13):6861-7. Epub 2015 Jun 10.

Biochemical Proteomics Group, Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry, Am Klopferspitz 18, D-82152 Martinsried, Germany.

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http://pubs.acs.org/doi/10.1021/acs.analchem.5b01215
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http://dx.doi.org/10.1021/acs.analchem.5b01215DOI Listing
July 2015

Fast and sensitive total protein and Peptide assays for proteomic analysis.

Anal Chem 2015 Apr 9;87(8):4110-6. Epub 2015 Apr 9.

†Biochemical Proteomics Group, Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry, Am Klopferspitz 18, D-82152 Martinsried, Germany.

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http://dx.doi.org/10.1021/ac504689zDOI Listing
April 2015

Quantifying the impact of transporters on cellular drug permeability.

Trends Pharmacol Sci 2015 May 19;36(5):255-62. Epub 2015 Mar 19.

Department of Pharmacy, Uppsala University, Box 580, SE-751 23 Uppsala, Sweden; Uppsala University Drug Optimization and Pharmaceutical Profiling Platform (UDOPP), Uppsala, Sweden; Science for Life Laboratory Drug Discovery and Development Platform, Uppsala University, Uppsala, Sweden. Electronic address:

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http://dx.doi.org/10.1016/j.tips.2015.02.009DOI Listing
May 2015

Absolute quantitative profiling of the key metabolic pathways in slow and fast skeletal muscle.

J Proteome Res 2015 Mar 2;14(3):1400-11. Epub 2015 Feb 2.

Department of Animal Molecular Physiology, Wroclaw University , Wroclaw 50-205, Poland.

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http://dx.doi.org/10.1021/pr5010357DOI Listing
March 2015

Absolute protein quantification allows differentiation of cell-specific metabolic routes and functions.

Proteomics 2015 Apr 17;15(7):1316-25. Epub 2015 Feb 17.

Biochemical Proteomics Group, Department of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Martinsried, Germany.

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http://dx.doi.org/10.1002/pmic.201400456DOI Listing
April 2015

The impact of high-fat diet on metabolism and immune defense in small intestine mucosa.

J Proteome Res 2015 Jan 23;14(1):353-65. Epub 2014 Oct 23.

Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry , 82152 Martinsried, Germany.

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http://dx.doi.org/10.1021/pr500833vDOI Listing
January 2015

Astrocyte-neuron crosstalk regulates the expression and subcellular localization of carbohydrate metabolism enzymes.

Glia 2015 Feb 24;63(2):328-40. Epub 2014 Sep 24.

Department of Animal Molecular Physiology, Institute of Experimental Biology, Wrocław University, Cybulskiego, 30, 50-205, Wrocław, Poland.

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http://dx.doi.org/10.1002/glia.22753DOI Listing
February 2015

A "proteomic ruler" for protein copy number and concentration estimation without spike-in standards.

Mol Cell Proteomics 2014 Dec 15;13(12):3497-506. Epub 2014 Sep 15.

From the ‡Department of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany

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http://dx.doi.org/10.1074/mcp.M113.037309DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4256500PMC
December 2014

Ultradeep human phosphoproteome reveals a distinct regulatory nature of Tyr and Ser/Thr-based signaling.

Cell Rep 2014 Sep 21;8(5):1583-94. Epub 2014 Aug 21.

Department of Proteomics and Signal Transduction, Max-Planck Institute of Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany. Electronic address:

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http://www.cell.com/cell-reports/pdf/S2211-1247(14)00620-2.p
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http://linkinghub.elsevier.com/retrieve/pii/S221112471400620
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http://dx.doi.org/10.1016/j.celrep.2014.07.036DOI Listing
September 2014

Multi-enzyme digestion FASP and the 'Total Protein Approach'-based absolute quantification of the Escherichia coli proteome.

J Proteomics 2014 Sep 22;109:322-31. Epub 2014 Jul 22.

Department of Animal Molecular Physiology, Wroclaw University, Wroclaw, Poland.

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http://dx.doi.org/10.1016/j.jprot.2014.07.012DOI Listing
September 2014

Hepatic uptake of atorvastatin: influence of variability in transporter expression on uptake clearance and drug-drug interactions.

Drug Metab Dispos 2014 Jul 5;42(7):1210-8. Epub 2014 May 5.

Department of Pharmacy, Uppsala University, Uppsala, Sweden (A.V., M.K., E.K.S., P.A.); Uppsala University Drug Optimization and Pharmaceutical Profiling Platform (UDOPP), Chemical Biology Consortium Sweden (M.K., P.A.), Uppsala, Sweden; Department of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Martinsried, Germany (J.R.W.); Pharmacokinetics, Dynamics and Drug Metabolism, Pfizer Global Research and Development, Pfizer Inc., Groton, Connecticut (Y.L.); and Department of Surgery, Uppsala University, Uppsala, Sweden (A.N.)

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http://dx.doi.org/10.1124/dmd.113.056309DOI Listing
July 2014

Proteomic sample preparation from formalin fixed and paraffin embedded tissue.

J Vis Exp 2013 Sep 2(79). Epub 2013 Sep 2.

Department of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry.

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http://dx.doi.org/10.3791/50589DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3857359PMC
September 2013

Proteomes: A New Proteomic Journal.

Proteomes 2012 Oct 26;1(1):1-2. Epub 2012 Oct 26.

Department of Proteomics and Signal Transduction, Max-Planck-Institute for Biochemistry, Am Klopferspitz 18, D-82152 Martinsried, Germany.

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http://dx.doi.org/10.3390/proteomes1010001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5314490PMC
October 2012

Quantification of the N-glycosylated secretome by super-SILAC during breast cancer progression and in human blood samples.

Mol Cell Proteomics 2013 Jan 22;12(1):158-71. Epub 2012 Oct 22.

Department of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Am Klopferspitz 18, D-82152 Martinsried, Germany.

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http://www.mcponline.org/lookup/doi/10.1074/mcp.M112.023614
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http://dx.doi.org/10.1074/mcp.M112.023614DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3536897PMC
January 2013

Proteomic workflow for analysis of archival formalin-fixed and paraffin-embedded clinical samples to a depth of 10 000 proteins.

Proteomics Clin Appl 2013 Apr 6;7(3-4):225-33. Epub 2013 Mar 6.

Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry, Martinsried, Germany.

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http://doi.wiley.com/10.1002/prca.201200046
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http://dx.doi.org/10.1002/prca.201200046DOI Listing
April 2013

Transcriptional repression of Hox genes by C. elegans HP1/HPL and H1/HIS-24.

PLoS Genet 2012 Sep 13;8(9):e1002940. Epub 2012 Sep 13.

Department of Genes and Behavior, Epigenetics in C elegans Group, Max Planck Institute for Biophysical Chemistry, Göttingen, Germany.

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http://dx.plos.org/10.1371/journal.pgen.1002940
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http://dx.doi.org/10.1371/journal.pgen.1002940DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3441639PMC
September 2012

Extensive quantitative remodeling of the proteome between normal colon tissue and adenocarcinoma.

Mol Syst Biol 2012 ;8:611

Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry, Martinsried, Germany.

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http://dx.doi.org/10.1038/msb.2012.44DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3472694PMC
January 2013

Mapping N-glycosylation sites across seven evolutionarily distant species reveals a divergent substrate proteome despite a common core machinery.

Mol Cell 2012 May;46(4):542-8

Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry, Martinsried 82152, Germany.

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http://dx.doi.org/10.1016/j.molcel.2012.04.031DOI Listing
May 2012

Consecutive proteolytic digestion in an enzyme reactor increases depth of proteomic and phosphoproteomic analysis.

Anal Chem 2012 Mar 1;84(6):2631-7. Epub 2012 Mar 1.

Department of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Martinsried, Germany.

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http://dx.doi.org/10.1021/ac300006bDOI Listing
March 2012

Deep proteome and transcriptome mapping of a human cancer cell line.

Mol Syst Biol 2011 Nov 8;7:548. Epub 2011 Nov 8.

Department for Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Martinsried, Germany.

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http://msb.embopress.org/cgi/doi/10.1038/msb.2011.81
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http://dx.doi.org/10.1038/msb.2011.81DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3261714PMC
November 2011

Identification and characterization of a novel ubiquitous nucleolar protein 'NARR' encoded by a gene overlapping the rab34 oncogene.

Nucleic Acids Res 2011 Sep 17;39(16):7103-13. Epub 2011 May 17.

Max Planck Institute for Biochemistry, Department of Proteomics and Signal Trasduction, Am Klopferspitz 18, Martinsried D 82152, Germany.

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http://dx.doi.org/10.1093/nar/gkr273DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3167632PMC
September 2011

High recovery FASP applied to the proteomic analysis of microdissected formalin fixed paraffin embedded cancer tissues retrieves known colon cancer markers.

J Proteome Res 2011 Jul 18;10(7):3040-9. Epub 2011 May 18.

Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry, D-82152 Martinsried, Germany.

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http://dx.doi.org/10.1021/pr200019mDOI Listing
July 2011

Use of stable isotope labeling by amino acids in cell culture as a spike-in standard in quantitative proteomics.

Nat Protoc 2011 Feb;6(2):147-57

Department of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Martinsried, Germany.

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http://www.nature.com/articles/nprot.2010.192
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http://dx.doi.org/10.1038/nprot.2010.192DOI Listing
February 2011

Comparison of ultrafiltration units for proteomic and N-glycoproteomic analysis by the filter-aided sample preparation method.

Anal Biochem 2011 Mar 6;410(2):307-9. Epub 2010 Dec 6.

Department of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, D-82152 Martinsried, Germany.

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http://dx.doi.org/10.1016/j.ab.2010.12.004DOI Listing
March 2011

Tools for phospho- and glycoproteomics of plasma membranes.

Amino Acids 2011 Jul;41(2):223-33

Department of Proteomics and Signal Transduction, Max-Planck Institute for Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany.

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http://dx.doi.org/10.1007/s00726-010-0796-8DOI Listing
July 2011

Precision mapping of an in vivo N-glycoproteome reveals rigid topological and sequence constraints.

Cell 2010 May;141(5):897-907

Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry, Am Klopferspitz 18, Martinsried D-82152, Germany.

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http://dx.doi.org/10.1016/j.cell.2010.04.012DOI Listing
May 2010

Proteome, phosphoproteome, and N-glycoproteome are quantitatively preserved in formalin-fixed paraffin-embedded tissue and analyzable by high-resolution mass spectrometry.

J Proteome Res 2010 Jul;9(7):3688-700

Department for Proteomics and Signal Transduction at Max-Planck Institute for Biochemistry, 82152 Martinsried, Germany.

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https://pubs.acs.org/doi/abs/10.1021/pr100234w
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http://dx.doi.org/10.1021/pr100234wDOI Listing
July 2010

Brain phosphoproteome obtained by a FASP-based method reveals plasma membrane protein topology.

J Proteome Res 2010 Jun;9(6):3280-9

Department of Proteomics and Signal Transduction, Max-Planck Institute for Biochemistry, Am Klopferspitz 18, Martinsried near Munich, Germany.

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http://dx.doi.org/10.1021/pr1002214DOI Listing
June 2010

Super-SILAC mix for quantitative proteomics of human tumor tissue.

Nat Methods 2010 May 4;7(5):383-5. Epub 2010 Apr 4.

Department of Proteomics and Signal Transduction, Max Planck Institute for Biochemistry, Martinsried, Germany.

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http://www.nature.com/articles/nmeth.1446
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http://dx.doi.org/10.1038/nmeth.1446DOI Listing
May 2010

Combination of FASP and StageTip-based fractionation allows in-depth analysis of the hippocampal membrane proteome.

J Proteome Res 2009 Dec;8(12):5674-8

Department of Proteomics and Signal Transduction, Max-Planck Institute for Biochemistry, Am Klopferspitz 18, D-82152 Martinsried, Germany.

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http://dx.doi.org/10.1021/pr900748nDOI Listing
December 2009

Mapping of lysine monomethylation of linker histones in human breast and its cancer.

J Proteome Res 2009 Sep;8(9):4207-15

Department of Proteomics and Signal Transduction, Max-Planck Institute for Biochemistry, Munich, Germany.

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http://dx.doi.org/10.1021/pr9000652DOI Listing
September 2009

Caenorhabditis elegans has a phosphoproteome atypical for metazoans that is enriched in developmental and sex determination proteins.

J Proteome Res 2009 Aug;8(8):4039-49

Department of Proteomics and Signal Transduction, Max-Planck-Institute for Biochemistry, Martinsried, Germany.

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http://pubs.acs.org/doi/abs/10.1021/pr900384k
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http://dx.doi.org/10.1021/pr900384kDOI Listing
August 2009

HIS-24 linker histone and SIR-2.1 deacetylase induce H3K27me3 in the Caenorhabditis elegans germ line.

Mol Cell Biol 2009 Jul 20;29(13):3700-9. Epub 2009 Apr 20.

Max Planck Institute for Biophysical Chemistry, Laboratory of Chromatin Biochemistry, Am Fassberg 11, D-37077 Göttingen, Germany.

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http://dx.doi.org/10.1128/MCB.00018-09DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2698755PMC
July 2009

Universal sample preparation method for proteome analysis.

Nat Methods 2009 May 19;6(5):359-62. Epub 2009 Apr 19.

Department of Proteomics and Signal Transduction, Max Planck Institute for Biochemistry, Martinsried, Germany.

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http://download.bioon.com.cn/upload/month_0905/20090519_084b
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http://dx.doi.org/10.1038/nmeth.1322DOI Listing
May 2009

Comparative proteomic profiling of membrane proteins in rat cerebellum, spinal cord, and sciatic nerve.

J Proteome Res 2009 May;8(5):2418-25

Department of Proteomics and Signal Transduction, Max-Planck-Institute for Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany.

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http://dx.doi.org/10.1021/pr8010364DOI Listing
May 2009

Evidence for insertional RNA editing in humans.

Curr Biol 2008 Nov 6;18(22):1760-5. Epub 2008 Nov 6.

Department of Proteomics and Signal Transduction, Max Planck Institute for Biochemistry, Am Klopferspitz 18, D-82152 Martinsried, Germany.

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http://dx.doi.org/10.1016/j.cub.2008.09.059DOI Listing
November 2008

Detergent-based but gel-free method allows identification of several hundred membrane proteins in single LC-MS runs.

J Proteome Res 2008 Nov 8;7(11):5028-32. Epub 2008 Oct 8.

Department of Proteomics and Signal Transduction, Max-Planck Institute for Biochemistry, Martinsried, Germany.

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http://dx.doi.org/10.1021/pr800412jDOI Listing
November 2008

Mass spectrometry-based proteomics: principles, perspectives, and challenges.

Arch Pathol Lab Med 2008 Oct;132(10):1566-9

Department of Proteomics and Signal Transduction, The Max-Planck-Institute for Biochemistry, Martinsried, Germany.

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http://dx.doi.org/10.1043/1543-2165(2008)132[1566:MSPPPA]2.0.CO;2DOI Listing
October 2008

Constitutive and dynamic phosphorylation and acetylation sites on NUCKS, a hypermodified nuclear protein, studied by quantitative proteomics.

Proteins 2008 Nov;73(3):710-8

Proteomics and Signal Transduction, Max-Planck Institute for Biochemistry, Martinsried, Germany.

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http://dx.doi.org/10.1002/prot.22104DOI Listing
November 2008

Protocol to enrich and analyze plasma membrane proteins from frozen tissues.

Methods Mol Biol 2008 ;432:175-83

Department of Proteomics and Signal Transduction, Max-Planck Institute of Biochemistry, Martinsried, Germany.

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http://dx.doi.org/10.1007/978-1-59745-028-7_12DOI Listing
August 2008

Nepsilon-formylation of lysine is a widespread post-translational modification of nuclear proteins occurring at residues involved in regulation of chromatin function.

Nucleic Acids Res 2008 Feb 1;36(2):570-7. Epub 2007 Dec 1.

Department of Proteomics and Signal Transduction, Max-Planck Institute for Biochemistry, Am Klopferspitz 18, D-82152 Martinsried, Germany.

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http://dx.doi.org/10.1093/nar/gkm1057DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2241850PMC
February 2008

Analysis of the mouse liver proteome using advanced mass spectrometry.

J Proteome Res 2007 Aug 3;6(8):2963-72. Epub 2007 Jul 3.

Department of Proteomics and Signal Transduction, Max-Planck-Institute for Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany.

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http://dx.doi.org/10.1021/pr0605668DOI Listing
August 2007

MAPU: Max-Planck Unified database of organellar, cellular, tissue and body fluid proteomes.

Nucleic Acids Res 2007 Jan 7;35(Database issue):D771-9. Epub 2006 Nov 7.

Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany.

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http://dx.doi.org/10.1093/nar/gkl784DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1781136PMC
January 2007

Mass spectrometric mapping of linker histone H1 variants reveals multiple acetylations, methylations, and phosphorylation as well as differences between cell culture and tissue.

Mol Cell Proteomics 2007 Jan 15;6(1):72-87. Epub 2006 Oct 15.

Department of Proteomics and Signal Transduction, Max Planck Institute for Biochemistry, D-82152 Martinsried, Germany.

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http://dx.doi.org/10.1074/mcp.M600255-MCP200DOI Listing
January 2007

Beyond linker histones and high mobility group proteins: global profiling of perchloric acid soluble proteins.

J Proteome Res 2006 Apr;5(4):925-34

Protana Inc., Toronto, Ontario, Canada M9W 7H4.

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http://dx.doi.org/10.1021/pr050415pDOI Listing
April 2006

Proteomic mapping of brain plasma membrane proteins.

Mol Cell Proteomics 2005 Apr 30;4(4):402-8. Epub 2005 Jan 30.

MDS Inc. Denmark, 5230 Odense M, Denmark.

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http://dx.doi.org/10.1074/mcp.T500002-MCP200DOI Listing
April 2005