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  • Campusvej 55

    5230 Odense M

    Denmark

20002023

Research output per year

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Research Output

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Journal article
2020

A draft genome sequence of the elusive giant squid, Architeuthis dux

da Fonseca, R. R., Couto, A., Machado, A. M., Brejova, B., Albertin, C. B., Silva, F., Gardner, P., Baril, T., Hayward, A., Campos, A., Ribeiro, Â. M., Barrio-Hernandez, I., Hoving, H-J., Tafur-Jimenez, R., Chu, C., Frazão, B., Petersen, B., Peñaloza, F., Musacchia, F., Alexander, G. C. & 24 others, Osório, H., Winkelmann, I., Simakov, O., Rasmussen, S., Rahman, M. Z., Pisani, D., Vinther, J., Jarvis, E., Zhang, G., Strugnell, J. M., Castro, L. F. C., Fedrigo, O., Patricio, M., Li, Q., Rocha, S., Antunes, A., Wu, Y., Ma, B., Sanges, R., Vinar, T., Blagoev, B., Sicheritz-Ponten, T., Nielsen, R. & Gilbert, M. T. P., 1. Jan 2020, In : GigaScience. 9, 1

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
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Multi-omics characterization of a diet-induced obese model of non-alcoholic steatohepatitis

Ægidius, H. M., Veidal, S. S., Feigh, M., Hallenborg, P., Puglia, M., Pers, T. H., Vrang, N., Jelsing, J., Kornum, B. R., Blagoev, B. & Rigbolt, K. T. G., 24. Jan 2020, In : Scientific Reports. 10, 1, p. 1148

Research output: Contribution to journalJournal articleResearchpeer-review

Phosphoproteomic profiling reveals a defined genetic program for osteoblastic lineage commitment of human bone marrow-derived stromal stem cells

Barrio-Hernandez, I., Jafari, A., Rigbolt, K. T. G., Hallenborg, P., Sanchez-Quiles, V., Skovrind, I., Akimov, V., Kratchmarova, I., Dengjel, J., Kassem, M. & Blagoev, B., Jan 2020, In : Genome Research. 30, 1, p. 127-137 11 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
2 Downloads (Pure)
2019

Phosphoproteomic and functional analyses reveal sperm-specific protein changes downstream of kappa opioid receptor in human spermatozoa

Urizar-Arenaza, I., Osinalde, N., Akimov, V., Puglia, M., Candenas, L., Pinto, F. M., Muñoa-Hoyos, I., Gianzo, M., Matorras, R., Irazusta, J., Blagoev, B., Subiran, N. & Kratchmarova, I., 15. Mar 2019, In : Molecular and Cellular Proteomics. 18, Suppl 1, p. S118-S131

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
165 Downloads (Pure)

Time-Resolved Systems Medicine Reveals Viral Infection-Modulating Host Targets

Wiwie, C., Kuznetsova, I., Mostafa, A., Rauch, A., Haakonsson, A., Barrio-Hernandez, I., Blagoev, B., Mandrup, S., Schmidt, H. H. H. W., Pleschka, S., Röttger, R. & Baumbach, J., 2019, In : Systems medicine (New Rochelle, N.Y.). 2, 1, 9 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
101 Downloads (Pure)
2018

Data on mass spectrometry-based proteomics for studying the involvement of CYLD in the ubiquitination events downstream of EGFR activation

Sanchez-Quiles, V., Osinalde, N., Akimov, V., Kratchmarova, I. & Blagoev, B., 1. Jun 2018, In : Data in Brief. 18, p. 1856-1863

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
126 Downloads (Pure)

Elucidation of time-dependent systems biology cell response patterns with time course network enrichment

Wiwie, C., Rauch, A., Haakonsson, A., Barrio-Hernandez, I., Blagoev, B., Mandrup, S., Röttger, R. & Baumbach, J., 2018, In : arxiv.org.

Research output: Contribution to journalJournal articleResearch

Open Access
File
149 Downloads (Pure)

StUbEx PLUS-A Modified Stable Tagged Ubiquitin Exchange System for Peptide Level Purification and In-Depth Mapping of Ubiquitination Sites

Akimov, V., Olsen, L. C. B., Hansen, S. V. F., Barrio-Hernandez, I., Puglia, M., Jensen, S. S., Solov'yov, I. A., Kratchmarova, I. & Blagoev, B., 2018, In : Journal of Proteome Research. 17, 1, p. 296-304

Research output: Contribution to journalJournal articleResearchpeer-review

UbiSite approach for comprehensive mapping of lysine and N-terminal ubiquitination sites

Akimov, V., Barrio-Hernandez, I., Hansen, S. V. F., Hallenborg, P., Pedersen, A-K., Bekker-Jensen, D. B., Puglia, M., Christensen, S. D. K., Vanselow, J. T., Nielsen, M. M., Kratchmarova, I., Kelstrup, C. D., Olsen, J. V. & Blagoev, B., 2018, In : Nature Structural and Molecular Biology. 25, 7, p. 631-640

Research output: Contribution to journalJournal articleResearchpeer-review

2017

Characterization of receptor-associated protein complex assembly in interleukin (IL)-2- and IL-15-activated T-cell lines

Osinalde, N., Sánchez-Quiles, V., Akimov, V., Aloria, K., Arizmendi, J. M., Blagoev, B. & Kratchmarova, I., 6. Jan 2017, In : Journal of Proteome Research. 16, 1, p. 106-121

Research output: Contribution to journalJournal articleResearchpeer-review

Cylindromatosis Tumor Suppressor Protein (CYLD) Deubiquitinase is Necessary for Proper Ubiquitination and Degradation of the Epidermal Growth Factor Receptor

Sanchez-Quiles, V., Akimov, V., Osinalde, N., Francavilla, C., Puglia, M., Barrio-Hernandez, I., Kratchmarova, I., Olsen, J. V. & Blagoev, B., 2017, In : Molecular and Cellular Proteomics. 16, 8, p. 1433-1446 14 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
117 Downloads (Pure)

Data on interleukin (IL)-2- and IL-15-dependent changes in IL-2Rβ and IL-2Rγ complexes

Osinalde, N., Sánchez-Quiles, V., Blagoev, B. & Kratchmarova, I., 2017, In : Data in Brief. 11, p. 499-506

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
122 Downloads (Pure)

Fundamental constraints in synchronous muscle limit superfast motor control in vertebrates

Mead, A. F., Osinalde, N., Ørtenblad, N., Nielsen, J., Brewer, J., Vellema, M., Adam, I., Scharff, C., Song, Y., Frandsen, U., Blagoev, B., Kratchmarova, I. & Elemans, C. P., 2017, In : eLife. 6, 20 p., e29425.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
210 Downloads (Pure)
2016

Changes in Gab2 phosphorylation and interaction partners in response to interleukin (IL)-2 stimulation in T-lymphocytes

Osinalde, N., Sánchez-Quiles, V., Blagoev, B. & Kratchmarova, I., 2016, In : Scientific Reports. 6, p. 23530 13 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
123 Downloads (Pure)

MDM2 facilitates adipocyte differentiation through CRTC-mediated activation of STAT3

Hallenborg, P., Siersbæk, M., Barrio-Hernandez, I., Nielsen, R., Kristiansen, K., Mandrup, S., Grøntved, L. & Blagoev, B., 1. Jul 2016, In : Cell Death & Disease. 7, 6, p. e2289

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
130 Downloads (Pure)

Multilayered proteomics reveals molecular switches dictating ligand-dependent EGFR trafficking

Francavilla, C., Papetti, M., Rigbolt, K. T. G., Pedersen, A-K., Sigurdsson, J. O., Cazzamali, G., Karemore, G., Blagoev, B. & Olsen, J. V., Jun 2016, In : Nature Structural and Molecular Biology. 23, 6, p. 608-18 11 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Nuclear Phosphoproteomic Screen Uncovers ACLY as Mediator of IL-2-induced Proliferation of CD4+ T lymphocytes

Osinalde, N., Mitxelena, J., Sánchez-Quiles, V., Akimov, V., Aloria, K., Arizmendi, J. M., Zubiaga, A. M., Blagoev, B. & Kratchmarova, I., Jun 2016, In : Molecular and Cellular Proteomics. 15, 6, p. 2076-92 17 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
166 Downloads (Pure)

p53 regulates expression of uncoupling protein 1 through binding and repression of PPARγ coactivator-1α

Hallenborg, P., Fjære, E., Liaset, B., Petersen, R. K., Murano, I., Sonne, S. B., Falkerslev, M., Winther, S., Jensen, B. A. H., Ma, T., Hansen, J. B., Cinti, S., Blagoev, B., Madsen, L. & Kristiansen, K., 15. Jan 2016, In : American Journal of Physiology: Endocrinology and Metabolism. 310, 2, p. E116-E128

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
160 Downloads (Pure)

S-nitrosylation of the mitochondrial chaperone TRAP1 sensitizes hepatocellular carcinoma cells to inhibitors of succinate dehydrogenase

Rizza, S., Montagna, C., Cardaci, S., Maiani, E., Di Giacomo, G., Sanchez-Quiles, V., Blagoev, B., Rasola, A., De Zio, D., Stamler, J. S., Cecconi, F. & Filomeni, G., 2016, In : Cancer Research. 76, 14, p. 4170-82

Research output: Contribution to journalJournal articleResearchpeer-review

2015

Cellular Proteome Dynamics during Differentiation of Human Primary Myoblasts

Le Bihan, M-C., Barrio, I., Mortensen, T. P., Henningsen, J., Jensen, S. S., Bigot, A., Blagoev, B., Butler-Browne, G. & Kratchmarova, I., 7. Aug 2015, In : Journal of Proteome Research. 14, 8, p. 3348-3361

Research output: Contribution to journalJournal articleResearchpeer-review

SILAC-based quantification of changes in protein tyrosine phosphorylation induced by Interleukin-2 (IL-2) and IL-15 in T-lymphocytes

Osinalde, N., Sánchez-Quiles, V., Akimov, V., Blagoev, B. & Kratchmarova, I., Dec 2015, In : Data in Brief. 5, p. 53-58

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
138 Downloads (Pure)

Simultaneous dissection and comparison of IL-2 and IL-15 signaling pathways by global quantitative phosphoproteomics

Osinalde, N., Sánchez-Quiles, V., Akimov, V., Guerra, B., Blagoev, B. & Kratchmarova, I., 2015, In : Proteomics. 15, 2-3, p. 520-31

Research output: Contribution to journalJournal articleResearchpeer-review

2014

Analysis of Secreted Proteins Using SILAC

Henningsen, J., Blagoev, B. & Kratchmarova, I., 2014, In : Methods in Molecular Biology. 1188, p. 313-26 14 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Phosphorylation site dynamics of early T-cell receptor signaling

Chylek, L. A., Akimov, V., Dengjel, J., Rigbolt, K. T. G., Hu, B., Hlavacek, W. S. & Blagoev, B., 2014, In : PLOS ONE. 9, 8, p. e104240

Research output: Contribution to journalJournal articleResearchpeer-review

PPAR gamma ligand production is tightly linked to clonal expansion during initiation of adipocyte differentiation

Hallenborg, P., Petersen, R. K., Feddersen, S., Sundekilde, U., Hansen, J. B., Blagoev, B., Madsen, L. & Kristiansen, K., 2014, In : Journal of Lipid Research. 55, 12, p. 2491-2500

Research output: Contribution to journalJournal articleResearchpeer-review

SILAC-Based Temporal Phosphoproteomics

Francavilla, C., Hekmat, O., Blagoev, B. & Olsen, J. V., 2014, In : Methods in Molecular Biology. 1188, p. 125-48 24 p.

Research output: Contribution to journalJournal articleResearchpeer-review

StUbEx: Stable Tagged Ubiquitin Exchange System for the Global Investigation of Cellular Ubiquitination

Akimov, V., Henningsen, J., Hallenborg, P., Rigbolt, K. T. G., Jensen, S. S., Nielsen, M. M., Kratchmarova, I. & Blagoev, B., 2014, In : Journal of Proteome Research. 13, 9, p. 4192-4204

Research output: Contribution to journalJournal articleResearchpeer-review

2013

Functional Proteomics Defines the Molecular Switch Underlying FGF Receptor Trafficking and Cellular Outputs

Francavilla, C., Rigbolt, K. T. G., Emdal, K. B., Carraro, G., Vernet, E., Bekker-Jensen, D. B., Streicher, W., Wikström, M., Sundström, M., Bellusci, S., Cavallaro, U., Blagoev, B. & Olsen, J. V., 2013, In : Molecular Cell. 51, 6, p. 707-722

Research output: Contribution to journalJournal articleResearchpeer-review

JMJD1C demethylates MDC1 to regulate the RNF8 and BRCA1-mediated chromatin response to DNA breaks

Watanabe, S., Watanabe, K., Akimov, V., Bartkova, J., Blagoev, B., Lukas, J. & Bartek, J., 2013, In : Nature Structural and Molecular Biology. 20, 12, p. 1425-33

Research output: Contribution to journalJournal articleResearchpeer-review

Separate Developmental Programs for HLA-A and -B Cell Surface Expression during Differentiation from Embryonic Stem Cells to Lymphocytes, Adipocytes and Osteoblasts

Sabir, H. J., Nehlin, J. O., Qanie, D., Harkness, L., Prokhorova, T. A., Blagoev, B., Kassem, M., Isa, A. & Barington, T., 2013, In : P L o S One. 8, 1, p. e54366

Research output: Contribution to journalJournal articleResearchpeer-review

The Chromatin Scaffold Protein SAFB1 Renders Chromatin Permissive for DNA Damage Signaling

Altmeyer, M. F., Toledo, L., Gudjonsson, T., Grøfte, M., Rask, M-B., Lukas, C., Akimov, V., Blagoev, B., Bartek, J. & Lukas, J., 2013, In : Molecular Cell. 52, 2, p. 206-220

Research output: Contribution to journalJournal articleResearchpeer-review

2012

Agonism and antagonism at the insulin receptor

Knudsen, L., Hansen, B. F., Jensen, P., Pedersen, T. Å., Vestergaard, K., Schäffer, L., Blagoev, B., Oleksiewicz, M. B., Kiselyov, V. V. & De Meyts, P. M. J., 2012, In : P L o S One. 7, 12, p. e51972

Research output: Contribution to journalJournal articleResearchpeer-review

Mdm2 controls CREB-dependent transactivation and initiation of adipocyte differentiation

Hallenborg, P., Feddersen, S., Francoz, S., Murano, I., Sundekilde, U., Petersen, R. K., Akimov, V., Olson, M. V., Lozano, G., Cinti, S., Gjertsen, B. T., Madsen, L., Marine, J-C., Blagoev, B. & Kristiansen, K., 2012, In : Cell Death and Differentiation. 19, 8, p. 1381-9 9 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Quantitative phosphoproteomics to characterize signaling networks

Rigbolt, K. T. G. & Blagoev, B., 2012, In : Seminars in cell & developmental biology. 23, 8, p. 863-71 9 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Stable isotope labelling with amino acids in cell culture for human embryonic stem cell proteomic analysis

Harkness, L., Prokhorova, T. A., Kassem, M. & Blagoev, B., 2012, In : Methods in Molecular Biology. 873, p. 297-305 9 p.

Research output: Contribution to journalJournal articleResearch

2011

Characterization of ubiquitination dependent dynamics in growth factor receptor signaling by quantitative proteomics

Akimov, V., Rigbolt, K. T. G., Nielsen, M. M. & Blagoev, B., 1. Dec 2011, In : Molecular BioSystems. 7, 12, p. 3223-33 11 p.

Research output: Contribution to journalJournal articleResearchpeer-review

GProX, a User-Friendly Platform for Bioinformatics Analysis and Visualization of Quantitative Proteomics Data

Rigbolt, K. T. G., Vanselow, J. T. & Blagoev, B., 1. Aug 2011, In : Molecular and Cellular Proteomics. 10, 8, p. O110.007450

Research output: Contribution to journalJournal articleResearchpeer-review

Interleukin-2 signaling pathway analysis by quantitative phosphoproteomics

Osinalde, N., Moss, H., Arrizabalaga, O., Omaetxebarria, M. J., Blagoev, B., Zubiaga, A. M., Fullaondo, A., Arizmendi, J. M. & Kratchmarova, I., 2011, In : Journal of Proteomics. 75, 1, p. 177-91 15 p.

Research output: Contribution to journalJournal articleResearchpeer-review

System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation

Rigbolt, K. T. G., Prokhorova, T. A., Akimov, V., Henningsen, J., Johansen, P. T., Kratchmarova, I., Kassem, M., Mann, M., Olsen, J. V. & Blagoev, B., 2011, In : Science Signaling. 4, 164, p. rs3

Research output: Contribution to journalJournal articleResearchpeer-review

2010

Dynamics of the Skeletal Muscle Secretome during Myoblast Differentiation

Henningsen, J., Rigbolt, K. T. G., Blagoev, B., Pedersen, B. K. & Kratchmarova, I., 1. Nov 2010, In : Molecular and Cellular Proteomics. 9, 11, p. 2482-96 15 p.

Research output: Contribution to journalJournal articleResearchpeer-review

GABAB Receptor Constituents Revealed by Tandem Affinity Purification from Transgenic Mice

Bartoi, T., Rigbolt, K. T. G., Du, D., Köhr, G., Blagoev, B. & Kornau, H-C., 2. Jul 2010, In : Journal of Biological Chemistry. 285, 27, p. 20625-33 8 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Mapping Protein-Protein Interactions by Quantitative Proteomics

Dengjel, J., Kratchmarova, I. & Blagoev, B., 2010, In : Methods in Molecular Biology. 658, p. 267-278 12 p.

Research output: Contribution to journalJournal articleResearch

MSQuant, an Open Source Platform for Mass Spectrometry-Based Quantitative Proteomics

Mortensen, P., Gouw, J. W., Olsen, J. V., Ong, S-E., Rigbolt, K. T. G., Bunkenborg, J., Cox, J., Foster, L. J., Heck, A. J. R., Blagoev, B., Andersen, J. S. & Mann, M., 2010, In : Journal of Proteome Research. 9, 1, p. 393-403

Research output: Contribution to journalJournal articleResearchpeer-review

Proteome-Wide Quantitation by SILAC

Rigbolt, K. T. G. & Blagoev, B., 2010, In : Methods in Molecular Biology. 658, p. 187-204 18 p.

Research output: Contribution to journalJournal articleResearch

PTP1B targets the endosomal sorting machinery: dephosphorylation of regulatory sites on the endosomal sorting complex required for transport component STAM2

Stuible, M., Abella, J. V., Feldhammer, M., Nossov, M., Sangwan, V., Blagoev, B., Park, M. & Tremblay, M. L., 30. Jul 2010, In : Journal of Biological Chemistry. 285, 31, p. 23899-907 8 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Quantitative analysis of HGF and EGF-dependent phosphotyrosine signaling networks

Hammond, D. E., Hyde, R., Kratchmarova, I., Beynon, R. J., Blagoev, B. & Clague, M. J., 7. May 2010, In : Journal of Proteome Research. 9, 5, p. 2734-42 8 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Systematic In Vivo RNAi Analysis Identifies IAPs as NEDD8-E3 Ligases

Broemer, M., Tenev, T., Rigbolt, K. T. G., Hempel, S., Blagoev, B., Silke, J., Ditzel, M. & Meier, P., 10. Dec 2010, In : Molecular Cell. 40, 5, p. 810-822 13 p.

Research output: Contribution to journalJournal articleResearchpeer-review

2009

Regulation of Epidermal Growth Factor Receptor Trafficking by Lysine Deacetylase HDAC6

Lissanu Deribe, Y., Wild, P., Chandrashaker, A., Curak, J., Schmidt, M. H. H., Kalaidzidis, Y., Milutinovic, N., Kratchmarova, I., Buerkle, L., Fetchko, M. J., Schmidt, P., Kittanakom, S., Brown, K. R., Jurisica, I., Blagoev, B., Zerial, M., Stagljar, I. & Dikic, I., 1. Jan 2009, In : Science Signaling. 2, 102, p. ra84

Research output: Contribution to journalJournal articleResearchpeer-review

Stable isotope labeling by amino acids in cell culture (SILAC) and quantitative comparison of the membrane proteomes of self-renewing and differentiating human embryonic stem cells

Prokhorova, T. A., Rigbolt, K. T. G., Johansen, P. T., Henningsen, J., Kratchmarova, I., Kassem, M. & Blagoev, B., 1. May 2009, In : Molecular and Cellular Proteomics. 8, 5, p. 959-70 11 p.

Research output: Contribution to journalJournal articleResearchpeer-review

2008

Dissection of the insulin signaling pathway via quantitative phosphoproteomics

Krüger, M., Kratchmarova, I., Blagoev, B., Tseng, Y-H., Kahn, C. R. & Mann, M., 2008, In : Proceedings of the National Academy of Science of the United States of America. 105, 7, p. 2451-2456 5 p.

Research output: Contribution to journalJournal articleResearchpeer-review