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1. • Journal article

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   Using hyperLOPIT to perform high-resolution mapping of the spatial proteome

   Mulvey, C.M. Breckels, L.M. Geladaki, A. Britovšek, N.K. Nightingale, D.J.H. Christoforou, A. Elzek, M. Deery, M.J. Gatto, Laurent[UCL] Lilley, K.S. (2017) Nature Protocols — Vol. 12, no.6, p. 1110-1135 (2017)
2. • Journal article

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   Improving qualitative and quantitative performance for MSE-based label-free proteomics

   Bond, N.J. Shliaha, P.V. Lilley, K.S. Gatto, Laurent[UCL] (2013) Journal of Proteome Research — Vol. 12, no.6, p. 2340-2353 (2013)
3. • Journal article

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   Assessing the applicability of the GTR nucleotide substitution model through simulations.

   Gatto, Laurent[UCL] Catanzaro, Daniele Milinkovitch, Michel C (2007) Evolutionary bioinformatics online — Vol. 2, p. 145-55 (2007)
4. • Journal article

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   The effect of organelle discovery upon sub-cellular protein localisation

   Breckels, L.M. Gatto, Laurent[UCL] Christoforou, A. Groen, A.J. Lilley, K.S. Trotter, M.W.B. (2013) Journal of Proteomics — Vol. 88, p. 129-140 (2013)
5. • Journal article

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   A posteriori quality control for the curation and reuse of public proteomics data

   Foster, J.M. Degroeve, S. Gatto, Laurent[UCL] Visser, M. Wang, R. Griss, J. Apweiler, R. Martens, L. (2011) Proteomics — Vol. 11, no. 11, p. 2182-2194 (2011)
6. • Journal article

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   Effects of traveling wave ion mobility separation on data independent acquisition in proteomics studies

   Shliaha, P.V. Bond, N.J. Gatto, Laurent[UCL] Lilley, K.S. (2013) Journal of Proteome Research — Vol. 12, no. 6, p. 2323-2339 (2013)
7. • Journal article

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   MSnbase-an R/Bioconductor package for isobaric tagged mass spectrometry data visualization, processing and quantitation

   Gatto, Laurent[UCL] Lilley, K.S. (2012) Bioinformatics — Vol. 28, no. 2, p. 288-289 (2012)
8. • Journal article

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   Organelle proteomics experimental designs and analysis

   Gatto, Laurent[UCL] Vizcaíno, J.A. Hermjakob, H. Huber, W. Lilley, K.S. (2010) Proteomics — Vol. 10, no. 22, p. 3957-3969 (2010)
9. • Journal article

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   Morphological and mitochondrial DNA analyses indicate the presence of a hybrid zone between two species of leaf beetle (Coleoptera; Chrysomelidae) in Southern Spain

   Gatto, Laurent[UCL] Mardulyn, P. Pasteels, J.M. (2008) Biological Journal of the Linnean Society — Vol. 94, no. 1, p. 105-114 (2008)
10. • Journal article

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    BioContainers: an open-source and community-driven framework for software standardization

    da Veiga Leprevost, F. Grüning, B.A. Alves Aflitos, S. Röst, H.L. Uszkoreit, J. Barsnes, H. Vaudel, M. Moreno, P. Gatto, Laurent[UCL] Weber, J. Bai, M. Jimenez, R.C. Sachsenberg, T. Pfeuffer, J. Vera Alvarez, R. Griss, J. Nesvizhskii, A.I. Perez-Riverol, Y. (2017) Bioinformatics (Oxford, England) — Vol. 33, no.16, p. 2580-2582 (2017)
11. • Journal article

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    The MicroArray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models.

    Shi, Leming Campbell, Gregory Jones, Wendell D Campagne, Fabien Wen, Zhining Walker, Stephen J Su, Zhenqiang Chu, Tzu-Ming Goodsaid, Federico M Pusztai, Lajos Shaughnessy, John D Oberthuer, André Thomas, Russell S Paules, Richard S Fielden, Mark Barlogie, Bart Chen, Weijie Du, Pan Fischer, Matthias Furlanello, Cesare Gallas, Brandon D Ge, Xijin Megherbi, Dalila B Symmans, W Fraser Wang, May D Zhang, John Bitter, Hans Brors, Benedikt Bushel, Pierre R Bylesjo, Max Chen, Minjun Cheng, Jie Cheng, Jing Chou, Jeff Davison, Timothy S Delorenzi, Mauro Deng, Youping Devanarayan, Viswanath Dix, David J Dopazo, Joaquin Dorff, Kevin C Elloumi, Fathi Fan, Jianqing Fan, Shicai Fan, Xiaohui Fang, Hong Gonzaludo, Nina Hess, Kenneth R Hong, Huixiao Huan, Jun Irizarry, Rafael A Judson, Richard Juraeva, Dilafruz Lababidi, Samir Lambert, Christophe G Li, Li Li, Yanen Li, Zhen Lin, Simon M Liu, Guozhen Lobenhofer, Edward K Luo, Jun Luo, Wen McCall, Matthew N Nikolsky, Yuri Pennello, Gene A Perkins, Roger G Philip, Reena Popovici, Vlad Price, Nathan D Qian, Feng Scherer, Andreas Shi, Tieliu Shi, Weiwei Sung, Jaeyun Thierry-Mieg, Danielle Thierry-Mieg, Jean Thodima, Venkata Trygg, Johan Vishnuvajjala, Lakshmi Wang, Sue Jane Wu, Jianping Wu, Yichao Xie, Qian Yousef, Waleed A Zhang, Liang Zhang, Xuegong Zhong, Sheng Zhou, Yiming Zhu, Sheng Arasappan, Dhivya Bao, Wenjun Lucas, Anne Bergstrom Berthold, Frank Brennan, Richard J Buness, Andreas Catalano, Jennifer G Chang, Chang Chen, Rong Cheng, Yiyu Cui, Jian Czika, Wendy Demichelis, Francesca Deng, Xutao Dosymbekov, Damir Eils, Roland Feng, Yang Fostel, Jennifer Fulmer-Smentek, Stephanie Fuscoe, James C Gatto, Laurent[UCL] Ge, Weigong Goldstein, Darlene R Guo, Li Halbert, Donald N Han, Jing Harris, Stephen C Hatzis, Christos Herman, Damir Huang, Jianping Jensen, Roderick V Jiang, Rui Johnson, Charles D Jurman, Giuseppe Kahlert, Yvonne Khuder, Sadik A Kohl, Matthias Li, Jianying Li, Li Li, Menglong Li, Quan-Zhen Li, Shao Li, Zhiguang Liu, Jie Liu, Ying Liu, Zhichao Meng, Lu Madera, Manuel Martinez-Murillo, Francisco Medina, Ignacio Meehan, Joseph Miclaus, Kelci Moffitt, Richard A Montaner, David Mukherjee, Piali Mulligan, George J Neville, Padraic Nikolskaya, Tatiana Ning, Baitang Page, Grier P Parker, Joel Parry, R Mitchell Peng, Xuejun Peterson, Ron L Phan, John H Quanz, Brian Ren, Yi Riccadonna, Samantha Roter, Alan H Samuelson, Frank W Schumacher, Martin M Shambaugh, Joseph D Shi, Qiang Shippy, Richard Si, Shengzhu Smalter, Aaron Sotiriou, Christos Soukup, Mat Staedtler, Frank Steiner, Guido Stokes, Todd H Sun, Qinglan Tan, Pei-Yi Tang, Rong Tezak, Zivana Thorn, Brett Tsyganova, Marina Turpaz, Yaron Vega, Silvia C Visintainer, Roberto von Frese, Juergen Wang, Charles Wang, Eric Wang, Junwei Wang, Wei Westermann, Frank Willey, James C Woods, Matthew Wu, Shujian Xiao, Nianqing Xu, Joshua Xu, Lei Yang, Lun Zeng, Xiao Zhang, Jialu Zhang, Li Zhang, Min Zhao, Chen Puri, Raj K Scherf, Uwe Tong, Weida Wolfinger, Russell D MAQC Consortium (2010) Nature Biotechnology — Vol. 28, no.8, p. 827-838 (2010)
12. • Journal article

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    Dynamic Proteomic Profiling of Extra-Embryonic Endoderm Differentiation in Mouse Embryonic Stem Cells

    Mulvey, C.M. Schröter, C. Gatto, Laurent[UCL] Dikicioglu, D. Fidaner, I.B. Christoforou, A. Deery, M.J. Cho, L.T.Y. Niakan, K.K. Martinez-Arias, A. Lilley, K.S. (2015) Stem Cells — Vol. 33, no.9, p. 2712-2725 (2015)
13. • Journal article

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    A cross-platform toolkit for mass spectrometry and proteomics

    Chambers, M.C. MacLean, B. Burke, R. Amodei, D. Ruderman, D.L. Neumann, S. Gatto, Laurent[UCL] Fischer, B. Pratt, B. Egertson, J. Hoff, K. Kessner, D. Tasman, N. Shulman, N. Frewen, B. Baker, T.A. Brusniak, M.-Y. Paulse, C. Creasy, D. Flashner, L. Kani, K. Moulding, C. Seymour, S.L. Nuwaysir, L.M. Lefebvre, B. Kuhlmann, F. Roark, J. Rainer, P. Detlev, S. Hemenway, T. Huhmer, A. Langridge, J. Connolly, B. Chadick, T. Holly, K. Eckels, J. Deutsch, E.W. Moritz, R.L. Katz, J.E. Agus, D.B. MacCoss, M. Tabb, D.L. Mallick, P. (2012) Nature Biotechnology — Vol. 30, no. 10, p. 918-920 (2012)
14. • Journal article

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    hiPSC hepatocyte model demonstrates the role of unfolded protein response and inflammatory networks in α1-antitrypsin deficiency

    Segeritz, C.-P. Rashid, S.T. de Brito, M.C. Serra, M.P. Ordonez, A. Morell, C.M. Kaserman, J.E. Madrigal, P. Hannan, N.R.F. Gatto, Laurent[UCL] Tan, L. Wilson, A.A. Lilley, K. Marciniak, S.J. Gooptu, B. Lomas, D.A. Vallier, L. (2018) Journal of Hepatology — (2018)
15. • Journal article

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    LOPIT-DC: A simpler approach to high-resolution spatial proteomics

    Geladaki, A. Kocevar Britovsek, N. Breckels, L.M. Smith, T.S. Mulvey, C.M. Crook, O.M. Gatto, Laurent[UCL] Lilley, K.S. (2018) bioRxiv —
16. • Journal article

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    A Bayesian Mixture Modelling Approach For Spatial Proteomics

    Crook, O.M. Mulvey, C.M. Kirk, P.D.W. Lilley, K.S. Gatto, Laurent[UCL] (2018) bioRxiv —
17. • Journal article

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    RNA-seq reveals the RNA binding proteins, Hfq and RsmA, play various roles in virulence, antibiotic production and genomic flux in Serratia sp. ATCC 39006

    Wilf, N.M. Reid, A.J. Ramsay, J.P. Williamson, N.R. Croucher, N.J. Gatto, Laurent[UCL] Hester, S.S. Goulding, D. Barquist, L. Lilley, K.S. Kingsley, R.A. Dougan, G. Salmond, G.P.C. (2013) BMC Genomics — Vol. 14, no.1 (2013)
18. • Journal article

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    Challenges for proteomics core facilities

    Lilley, K.S. Deery, M.J. Gatto, Laurent[UCL] (2011) Proteomics — Vol. 11, no. 6, p. 1017-1025 (2011)
19. • Journal article

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    Negative feedback via RSK modulates Erk-dependent progression from naïve pluripotency

    Nett, I.R.E. Mulas, C. Gatto, Laurent[UCL] Lilley, K.S. Smith, A. (2018) EMBO Reports — Vol. 19, no.8 (2018)
20. • Journal article

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    Data Management Plan for a Biotechnology and Biological Sciences Research Council (BBSRC) Tools and Resources Development Fund (TRDF) Grant

    Gatto, Laurent[UCL] (2017) Research Ideas and Outcomes — Vol. 3, p. e11624 (2017)
21. • Journal article

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    Visualization of proteomics data using R and Bioconductor

    Gatto, Laurent[UCL] Breckels, L.M. Naake, T. Gibb, S. (2015) Proteomics — Vol. 15, no.8, p. 1375-1389 (2015)
22. • Journal article

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    Assessing sub-cellular resolution in spatial proteomics experiments

    Gatto, Laurent[UCL] Breckels, L.M. Lilley, K.S. (2018) bioRxiv —
23. • Journal article

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    A subcellular map of the human proteome

    Thul, P.J. Akesson, L. Wiking, M. Mahdessian, D. Geladaki, A. Ait Blal, H. Alm, T. Asplund, A. Björk, L. Breckels, L.M. Bäckström, A. Danielsson, F. Fagerberg, L. Fall, J. Gatto, Laurent[UCL] Gnann, C. Hober, S. Hjelmare, M. Johansson, F. Lee, S. Lindskog, C. Mulder, J. Mulvey, C.M. Nilsson, P. Oksvold, P. Rockberg, J. Schutten, R. Schwenk, J.M. Sivertsson, A. Sjöstedt, E. Skogs, M. Stadler, C. Sullivan, D.P. Tegel, H. Winsnes, C. Zhang, C. Zwahlen, M. Mardinoglu, A. Pontén, F. Von Feilitzen, K. Lilley, K.S. Uhlén, M. Lundberg, E. (2017) Science — Vol. 356, no.6340 (2017)
24. • Journal article

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    LC-MS/MS methods for absolute quantification and identification of proteins associated with chimeric plant oil bodies

    Capuano, F. Bond, N.J. Gatto, Laurent[UCL] Beaudoin, F. Napier, J.A. Benvenuto, E. Lilley, K.S. Baschieri, S. (2011) Analytical Chemistry — Vol. 83, no. 24, p. 9267-9272 (2011)
25. • Journal article

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    Interferon regulatory factor 7-mediated responses are defective in cord blood plasmacytoid dendritic cells

    Danis, B. George, T.C. Goriely, S. Dutta, B. Renneson, J. Gatto, Laurent[UCL] Fitzgerald-Bocarsly, P. Marchant, A. Goldman, M. Willems, F. de Wit, D. (2008) European Journal of Immunology — Vol. 38, no. 2, p. 507-517 (2008)

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