Publications by authors named "Jeroen Krijgsveld"

100Publications

Updated and enhanced pig cardiac transcriptome based on long-read RNA sequencing and proteomics.

J Mol Cell Cardiol 2020 Oct 10;150:23-31. Epub 2020 Oct 10.

Section of Bioinformatics and Systems Cardiology, Klaus Tschira Institute for Integrative Computational Cardiology, University Hospital Heidelberg, Heidelberg, Germany; German Center for Cardiovascular Research (DZHK), Partner Site Heidelberg/Mannheim, 69120 Heidelberg, Germany. Electronic address:

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http://dx.doi.org/10.1016/j.yjmcc.2020.10.005DOI Listing
October 2020

The quest of cell surface markers for stem cell therapy.

Cell Mol Life Sci 2020 Jul 24. Epub 2020 Jul 24.

Department of Molecular Sciences, Macquarie University, Sydney, NSW, Australia.

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http://dx.doi.org/10.1007/s00018-020-03602-yDOI Listing
July 2020

Genomic Rewiring of SOX2 Chromatin Interaction Network during Differentiation of ESCs to Postmitotic Neurons.

Cell Syst 2020 Jun 17;10(6):480-494.e8. Epub 2020 Jun 17.

Structural and Computational Biology Unit, European Molecular Biology Laboratory, EMBL, Meyerhofstrasse 1 Heidelberg 69117, Germany. Electronic address:

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http://dx.doi.org/10.1016/j.cels.2020.05.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7322528PMC
June 2020

Quantitative Proteomics Identifies TCF1 as a Negative Regulator of Foxp3 Expression in Conventional T Cells.

iScience 2020 May 4;23(5):101127. Epub 2020 May 4.

Chair for Immunology, Regensburg University, Franz-Josef-Strauss-Allee 11, 93053 Regensburg, Germany; Regensburg Center for Interventional Immunology (RCI), Franz-Josef-Strauss-Allee 11, 93053 Regensburg, Germany; Immune Tolerance Group, Tumor Immunology Program, German Cancer Research Center (DKFZ), Im Neuenheimer Feld 280, 69120 Heidelberg, Germany. Electronic address:

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http://dx.doi.org/10.1016/j.isci.2020.101127DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7229326PMC
May 2020

Protease-resistant streptavidin for interaction proteomics.

Mol Syst Biol 2020 05;16(5):e9370

Division of Proteomics of Stem Cells and Cancer, German Cancer Research Center (DKFZ), Heidelberg, Germany.

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http://dx.doi.org/10.15252/msb.20199370DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7218406PMC
May 2020

'Corrigendum to "Ataxin-10 is part of a cachexokine cocktail triggering cardiac metabolic dysfunction in cancer cachexia" [Molecular Metabolism 5 (2) (2015) 67-78]'.

Mol Metab 2020 05 4;35:100970. Epub 2020 Mar 4.

Institute for Diabetes and Cancer (IDC), Helmholtz Center Munich, 85764, Neuherberg, Germany; Joint Heidelberg-IDC Translational Diabetes Program, Inner Medicine I, Heidelberg University Hospital, 69120, Heidelberg, Germany; DZHK (German Centre for Cardiovascular Research), Partner site Heidelberg/Mannheim, 69120, Heidelberg, Germany; German Center for Diabetes Research (DZD), 85764, Neuherberg, Germany. Electronic address:

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http://dx.doi.org/10.1016/j.molmet.2020.02.013DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7082542PMC
May 2020

Multi-level and lineage-specific interactomes of the Hox transcription factor Ubx contribute to its functional specificity.

Nat Commun 2020 03 13;11(1):1388. Epub 2020 Mar 13.

Heidelberg University, Centre for Organismal Studies (COS) Heidelberg, Department of Developmental Biology and CellNetworks - Cluster of Excellence, Heidelberg, Germany.

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http://dx.doi.org/10.1038/s41467-020-15223-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7069958PMC
March 2020

Organic phase separation opens up new opportunities to interrogate the RNA-binding proteome.

Curr Opin Chem Biol 2020 02 1;54:70-75. Epub 2020 Mar 1.

Cambridge Center for Proteomics, Milner Therapeutics Institute, Jeffrey Cheah Biomedical Centre, University of Cambridge, Puddicombe Way, Cambridge CB2 0AW, UK. Electronic address:

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http://dx.doi.org/10.1016/j.cbpa.2020.01.009DOI Listing
February 2020

Human Mast Cell Proteome Reveals Unique Lineage, Putative Functions, and Structural Basis for Cell Ablation.

Immunity 2020 02 11;52(2):404-416.e5. Epub 2020 Feb 11.

Division for Cellular Immunology, German Cancer Research Center, Im Neuenheimer Feld 280, 69120 Heidelberg, Germany. Electronic address:

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http://dx.doi.org/10.1016/j.immuni.2020.01.012DOI Listing
February 2020

The RNA-Binding Protein YBX3 Controls Amino Acid Levels by Regulating SLC mRNA Abundance.

Cell Rep 2019 06;27(11):3097-3106.e5

European Molecular Biology Laboratory (EMBL), Meyerhofstrasse 1, Heidelberg, Germany. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2019.05.039DOI Listing
June 2019

Secretome profiling of heterotypic spheroids suggests a role of fibroblasts in HIF-1 pathway modulation and colorectal cancer photodynamic resistance.

Cell Oncol (Dordr) 2019 Apr 12;42(2):173-196. Epub 2019 Feb 12.

Departamento de Biología Molecular, Facultad de Ciencias Exactas Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, 5800, Río Cuarto, Córdoba, Argentina.

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http://link.springer.com/10.1007/s13402-018-00418-8
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http://dx.doi.org/10.1007/s13402-018-00418-8DOI Listing
April 2019

Noncanonical Modulation of the eIF2 Pathway Controls an Increase in Local Translation during Neural Wiring.

Mol Cell 2019 02 27;73(3):474-489.e5. Epub 2018 Dec 27.

Department of Physiology, Development and Neuroscience, Anatomy Building, University of Cambridge, Cambridge CB2 3DY, UK. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2018.11.013DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6375727PMC
February 2019

The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest.

Cell 2019 01 6;176(1-2):391-403.e19. Epub 2018 Dec 6.

German Cancer Research Center (DKFZ), Im Neuenheimer Feld 581, Heidelberg, Germany; Heidelberg University, Medical Faculty, Im Neuenheimer Feld 672, Heidelberg, Germany. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S00928674183146
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http://dx.doi.org/10.1016/j.cell.2018.11.004DOI Listing
January 2019

Single-pot, solid-phase-enhanced sample preparation for proteomics experiments.

Nat Protoc 2019 01;14(1):68-85

Division Proteomics of Stem Cells and Cancer, German Cancer Research Center (DKFZ), Heidelberg, Germany.

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http://www.nature.com/articles/s41596-018-0082-x
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http://dx.doi.org/10.1038/s41596-018-0082-xDOI Listing
January 2019

Spatial Distribution of Endogenous Tissue Protease Activity in Gastric Carcinoma Mapped by MALDI Mass Spectrometry Imaging.

Mol Cell Proteomics 2019 01 7;18(1):151-161. Epub 2018 Oct 7.

From the ‡Center for Mass Spectrometry and Optical Spectroscopy (CeMOS), Mannheim University of Applied Sciences, Paul-Wittsack Str. 10, 68163 Mannheim, Germany;

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http://www.mcponline.org/lookup/doi/10.1074/mcp.RA118.000980
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http://dx.doi.org/10.1074/mcp.RA118.000980DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6317471PMC
January 2019

Rapid Cue-Specific Remodeling of the Nascent Axonal Proteome.

Neuron 2018 07 28;99(1):29-46.e4. Epub 2018 Jun 28.

Department of Physiology Development and Neuroscience, Downing Street, University of Cambridge, Cambridge CB2 3DY, UK. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S08966273183047
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http://dx.doi.org/10.1016/j.neuron.2018.06.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6048689PMC
July 2018

Advances in stem cell proteomics.

Curr Opin Genet Dev 2017 Oct 11;46:149-155. Epub 2017 Aug 11.

German Cancer Research Center (DKFZ), Heidelberg, Germany; Excellence Cluster CellNetworks, Heidelberg University, Heidelberg, Germany. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S0959437X173001
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http://dx.doi.org/10.1016/j.gde.2017.07.007DOI Listing
October 2017

Specific RNP capture with antisense LNA/DNA mixmers.

RNA 2017 08 5;23(8):1290-1302. Epub 2017 May 5.

European Molecular Biology Laboratory (EMBL), 69117 Heidelberg, Germany.

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http://dx.doi.org/10.1261/rna.060798.117DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5513073PMC
August 2017

Proteome and Secretome Characterization of Glioblastoma-Derived Neural Stem Cells.

Stem Cells 2017 04 4;35(4):967-980. Epub 2016 Dec 4.

European Molecular Biology Laboratory (EMBL), Heidelberg, Germany.

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http://doi.wiley.com/10.1002/stem.2542
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http://dx.doi.org/10.1002/stem.2542DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6135235PMC
April 2017

Turning Over Paradigms in Protein Decay.

Dev Cell 2016 11;39(3):284-285

German Cancer Research Center (DKFZ), 69120 Heidelberg, Germany; Excellence Cluster Cell Networks, Heidelberg University, 69120 Heidelberg, Germany. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S15345807163075
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http://dx.doi.org/10.1016/j.devcel.2016.10.018DOI Listing
November 2016

Expanding the Circuitry of Pluripotency by Selective Isolation of Chromatin-Associated Proteins.

Mol Cell 2016 11 20;64(3):624-635. Epub 2016 Oct 20.

German Cancer Research Center (DKFZ), Im Neuenheimer Feld 581, 69120 Heidelberg, Germany; Excellence Cluster CellNetworks, Heidelberg University, 69120 Heidelberg, Germany; European Molecular Biology Laboratory (EMBL), Genome Biology Unit, Meyerhofstrasse 1, 69117 Heidelberg, Germany. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2016.09.019DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5101186PMC
November 2016

Comprehensive Identification of RNA-Binding Domains in Human Cells.

Mol Cell 2016 08 21;63(4):696-710. Epub 2016 Jul 21.

European Molecular Biology Laboratory (EMBL), Meyerhofstrasse 1, 69117 Heidelberg, Germany. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2016.06.029DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5003815PMC
August 2016

The Cardiomyocyte RNA-Binding Proteome: Links to Intermediary Metabolism and Heart Disease.

Cell Rep 2016 08 21;16(5):1456-1469. Epub 2016 Jul 21.

EMBL-Australia Collaborating Group, Department of Genome Sciences, The John Curtin School of Medical Research (JCSMR), The Australian National University, Acton (Canberra) ACT 2601, Australia; Victor Chang Cardiac Research Institute, Darlinghurst (Sydney), NSW 2010, Australia. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2016.06.084DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4977271PMC
August 2016

Identification of RNA-binding Proteins in Macrophages by Interactome Capture.

Mol Cell Proteomics 2016 08 8;15(8):2699-714. Epub 2016 Jun 8.

From the ‡Department of Intensive Care and Intermediate Care, University Hospital RWTH Aachen, Pauwelsstr. 30, 52074 Aachen, Germany;

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http://dx.doi.org/10.1074/mcp.M115.056564DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4974345PMC
August 2016

Identification of Maturation-Specific Proteins by Single-Cell Proteomics of Human Oocytes.

Mol Cell Proteomics 2016 08 23;15(8):2616-27. Epub 2016 May 23.

§European Molecular Biology Laboratory (EMBL), Meyerhofstrasse 1, 69117 Heidelberg, Germany; ‖German Cancer Research Center and Heidelberg University, Im Neuenheimer Feld 581, 69120, Heidelberg, Germany

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http://dx.doi.org/10.1074/mcp.M115.056887DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4974340PMC
August 2016

Ataxin-10 is part of a cachexokine cocktail triggering cardiac metabolic dysfunction in cancer cachexia.

Mol Metab 2016 Feb 26;5(2):67-78. Epub 2015 Nov 26.

Institute for Diabetes and Cancer (IDC), Helmholtz Center Munich, 85764 Neuherberg, Germany; Joint Heidelberg-IDC Translational Diabetes Program, Inner Medicine I, Heidelberg University Hospital, 69120 Heidelberg, Germany; DZHK (German Centre for Cardiovascular Research), Partner site Heidelberg/Mannheim, 69120 Heidelberg, Germany; German Center for Diabetes Research (DZD), 85764 Neuherberg, Germany. Electronic address:

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http://dx.doi.org/10.1016/j.molmet.2015.11.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4735665PMC
February 2016

Proteomic Analysis Reveals Branch-specific Regulation of the Unfolded Protein Response by Nonsense-mediated mRNA Decay.

Mol Cell Proteomics 2016 05 20;15(5):1584-97. Epub 2016 Feb 20.

From the ‡Molecular Medicine Partnership Unit, European Molecular Biology Laboratory, University of Heidelberg, Heidelberg, Germany; §Department of Pediatric Oncology, Hematology and Immunology, University of Heidelberg, Heidelberg, Germany;

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http://dx.doi.org/10.1074/mcp.M115.054056DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4858941PMC
May 2016

Activation of the TGFβ pathway impairs endothelial to haematopoietic transition.

Sci Rep 2016 Feb 19;6:21518. Epub 2016 Feb 19.

European Molecular Biology Laboratory, Mouse Biology Unit, Via Ercole Ramarini 32, 00015 Monterotondo, Italy.

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http://dx.doi.org/10.1038/srep21518DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4759586PMC
February 2016

Bifunctional Sphingosine for Cell-Based Analysis of Protein-Sphingolipid Interactions.

ACS Chem Biol 2016 Jan 25;11(1):222-30. Epub 2015 Nov 25.

European Molecular Biology Laboratory , Cell Biology and Biophysics Unit, Meyerhofstr. 1, 69117 Heidelberg, Germany.

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http://dx.doi.org/10.1021/acschembio.5b00810DOI Listing
January 2016

Comprehensive Identification of RNA-Binding Proteins by RNA Interactome Capture.

Methods Mol Biol 2016 ;1358:131-9

European Molecular Biology Laboratory, Meyerhofstrasse 1, 69117, Heidelberg, Germany.

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http://dx.doi.org/10.1007/978-1-4939-3067-8_8DOI Listing
July 2016

Transcription Factor 7 Limits Regulatory T Cell Generation in the Thymus.

J Immunol 2015 Oct 31;195(7):3058-70. Epub 2015 Aug 31.

Immune Tolerance, Tumor Immunology Program, German Cancer Research Center, 69120 Heidelberg, Germany; and

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http://dx.doi.org/10.4049/jimmunol.1500821DOI Listing
October 2015

Inflammation-Induced Emergency Megakaryopoiesis Driven by Hematopoietic Stem Cell-like Megakaryocyte Progenitors.

Cell Stem Cell 2015 Oct 20;17(4):422-34. Epub 2015 Aug 20.

Heidelberg Institute for Stem Cell Technology and Experimental Medicine (HI-STEM gGmbH), 69120 Heidelberg, Germany; Division of Stem Cells and Cancer, Hematopoietic Stem Cells and Stress Group, Deutsches Krebsforschungszentrum (DKFZ), 69120 Heidelberg, Germany. Electronic address:

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http://dx.doi.org/10.1016/j.stem.2015.07.007DOI Listing
October 2015

Transcriptome-wide profiling and posttranscriptional analysis of hematopoietic stem/progenitor cell differentiation toward myeloid commitment.

Stem Cell Reports 2014 Nov 25;3(5):858-75. Epub 2014 Sep 25.

Division of Stem Cells and Cancer, Deutsches Krebsforschungszentrum (DKFZ), 69120 Heidelberg, Germany; Heidelberg Institute for Stem Cell Technology and Experimental Medicine (HI-STEM gGmbH), 69120 Heidelberg, Germany; German Cancer Consortium (DKTK). Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S22136711140026
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http://dx.doi.org/10.1016/j.stemcr.2014.08.012DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4235149PMC
November 2014

Ultrasensitive proteome analysis using paramagnetic bead technology.

Mol Syst Biol 2014 Oct 30;10:757. Epub 2014 Oct 30.

European Molecular Biology Laboratory, Genome Biology Unit, Heidelberg, Germany

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4299378PMC
http://dx.doi.org/10.15252/msb.20145625DOI Listing
October 2014

Quantitative proteomics reveals the dynamics of protein changes during Drosophila oocyte maturation and the oocyte-to-embryo transition.

Proc Natl Acad Sci U S A 2014 Nov 27;111(45):16023-8. Epub 2014 Oct 27.

Whitehead Institute, Cambridge, MA 02142; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02138; and

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http://dx.doi.org/10.1073/pnas.1418657111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4234593PMC
November 2014

5-azacytidine inhibits nonsense-mediated decay in a MYC-dependent fashion.

EMBO Mol Med 2014 Dec;6(12):1593-609

Molecular Medicine Partnership Unit, European Molecular Biology Laboratory, University of Heidelberg, Heidelberg, Germany Department of Pediatric Oncology, Hematology and Immunology, University of Heidelberg, Heidelberg, Germany

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http://dx.doi.org/10.15252/emmm.201404461DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4287977PMC
December 2014

Identification of regulatory networks in HSCs and their immediate progeny via integrated proteome, transcriptome, and DNA methylome analysis.

Cell Stem Cell 2014 Oct 21;15(4):507-522. Epub 2014 Aug 21.

Division of Stem Cells and Cancer, Deutsches Krebsforschungszentrum (DKFZ), 69120 Heidelberg, Germany; Heidelberg Institute for Stem Cell Technology and Experimental Medicine (HI-STEM gGmbH), 69120 Heidelberg, Germany; German Cancer Consortium (DKTK), 69120 Heidelberg, Germany. Electronic address:

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http://www.cell.com/cms/attachment/2035154136/2050496774/mmc
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http://www-huber.embl.de/pub/pdf/CabezasWallscheid2014.pdf
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http://linkinghub.elsevier.com/retrieve/pii/S193459091400301
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http://dx.doi.org/10.1016/j.stem.2014.07.005DOI Listing
October 2014

New advances in reproductive biomedicine.

Biomed Res Int 2014 19;2014:529170. Epub 2014 Jun 19.

Research Centre for Reproductive Health, Discipline of Obstetrics and Gynaecology, School of Paediatrics and Reproductive Health, Robinson Institute, The University of Adelaide, Adelaide, SA, Australia.

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http://dx.doi.org/10.1155/2014/529170DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4086621PMC
March 2015

Combining pulsed SILAC labeling and click-chemistry for quantitative secretome analysis.

Methods Mol Biol 2014 ;1174:101-14

Genome Biology Unit, European Molecular Biology Laboratory, Meyerhofstraße 1, 69117, Heidelberg, Germany.

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http://dx.doi.org/10.1007/978-1-4939-0944-5_7DOI Listing
January 2015

Widespread changes in the posttranscriptional landscape at the Drosophila oocyte-to-embryo transition.

Cell Rep 2014 Jun 29;7(5):1495-1508. Epub 2014 May 29.

Whitehead Institute, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02142, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2014.05.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4143395PMC
June 2014

Proteomes of animal oocytes: what can we learn for human oocytes in the in vitro fertilization programme?

Biomed Res Int 2014 3;2014:856907. Epub 2014 Apr 3.

European Molecular Biology Laboratory, Meyerhofstraße 1, 69117 Heidelberg, Germany.

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http://www.hindawi.com/journals/bmri/2014/856907/
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http://dx.doi.org/10.1155/2014/856907DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3996292PMC
January 2015

Rapid temporal dynamics of transcription, protein synthesis, and secretion during macrophage activation.

Mol Cell Proteomics 2014 Mar 6;13(3):792-810. Epub 2014 Jan 6.

European Molecular Biology Laboratory, Genome Biology Unit, Meyerhofstrasse 1, 69117 Heidelberg, Germany.

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http://dx.doi.org/10.1074/mcp.M113.030916DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3945909PMC
March 2014

CHD4 is a RanGTP-dependent MAP that stabilizes microtubules and regulates bipolar spindle formation.

Curr Biol 2013 Dec 21;23(24):2443-51. Epub 2013 Nov 21.

European Molecular Biology Laboratory, Meyerhofstrasse 1, Heidelberg 69117, Germany.

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https://linkinghub.elsevier.com/retrieve/pii/S09609822130125
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http://dx.doi.org/10.1016/j.cub.2013.09.062DOI Listing
December 2013

Src kinase modulates the apoptotic p53 pathway by altering HIPK2 localization.

Cell Cycle 2014 25;13(1):115-25. Epub 2013 Oct 25.

German Cancer Research Center (DKFZ); Research Group Cellular Senescence; DKFZ-ZMBH Alliance; Heidelberg, Germany.

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http://dx.doi.org/10.4161/cc.26857DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3925721PMC
September 2014

Proteomic analysis of cell fate decision.

Curr Opin Genet Dev 2013 Oct 10;23(5):540-7. Epub 2013 Aug 10.

European Molecular Biology Laboratory, Genome Biology Unit, Meyerhofstrasse 1, 69117 Heidelberg, Germany.

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http://dx.doi.org/10.1016/j.gde.2013.06.004DOI Listing
October 2013

The RNA-binding protein repertoire of embryonic stem cells.

Nat Struct Mol Biol 2013 Sep 4;20(9):1122-30. Epub 2013 Aug 4.

1] Center for RNA Research, Institute for Basic Science (IBS), Seoul, Korea. [2] School of Biological Sciences, Seoul National University, Seoul, Korea.

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http://dx.doi.org/10.1038/nsmb.2638DOI Listing
September 2013

Origin of monocytes and macrophages in a committed progenitor.

Nat Immunol 2013 Aug 30;14(8):821-30. Epub 2013 Jun 30.

Immune Tolerance, Tumor Immunology Program, German Cancer Research Center, Heidelberg, Germany.

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http://dx.doi.org/10.1038/ni.2638DOI Listing
August 2013

Properties of isotope patterns and their utility for peptide identification in large-scale proteomic experiments.

Rapid Commun Mass Spectrom 2013 May;27(9):1067-75

European Molecular Biology Laboratory, Genome Biology Unit, Heidelberg, Germany.

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http://doi.wiley.com/10.1002/rcm.6551
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http://dx.doi.org/10.1002/rcm.6551DOI Listing
May 2013

Developments in quantitative mass spectrometry for the analysis of proteome dynamics.

Trends Biotechnol 2012 Dec 27;30(12):668-76. Epub 2012 Oct 27.

European Molecular Biology Laboratory (EMBL), Genome Biology Unit, Heidelberg, Germany.

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http://dx.doi.org/10.1016/j.tibtech.2012.09.007DOI Listing
December 2012

MSQuant: a platform for stable isotope-based quantitative proteomics.

Methods Mol Biol 2012 ;893:511-22

Department of Biochemistry and Molecular Biology, Centre for High-Throughput Biology, University of British Columbia, Vancouver, BC, Canada.

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http://dx.doi.org/10.1007/978-1-61779-885-6_31DOI Listing
September 2012

Proteomic cornerstones of hematopoietic stem cell differentiation: distinct signatures of multipotent progenitors and myeloid committed cells.

Mol Cell Proteomics 2012 Aug 27;11(8):286-302. Epub 2012 Mar 27.

Division of Stem Cells and Cancer, Deutsches Krebsforschungszentrum (DKFZ), INF 280, DE-69120 Heidelberg, Germany.

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http://dx.doi.org/10.1074/mcp.M111.016790DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3412962PMC
August 2012

Proteomic analysis of stem cell differentiation and early development.

Cold Spring Harb Perspect Biol 2012 Mar 1;4(3). Epub 2012 Mar 1.

Department of Anatomy and Embryology, Leiden University Medical Center, ZC Leiden.

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http://dx.doi.org/10.1101/cshperspect.a008177DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3282409PMC
March 2012

Metabolic labeling of model organisms using heavy nitrogen (15N).

Methods Mol Biol 2011 ;753:29-42

Department of Biochemistry and Molecular Biology, Centre for High-Throughput Biology, University of British Columbia, Vancouver, BC, Canada.

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http://dx.doi.org/10.1007/978-1-61779-148-2_2DOI Listing
September 2011

Defining pluripotent stem cells through quantitative proteomic analysis.

Expert Rev Proteomics 2011 Feb;8(1):29-42

European Molecular Biology Laboratory, Genome Biology Unit, Heidelberg, Germany.

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http://dx.doi.org/10.1586/epr.10.100DOI Listing
February 2011

The ecoresponsive genome of Daphnia pulex.

Science 2011 Feb;331(6017):555-61

Center for Genomics and Bioinformatics, Indiana University, 915 East Third Street, Bloomington, IN 47405, USA.

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http://www3.nd.edu/~mpfrende/PDFs/Science-2011-Colbourne-555
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http://www.sciencemag.org/cgi/doi/10.1126/science.1197761
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http://dx.doi.org/10.1126/science.1197761DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3529199PMC
February 2011

Identification of cell surface proteins for antibody-based selection of human embryonic stem cell-derived cardiomyocytes.

J Proteome Res 2010 Mar;9(3):1610-8

Hubrecht Institute, Developmental Biology and Stem Cell Research, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands.

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http://dx.doi.org/10.1021/pr901138aDOI Listing
March 2010

A P4-ATPase protein interaction network reveals a link between aminophospholipid transport and phosphoinositide metabolism.

J Proteome Res 2010 Feb;9(2):833-42

Membrane Enzymology, Bijvoet Center and Institute of Biomembranes, Utrecht University, 3584 CH Utrecht, The Netherlands.

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http://pubs.acs.org/doi/abs/10.1021/pr900743b
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February 2010

Quantitative proteomics by metabolic labeling of model organisms.

Mol Cell Proteomics 2010 Jan 19;9(1):11-24. Epub 2009 Nov 19.

Biomolecular Mass Spectrometry and Proteomics Group, Bijvoet Center for Biomolecular Research, and Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Netherlands Proteomics Centre, 3584CH Utrecht, The Netherlands.

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http://dx.doi.org/10.1074/mcp.R900001-MCP200DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2808257PMC
January 2010

Worms from venus and mars: proteomics profiling of sexual differences in Caenorhabditis elegans using in vivo 15N isotope labeling.

J Proteome Res 2010 Jan;9(1):341-51

Biomolecular Mass Spectrometry and Proteomics Group, Bijvoet Centre for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands.

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http://dx.doi.org/10.1021/pr900678jDOI Listing
January 2010

Phosphorylation dynamics during early differentiation of human embryonic stem cells.

Cell Stem Cell 2009 Aug;5(2):214-26

Developmental Biology and Stem Cell Research, Hubrecht Institute, Utrecht, The Netherlands.

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http://dx.doi.org/10.1016/j.stem.2009.05.021DOI Listing
August 2009

Orthogonal separation techniques for the characterization of the yeast nuclear proteome.

J Proteome Res 2009 Jul;8(7):3451-63

Biomolecular Mass Spectrometry and Proteomics Group, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Sorbonnelaan 16, 3584 CA Utrecht, The Netherlands.

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http://dx.doi.org/10.1021/pr9000948DOI Listing
July 2009

Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach.

Anal Chem 2009 Jun;81(11):4493-501

Biomolecular Mass Spectrometry and Proteomics Group, Utrecht Institute for Pharmaceutical Sciences and Bijvoet Center for Biomolecular Research, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands.

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http://dx.doi.org/10.1021/ac9004309DOI Listing
June 2009

An AC-5 cathepsin B-like protease purified from Haemonchus contortus excretory secretory products shows protective antigen potential for lambs.

Vet Res 2009 Jul-Aug;40(4):41. Epub 2009 Apr 30.

Division of Parasitology and Tropical Veterinary Medicine, Department of Infectious Diseases and Immunology, Utrecht University, Utrecht, The Netherlands.

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http://dx.doi.org/10.1051/vetres/2009025DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2701184PMC
November 2009

Novel Hsp90 partners discovered using complementary proteomic approaches.

Cell Stress Chaperones 2009 Nov 26;14(6):629-38. Epub 2009 Apr 26.

Department of Membrane Enzymology, Bijvoet Center for Biomolecular Research, Utrecht University, Padualaan 8, Utrecht 3584 CH, The Netherlands.

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http://dx.doi.org/10.1007/s12192-009-0115-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2866955PMC
November 2009

Proteomics and human embryonic stem cells.

Stem Cell Res 2008 Sep 29;1(3):169-82. Epub 2008 May 29.

Developmental Biology and Stem Cell Research, Hubrecht Institute, Utrecht, The Netherlands.

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http://dx.doi.org/10.1016/j.scr.2008.05.003DOI Listing
September 2008

Searching for proteins of Mycobacterium avium subspecies paratuberculosis with diagnostic potential by comparative qualitative proteomic analysis of mycobacterial tuberculins.

Vet Microbiol 2009 Jul 20;138(1-2):191-6. Epub 2009 Mar 20.

Department of Infectious Diseases and Immunology, Immunology Division, Faculty of Veterinary Medicine, Utrecht University, Utrecht, The Netherlands.

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http://linkinghub.elsevier.com/retrieve/pii/S037811350900151
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http://dx.doi.org/10.1016/j.vetmic.2009.03.021DOI Listing
July 2009

In vivo stable isotope labeling of fruit flies reveals post-transcriptional regulation in the maternal-to-zygotic transition.

Mol Cell Proteomics 2009 Jul 24;8(7):1566-78. Epub 2009 Mar 24.

Bijvoet Center for Biomolecular Research, Utrecht University, Utrecht, The Netherlands.

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http://dx.doi.org/10.1074/mcp.M900114-MCP200DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2709187PMC
July 2009