dr. A.F.M. (Maarten) Altelaar
m.altelaar@uu.nl
Gegenereerd op 2017-11-24 19:36:47


Profile

Maarten Altelaar is associate professor at the Department of Pharmaceutical Sciences of the Utrecht University. The research in his group focuses on the development and implementation of innovative mass spectrometric methods for the more efficient and detailed characterization of proteins, protein complexes and their post-translational modifications (PTMs) in relation to their biological function in health and disease, Main emphasis is on the improvement of sensitivity, specificity and throughput of proteomics technology for the investigation of cellular differentiation and signalling networks in cancer proteomics, stem cell differentiation and neuronal development. As such his lab has pioneered label free phosphopeptide quantification using Ti4+-IMAC affinity beads in combination with targeted mass spectrometry (SRM) to monitor pathway specific phosphorylation dynamics. To further improve identification rates of such PTMs as well as of other proteolytic peptides that are difficult to tackle with conventional MS fragmentation technologies, he has been actively involved in the development of the electron transfer dissociation (ETD) as alternative fragmentation technology. These developments combined now allow increased depth of coverage for proteome and phosphoproteome wide analysis. More recently, his group has begun implementing multi-omics approaches to understand system-wide biological responses to perturbations in the light of drug sensitivity and resistance. In 2013 he received a VIDI grant to work on proteome wide crosstalk mechanisms in cancer signalling and drug resistance. Besides personal grants as PI and co-PI, he is involved in large consortia such as the Netherlands Proteomics Centre, Proteins@work and PrimeXS. He is currently the treasurer of the Dutch Society for Mass Spectrometry, organizing two scientific meetings yearly. Further, he developed and taught several lectures revolving around different facets of mass spectrometry and proteomics. 

Involved in the following study programme(s)
Gegenereerd op 2017-11-24 19:36:47
All publications
  2017 - Scholarly publications
Mäkelä, Miia R, Bouzid, Ourdia, Ruiz-Robleto, J., Post, Harm, Peng, Mao, Heck, Albert, Altelaar, Maarten & de Vries, Ronald P (07.02.2017). Cultivation of Podospora anserina on soybean hulls results in an efficient enzyme cocktail for plant biomass hydrolysis. BMC Biotechnology, 37 (B), (pp. 162-171) (10 p.). Copyright © 2017 Elsevier B.V. All rights reserved..
Stelloo, S, Nevedomskaya, E., Kim, S.-Y., Hoekman, Liesbeth, Bleijerveld, O B, Mirza, T, Wessels, L F A, van Weerden, W.M., Altelaar, A F M, Bergman, A.M. & Zwart, Willemijn (18.09.2017). Endogenous androgen receptor proteomic profiling reveals genomic subcomplex involved in prostate tumorigenesis. Oncogene
Brockmann, Markus, Blomen, Vincent A, Nieuwenhuis, Joppe, Stickel, Elmer, Raaben, Matthijs, Bleijerveld, Onno B, Altelaar, A F Maarten, Jae, Lucas T & Brummelkamp, Thijn R (08.06.2017). Genetic wiring maps of single-cell protein states reveal an off-switch for GPCR signalling. Nature, 546 (7657), (pp. 307-311) (5 p.).
Niklasson, Mia, Maddalo, Ianluca, Sramkova, Zuzana, Mutlu, Ercan, Wee, Shimei, Sekyrova, Petra, Schmidt, Linnéa, Fritz, Nicolas, Dehnisch, Ivar, Kyriatzis, Gregorios, Krafcikova, Michaela, Carson, Brittany B., Feenstra, Jennifer M., Marinescu, Voichita D., Segerman, Anna, Haraldsson, Martin, Gustavsson, Anna Lena, Hammarström, Jars G J, Jenmalm Jensen, Annika, Uhrbom, Lene, Altelaar, A. F Maarten, Linnarsson, Sten, Uhlén, Per, Trantirek, Lukas, Vincent, C. Theresa, Nelander, Sven, Enger, Per Oyvind & Andang, Michael (2017). Membrane-depolarizing channel blockers induce selective glioma cell death by impairing nutrient transport and unfolded protein/amino acid responses. Cancer Research, 77 (7), (pp. 1741-1752) (12 p.).
Jiang, Kai, Rezabkova, Lenka, Hua, Shasha, Liu, Qingyang, Capitani, Guido, Altelaar, Maarten, Heck, Albert J R, Kammerer, Richard A, Steinmetz, Michel O & Akhmanova, Anna (2017). Microtubule minus-end regulation at spindle poles by an ASPM-katanin complex. Nature Cell Biology, 19 (5), (pp. 480-492) (13 p.).
Frese, Christian K, Mikhaylova, Marina, Stucchi, Riccardo, Gautier, Violette, Liu, Qingyang, Mohammed, Shabaz, Heck, Albert J R, Altelaar, A F Maarten & Hoogenraad, Casper C (07.02.2017). Quantitative Map of Proteome Dynamics during Neuronal Differentiation. Cell Reports, 18 (6), (pp. 1527-1542) (16 p.). Copyright © 2017 The Authors. Published by Elsevier Inc. All rights reserved..
Vega, Francisco M, Gautier, Violette, Fernandez-Ponce, Cecilia M, Extremera, M J, Altelaar, A F M, Millan, Jaime, Tellez, Juan C, Hernandez-Campos, Jose A, Conejero, Rosario, Bolivar, Jorge, Pardal, Ricardo, Garcia-Cózar, Francisco J, Aguado, Enrique, Heck, Albert J R & Duran-Ruiz, Mª Carmen (20.02.2017). The atheroma plaque secretome stimulates the mobilization of endothelial progenitor cells ex vivo. Journal of Molecular and Cellular Cardiology, 105, (pp. 12-23) (12 p.). Copyright © 2017 Elsevier Ltd. All rights reserved..
  2016 - Scholarly publications
Schmidlin, Thierry, Garrigues, Luc, Lane, Catherine S, Mulder, T Celine, van Doorn, Sander, Post, Harm, de Graaf, Erik L, Lemeer, Simone, Heck, Albert J R & Altelaar, A F Maarten (2016). Assessment of SRM, MRM(3) and DIA for the targeted analysis of phosphorylation dynamics in non-small cell lung cancer. Proteomics, 16 (15-16), (pp. 2193–2205). This article is protected by copyright. All rights reserved..
Zuko, Amila, Oguro-Ando, Asami, Post, Harm, Taggenbrock, Renske L R E, van Dijk, Roland E, Altelaar, A F Maarten, Heck, Albert J R, Petrenko, Alexander G, van der Zwaag, Bert, Shimoda, Yasushi, Pasterkamp, R J & Burbach, J P H (2016). Association of Cell Adhesion Molecules Contactin-6 and Latrophilin-1 Regulates Neuronal Apoptosis. Frontiers in Molecular Neuroscience, 9.
Kemper, Kristel, Krijgsman, Oscar, Kong, Xiangjun, Cornelissen-Steijger, Paulien, Shahrabi, Aida, Weeber, Fleur, van der Velden, Daphne L, Bleijerveld, Onno B, Kuilman, Thomas, Kluin, Roel J C, Sun, Chong, Voest, Emile E, Ju, Young Seok, Schumacher, Ton N M, Altelaar, A F Maarten, McDermott, Ultan, Adams, David J, Blank, Christian U, Haanen, John B & Peeper, Daniel S (28.06.2016). BRAF(V600E) Kinase Domain Duplication Identified in Therapy-Refractory Melanoma Patient-Derived Xenografts. Cell Reports, 16 (1), (pp. 263-277) (15 p.). Copyright © 2016 The Author(s). Published by Elsevier Inc. All rights reserved..
van Herwijnen, Martijn J C, Zonneveld, Marijke I, Goerdayal, Soenita, Nolte-'t Hoen, Esther N M, Garssen, Johan, Stahl, Bernd, Altelaar, A F Maarten, Redegeld, Frank A & Wauben, Marca H M (01.11.2016). Comprehensive proteomic analysis of human milk-derived extracellular vesicles unveils a novel functional proteome distinct from other milk components. Molecular and Cellular Proteomics, 15 (11), (pp. 3412-3423) (12 p.). Copyright © 2016, The American Society for Biochemistry and Molecular Biology..
Parreira, J R, Bouraada, J, Fitzpatrick, M A, Silvestre, S, Bernardes da Silva, A, Marques da Silva, J, Almeida, A M, Fevereiro, P, Altelaar, A F M & Araújo, S S (30.06.2016). Differential proteomics reveals the hallmarks of seed development in common bean (Phaseolus vulgaris L.). Journal of Proteomics, 143, (pp. 188-198) (11 p.). Copyright © 2016 Elsevier B.V. All rights reserved..
Vlaming, Hanneke, Molenaar, Thom, van Welsem, Tibor, Poramba-Liyanage, Deepani, Smith, Desiree, Velds, Arno, Hoekman, Liesbeth, Korthout, Tessy, Hendriks, Sjoerd, Altelaar, A.F.M. & van Leeuwen, Fred (06.12.2016). Direct screening for chromatin status on DNA barcodes in yeast delineates the regulome of H3K79 methylation by Dot1. eLife, 5 (e18919), (pp. 1-22) (22 p.).
Groot Kormelink, Tom, Arkesteijn, Ger J A, van de Lest, Chris H A, Geerts, Willie J C, Goerdayal, Soenita, Altelaar, Maarten A F, Redegeld, Frank A, Nolte-'t Hoen, Esther N M & Wauben, Marca H M (15.10.2016). Mast Cell Degranulation Is Accompanied by the Release of a Selective Subset of Extracellular Vesicles That Contain Mast Cell-Specific Proteases. Journal of Immunology, 197 (8), (pp. 3382-3392) (11 p.). Copyright © 2016 by The American Association of Immunologists, Inc..
Wu, Jingchao, de Heus, Cecilia, Liu, Qingyang, Bouchet, Benjamin P, Noordstra, Ivar, Jiang, Kai, Hua, Shasha, Martin, Maud, Yang, Chao, Grigoriev, Ilya, Katrukha, Eugene A, Altelaar, A F Maarten, Hoogenraad, Casper C, Qi, Robert Z, Klumperman, Judith & Akhmanova, Anna (17.09.2016). Molecular Pathway of Microtubule Organization at the Golgi Apparatus. Developmental Cell, 39 (1), (pp. 44–60). Copyright © 2016 Elsevier Inc. All rights reserved..
Guerreiro, Ana C L, Penning, Renske, Raaijmakers, Linsey M, Axman, Ilka M, Heck, Albert J R & Altelaar, A F Maarten (29.04.2016). Monitoring light/dark association dynamics of multi-protein complexes in cyanobacteria using size exclusion chromatography-based proteomics. Journal of Proteomics, 142, (pp. 33-44) (12 p.). Copyright © 2016 Elsevier B.V. All rights reserved..
Tsiatsiani, Liana, Giansanti, Piero, Scheltema, Richard A., van den Toorn, Henk, Overall, Christopher M., Altelaar, A.F. Maarten & Heck, Albert J.R. (21.11.2016). Opposite Electron-Transfer Dissociation and Higher-Energy Collisional Dissociation Fragmentation Characteristics of Proteolytic K/R(X)n and (X)nK/R Peptides Provide Benefits for Peptide Sequencing in Proteomics and Phosphoproteomics. Journal of Proteome Research
Isogai, Tadamoto, Van Der Kammen, Rob, Bleijerveld, Onno B., Goerdayal, Soenita S., Argenzio, Elisabetta, Altelaar, A. F Maarten & Innocenti, Metello (02.12.2016). Quantitative Proteomics Illuminates a Functional Interaction between mDia2 and the Proteasome. Journal of Proteome Research, 15 (12), (pp. 4624-4637) (14 p.).
Post, Harm, Penning, Renske, Fitzpatrick, Martin, Garrigues, L.B., Wu, W., Mac Gillavry, H.D., Hoogenraad, C.C., Heck, A.J.R. & Altelaar, A.F.M. (28.11.2016). Robust, Sensitive, and Automated Phosphopeptide Enrichment Optimized for Low Sample Amounts Applied to Primary Hippocampal Neurons. Journal of Proteome Research
Bouchet, Benjamin P, Gough, Rosemarie E, Ammon, York-Christoph, van de Willige, Dieudonnée, Post, Harm, Jacquemet, Guillaume, Altelaar, Maarten, Heck, Albert Jr, Goult, Ben T & Akhmanova, Anna (13.07.2016). Talin-KANK1 interaction controls the recruitment of cortical microtubule stabilizing complexes to focal adhesions. eLife, 5.
  2015 - Scholarly publications
Ameziane, Najim, May, Patrick, Haitjema, Anneke, Van De Vrugt, Henri J., Van Rossum-Fikkert, Sari E., Ristic, Dejan, Williams, Gareth J., Balk, Jesper, Rockx, Davy, Li, Hong, Rooimans, Martin A., Oostra, Anneke B., Velleuer, Eunike, Dietrich, Ralf, Bleijerveld, Onno B., Altelaar, Maarten, Meijers-Heijboer, Hanne, Joenje, Hans, Glusman, Gustavo, Roach, Jared, Hood, Leroy, Galas, David, Wyman, Claire, Balling, Rudi, Den Dunnen, Johan, De Winter, Johan P., Kanaar, Roland, Gelinas, Richard & Dorsman, Josephine C. (18.12.2015). A novel Fanconi anaemia subtype associated with a dominant-negative mutation in RAD51. Nature Communications, 6.
Brunner, Andrea M., Lössl, Philip, Liu, Fan, Huguet, Romain, Mullen, Christopher, Yamashita, Masami, Zabrouskov, Vlad, Makarov, Alexander, Altelaar, A. F Maarten & Heck, Albert J R (21.04.2015). Benchmarking multiple fragmentation methods on an orbitrap fusion for top-down phospho-proteoform characterization. Analytical Chemistry, 87 (8), (pp. 4152-4158) (7 p.).
Vogel, Celia J., Smit, Marjon A., Maddalo, Gianluca, Possik, Patricia A., Sparidans, Rolf W., van der Burg, Sjoerd H., Verdegaal, Els M., Heck, Albert J R, Samatar, Ahmed A., Beijnen, Jos H., Altelaar, A. F Maarten & Peeper, Daniel S. (01.01.2015). Cooperative induction of apoptosis in NRAS mutant melanoma by inhibition of MEK and ROCK. Pigment Cell and Melanoma Research, 28 (3), (pp. 307-317) (11 p.).
Gray, Andrew N, Egan, Alexander J F, van 't Veer, Inge, Verheul, Jolanda, Colavin, Alexandre, Koumoutsi, Alexandra, Biboy, Jacob, Altelaar, A F Maarten, Damen, Mirjam J, Huang, Kerwyn Casey, Simorre, Jean-Pierre, Breukink, Eefjan, den Blaauwen, Tanneke, Typas, Athanasios, Gross, Carol A & Vollmer, Waldemar (07.05.2015). Coordination of peptidoglycan synthesis and outer membrane constriction during Escherichia coli cell division. eLife, 4.
Balluff, Benjamin, Frese, Christian K., Maier, Stefan K., Schöne, Cédrik, Kuster, Bernhard, Schmitt, Manfred, Aubele, Michaela, Höfler, Heinz, Deelder, André M., Heck, Albert J R, Hogendoorn, Pancras C W, Morreau, Johannes, Altelaar, A. F Maarten, Walch, Axel & McDonnell, Liam A. (01.01.2015). De novo discovery of phenotypic intratumour heterogeneity using imaging mass spectrometry. Journal of Pathology, 235 (1), (pp. 3-13) (11 p.).
Schmidlin, Thierry, Boender, Arjen J., Frese, Christian K., Heck, Albert J R, Adan, Roger A H & Altelaar, A. F Maarten (06.10.2015). Diet-Induced Neuropeptide Expression - Feasibility of Quantifying Extended and Highly Charged Endogenous Peptide Sequences by Selected Reaction Monitoring. Analytical Chemistry, 87 (19), (pp. 9966-9973) (8 p.).
Stulemeijer, Iris J E, De Vos, Dirk, Van Harten, Kirsten, Joshi, Onkar K., Blomberg, Olga, Van Welsem, Tibor, Terweij, Marit, Vlaming, Hanneke, De Graaf, Erik L., Altelaar, A. F Maarten, Bakker, Barbara M. & Van Leeuwen, Fred (12.05.2015). Dot1 histone methyltransferases share a distributive mechanism but have highly diverged catalytic properties. Scientific Reports, 5.
Götzke, Hansjörg, Muheim, Claudio, Altelaar, A.F. Maarten, Heck, Albert J.R., Maddalo, Gianluca & Daley, Daniel O. (01.01.2015). Identification of putative substrates for the periplasmic chaperone YfgM in Escherichia coli using quantitative proteomics. Molecular and Cellular Proteomics, 14 (1), (pp. 216-226) (11 p.).
Van Herwijnen, Martijn, Zonneveld, Marijke, Goerdayal, Soenita, Altelaar, Maarten, Hoen, Esther Nolte't, Garssen, Johan, Redegeld, Frank & Wauben, Marca (01.01.2015). In-depth proteomics analysis of human breast milk-derived extracellular vesicles to reveal their origin and targets in the infant's developing immune system. Journal of Extracellular Vesicles, 4, (pp. 81) (1 p.).
Elkon, Ran, Loayza-Puch, Fabricio, Korkmaz, Gozde, Lopes, Rui, Van Breugel, Pieter C., Bleijerveld, Onno B., Altelaar, A. F Maarten, Wolf, Elmar, Lorenzin, Francesca, Eilers, Martin & Agami, Reuven (01.12.2015). Myc coordinates transcription and translation to enhance transformation and suppress invasiveness. EMBO Reports, 16 (12), (pp. 1723-1736) (14 p.).
Jansen, Robert S, Addie, Ruben, Merkx, Remco, Fish, Alexander, Mahakena, Sunny, Bleijerveld, Onno B, Altelaar, Maarten, IJlst, Lodewijk, Wanders, Ronald J, Borst, P & van de Wetering, Koen (26.05.2015). N-lactoyl-amino acids are ubiquitous metabolites that originate from CNDP2-mediated reverse proteolysis of lactate and amino acids. Proceedings of the National Academy of Sciences of the United States of America, 112 (21), (pp. 6601-6606) (6 p.).
Raaijmakers, Linsey M., Giansanti, Piero, Possik, Patricia A., Mueller, Judith, Peeper, Daniel S., Heck, Albert J R & Altelaar, A. F Maarten (02.10.2015). PhosphoPath - Visualization of Phosphosite-centric Dynamics in Temporal Molecular Networks. Journal of Proteome Research, 14 (10), (pp. 4332-4341) (10 p.).
Isogai, Tadamoto, Van Der Kammen, Rob, Goerdayal, Soenita S., Heck, Albert J. R., Altelaar, A. F. Maarten & Innocenti, Metello (01.04.2015). Proteomic analyses uncover a new function and mode of action for mouse homolog of diaphanous 2 (mDia2). Molecular and Cellular Proteomics, 14 (4), (pp. 1064-1078) (15 p.).
De Graaf, Erik L., Kaplon, Joanna, Mohammed, Shabaz, Vereijken, Lisette A M, Duarte, Daniel P., Redondo Gallego, Laura, Heck, Albert J R, Peeper, Daniel S. & Altelaar, A. F Maarten (02.07.2015). Signal Transduction Reaction Monitoring Deciphers Site-Specific PI3K-mTOR/MAPK Pathway Dynamics in Oncogene-Induced Senescence. Journal of Proteome Research, 14 (7), (pp. 2906-2914) (9 p.).
Benoit, Isabelle, Zhou, Miaomiao, Duarte, Alexandra Vivas, Downes, Damien J., Todd, Richard B., Kloezen, Wendy, Post, Harm, Heck, Albert J. R., Altelaar, A. F. Maarten & de Vries, Ronald P. (28.08.2015). Spatial differentiation of gene expression in Aspergillus niger colony grown for sugar beet pulp utilization. Scientific Reports, 5 (13 p.).
van Beuningen, Sam F B, Will, Lena, Harterink, Martin, Chazeau, Anaël, van Battum, Eljo Y, Frias, Cátia P, Franker, Mariella A M, Katrukha, Eugene A, Stucchi, Riccardo, Vocking, Karin, Antunes, Ana T, Slenders, Lotte, Doulkeridou, Sofia, Sillevis Smitt, Peter, Altelaar, A F Maarten, Post, Jan A, Akhmanova, Anna, Pasterkamp, R Jeroen, Kapitein, Lukas C, de Graaff, Esther & Hoogenraad, Casper C (06.12.2015). TRIM46 Controls Neuronal Polarity and Axon Specification by Driving the Formation of Parallel Microtubule Arrays. Neuron, (pp. 1208-1226). Copyright © 2015 Elsevier Inc. All rights reserved..
Patyshakuliyeva, Aleksandrina, Post, Harm, Zhou, Miaomiao, Jurak, Edita, Heck, Albert J R, Hildén, Kristiina S., Kabel, Mirjam A., Mäkelä, Miia R., Altelaar, Maarten A F & De Vries, Ronald P. (01.08.2015). Uncovering the abilities of Agaricus bisporus to degrade plant biomass throughout its life cycle. Environmental Microbiology, 17 (8), (pp. 3098-3109) (12 p.).
Patyshakuliyeva, Aleksandrina, Harm, Post, Zhou, Miaomiao, Jurak, Edita, Heck, Albert J.R., Hildén, Kristiina S., Kabel, Mirjam A., Mäkelä, Miia R., Altelaar, Maarten A.F. & De Vries, Ronald P. (01.06.2015). Unraveling the abilities of agaricus bisporus to degrade plant biomass throughout its life cycle. Acta Microbiologica et Immunologica Hungarica, 62, (pp. 198) (1 p.).
  2014 - Scholarly publications
Guerreiro, Ana C L, Benevento, Marco, Lehmann, Robert, van Breukelen, Bas, Post, Harm, Giansanti, Piero, Altelaar, Adrianus, Axmann, Ilka M & Heck, Albert J R (2014). Daily rhythms in the cyanobacterium synechococcus elongatus probed by high-resolution mass spectrometry-based proteomics reveals a small defined set of cyclic proteins. Molecular and Cellular Proteomics, 13 (8), (pp. 2042-2055) (14 p.). © 2014 by The American Society for Biochemistry and Molecular Biology, Inc..
Vlaming, Hanneke, van Welsem, Tibor, de Graaf, Erik L, Ontoso, David, Altelaar, A F Maarten, San-Segundo, Pedro A, Heck, Albert J R & van Leeuwen, Fred (2014). Flexibility in crosstalk between H2B ubiquitination and H3 methylation in vivo. EMBO Reports, 15 (10), (pp. 1077-84) (8 p.). © 2014 The Authors..
Vlaming, Hanneke, van Welsem, Tibor, de Graaf, Erik L, Ontoso, David, Altelaar, A F Maarten, San-Segundo, Pedro A, Heck, Albert J R & van Leeuwen, Fred (2014). Flexibility in crosstalk between H2B ubiquitination and H3 methylation in vivo (Corrigendum). EMBO Reports, 15 (11), (pp. 1220-1221) (2 p.). © 2014 The Authors..
Jiang, Kai, Hua, Shasha, Mohan, Renu, Grigoriev, Ilya, Yau, Kah Wai, Liu, Qingyang, Katrukha, Eugene A, Altelaar, A F Maarten, Heck, Albert J R, Hoogenraad, Casper C & Akhmanova, Anna (10.02.2014). Microtubule minus-end stabilization by polymerization-driven CAMSAP deposition. Developmental Cell, 28 (3), (pp. 295-309) (15 p.). Copyright © 2014 Elsevier Inc. All rights reserved..
de Graaf, Erik L, Kaplon, Joanna, Zhou, Houjiang, Heck, Albert J R, Peeper, Daniel S & Altelaar, A.F.M. (2014). Phosphoproteome dynamics in onset and maintenance of oncogene-induced senescence. Molecular and Cellular Proteomics, 13 (8), (pp. 2089-2100) (12 p.). © 2014 by The American Society for Biochemistry and Molecular Biology, Inc..
Castano-Cerezo, Sara, Bernal, Vicente, Post, Harm, Fuhrer, Tobias, Cappadona, Salvatore, Sanchez-Diaz, Nerea C., Sauer, Uwe, Heck, Albert J. R., Altelaar, A. F. Maarten & Canovas, Manuel (2014). Protein acetylation affects acetate metabolism, motility and acid stress response in Escherichia coli. Molecular Systems Biology, 10 (11) (15 p.).
Smit, Marjon A, Maddalo, Gianluca, Greig, Kylie, Raaijmakers, Linsey M, Possik, Patricia A, van Breukelen, Bas, Cappadona, Salvatore, Heck, Albert Jr, Altelaar, Adrianus & Peeper, Daniel S (2014). ROCK1 is a potential combinatorial drug target for BRAF mutant melanoma. Molecular Systems Biology, 10 (12), (pp. 772) (1 p.). © 2014 The Authors. Published under the terms of the CC BY 4.0 license..
Klaubauf, Sylvia, Narang, Hari Mander, Post, Harm, Zhou, Miaomiao, Brunner, Kurt, Mach-Aigner, Astrid R, Mach, Robert L, Heck, Albert J R, Altelaar, A F Maarten & de Vries, Ronald P (2014). Similar is not the same - Differences in the function of the (hemi-)cellulolytic regulator XlnR (Xlr1/Xyr1) in filamentous fungi. Fungal Genetics and Biology, 72, (pp. 73-81) (9 p.). Copyright © 2014 Elsevier Inc. All rights reserved..
de Graaf, Erik L, Giansanti, Piero, Altelaar, A F Maarten & Heck, Albert J R (2014). Single-step enrichment by Ti4+-IMAC and label-free quantitation enables in-depth monitoring of phosphorylation dynamics with high reproducibility and temporal resolution. Molecular and Cellular Proteomics, 13 (9), (pp. 2426-2434) (9 p.). © 2014 by The American Society for Biochemistry and Molecular Biology, Inc..
  2013 - Scholarly publications
Pijnappel, W.W.M., Esch, D., Baltissen, M.P.A., Wu, G., Mischerikow, N., Bergsma, A., van der Wal, E., Han, D.W., vom Bruch, H., Moritz, S., Lijnzaad, P., Altelaar, A.F.M., Sameith, K., Zaehres, H., Heck, A.J.R., Holstege, F.C.P., Scholer, H.R. & Timmers, H.T.M. (2013). A central role for TFIID in the pluripotent transcription circuitry. Nature, 495, (pp. 516-519) (4 p.).
Altelaar, A.F.M., Frese, C.K., Preisinger, C., Hennrich, M.L., Schram, A.W., Timmers, H.T.M., Heck, A.J.R. & Mohammed, S. (2013). Benchmarking stable isotope labeling based quantitative proteomics. Journal of Proteomics, 88, (pp. 14-26) (13 p.). This article is part of a Special Issue entitled: New Horizons and Applications for Proteomics [EuPA 2012]..
Frese, C., Nolting, D., Altelaar, A.F.M., Griep-Raming, J., Mohammed, S. & Heck, A.J.R. (2013). Characterization of Electron Transfer Dissociation in the Orbitrap Velos HCD Cell. Journal of the American Society for Mass Spectrometry, 24 (11), (pp. 1663-1670) (8 p.).
Ringrose, J.H., van den Toorn, H.W.P., Eitel, M., Post, H., Neerincx, P.B.T., Schierwater, B., Altelaar, A.F.M. & Heck, A.J.R. (2013). Deep proteome profiling of Trichoplax adhaerens reveals remarkable features at the origin of metazoan multicellularity. Nature Communications, 4.
Krijgsheld, P., Nitsche, B.M., Post, H., Levin, A.M., Muller, W.H., Heck, A.J.R., Ram, A.F., Altelaar, A.F.M. & Wösten, H.A.B. (2013). Deletion of flbA results in increased secretome complexity and reduced secretion heterogeneity in colonies of Aspergillus niger. Journal of Proteome Research, 12 (4), (pp. 1808-1819) (12 p.).
Jones, E.A., Schmitz, N., Waaijer, C.J.F., Frese, C., van Remoortere, A., van Zeijl, R.J.M., Heck, A.J.R., Hogendoorn, P.C.W., Deelder, A.M., Altelaar, A.F.M., Bovée, J.V.M.G. & McDonnell, L.A. (2013). Imaging Mass Spectrometry-based Molecular Histology Differentiates Microscopically Identical and Heterogeneous Tumors. Journal of Proteome Research, 12, (pp. 1847-1855) (9 p.).
Altelaar, A.F.M., Munoz-Peralta, J. & Heck, A.J.R. (2013). Next-generation proteomics: towards an integrative view of proteome dynamics. Nature Reviews Genetics, 14, (pp. 35-48) (14 p.).
Frese, C., Boender, A.J., Mohammed, S., Heck, A.J.R., Adan, R.A.H. & Altelaar, A.F.M. (2013). Profiling of diet-induced neuropeptide changes in rat brain by quantitative mass spectrometry. Analytical Chemistry, 85 (7), (pp. 4594-4604) (11 p.). http://www.ncbi.nlm.nih.gov/pubmed/23581470.
Meijer, L.A.T., Zhou, H., Chan, O.Y.A., Altelaar, A.F.M., Hennrich, M.L., Mohammed, S., Bos, J.L. & Heck, A.J.R. (2013). Quantitative global phosphoproteomics of human umbilical vein endothelial cells after activation of the Rap signaling pathway. Molecular BioSystems, 9, (pp. 732-749) (18 p.).
de Graaf, E.L., Vermeij, W.P., de Waard, M.C., Rijksen, Y., van der Pluijm, I., Hoogenraad, C.C., Hoeijmakers, J.H.J., Altelaar, A.F.M. & Heck, A.J.R. (2013). Spatio-temperal analysis of molecular determinants of neuronal degeneration in the aging mouse cerebellum. Molecular and Cellular Proteomics, 12 (5), (pp. 1350-1362) (13 p.).
Frese, C., Zhou, H., Taus, T., Altelaar, A.F.M., Mechtler, K., Heck, A.J.R. & Mohammed, S. (2013). Unambiguous Phosphosite Localization using Electron-Transfer/Higher-Energy Collision Dissociation (EThcD). Journal of Proteome Research, 12, (pp. 1520-1525) (6 p.).
Pollo-Oliveira, L., Post, H., Acencio, M.L., Lemke, N., van den Toorn, H.W.P., Tragante Do O, V., Heck, A.J.R., Altelaar, A.F.M. & Yatsuda, A.P. (2013). Unravelling the Neospora caninum secretome through the secreted fraction (ESA) and quantification of the discharged tachyzoite using high-resolution mass spectrometry-based proteomics. Parasites and Vectors, 6 (1), (pp. 335) (14 p.).
  2012 - Scholarly publications
Altelaar, A.F.M., Navarro, D., Boekhorst, J., van Breukelen, B., Snel, B., Mohammed, S. & Heck, A.J.R. (2012). Database independent proteomics analysis of the ostrich and human proteome. Proceedings of the National Academy of Sciences of the United States of America, 109, (pp. 407-412) (6 p.).
Krijgsheld, P., Wosten, H.A.B., Altelaar, A.F.M., Post, H., Ringrose, J.H., Muller, W.H. & Heck, A.J.R. (30.03.2012). Spatially resolving the microtome within the mycelium of the cell factory Aspergillus niger. onbekend Philipps-Universitaet Marburg, Germany, 11th European Conference on Fungal Genetics.
Krijgsheld, P., Altelaar, A.F.M., Post, H., Ringrose, J.H., Muller, W.H., Heck, A.J.R. & Wösten, H.A.B. (2012). Spatially resolving the secretome within the mycelium of the cell factory Aspergillus niger. Journal of Proteome Research, 11 (5), (pp. 2807-2818) (12 p.).
Frese, C.K., Altelaar, A.F.M., van den Toorn, H.W.P., Nolting, D., Griep-Raming, J., Heck, A.J.R. & Mohammed, S. (2012). Toward full peptide sequence coverage by dual fragmentation combining electron-transfer and higher-energy collision dissociation tandem mass spectrometry. Analytical Chemistry, 84, (pp. 9668-9673) (6 p.).
Altelaar, A.F.M. & Heck, A.J.R. (2012). Trends in ultrasensitive proteomics. Current Opinion in Chemical Biology, 16, (pp. 206-213) (8 p.).
  2012 - Popularising publications
Altelaar, A.F.M. (18.04.2012) Invited speaker Voorjaarsvergadering van de Nederlandse Vereniging voor Medische Microbiologie (NVMM) en de Koninklijke Nederlandse Vereniging voor Microbiologie (KNVM) (Papendal) (18.01.2012) Spatially resolving the secretome within the mycelium of the cell factory Aspergillus niger
  2011 - Scholarly publications
Frese, C.K., Altelaar, A.F.M., Hennrich, M.L., Nolting, D., Zeller, M., Griep-Raming, J., Heck, A.J.R. & Mohammed, S. (2011). Improved peptide identification by targeted fragmentation using CID, HCD and ETD on an LTQ-Orbitrap Velos. Journal of Proteome Research, 10 (5), (pp. 2377-2388) (12 p.).
de Graaf, E.L., Altelaar, A.F.M., van Breukelen, B., Mohammed, S. & Heck, A.J.R. (2011). Improving SRM assay development: a global comparison between triple quadrupole, ion trap, and higher energy CID peptide fragmentation spectra. Journal of Proteome Research, 10 (9), (pp. 4334-4341) (8 p.).
Wijte, D., van Baar, B.L.M., Heck, A.J.R. & Altelaar, A.F.M. (2011). Probing the proteome response to toluene exposure in the solvent tolerant pseudomonas putida S12. Journal of Proteome Research, 10 (2), (pp. 394-403) (10 p.).
de Vos, D, Frederiks, F., Terweij, M., Welsem, T., Verzijlbergen, K.F., Iachina, E., de Graaf, E.L., Altelaar, A.F.M., Oudgenoeg, G., Heck, A.J.R., Krijgsveld, J., Bakker, B.M. & van Leeuwen, F. (2011). Progressive methylation of ageing histones by Dot1 functions as a timer. EMBO Reports, 12 (9), (pp. 956-962) (7 p.).
Bleijerveld, O.B., Brakenhoff, R.H., Schaaij-Visser, B.M., Damen, J.M.A., Altelaar, A.F.M., Heck, A.J.R., Leemans, C.R. & Slijper, M. (2011). Protein signatures associated with tumor cell dissemination in head and neck cancer. Journal of Proteomics, 74 (4), (pp. 558-566) (9 p.).
  2010 - Scholarly publications
Altelaar, A.F.M. & Piersma, S.R. (2010). Cellular imaging using matrix-enhanced and metal-assisted SIMS. Methods in Molecular Biology, 656, (pp. 197-208) (12 p.).
Mischerikow, N., Altelaar, A.F.M., Navarro Herrero, J.D., Mohammed, S. & Heck, A.J.R. (2010). Comparative assessment of site assignments in CID and electron transfer dissociation spectra of phosphopeptides discloses limited relocation of phosphate groups. Molecular and Cellular Proteomics, 9, (pp. 2140-2148) (9 p.).
Hennrich, M.L., Mohammed, S., Altelaar, A.F.M. & Heck, A.J.R. (2010). Dimethyl isotope labeling assisted de novo peptide sequencing. Journal of the American Society for Mass Spectrometry, 12, (pp. 1957-1965) (9 p.).
Mischerikow, N., van Nierop, P., Li, K.W., Bernstein, H.G., Smit, A.B., Heck, A.J.R. & Altelaar, A.F.M. (2010). Gaining efficiency by parallel quantification and identification of iTRAQ-labeled peptides using HCD and decision tree guided CID/ETD on an LTQ Orbitrap Orbitrap. The Analyst, 135, (pp. 2643-2652) (10 p.).
  2009 - Scholarly publications
Klerk, L.A., Altelaar, A.F.M., Froesch, M., McDonnell, L.A. & Heeren, R.M.A. (2009). Fast and automated large-area imaging MALDI mass spectrometry in microprobe and microscope mode. International Journal of Mass Spectrometry (285), (pp. 19-25) (7 p.).
Altelaar, A.F.M., Mohammed, S., Brans, M.A., Adan, R.A.H. & Heck, A.J.R. (2009). Improved identification of endogenous peptides from murine nervous tissue by multiplexed peptide extraction methods and multiplexed mass spectrometric analysis. Journal of Proteome Research, 8 (2), (pp. 870-876) (7 p.).
Mischerikow, N., Spedale, G., Altelaar, A.F.M., Timmers, H.T.M., Pijnappel, W.W.M. & Heck, A.J.R. (2009). In-depth profiling of post-translational modifications on the related transcription factor complexes TFIID and SAGA. Journal of Proteome Research, 8 (11), (pp. 5020-5030) (11 p.).
Boersema, P.J., Ms. Taouatas, N., Altelaar, A.F.M., Gouw, J.W., Ross, P.L., Pappin, D.J., Heck, A.J.R. & Mohammed, S. (2009). Straightforward and de novo peptide sequencing by MALDI-MS/MS using a Lys-N metalloendopeptidase. Molecular and Cellular Proteomics (8), (pp. 650-660) (11 p.).
Ms. Taouatas, N., Altelaar, A.F.M., Drugan, M.M., Helbig, A.O., Mohammed, S. & Heck, A.J.R. (2009). Strong cation exchange-based fractionation of Lys-N-generated peptides facilitates the targeted analysis of post-translational modifications. Molecular and Cellular Proteomics (8), (pp. 190-200) (11 p.).
Altelaar, A.F.M. & Heeren, R.M.A. (2009). Tissue analysis with high-resolution imaging mass spectrometry. Methods in Molecular Biology (492), (pp. 295-308) (14 p.).
  2008 - Scholarly publications
Broersen, A., Liere, R., Altelaar, A.F.M., Heeren, R.M.A. & McDonnell, L.A. (2008). Automated, Feature-Based Image Alignment for High-Resolution Imaging Mass Spectrometry of Large Biological Samples. Journal of the American Society for Mass Spectrometry, 19, (pp. 823-832) (10 p.).
van Werven, F.J., van Bakel, H.H.M.J., van Teeffelen, H.A.A.M., Altelaar, A.F.M., Groot Koerkamp, M.J.A., Heck, A.J.R., Holstege, F.C.P. & Timmers, H.T.M. (2008). Cooperative action of NC2 and Mot1p to regulate TATA-binding protein function across the genome. Genes and Development, 22, (pp. 2359-2369) (11 p.).
  2007 - Scholarly publications
Altelaar, A.F.M., Taban, I., McDonnell, L.A., Verhaert, P.D.E.M., de Lange, R.P.J., Adan, R.A.H., Mooi, W.J., Heeren, R.M.A. & Piersma, S.R. (2007). High-resolution MALDI imaging mass spectrometry allows localization of peptide distributions at cellular length scales in pituitary tissue sections. International Journal of Mass Spectrometry, 260 (2-3), (pp. 203-211) (9 p.).
Taban, I., Altelaar, A.F.M., van der Burgt, Y.E.M., McDonnell, L.A. & Heeren, R.M.A. (2007). Imaging of Peptides in the Rat Brain Using MALDI-FTICR Mass Spectrometry. Journal of the American Society for Mass Spectrometry, 18, (pp. 145-151) (7 p.).
Klinkert, I., McDonnell, L.A., Luxembourg, S.L., Altelaar, A.F.M., Amstalden, E.R., Piersma, S.R. & Heeren, R.M.A. (2007). Tools and strategies for visualization of large image datasets in high-resolution imaging mass spectrometry. Review of Scientific Instruments, 78, (pp. 053716-1-053716-10) (10 p.).
  2006 - Scholarly publications
Altelaar, A.F.M., Klinkert, I., Jalink, K., de Lange, R.P.J., Adan, R.A.H., Heeren, R.M.A. & Piersma, S.R. (2006). Gold-enhanced biomolecular surface imaging of cells and tissue by SIMS and MALDI mass spectrometry. Analytical Chemistry, 78 (3), (pp. 734-742) (9 p.).
Altelaar, A.F.M., van Minnen, J., Heeren, R.M.A. & Piersma, S.R. (2006). The influence of the cholesterol microenvironment in tissue sections on molecular ionization efficiencies and distributions in ToF-SIMS. Applied Surface Science, 252, (pp. 6702-6705) (4 p.).
Heeren, R.M.A., McDonnell, L.A., Amstalden, E.R., Luxembourg, S.L., Altelaar, A.F.M. & Piersma, S.R. (2006). Why don’t biologists use SIMS? A critical evaluation of imaging MS. Applied Surface Science, 252, (pp. 6827-6835) (9 p.).
  2005 - Scholarly publications
Altelaar, A.F.M., van Minnen, J., Jiménez, C.R., Heeren, R.M.A. & Piersma, S.R. (2005). Direct molecular imaging of Lymnaea stagnalis nervous tissue at subcellular spatial resolution by mass spectrometry. Analytical Chemistry, 77, (pp. 735-741) (6 p.).
McDonnell, L.A., Piersma, S.R., Altelaar, A.F.M., Mize, T.H., Luxembourg, S.L., Verhaert, P.D.E.M., van Minnen, J. & Heeren, R.M.A. (2005). Subcellular imaging mass spectrometry of brain tissue. Journal of Mass Spectrometry, 40, (pp. 160-168) (8 p.).
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Gegenereerd op 2017-11-24 19:36:47
Project:
Institute for Chemical Immunology
01.01.2014 to 31.12.2023
General project description 

The Institute for Chemical Immunlogy is an NWO Gravitation project coordinator by Leiden University. It will define and exploit a new field termed chemical immunology and train a novel generation of interdisciplinary scientists. It aims to promote academic excellence; with economic and clinical translation of new treatment options for a large population of patients that currently only have limited treatment options.

Role Researcher Funding
Utrecht University
Project members UU
External project members:
  • prof. dr. Sjaak Neefjes (NKI; coordinator)
  • prof. dr. Hermen Overkleeft (LU)
  • prof. dr. Carl Figdor (RU)
  • prof. dr. Ton Schumacher (NKI)
Project:
Proteins At Work
01.01.2014 to 30.06.2019
General project description 

Proteins At Work is a project in the NWO National Roadmap for Large-Scale Research Facilities programme which encourages the establishment or improvement of large research facilities with which the Netherlands can assume an important position internationally. Proteins At Work will make high-level technology, equipment and expertise for studying proteins in cells and tissues available to the biological and biomedical researchers in the Netherlands. The Proteins At Work programme is a collaboration between Utrecht University, the UMC Utrecht, the Hubrecht Institute, the Erasmus MC Rotterdam and the Netherlands Cancer Institute and is coordinated by prof. dr. Albert Heck.

Role Researcher Funding
NWO grant
Project members UU
External project members:
  • prof. dr. Roland Kanaar (Erasmuc MC)
  • dr. Jeroen Demmers (Erasmus MC)
  • dr. Harm-Jan Vos (UMCU)
  • prof. dr. Rene Medema (NKI)
  • prof. dr. Hans Clevers (Hubrecht Institute)
Project:
Network Medicine; Quantifying Proteome Wide Crosstalk
01.08.2013 to 01.08.2018
General project description 



Understanding how living systems function is one of the fundamental goals in bio-molecular science. The molecular machinery controlling these functions is comprised of a highly complex collection of distinct molecules that act in coordinate fashion. The global analysis of proteins, representing the key functional entities in the cell, forms arguably the basis for understanding how cells function. However, gathering information at the proteome level poses a tough analytical challenge, when comparing it to data collection at the genome and transcriptome level. This is mainly caused by its highly multilayered character with alternative splicing and diverse posttranslational modifications (PTMs), further amplified by the dynamic interplay between PTMs and proteins in complexes and signaling networks. This interplay leads to so called ‘crosstalk’ mechanisms, where, if one node in the complex machinery is affected, other nodes respond either compensatory or inhibitory. Uncovering this extreme complexity is one of the challenges that drives proteomics research, which heavily relies on mass spectrometry based protein sequencing. With the here proposed developments in methodology, sample preparation and computational analysis, I will contribute to overcoming this challenge. I will develop and implement a unique combination of high resolution quantitative proteomics tools that allow the analysis of this dynamic proteome at system wide scales, while maintaining physiologically relevant conditions. The tools will focus on sensitivity, crucial when dealing with limited sample amounts, comprehensiveness, to tackle (PTM) crosstalk, and throughput, important when targeting many different sample types. As model system I will perturb the melanoma cancer proteome, using physiological relevant slow dividing cell lines, tumour tissue and patient derived xenografts, and monitor its response in the face of PTM expression, network rewiring and drug resistance. As many types of cancer are lacking proper treatment caused by limited understanding of the molecular mechanisms involved, the developed technology will be widely applicable. 




Role Project Leader & Supervisor Funding
NWO grant: NWO-VIDI chemische wetenschappen
Project members UU

Completed projects

Project:
PRIME-XS 01.02.2011 to 31.01.2015
General project description

PRIME-XS provides European Union funded access to an infrastructure of state-of-the-art proteomics technology to the biological and biomedical research community in Europe. European researchers who would like to use proteomics technology for their research can apply with a research proposal on this website. PRIME-XS is a consortium of twelve partners, all leading in the field of proteomics. In addition to providing access, we develop new technologies to better aid the research community in answering current day scientific questions, and organize courses and meetings.

 
Role Researcher Funding
EU grant
Project members UU
External project members:
  • Flemish Institute for Biotechnology
  • University of Zurich
  • Eidgenössische Technische Hochschule Zurich
  • University of Copenhagen
  • Center for Genomic Regulation
  • University of Cambridge
  • Research Institute of Molecular Pathology
  • Commissariat à l'énergie atomique
  • Eberhard Karls Universität Tübingen
  • European Bioinformatics Institute
  • Max Planck Institute of Biochemistry
Gegenereerd op 2017-11-24 19:36:48
Full name
dr. A.F.M. Altelaar Contact details
Hugo R. Kruytgebouw

Padualaan 8
Room O605
3584 CH  UTRECHT
The Netherlands


Phone number (direct) +31 30 253 9554
Phone number (department) +31 30 253 5871
Postal address
Padualaan 8
3584 CH    UTRECHT
The Netherlands
Gegenereerd op 2017-11-24 19:36:48
Last updated 13.06.2017