LITERATURE ROOM
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Here you can find the latest publications from our users and collaboration partners and also discover older publications. Use the search function to explore our Literature Room or get inspiration from the tags and categories.
| Title | Subject | Material | Year | Summary | Authors | Organization | Evosep method | MS instrumentation | Learn More | hf:tax:doc_tag | hf:tax:evosep_method | hf:tax:ms_vendor |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Recent advances in the field of single-cell proteomics | Single cell | Journal article | 2023 | Valdemaras Petrosius and Erwin M. Schoof | Technical University of Denmark | Whisper 20 SPD, Whisper 40 SPD | single-cell | whisper-20spd whisper-40spd | ||||
| Comparative proteome and transcriptome analyses of the response of postharvest pears to Penicillium expansum infection | DDA, PASEF | Journal article | 2023 | Meiqiu Xu, Esa Abiso Godana, Solairaj Dhanasekaran, Xiaoyun Zhang, Qiya Yang, Lina Zhao and Hongyin Zhang | Jiangsu University, Luoyang Normal University | timsTOF Pro 2 | dda pasef | timstof-pro-2 | ||||
| Chromatographic separation of peptides and proteins for characterization of proteomes | DIA, FAIMS, Peptidomics | Journal article | 2022 | Yu Liang, Lihua Zhang and Yukui Zhang | Chinese Academy of Science | 100 SPD, 200 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | dia faims peptidomics | 100-spd 200-spd 60-spd | thermo-orbitrap-exploris-480 | ||
| Insight into the antibacterial mechanism of Cuenriched sol–gel coatings employing proteomics | Bacteria, Inflammation | Journal article | 2022 | Francisco Romero-Gavilán, Iñaki García-Arnáez, Andreia Cerqueira, Loredana Scalschi, Begonya Vicedo, Alejandro Villagrasa, Raúl Izquierdo, Mikel Azkargorta, Félix Elortza, Mariló Gurruchaga, Isabel Goñi and Julio Suay | Universitat Jaume I, Universidad del País Vasco, CIC bioGUNE | timsTOF Pro | bacteria inflammation | timstof-pro | ||||
| Proteomic evaluation of human osteoblast responses to titanium implants over time | DDA, PASEF | Journal article | 2022 | Francisco Romero-Gavilán, Andreia Cerqueira, Iñaki García-Arnáez, Mikel Azkargorta, Félix Elortza, Marilo Gurruchaga, Isabel Goñi and Julio Suay | Universitat Jaume I, Universidad del País Vasco, CIC bioGUNE | 30 SPD | timsTOF Pro | dda pasef | 30-spd | timstof-pro | ||
| A targeted multiplex mass spectrometry method for quantitation of abundant matrix and cellular proteins in formalin-fixed paraffin embedded arterial tissue | FFPE, Tissue | Journal article | 2022 | Anne-Sofie Faarvang Thorsen, Lars Peter Schødt Riber, Lars Melholt Rasmussen and Martin Overgaard | Odense University Hospital. University of Southern Denmark. Steno Diabetes Center Odense. | 60 SPD | Thermo Altis triple quadrupole | ffpe tissue | 60-spd | thermo-altis-triple-quadrupole | ||
| Hybrid-DIA: Intelligent Data Acquisition for Simultaneous Targeted and Discovery Phosphoproteomics in Single Spheroids | DIA, Phosphoproteomics | Journal article | 2022 | Ana Martínez-Val, Kyle Fort, Claire Koenig, Leander Van der Hoeven, Giulia Franciosa, Thomas Moehring , Yasushi Ishihama, Yu-ju Chen, Alexander Makarov, Yue Xuan and Jesper V. Olsen | Novo Nordisk Foundation Center for Protein Research, University of Copenhagen. Thermo Fisher Scientific. Kyoto University. Academia Sinica | Whisper 40 SPD | Thermo Orbitrap Exploris 480 | dia phosphoproteomics | whisper-40spd | thermo-orbitrap-exploris-480 | ||
| MS-DAP Platform for Downstream Data Analysis of Label-Free Proteomics Uncovers Optimal Workflows in Benchmark Data Sets and Increased Sensitivity in Analysis of Alzheimer’s Biomarker Data | Alzheimer Disease, Biomarker | Publication | 2022 | Frank Koopmans, Ka Wan Li, Remco V. Klaassen, and August B. Smit | VU University | 30 SPD | timsTOF Pro | alzheimer-disease biomarker | 30-spd | timstof-pro | ||
| Ultra-high sensitivity for targeted clinical proteomics using Evosep-MRM | Clinical proteomics | Poster | 2022 | Angela McArdle, Dorte B. Bekker-Jensen, Bharath Kumar Raghuraman, Nicolai Bache | Evosep Biosystems | Whisper | Agilent 6495 Triple Quadrupole | clinical-proteomics | whisper | agilent-6495-triple-quadrupole | ||
| A complete and automated sample preparation strategy forhigh-throughput and standardized proteomics, applied to a clinical cohort of patient plasma samples | Plasma | Poster | 2022 | Dorte B. Bekker-Jensen, Florian Harking, Magnus Huusfeldt, Ole Østergaard, Lasse Falkenby, Line Vinderslev Iversen, Jakob Bunkenborg, Angie McArdle, Ole B. Hørning, Nicolai Bache, Jesper V. Olsen | Evosep Biosystems, University of Copenhagen, Statens Serum Institut, Bispebjerg University Hospital, | 500 SPD, Whisper 40 SPD | Bruker timsTOF Pro | plasma | 500-spd whisper-40spd | bruker-timstof-pro | ||
| Pushing the boundaries for robust and high-throughput single cell analysis with Whisper Flow technology powered by dia-PASEF | diaPASEF, Single cell | Poster | 2022 | Dorte B. Bekker-Jensen, Christoph Krisp, David Hartlmayr, Anjali Seth, Ole B. Hørning, Moritz Heusel, Magnus Huusfeldt, Andreia Almeida, Markus Lubeck, Gary Kruppa, Jarrod Sandow, Nicolai Bache | Evosep Biosystems, Bruker Daltonics GmBH & Co. KG, Cellenion, IonOpticks, Bruker s.r.o, Brno | Whisper 40 SPD | Bruker timsTOF SCP | diapasef single-cell | whisper-40spd | bruker-timstof-scp | ||
| Proteomic profiling of cerebrospinal fluid in pediatric myelin oligodendrocyte glycoprotein antibody-associated disease | MOG, Proteomics | Publication | 2022 | Yi‑Long Wang, Meng‑Ying Zhu, Zhe‑Feng Yuan, Xiao‑Yan Ren, Xiao‑Tong Guo, Yi Hua, Lu Xu, Cong‑Ying Zhao, Li‑Hua Jiang, Xin Zhang, Guo‑Xia Sheng, Pei‑Fang Jiang, Zheng‑Yan Zhao, Feng Gao | Zhejiang University School of Medicine | Thermo Q Exactive | mog proteomics | thermo-q-exactive | ||||
| Spatial single-cell mass spectrometry defines zonation of the hepatocyte proteome | Single cell | Publication | 2022 | Florian A. Rosenberger, Marvin Thielert, Maximilian T. Strauss, Constantin Ammar, Sophia C. Mädler, Lisa Schweizer, Andreas Metousis, Patricia Skowronek, Maria Wahle, Janine Gote-Schniering, Anna Semenova, Herbert B. Schiller, Edwin Rodriguez, Thierry M. | Max Planck Institute of Biochemistry, Martinsried, Germany. Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Denmark. Evosep Biosystems, Denmark. Bruker Daltonik, Germany and United States. Helmholtz Zentrum München, Germany. | 30 SPD | Bruker timsTOF SCP | single-cell | 30-spd | bruker-timstof-scp | ||
| A complete, automated Opentrons OT-2 loading protocol for simplified sample loading of Evotip Pure | Application note | 2022 | Evosep | 100 SPD, 500 SPD, Whisper 40 SPD | Bruker timsTOF Pro | 100-spd 500-spd whisper-40spd | bruker-timstof-pro | |||||
| Rapid and robust PTM peptide mapping for biologics with the Evosep One and the SCIEX ZenoTOF 7600 | Peptidomics | Application note | 2022 | Evosep | 100 SPD, 300 SPD, 60 SPD | SCIEX ZenoTOF 7600 | peptidomics | 100-spd 300-spd 60-spd | sciex-zenotof-7600 | |||
| Pushing the boundaries for robust and high-throughput single cell analysis | DIA, PASEF, Single cell | Application note | 2022 | Evosep | Whisper 40 SPD | Bruker timsTOF SCP | dia pasef single-cell | whisper-40spd | bruker-timstof-scp | |||
| Temporal phosphoproteomics reveals WEE1-dependent control of 53BP1 pathway | Phosphoproteomics | Publication | 2022 | Valdemaras Petrosius, Jan Benada, Olaf Nielsen, Erwin Marten Schoof, Claus Storgaard Sørensen | University of Copenhagen, Technical University of Denmark | 30 SPD | Thermo Fisher Ultimate 3000 | phosphoproteomics | 30-spd | thermo-fisher-ultimate-3000 | ||
| Robust dimethyl-based multiplex-DIA workflow doubles single-cell proteome depth via a reference channel | DIA, Single cell | Publication | 2022 | Marvin Thielert, Corazon Ericka Mae Itang, Constantin Ammar, Florian A Schober, Isabell Bludau, Patricia Skowronek, Maria Wahle, Wen-Feng Zeng, Xie-Xuan Zhou, Andreas-David Brunner, Sabrina Richter, Fabian J Theis, Martin Steger, Matthias Mann | Max Planck Institute of Biochemistry, Boehringer Ingelheim Pharma GmbH & Co, German Research Center for Environmental Health, Technical University of Munich, NEOsphere Biotechnologies GmbH, University of Copenhagen | Whisper 40 SPD | Bruker timsTOF SCP | dia single-cell | whisper-40spd | bruker-timstof-scp | ||
| Restoring cellular magnesium balance through Cyclin M4 protects against acetaminophen-induced liver damage | Liver, PASEF | Publication | 2022 | Irene González-Recio, Jorge Simón, Naroa Goikoetxea-Usandizaga, Marina Serrano-Maciá, Maria Mercado-Gómez, Rubén Rodríguez-Agudo, Sofía Lachiondo Ortega, Clàudia Gil-Pitarch, Carmen Fernández-Rodríguez, Donatello Castellana, Maria U. Latasa, Leticia Abeci | CIC bioGUNE, Universidad de Navarra, Marqués de Valdecilla University Hospital, McGill University, Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas (CIBERehd), University of the Basque Country (UPV/EHU), Silence Therapeutic | Bruker timsTOF Pro | liver pasef | bruker-timstof-pro | ||||
| Enhancing single-cell proteomics through tailored Data-Independent Acquisition and micropillar array-based chromatography | DIA | Publication | 2022 | Valdemaras Petrosius, Pedro Aragon-Fernandez, Nil Üresin, Teeradon Phlairaharn, Benjamin Furtwängler, Jeff op de Beeck, Simon Francis Thomsen, Ulrich auf dem Keller, Bo T. Porse, Erwin M. Schoof | Technical University of Denmark, University of Copenhagen | Whisper 20 SPD | Thermo Orbitrap Eclipse Tribid | dia | whisper-20spd | thermo-orbitrap-eclipse-tribid | ||
| Characterization of TGF-β signaling in a human organotypic skin model reveals that loss of TGF-βRII induces invasive tissue growth | Tissue | Publication | 2022 | Zilu Ye, Gülcan Kilic, Sally Dabelsteen, Irina N. Marinova, Jens F. B. Thøfner, Ming Song, Asha M. Rudjord-Levann, Ieva Bagdonaite, Sergey Y. Vakhrushev, Cord H. Brakebusch, Jesper V. Olsen, Hans H. Wandall | University of Copenhagen | 30 SPD | Thermo Orbitrap Exploris 480 | tissue | 30-spd | thermo-orbitrap-exploris-480 | ||
| Two Subgroups within the GH43_36 α-l-Arabinofuranosidase Subfamily Hydrolyze Arabinosyl from Either Mono-or Disubstituted Xylosyl Units in Wheat Arabinoxylan | Arabinoxylan, Phylogeny | Publication | 2022 | Kai P. Leschonski, Svend G. Kaasgaard,Nikolaj Spodsberg, Kristian B. R. M. Krogh, Mirjam A. Kabel | Novozymes A/S, Wageningen University | Bruker timsTOF Pro | arabinoxylan phylogeny | bruker-timstof-pro | ||||
| Plasma proteomic profling in postural orthostatic tachycardia syndrome (POTS) reveals new disease pathways | Plasma | Publication | 2022 | Madeleine Johansson, HongYan, Charlotte Welinder, ÁkosVégvári, Viktor Hamrefors, Magnus Bäck, Richard Sutton, Artur Fedorowski | Skåne University Hospital, Swedish National Infrastructure for Biological Mass Spectrometry, Karolinska Institutet, Lund University, | 60 SPD | Bruker timsTOF Pro | plasma | 60-spd | bruker-timstof-pro | ||
| Programmed death ligand 1 intracellular interactions with STAT3 and focal adhesion protein Paxillin facilitate lymphatic endothelial cell remodeling | Cell, PASEF | Publication | 2022 | Johnathon B. Schafer, Erin D. Lucas, PhD, Monika Dzieciettkowska, Tadg Forward, Beth A. Jirón Tamburini | University of Colorado School of Medicine, | Bruker timsTOF Pro | cell pasef | bruker-timstof-pro | ||||
| Correlation between biological responses in vitro and in vivo to Ca-doped sol-gel coatings assessed using proteomic analysis | Vitro, Vivo | Publication | 2022 | I. García-Arnáeza, F. Romero-Gavilán, A. Cerqueira, F. Elortza, M. Azkargorta, F. Muñoz, M. Mata, J.J. Martín de Llano, J. Suay, M. Gurruchaga, I.Goñia | University of the Basque Country, Universitat Jaume, Basque Research and Technology Alliance, Campus Universitario, iBoneLab SL, University of Valencia, Research Institute of the University Clinical Hospital of Valencia | 30 SPD | Bruker timsTOF Pro | vitro vivo | 30-spd | bruker-timstof-pro | ||
| Slice-PASEF: fragmenting all ions for maximum sensitivity in proteomics | PASEF | Publication | 2022 | Lukasz Szyrwiel, Ludwig Sinn, Markus Ralser, Vadim Demichev | Universitätsmedizin Berlin, University of Oxford | 200 SPD | Bruker timsTOF Pro | pasef | 200-spd | bruker-timstof-pro | ||
| Synchro-PASEF allows precursor-specific fragment ion extraction and interference removal in data-independent acquisition | DIA, PASEF | Publication | 2022 | Patricia Skowronek, Florian Krohs, Markus Lubeck, Georg Wallmann, Ericka Itang, Polina Koval, Maria Wahle, Marvin Thielert, Florian Meier, Sander Willems, Oliver Raether, Matthias Mann | Max Planck Institute of Biochemistry, Bruker Daltonics GmbH & Co. KG Bremen, Kyiv Academic University, Jena University Hospital, Bruker Belgium, NNF Center for Protein Research, | 100 SPD, 60 SPD | Bruker timsTOF Pro | dia pasef | 100-spd 60-spd | bruker-timstof-pro | ||
| Enhanced drug delivery by a prodrug approach effectively relieves neuroinflammation in mice | Inflammation, Neuron, Proteomics | Publication | 2022 | Ahmed Montaser, Janita Kuiri, Teemu Natunen, Pavel Hruska, David Potesil, Seppo Auriola, Mikko Hiltunen, Tetsuya Terasaki, Marko Lehtonen, Aaro Jalkanen, Kristiina M Huttunen | University of Eastern Finland, Masaryk University, Tohoku University, | inflammation neuron proteomics | ||||||
| Kinase Inhibitor Pulldown Assay (KiP) for Clinical Proteomics | Kinase, Protein identification | Publication | 2022 | Alexander B Saltzman, Doug W Chan, Matthew V Holt, Junkai Wang, Eric J Jaehnig, Meenakshi Anurag, Purba Singh, Anna Malovannaya, Beom-Jun Kim, Matthew J Ellis | Baylor College of Medicine, MD Anderson Cancer Center, AstraZeneca, | 30 SPD | Thermo Orbitrap Exploris 480 | kinase protein-identification | 30-spd | thermo-orbitrap-exploris-480 | ||
| On the potential of micro-flow LC-MS/MS in proteomics | Protein identification, Proteomics | Publication | 2022 | Yangyang Bian, Chunli Gao, Bernhard Kuster, | Northwest University, Technical University of Munich | 300 SPD | AB Sciex TripleTOF 6600 | protein-identification proteomics | 300-spd | ab-sciex-tripletof-6600 | ||
| Autophagy regulates neuronal excitability by controlling cAMP/protein kinase A signaling at the synapse | Autophagy, Neuron | Publication | 2022 | Melina Overhoff, Frederik Tellkamp, Simon Hess, Marianna Tolve, Janine Tutas, Marcel Faerfers, Lotte Ickert, Milad Mohammadi, Elodie De Bruyckere, Emmanouela Kallergi, Andrea Delle Vedove, Vassiliki Nikoletopoulou, Brunhilde Wirth, Joerg Isensee, Tim Huch | University of Cologne, University of Lausanne, Leibniz Institute for Molecular Pharmacology, German Center for Neurodegenerative Diseases | Whisper 20 SPD | Thermo Q Exactive 480 | autophagy neuron | whisper-20spd | thermo-q-exactive-480 | ||
| A Parallelization Strategy for the Time Efficient Analysis of Thousands of LC/MS Runs in High-Performance Computing Environment | Covid-19, Plasma | Publication | 2022 | Patrick van Zalm, Arthur Viodé, Kinga Smolen, Benoit Fatou, Arash Nemati Hayati, Christoph N. Schlaffner, Ofer Levy, Judith Steen, Hanno Steen | Boston Children's Hospital | Bruker timsTOF Pro | covid-19 plasma | bruker-timstof-pro | ||||
| 2-O-Methylation of the second transcribed nucleotide within the mRNA 5 cap impacts the protein production level in a cell-specific manner and contributes to RNA immune evasion | Immunology, RNA | Journal article | 2022 | Karolina Drazkowska, Rafal Tomecki, Marcin Warminski, Natalia Baran, Dominik Cysewski, Anaıs Depaix, Renata Kasprzyk, Joanna Kowalska, Jacek Jemielity, Pawel J. Sikorski | University of Warsaw, Polish Academy of Sciences, Medical University of Bialystok | 30 SPD | Thermo Orbitrap Exploris 480 | immunology rna | 30-spd | thermo-orbitrap-exploris-480 | ||
| Common variable immunodeficiency in two kindreds with heterogeneous phenotypes caused by novel heterozygous NFKB1 mutations | Immunology, Mutations, Phenotypes | Publication | 2022 | Frederik Staels, Kerstin De Keukeleere, Matias Kinnunen, Salla Keskitalo, Flaminia Lorenzetti, Michiel Vanmeert, Teresa Prezzemolo, Emanuela Pasciuto, Eveline Lescrinier, Xavier Bossuyt, Margaux Gerbaux, Mathijs Willemsen, Julika Neumann, Sien Van Loo, An | KU Leuven, University of Helsinki, University Hospitals Leuven, Babraham Institute | 60 SPD | Bruker timsTOF Pro | immunology mutations phenotypes | 60-spd | bruker-timstof-pro | ||
| SARS-CoV-2 Production, Purification Methods and UV Inactivation for Proteomics and Structural Studies Inactivation for Proteomics and Structural Studies | Covid-19 | Publication | 2022 | Zlatka Plavec, Aušra Domanska, Xiaonan Liu, Pia Laine, Lars Paulin, Markku Varjosalo, Petri Auvinen, Sharon G. Wolf, Maria Anastasina, Sarah J. Butcher | Molecular and Integrative Biosciences Research Programme, University of Helsinki, Weizmann Institute pf Science, | 60 SPD | Bruker timsTOF Pro | covid-19 | 60-spd | bruker-timstof-pro | ||
| Optimizing data points per protein increases protein identifications while maintaining quantitative precision in short gradient data-independent acquisition proteomics | Protein identification, Proteomics | Publication | 2022 | Joerg Doellinger, Christian Blumenscheit, Andy Schneider, Peter Lasch | Robert Koch-Institute | 60 SPD | Bruker timsTOF Pro | protein-identification proteomics | 60-spd | bruker-timstof-pro | ||
| PKC isoforms activate LRRK1 kinase by phosphorylating conserved residues (Ser1064, Ser1074, and THR1075) within the COR GTPase domain | Phosphorylation | Publication | 2022 | Asad U. Malik, Athanasios Karapetsas, Raja S. Nirujogi, Sebastian Mathea, Prosenjit Pal, Pawel Lis, Matthew Taylor, Elena Purlyte, Robert Gourlay, Mark Dorward, Simone Weidlich, Rachel Toth, Nicole K. Polinski, Stefan Knapp, Francesca Tonelli & Dario R Al | University of Dundee, Collaborative Research Network, Johann Wolfgang Goethe University, AB Sciex | 30 SPD | Thermo Orbitrap Exploris 240 | phosphorylation | 30-spd | thermo-orbitrap-exploris-240 | ||
| Endosomal Chemokine Receptor Signalosomes Regulate Central Mechanisms Underlying Cell Migration | Cell Migration, Chemokine | Publication | 2022 | Hyunggu Hahn, Carole Daly, John Little IV, Nicole A. Perry Hauser, Asuka Inoue, Bianca Plouffe, Alex R. B. Thomsen | New York University College of Dentistry, Queen’s University Belfast, Columbia University Vagelos College of Physicians and Surgeons, Tohoku University | Thermo Q Exactive HF-X | cell-migration chemokine | thermo-q-exactive-hf-x | ||||
| Rapid profiling of protein complex re-organization in perturbed systems | Cell, Molecule, Proteomics | Publication | 2022 | Isabell Blau, Charlotte Nicod, Claudia Martelli, Peng Xue, Moritz Heusel Andreas Fossati, Federico Uliana, Fabian Frommelt, Ruedi Aabersold, Ben C. Collins | ETH Zürich, Max Planck Institute of Biochemistry, Lund University, University of California San Francisco, J. David Gladstone Institutes, Queen's University of Belfast | 60 SPD | AB Sciex TripleTOF 6600 | cell molecule proteomics | 60-spd | ab-sciex-tripletof-6600 | ||
| Cellular proteomic profiling using proximity labelling by TurboID-NES in microglial and neuronal cell lines | Cell, Neuron, Tissue | Publication | 2022 | Sydney Sunna, Christine Bowen, Hollis Zeng, Struti Rayaprolu, Prateek Kumar, Pritha Bagchi, Duc M. Duong, Sara Bitarafan, Aditya Natu, Levi Wood, Nicholas T. Seyfried, Srikant Rangaraju | Emory University, Georgia Institute of Technology | 30 SPD | Thermo Q Exactive | cell neuron tissue | 30-spd | thermo-q-exactive | ||
| Structural studies reveal that endosomal cations promote formation of 2 infectious CVA9 A particles, facilitating RNA and VP4 release. | Virus | Publication | 2022 | Aušra Domanska, Zlatka Plavec, Visa Ruokolainen, Benita Löflund, Varpu Marjomäki, Sarah J Butcher | Faculty of Biological and Environmental Sciences, Molecular and Integrative Bioscience Research Programme, and Helsinki Institute of Life Sciences-Institute of Biotechnology, University of Helsinki, Helsinki, Finland | 60 SPD | Bruker timsTOF Pro | virus | 60-spd | bruker-timstof-pro | ||
| Extended detection of anabolics misuse in high-throughput doping controls with the Evosep One | Application note | 2022 | Evosep | 100 SPD | 100-spd | |||||||
| The spike of SARS-CoV-2 promotes metabolic rewiring in hepatocytes | Covid-19, Liver | Publication | 2022 | Maria Mercado-Gómez, Endika Prieto-Fernández, Naroa Goikoetxea-Usandizaga, Laura Vila-Vecilla, Mikel Azkargorta. Miren Bravo, Marina Serrano-Maciá, Leire Egia-Mendikute, Rubén Rodríguez-Agudo, Sofia Lachiondo-Ortega, So Young Lee, Alvaro Eguileor Giné | CIC bioGUNE, Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas, IIS Hospital La Fe, University of Valencia, Basque Foundation for Science, University of the Basque Country, Centro de Investigación Biomédica En Red de Enferme | 30 SPD | Bruker timsTOF Pro | covid-19 liver | 30-spd | bruker-timstof-pro | ||
| Biomarkers in Neurodegenerative Diseases: Proteomics Spotlight on ALS and Parkinson’s Disease | ALS, Biomarker, Parkinson's disease | Publication | 2022 | Rekha Raghunathan, Kathleen Turajane and Li Chin Wong | International Journal of Molecular Sciences | als biomarker parkinsons-disease | ||||||
| Coordinated control of the ADP-heptose/ALPK1 signalling network by the E3 ligases TRAF6, TRAF2/c-IAP1 and LUBAC. | Immunology | Publication | 2022 | Tom Snelling, Natalia Shpiro, Robert Gourlay, Frederic Lamoliatte and Philip Cohen | University of Dundee | Thermo Orbitrap Exploris 240 | immunology | thermo-orbitrap-exploris-240 | ||||
| Analysis of context-specific KRAS-effectors (sub)complexes in Caco-2 cells | Cancer | Publication | 2022 | Camille Ternet, Philipp Junk, Thomas Sevrin, Simona Catozzi, Giorgio Oliviero, Kieran Wynne and Christina Kiel | University College Dublin, University of Pavia | Bruker timsTOF Pro | cancer | bruker-timstof-pro | ||||
| The addition of FAIMS increases targeted proteomics sensitivity from FFPE tumor biopsies | FAIMS, FFPE | Publication | 2022 | Steve Sweet, David Chain, WenYu, Philip Martin, Marlon Rebelatto, Andrew Chambers, Fabiola Cecchi and Yeoun Jin Kim | AstraZeneca | 30 SPD | Thermo Orbitrap Fusion Lumos | faims ffpe | 30-spd | thermo-orbitrap-fusion-lumos | ||
| High-throughput mass spectrometry maps the sepsis plasma proteome and differences in response | DDA, Plasma | Publication | 2022 | Yuxin Mi, Katie L Burnham, Philip D Charles, Raphael Heilig, Iolanda Vendrell, Justin Whalley, Hew D Torrance, David B Antcliffe, Shaun M May, Matt J Neville, Georgina Berridge. Paula Hutton, Cyndi Goh, Jayachandran Radhakrishnan, Alexey Nesvizhskii, | University of Oxford, Wellcome Genome Campus, Imperial College London, Queen Mary University of London, NIHR Oxford Biomedical Research Centre, Oxford University Hospitals NHS Foundation Trust, University of Michigan, Imperial College Healthcare NHS Trust | 100 SPD | Bruker timsTOF Pro | dda plasma | 100-spd | bruker-timstof-pro | ||
| Widespread hydroxylation of unstructured lysine-rich protein domains by JMJD6 | DIA | Publication | 2022 | Matthew E. Cockman, Yoichiro Sugimoto, Hamish B. Pegg, Norma Masson, Eidarus Salah, Anthony Tumber, Helen R. Flynn, Joanna M. Kirkpatrick, Christopher J. Schofield and Peter J. Ratcliffe | Francis Crick Institute | 30 SPD | Thermo Orbitrap Fusion Lumos | dia | 30-spd | thermo-orbitrap-fusion-lumos | ||
| High throughput and high confidence sequence variant analysis in therapeutic antibodies using Evosep One liquid chromatography tandem mass spectrometry with synthetic heavy peptides | Antibodies, Peptidomics | Publication | 2022 | Tyler Greer, Reid O'Brien Johnson, Song Nie, Milos Cejkov, Xiaojing Zheng & Ning Li | Regeneron Pharmaceuticals Inc | 30 SPD | Thermo Orbitrap Fusion Lumos | antibodies peptidomics | 30-spd | thermo-orbitrap-fusion-lumos | ||
| Osteocytes Serve as a Reservoir for Intracellular Persisting Staphylococcus aureus Due to the Lack of Defense Mechanisms | Inflammation | Publication | 2022 | Marina Garcia-Moreno, Paul M. Jordan, Kerstin Günther, Therese Dau, Christian Fritzsch, Monika Vermes, Astrid Schoppa, Anita Ignatius, Britt Wildemann, Oliver Werz, Bettina Löffler & Lorena Tuchscherr | Jena University Hospital, Friedrich Schiller University Jena, Leibniz Institute on Aging & University Medical Center Ulm | 30 SPD | Thermo Orbitrap Exploris 480 | inflammation | 30-spd | thermo-orbitrap-exploris-480 | ||
| Neddylation tunes peripheral blood mononuclear cells immune response in COVID-19 patients | Covid-19, Plasma | Publication | 2022 | Marina Serrano-Maciá, Sofia Lachiondo-Ortega, Paula Iruzubieta, Naroa Goikoetxea-Usandizaga, Alexandre Bosch, Leire Egia-Mendikute, Borja Jiménez-Lasheras, Mikel Azkargorta, Félix Elortza, Diana Martinez-Redondo, Begoña Castro, Juan J. Lozano, Ruben Nogue | CIC bioGUNE-BRTA, IDIVAL, CIC bioGUNE, CIBEREHD, University of Santiago de Compostela-Instituto de Investigación Sanitaria, Centro de Investigación Biomédica en Red, GAIN, Universidad de Cantabria, Ikerbasque & Basque Foundation for Science | 30 SPD | Bruker timsTOF Pro | covid-19 plasma | 30-spd | bruker-timstof-pro | ||
| T-cell trans-synaptic vesicles are distinct and carry greater effector content than constitutive extracellular vesicles | Immunology, T-cell | Publication | 2022 | Pablo F. Céspedes, Ashwin Jainarayanan, Lola Fernández-Messina, Salvatore Valvo, David G. Saliba, Elke Kurz, Audun Kvalvaag, Lina Chen, Charity Ganskow, Huw Colin-York, Marco Fritzsche, Yanchun Peng, Tao Dong, Errin Johnson, Jesús A. Siller-Farfán, Omer D | The University of Oxford, Autónoma de Madrid, Centro Nacional de Investigaciones Cardiovasculares (CNIC), University of Oxford, Karolinska Institutet | 60 SPD | Bruker timsTOF Pro | immunology t-cell | 60-spd | bruker-timstof-pro | ||
| High-throughput quantitative proteomics using Zeno SWATH data-independent analysis (DIA) and the Evosep One system | DIA, Peptidomics, Protein interaction | Application note | 2022 | Ihor Batruch, Yves Le Blanc and Christie Hunter | SCIEX | 100 SPD, 200 SPD, 30 SPD, 60 SPD | SCIEX ZenoTOF 7600 | dia peptidomics protein-interaction | 100-spd 200-spd 30-spd 60-spd | sciex-zenotof-7600 | ||
| Rapid and in-depth coverage of the (phospho-)proteome with deep libraries and optimal window design for dia-PASEF | DDA, DIA, Phosphoproteomics | Publication | 2022 | Patricia Skowronek, Marvin Thielert, Eugenia Voytik, Maria C. Tanzer, Fynn M. Hansen, Sander Willems, Özge Karayel, Andreas-David Brunner, Florian Meier, Matthias Mann | Max Planck Institute of Biochemistry, Jena University Hospital, University of Copenhagen | 100 SPD, 30 SPD, 60 SPD | Bruker timsTOF Pro | dda dia phosphoproteomics | 100-spd 30-spd 60-spd | bruker-timstof-pro | ||
| Application of In-Cell Fast Photochemical Oxidation of Proteins for the Study of Organoids | Protein interaction | Application note | 2022 | Raquel Shortt, Lisa M. Jones | University of Maryland, University of California | Thermo Orbitrap Fusion Lumos | protein-interaction | thermo-orbitrap-fusion-lumos | ||||
| Brain proteome profling implicates the complement and coagulation cascade in multiple system atrophy brain pathology | Brain, DIA, Inflammation | Publication | 2022 | Rasmus Rydbirk, Ole Østergaard, Jonas Folke, Casper Hempel, Brian DellaValle, Thomas L. Andresen, Annemette Løkkegaard, Anne‑Mette Hejl, Matthias Bode, Morten Blaabjerg, Mette Møller, Erik H. Danielsen, Lisette Salvesen, Charlotte C. Starhof, Sara Bech | Copenhagen University Hospital, University of Copenhagen, Technical University of Denmark, GLX Analytix ApS, Odense University Hospital, Aarhus University Hospital | 30 SPD | Thermo Q Exactive HF-X | brain dia inflammation | 30-spd | thermo-q-exactive-hf-x | ||
| Noninvasive proteomic biomarkers for alcohol-related liver disease | Biomarker, DIA, Liver | Publication | 2022 | Lili Niu , Maja Thiele , Philipp E. Geyer, Ditlev Nytoft Rasmussen, Henry Emanuel Webel, Alberto Santos, Rajat Gupta, Florian Meier , Maximilian Strauss , Maria Kjaergaard , Katrine Lindvig, Suganya Jacobsen, Simon Rasmussen , Torben Hansen , Aleksander K | University of Copenhagen, Max Planck Institute of Biochemistry, Odense University Hospital, University of Southern Denmark, Jena University Hospital, University of Oxford, Pfizer Worldwide Research and Development | 60 SPD | Thermo Orbitrap Exploris 480 | biomarker dia liver | 60-spd | thermo-orbitrap-exploris-480 | ||
| Advances in data‐independent acquisition massspectrometry towards comprehensive digital proteomelandscape | DIA, FAIMS | Publication | 2022 | Reta Birhanu Kitata, Jhih‐Ci Yang, Yu‐Ju Chen | Academia Sinica, National Yang Ming Chiao Tung University, National Taiwan University | 60 SPD | Thermo Orbitrap Exploris 480 | dia faims | 60-spd | thermo-orbitrap-exploris-480 | ||
| Engineered SH2 Domains for Targeted Phosphoproteomics | Phosphoproteomics | Publication | 2022 | Gregory D. Martyn, Gianluca Veggiani, Ulrike Kusebauch, Seamus R. Morrone, Bradley P. Yates, Alex U. Singer, Jiefei Tong, Noah Manczyk, Gerald Gish, Zhi Sun, Igor Kurinov, Frank Sicheri, Michael F. Moran, Robert L. Moritz and Sachdev S. Sidhu | University of Toronto, Institute for Systems Biology Washington, Hospital for Sick Children Toronto, Mount Sinai Hospital, Cornell University | phosphoproteomics | ||||||
| Proteomic phenotype of cerebral organoids derived from autism spectrum disorder patients reveal disrupted energy metabolism, cellular components, and biological processes | TMT | Publication | 2022 | Mirolyuba Ilieva, Blanca Irene Aldana, Kasper Tore Vinten, Sonja Hohmann, Thomas William Woofenden, Renate Lukjanska, Helle S Waagepetersen, Tanja Maria Michel | University of Southern Denmark, Odense University Hospital, Aalborg University, University of Copenhagen | 30 SPD | Thermo Orbitrap Fusion | tmt | 30-spd | thermo-orbitrap-fusion | ||
| Pancreatic INS-1 β-Cell Response to Thapsigargin and Rotenone: A Comparative Proteomics Analysis Uncovers Key Pathways of β-Cell Dysfunction | Phosphorylation, TMT | Publication | 2022 | Mehari Muuz Weldemariam, Jongmin Woo & Qibin Zhang | University of North Carolina at Greensboro | phosphorylation tmt | ||||||
| Proteomics of human biological fluids for biomarker discoveries: technical advances and recent applications | Biomarker | Publication | 2022 | Loïc Dayon, Ornella Cominetti & Michael Affolter | Proteomics, Bioanalytics Department, Nestlé Institute of Food Safety & Analytical Sciences, Institut des Sciences et Ingénierie Chimiques | biomarker | ||||||
| Evaluation of the Suitability of Dried Saliva Spots for In-Depth Proteome Analyses for Clinical Applications | Clinical research | Publication | 2022 | Hironori Sato, Daisuke Nakajima, Masaki Ishikawa, Ryo Konno, Ren Nakamura, Osamu Ohara, & Yusuke Kawashima | Department of Applied Genomics, Kazusa DNA Research Institute, Department of Pediatrics, Graduate School of Medicine, Chiba University | clinical-research | ||||||
| Inflammation-induced downregulation of succinate dehydrogenase regulates adrenocortical function | Inflammation | Publication | 2022 | Ivona Mateska, Anke Witt, Eman Hagag, Anupam Sinha, Canelif Yilmaz, Evangelia Thanou, Na Sun, Ourania Kolliniati, Maria Patschin, Heba Abdelmegeed, Holger Henneicke, Waldemar Kanczkowski, Ben Wielockx, Christos Tsatsanis, Andreas Dahl, Axel Walch, Ka Wan | Technische Universität Dresden, Germany, Vrije Universiteit, Netherlands, Helmholtz Centrum München, Germany, University of Crete, Greece | 30 SPD | Bruker timsTOF Pro | inflammation | 30-spd | bruker-timstof-pro | ||
| Zwitter-ionic monolith-based spintip column coupled with Evosep One liquid chromatography for high-throughput proteomic analysis | Clinical research, Cohort studies | Publication | 2022 | Yiran Su, Xi Wang, Yun Yang, Lijun Yang, Ruilian Xu, Ruijun Tian | Southern Univrsity of Science and Technology, China, Jinan University, China, | Whisper 20 SPD | Bruker timsTOF Pro | clinical-research cohort-studies | whisper-20spd | bruker-timstof-pro | ||
| Ultra sensitive and high throughput proteomics on the standardized Evosep One platform | Single cell, Technology development | Webinar | 2021 | The recently introduced Whisper™ Flow Technology uses preformed gradients and disposable Evotip trap columns with the sample preloaded and immobilized to robustly and reproducibly handle very small sample amounts, down to actual single cells, at sub-100 nl/min flowrates. | Jesper Olsen, Erwin M. Schoof | University of Copenhagen, Technical University of Denmark | Whisper 20 SPD, Whisper 40 SPD | Thermo Orbitrap Exploris 480 | single-cell technology-development | whisper-20spd whisper-40spd | thermo-orbitrap-exploris-480 | |
| A Non-Hazardous Deparaffinization Protocol Enables Quantitative Proteomics of Core Needle Biopsy-Sized Formalin-Fixed and Paraffin-Embedded (FFPE) Tissue Specimens | Cancer, FFPE, Tissue | Publication | 2022 | Georgia Mitsa, Qianyu Guo, Christophe Goncalves, Samuel E J Preston, Vincent Lacasse, Adriana Aguilar-Mahecha, Naciba Benlimame, Mark Basik, Alan Spatz, Gerald Batist, Wilson H Miller Jr, Sonia V Del Rincon, René P Zahedi, Christoph H Borchers | International Journal of Molecular Sciences | cancer ffpe tissue | ||||||
| Integrative analysis of non-small cell lung cancer patient-derived xenografts identifies distinct proteotypes associated with patient outcomes | Cancer, Lung | Publication | 2022 | Shideh Mirhadi, Shirley Tam, Quan Li, Nadeem Moghal, Nhu-An Pham, Jiefei Tong, Brian J. Golbourn, Jonathan R. Krieger, Paul Taylor, Ming Li, Jessica Weiss, Sebastiao N. Martins-Filho ,Vibha Raghavan, Yasin Mamatjan, Aafaque A. Khan, Michael Cabanero, Shin | Nature Communications | 30 SPD | Thermo Orbitrap Fusion Lumos | cancer lung | 30-spd | thermo-orbitrap-fusion-lumos | ||
| DebaryOmics: an integrative –omics study to understand the halophilic behaviour of Debaryomyces hansenii | DIA, Phosphoproteomics, Yeast | Publication | 2022 | Clara Navarrete, Benjamín J. Sánchez, Simonas Savickas, José Luis Martínez Ruiz | Department of Biotechnology and Biomedicine,Technical University of Denmark | 30 SPD | Thermo Orbitrap Exploris 480 | dia phosphoproteomics yeast | 30-spd | thermo-orbitrap-exploris-480 | ||
| DNA damage contributes to neurotoxic inflammation in Aicardi-Goutières syndrome astrocytes | Peptidomics | Publication | 2022 | Anna Maria Sole Giordano, Marco Luciani, Francesca Gatto, Monah Abou Alezz, Chiara Beghè, Lucrezia Della Volpe, Alessandro Migliara, Sara Valsoni, Marco Genua, Monika Dzieciatkowska, Giacomo Frati, Julie Tahraoui-Bories, Silvia Clara Giliani, Simona Orces | Journal of Experimental Medicine | Bruker timsTOF Pro | peptidomics | bruker-timstof-pro | ||||
| Chemical probing provides insight into the native assembly state of a bacterial microcompartment | Bacteria, Protein interaction | Publication | 2022 | Daniel S. Trettel, William Resager, Beatrix M. Ueberheide, Conor C. Jenkins, Wade C.Winkler | University of Maryland, New York University Grossman School of Health, New York University Grossman School of Medicine | bacteria protein-interaction | ||||||
| APP and DYRK1A regulate axonal and synaptic vesicle protein networks and mediate Alzheimer’s pathology in trisomy 21 neurons | Alzheimer Disease, Protein interaction | Publication | 2022 | Chun-I Wu, Elizabeth A. Vinton, Richard V. Pearse II, Keunjung Heo, Aimee J. Aylward, Yi-Chen Hsieh, Yan Bi, Sopefoluwa Adeleye, Seeley Fancher, Duc M. Duong, Nicholas T. Seyfried, Thomas L. Schwarz & Tracy L. Young-Pearse | Molecular Psychiatry | alzheimer-disease protein-interaction | ||||||
| Nano-LC: An updated review | Publication | 2022 | Lian Shan, Barry R Jones | LC-MS Biologics, QSquared Solutions | ||||||||
| Development of Fast Photochemical Oxidation of Proteins for in Vivo Modification in Caenorhabditis elegans | Protein interaction | Case study | 2022 | Jessica Arlett Espino | University of Maryland | Thermo Orbitrap Fusion Lumos, Thermo Q Exactive HF | protein-interaction | thermo-orbitrap-fusion-lumos thermo-q-exactive-hf | ||||
| High-throughput and high-sensitivity biomarker monitoring in body fluid by FAIMS-enhanced fast LC SureQuant™ IS targeted quantitation | Biomarker, FAIMS | Publication | 2022 | Konstantinos Kalogeropoulos, Simonas Savickas, Aleksander M. Haack, Hans Smola, Louise Bundgaard | Novo Nordisk Foundation | 100 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | biomarker faims | 100-spd 60-spd | thermo-orbitrap-exploris-480 | ||
| Protocol to characterize mitochondrial supercomplexes from mouse tissues by combining BN-PAGE and MS-based proteomics | Lung, Tissue | Publication | 2021 | Roger Moreno-Justicia, Alba Gonzalez-Franquesa, Ben Stocks, Atul S. Deshmukh | Novo Nordisk Foundation (NNF), Copenhagen Denmark | Thermo Q Exactive HF-X | lung tissue | thermo-q-exactive-hf-x | ||||
| Chaperone-Mediated Autophagy Controls Proteomic and Transcriptomic Pathways to Maintain Glioma Stem Cell Activity | Cancer | Publication | 2022 | Jaione Auzmendi-Iriarte, Maddalen Otaegi-Ugartemendia, Estefania Carrasco-Garcia, Mikel Azkargorta, Antonio Diaz, Ander Saenz-Antonanzas, Joaquin Andrés Andermatten, Mikel Garcia-Puga, Idoia Garcia | University of the Basque Country | Bruker timsTOF Pro | cancer | bruker-timstof-pro | ||||
| Robust and high-throughput single cell proteomics with the Evosep One | Application note | 2022 | Evosep | Whisper 40 SPD | whisper-40spd | |||||||
| Comprehensive proteomics with 8.000 proteins identified with DIA-PASEF using the 30 samples per day method | Application note | 2022 | Evosep | 30 SPD | 30-spd | |||||||
| A semi automated AssayMAP bravo protocol for robust Evotip loading and high-throughput analysis on the Evosep One | Application note | 2022 | Evosep | |||||||||
| Improve and enhance your proteome coverage with the performance column for our long methods | DDA | Application note | 2022 | Evosep | 30 SPD, Extended method | Bruker timsTOF Pro | dda | 30-spd extended-method | bruker-timstof-pro | |||
| ASMS 2022 highlights: Robust and high-throughput analysis with ultra-high sensitivity | Technology development | Webinar | 2022 | At this webinar, we shared our impressions from ASMS 2022 and new interesting new science, which we presented during the conference. This includes comprehensive proteome analysis with our standard methods using Zeno SWATH DIA mode on the Sciex ZenoTOF 7600 system and the latest improvements to our Whisper methods facilitating a boost in sensitivity for targeted … | Dorte Bekker-Jensen, Angela Mc Ardle, Nicolai Bache | Evosep | technology-development | |||||
| High sensitivity limited material proteomics empowered by data- independent acquisition on linear ion traps | Single cell | Publication | 2022 | Teeradon Phlairaharn, Lukas R. Woltereck, Samuel Grégoire, Benjamin Furtwängler, Erwin M. Schoof | Technical University of Denmark | Whisper 20 SPD, Whisper 40 SPD | Thermo Orbitrap Eclipse Tribid | single-cell | whisper-20spd whisper-40spd | thermo-orbitrap-eclipse-tribid | ||
| Transcription factor-driven coordination of cell cycle exit and lineage-specification in vivo during granulocytic differentiation | Single cell, Tissue | Publication | 2022 | Kim Theilgaard-Mönch, Sachin Pundhir, Kristian Reckzeh, Jinyu Su, Marta Tapia, Benjamin Furtwängler, Johan Jendholm, Janus Schou Jakobsen, Marie Sigurd Hasemann, Kasper Jermiin Knudsen, Jack Bernard Cowland, Anna Fossum, Erwin Schoof | University of Copenhagen, Technical University of Denmark | Whisper 20 SPD | Thermo Orbitrap Eclipse Tribid | single-cell tissue | whisper-20spd | thermo-orbitrap-eclipse-tribid | ||
| Using Targeted Liquid Chromatography-Tandem Mass Spectrometry to Rapidly Detect β-Lactam, Aminoglycoside, and Fluoroquinolone Resistance Mechanisms in Blood Cultures Growing E. coli or K. pneumoniae | Antimicrobial resistance | Publication | 2022 | Dimard E. Foudraine, Lennard J. M. Dekker, Nikolaos Strepis, Stan J. Nispeling, Merel N. Raaphorst, Wendy Kloezen, Piet Colle, Annelies Verbon, Corné H. W. Klaassen, Theo M. Luider, Wil H. F. Goessens | Erasmus MC | 100 SPD | Thermo Orbitrap Fusion, Thermo Q Exactive | antimicrobial-resistance | 100-spd | thermo-orbitrap-fusion thermo-q-exactive | ||
| Profiling the Plasma Apolipoproteome of Normo- and Hyperlipidemic Mice by Targeted Mass Spectrometry | Plasma | Publication | 2022 | Lasse Bach Steffensen, Jannik Larsen, Didde Riisager Hansen, Thi My Linh Tha, Niels Strømvig Larsen, Hans Christian Beck, Lars Melholt Rasmussen, Martin Overgaard | University of Southern Denmark (SDU), Odense | plasma | ||||||
| Antimicrobial resistance with the Evosep One | Antibodies, Antimicrobial resistance | Webinar | 2022 | Accurate and rapid diagnostic tools are required to detect antimicrobial resistance and LCMSMS can unlock new possibilities. Learn how Evosep One can be used for ultrafast bacterial identification when we invite users from Erasmus MC and Université Laval to share their work in this webinar. | Dimard Foudraine, Florence Roux Dalvai | Erasmus MC, Laval University | antibodies antimicrobial-resistance | |||||
| Toxoplasma gondii ROP1 subverts murine and human innate immune restriction | Plasma | Publication | 2022 | Simon Butterworth, Francesca Torelli, Eloise J. Lockyer, Jeanette Wagener, Ok-Ryul Song, Malgorzata Broncel, Matt R. G. Russell, Joanna C. Young, Moritz Treeck | The Francis Crick Institute, London. | 30 SPD | Thermo Orbitrap Fusion Lumos | plasma | 30-spd | thermo-orbitrap-fusion-lumos | ||
| A fast and sensitive absolute quantification assay for the detection of sars-cov-2 peptides using parallel reaction monitoring mass spectrometry | Covid-19, DDA | Publication | 2022 | Akshada Gajbhiye, Atakan Nalbant, Tiaan Heunis, Frances Sidgwick, Andrew Porter, Yusri Taha, Matthias Trost | Newcastle University | 200 SPD | Thermo Q Exactive HF | covid-19 dda | 200-spd | thermo-q-exactive-hf | ||
| ABPP-HT* – Deep meets fast for activity-based profiling of deubiquitylating enzymes using advanced DIA and DDA mass spectrometry methods | DDA, DIA | Publication | 2022 | Hannah B. L. Jones, Raphael Heilig, Simon Davis, Roman Fischer, Benedikt M. Kessler, Adán Pinto-Fernandez | University of Oxford | 100 SPD | Bruker timsTOF Pro | dda dia | 100-spd | bruker-timstof-pro | ||
| Numb exon 9 inclusion regulates Integrinβ5 surface expression and promotes breast cancer metastasis | Breast cancer | Publication | 2022 | Yangjing Zhang, Sascha E. Dho, Kamal Othman, Craig D. Simpson, Jessica Lapierre, Andrew Bondoc & C. Jane McGlade | Department of Medical Biophysics, University of Toronto., The Arthur and Sonia Labatt Brain Tumour Research Centre., SPARC BioCentre, The Hospital for Sick Children. | breast-cancer | ||||||
| Beta thalassemia minor is a beneficial determinant of red blood cell storage lesion | Publication | 2022 | Vassilis L. Tzounakas, Alkmini T. Anastasiadi, Davide Stefanoni, Francesca Cendali, Lorenzo Bertolone, Fabia Gamboni, Monika Dzieciatkowska, Pantelis Rousakis, Athina Vergaki, Vassilis Soulakis, Ourania E. Tsitsilonis, Konstantinos Stamoulis, Issidora S. | Department of Biology, Section of Cell Biology and Biophysics, School of Science, National and Kapodistrian University of Athens., Department of Biochemistry and Molecular Genetics, University of Colorado, School of Medicine-Anschutz Medical Campus. | Bruker timsTOF Pro | bruker-timstof-pro | ||||||
| High-Field Asymmetric Waveform Ion Mobility Spectrometry and Parallel Reaction Monitoring Increases Sensitivity for Clinical Biomarker Quantitation from FormalinFixed, Paraffin-Embedded Tumor Biopsies | Automation, FAIMS, FFPE, Tissue | Publication | 2022 | Steve Sweet, David Chain, Wen Yu, Philip Martin, Marlon Rebelatto, Andrew Chambers,1 Fabiola Cecchi, Yeoun Jin Kim | Translational Medicine, Oncology R&D, Data Science and AI, BioPharmaceuticals R&D, AstraZeneca, Gaithersburg, MD | Thermo Orbitrap Fusion Lumos | automation faims ffpe tissue | thermo-orbitrap-fusion-lumos | ||||
| The setup and optimization of a complete global proteomics two-dimensional liquid chromatography system, using Spider Fractionation | Automation, Fractionation | Publication | 2021 | Eris Aas Bakketeig | University of Oslo, Oslo, Norway | Extended method | Thermo Q Exactive HF | automation fractionation | extended-method | thermo-q-exactive-hf | ||
| Doxycycline Alters the Porcine Renal Proteome and Degradome during Hypothermic Machine Perfusion | Doxycycline, HMP | Publication | 2022 | Leonie van Leeuwen, Leonie H. Venema, Raphael Heilig, Henri G. D. Leuvenink, Benedikt M. Kessler | University of Groningen, Groningen, The Netherlands, Target Discovery Institute, University of Oxford, Oxford, UK, Chinese Academy of Medical Sciences Oxford Institute, University of Oxford, Oxford, UK | Bruker timsTOF Pro | doxycycline hmp | bruker-timstof-pro | ||||
| P018 Proteomic profile of serum and urine in newly diagnosed patients with Inflammatory Bowel Disease: new approach for biomarker discovery | Biomarker, Serum, Urine | Publication | 2022 | Montse Baldan Martin, Mikel Azkargorta Mujika, Lorena Ortega-Moreno | Hospital Universitario de La Princesa, CIC bioGune, Bilbao, Spain | Bruker timsTOF Pro | biomarker serum urine | bruker-timstof-pro | ||||
| Recent Developments in Clinical Plasma Proteomics—Applied to Cardiovascular Research | Plasma | Publication | 2022 | Nicolai Bjødstrup Palstrøm, Rune Matthiesen, Lars Melholt Rasmussen, Hans Christian Beck | Odense University Hospital, Odense, Denmark, Universidade NOVA de Lisboa, Lisbon, Portugal | plasma | ||||||
| Proteomics based markers of clinical pain severity in juvenile idiopathic arthritis | Publication | 2022 | Hanne Van Der Heijden, Benoit Fatou, Kacie Hoyt, Benjamin Goodlett, Camilo Jaimes, Hanno Steen, Jaymin Upadhyay | Boston Children’s Hospital MA, USA, Maastricht University, Maastricht, The Netherlands, University of Amsterdam, Amsterdam, The Netherlands, BioSAS Consulting, Inc, Wellesley, MA, USA, McLean Hospital, Harvard Medical School, MA, Belmont, USA | 60 SPD | Bruker timsTOF Pro | 60-spd | bruker-timstof-pro | ||||
| Structural mechanism for the selective phosphorylation of DNA-loaded MCM double hexamers by the Dbf4-dependent kinase | Phosphorylation | Publication | 2021 | This publication by the Costa group describes the mechanism whereby the Dbf4 dependent kinase selectively targets fully loaded MCM double hexamers on the path to helicase activation, and uncover the mechanism whereby the checkpoint kinase Rad53 blocks this function. | Julia F. Greiwe, Thomas C. R. Miller, Julia Locke, Fabrizio Martino, Steven Howell, Anne Schreiber, Andrea Nans, John F. X. Diffley & Alessandro Costa | The Francis Crick Institute, London, UK | 30 SPD | Thermo Orbitrap Lumos | phosphorylation | 30-spd | thermo-orbitrap-lumos | |
| FASN-dependent de novo lipogenesis is required for brain development | DIA | Publication | 2022 | This publication by the Jessberger group, established a role of de novo lipogenesis for mouse and human brain development and identify a link between progenitor-cell polarity and lipid metabolism. | Daniel Gonzalez-Bohorquez, Isabel M. Gallego López, Baptiste N. Jaeger, Sibylle Pfammatter, Megan Bowers, Clay F. Semenkovich & Sebastian Jessberger | University of Zurich, Switzerland. University School of Medicine, St. Louis, US | Extended method | Bruker timsTOF Pro | dia | extended-method | bruker-timstof-pro | |
| Hyperinflammatory environment drives dysfunctional myeloid cell effector response to bacterial challenge in COVID-19 | Covid-19, DDA, Plasma | Publication | 2022 | This publication by the Zinkernagel group, assess the influence of COVID-19 plasma hypercytokinemia on the functional responses of myeloid immune cells upon bacterial challenges from acute-phase COVID-19 patients and their corresponding recovery-phase. We show that a severe hypercytokinemia status in COVID-19 patients correlates with the development of bacterial superinfections. | Srikanth Mairpady Shambat, Alejandro Gómez-Mejia, Tiziano A. Schweizer, Markus Huemer, Chun-Chi Chang, Claudio Acevedo, Judith Bergada-Pijuan, Clément Vulin, Daniel A. Hofmaenner, Thomas C. Scheier, Sanne Hertegonne, Elena Parietti, Nataliya Miroshnikova, | University Hospital of Zurich, University of Zurich, Switzerland | 30 SPD | Bruker timsTOF Pro | covid-19 dda plasma | 30-spd | bruker-timstof-pro | |
| Introducing Evotip Pure: A new generation of Evotip – It’s all in the tip | Technology development | Webinar | 2022 | Evotip Pure™ is a new generation Evotip developed for high performance. To ensure quality, we have internalized and refined all critical manufacturing and carefully chosen the chemistry. The design of Evotip Pure is based on five years of customer feedback added to a thorough review of every single aspect of the Evotip. Join this month’s … | Nicolai Bache, Dorte Bekker-Jensen | Evosep | technology-development | |||||
| Ultra-high sensitivity proteomics on the timsTOF SCP | Single cell | Application note | 2021 | This application note by Bruker describes the timsTOF SCP instrument and demonstrates robust proteome coverage down to 250 pg of peptide using the Whisper 40SPD method. | Nagarjuna Nagaraj, Thomas Kosinski, Amalia Apalategui Pierre-Olivier Schmit, Markus Lubeck, Oliver Raether & Gary Kruppa | Bruker, Germany. | Whisper 40 SPD | Bruker timsTOF SCP | single-cell | whisper-40spd | bruker-timstof-scp | |
| The social architecture of an in-depth cellular protein interactome | DDA, Protein interaction, Yeast | Publication | 2021 | This publication by the Mann group describes a comprehensive and scalable strategy to define the network architecture of the cellular interactome. They applied this to more than 4000 pull-downs not generate a highly structured network of 3,909 proteins connected by 29,710 connections using the 60 SPD method and a timsTOF Pro mass spectrometer. | André C. Michaelis, Andreas-David Brunner, Maximilian Zwiebel, Florian Meier, Maximilian T. Strauss, Isabell Bludau & Matthias Mann | Max-Planck Institute of Biochemistry, Martinsried, Germany | 60 SPD | Bruker timsTOF Pro | dda protein-interaction yeast | 60-spd | bruker-timstof-pro | |
| Data independent acquisition enables deep and fast label-free dynamic organellar mapping | DIA, Fractionation, Spatial proteomics | Publication | 2021 | This publication by the Borner group, describes a DIA workflow to establish organellar maps, which combines cell fractionation and shotgun proteomics into a profiling analysis of subcellular localization. They apply this to HeLa cells and investigate changes in response to starvation/disruption of lysosomal pH. | Julia P. Schessner, Vincent Albrecht, Alexandra K. Davies, Pavel Sinitcyn & Georg H.H. Borner | Max-Planck Institute of Biochemistry, Martinsried, Germany | 30 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | dia fractionation spatial-proteomics | 30-spd 60-spd | thermo-orbitrap-exploris-480 | |
| Fully Automated High-Throughput Host Cell Protein Analysis of Highly Diverse Samples | DDA, HCP | Application note | 2021 | Novozymes produces recombinant enzymes and microbial solutions for a plethora of bio-based industries. To meet regulatory demands, they have developed a highly efficient and streamlined HCP workflow, which translate raw samples to data in less than 24 hours, with less than 2 hours of hands-on time. Read more about their workflow in this application note. | Anders Giessing | 200 SPD | Bruker timsTOF | dda hcp | 200-spd | bruker-timstof | ||
| Evotip Pure: A new generation of Evotip | Technology | Brochure | 2022 | Evotip PureTM is a new generation Evotip developed for high performance. To ensure quality, we have internalized and refined all critical manufacturing and carefully chosen the chemistry. The design of Evotip Pure is based on five years of customer feedback added to a thorough review of every single aspect of the Evotip. | Evosep | technology | ||||||
| Unleash the power of DIA | DIA | Webinar | 2022 | In this webinar we dive into the exciting research possibilities that comes by using DIA combined with short gradients with Evosep One. | Patricia Skowronek, Yves Le Blanc, Ihor Batruch | Max Planck Institute of Biochemistry, Sciex | dia | |||||
| Ultra-high sensitivity mass spectrometry quantifies single-cell proteome changes upon perturbation | DIA, Single cell, Technology | Publication | 2020 | In this publication, the Mann group in Münich describes their innovative workflow for single-cell proteomics. They apply a nearly loss-less miniaturized sample preparation workflow to our robust Whisper 40SPD method and combine it with diaPASEF on a modified timsTOF mass spectrometer for a total of 420 FACS sorted single cells. | Andreas-David Brunner, Marvin Thielert, Catherine Vasilopoulou, Constantin Ammar, Fabian Coscia, Andreas Mund, Ole B. Horning, Nicolai Bache, Amalia Apalategui, Markus Lubeck, Oliver Raether, Melvin A. Park, Sabrina Richter, David S. Fischer, Fabian J. Th | Max Planck Institute of Biochemistry, Martinsried, Germany. Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Denmark. Evosep Biosystems, Denmark. Bruker Daltonik, Germany and United States. Helmholtz Zentrum München, Germany. | Whisper 40 SPD | Bruker timsTOF Pro, Bruker timsTOF SCP | Download publication or learn more on our website | dia single-cell technology | whisper-40spd | bruker-timstof-pro bruker-timstof-scp |
| Proteomics at the single cell level with Evosep Whisper and the timsTOF SCP | Single cell | Application note | 2022 | In this app note from Bruker you can learn about our joint work to bring more sensitivity to proteomics at the single cell level. The timsTOF SCP and the Evosep One has proven to be a great match to unlock the potential of single cell proteomics. | Bruker Daltonics | Whisper 40 SPD | Bruker timsTOF Pro | single-cell | whisper-40spd | bruker-timstof-pro | ||
| Evosep One in the clinical biochemistry lab | Technology | Webinar | 2022 | In this webinar, you can meet users working in a clinical biochemistry laboratory and learn about their work and how they have implemented the Evosep One for routine analyses. | Nicolai Jacob Wewer Albrechtsen, Martin Overgaard | Odense University Hospital, University of Southern Denmark, NNF center for protein research, University of Copenhagen | technology | |||||
| A beginner’s guide to Evosep | Technology | Webinar | 2022 | In this webinar we will introduce the basics to the Evosep One technology and include hot-from-the-lab data from Evosep One users. Nicolai Bache, Head of Applications at Evosep, will host the event, bringing you up to speed with the latest additions to the Evosep One technology. | Nicolai Bache & Ireshyn Govender | Evosep, Resyn Biosciences | technology | |||||
| Whisper is here | Technology | Webinar | 2021 | Whisper is the latest Evosep One innovation that allow plug-and-play, split-free 100 nl/min performance. The new methods make use of Evosep’s unique low pressure gradient formation and very accurate flow control on the same standard system without technical modifications. | Christoph Krisp & Angela Kruse | Bruker, Vanderbilt University | technology | |||||
| FFPE Tissue Analysis on the Evosep One | Tissue | Webinar | 2021 | In this webinar, we focus on how robust workflows combined with short gradients on the Evosep One is a perfect match for the analysis of large cohorts of FFPE samples. | Bernhard Kuster & Lisa Schweizer | Technical University of Munich, Max Planck Institute of Biochemistry | tissue | |||||
| Automated sample prep workflows | Automation | Webinar | 2021 | In this webinar, we will focus on automated samples prep workflows. Users will share how they have standardized their sample prep workflows and discuss the advantages of combining automated sample prep workflows with the Evosep One. | Philipp E. Geyer & Dorte Bekker-Jensen | Omicera Diagnostics, Evosep | automation | |||||
| Development of a Standardized Microflow LC Gradient to Enable Sensitive and Long-Term Detection of Synthetic Anabolic-Androgenic Steroids for High-Throughput Doping Controls | Doping, Targeted workflow | Publication | 2021 | This publication led by the Bailly-Chouriberry group at GIE-LCH, Laboratoire Des Courses Hippiques in France presents the expanded detection window of stanozolol in complex matrices such as equine urine and hair using the High Organic method for more hydrophobic compounds. | Vivian Delcourt, Patrice Garcia, Isabelle Pottier, Nasrine Mansoibou, Nicolai Bache, Yohan Glavieux, Benjamin Chabot, Isabelle Perot, Isabelle Perot, François André, Benoit Loup, Agnès Barnabé, Marie-Agnès Popot & Ludovic Bailly-Chouriberry | GIE-LCH, Laboratoire Des Courses Hippiques, France. Evosep. | High Organic Method | Thermo Q Exactive HF | doping targeted-workflow | high-organic-method | thermo-q-exactive-hf | |
| Plasma extracellular vesicles in people living with HIV and type 2 diabetes are related to microbial translocation and cardiovascular risk | DDA, Extracellular vesicles, HIV, Plasma | Publication | 2021 | This publication, led by the Trøseid group at Oslo University Hospital investigates the potential role of plasma extracellular vesicles (EVs) in relation to gut microbiota alterations and low-grade endotoxemia in HIV and type 2 diabetes. | Beate Vestad, Tuula A. Nyman, Malene Hove‑Skovsgaard, Maria Stensland, Hedda Hoel, Anne‑Marie Siebke Trøseid, Trude Aspelin, Hans Christian D. Aass, Maija Puhka, Johannes R. Hov, Susanne Dam Nielsen, Reidun Øvstebø & Marius Trøseid | Oslo University Hospital Rikshospitalet, Oslo, Norway. University of Oslo, Oslo, Norway. Norwegian Society for Extracellular Vesicles, Oslo, Norway. University Hospital of Copenhagen Rigshospitalet, Copenhagen, Denmark. Lovisenberg Diaconal Hospital, Oslo | 30 SPD | Thermo Q Exactive HF | dda extracellular-vesicles hiv plasma | 30-spd | thermo-q-exactive-hf | |
| DebaryOmics: an integrative –omics study to understand the halophilic behaviour of Debaryomyces hansenii | DIA, Phosphorylation, PTM, Yeast | Publication | 2021 | This publication by the Martinez group at the Technical University of Denmark, presents the first global phosphoproteomics analysis in Debaryomyces hansenii, a non-conventional yeast considered to be a well-suited option for a number of different industrial bioprocesses. | Clara Navarrete, Benjamín J. Sánchez, Simonas Savickas, José L. Martínez | Technical University of Denmark. Denmark. | 30 SPD | Thermo Orbitrap Exploris 480 | dia phosphorylation ptm yeast | 30-spd | thermo-orbitrap-exploris-480 | |
| Evaluation of Disposable Trap Column nanoLC–FAIMS–MS/MS for the Proteomic Analysis of FFPE Tissue | Clinical proteomics, DDA, FFPE, Fractionation | Publication | 2021 | This publication by the Kuster group presents a robust workflow to support the analysis of large cohorts of patient samples using formalin-fixed paraffin-embedded FFPE tissue. They make use of online fractionation by FAIMS requiring 50% less sample than conventional high pH fractionation. | Stephan Eckert, Yun-Chien Chang, Florian P. Bayer, Matthew The, Peer-Hendrik Kuhn, Wilko Weichert & Bernhard Kuster | Technical University of Munich, Munich, Germany. | 30 SPD, 60 SPD, Extended method | Thermo Orbitrap Exploris 480 | clinical-proteomics dda ffpe fractionation | 30-spd 60-spd extended-method | thermo-orbitrap-exploris-480 | |
| High-Throughput Drug Discovery with the Evosep One | Drug discovery | Webinar | 2021 | In this webinar we will look into how the Evosep One with high-throughput and sensitivity is a good fit when developing new drug applications or biologics license applications. | Casimir Bamberger & Tanveer S. Batth | Scripps Research Institute & Novo Nordisk Foundation Center for Protein Research | 30 SPD | Thermo Orbitrap Exploris 480 | drug-discovery | 30-spd | thermo-orbitrap-exploris-480 | |
| Targeted Workflows with Evosep One | DIA, Doping, Targeted workflow | Webinar | 2021 | During this webinar, Michael MacCoss (University of Washington) and Vivian Delcourt (GIE-LCH) share how they use the Evosep One for targeted workflows. | Michael Maccoss & Vivian Delcourt | University of Washington & Laboratoire Des Courses Hippiques | High Organic Method | dia doping targeted-workflow | high-organic-method | |||
| Plasma Proteomics with the Evosep One | DIA, Liver, Plasma | Webinar | 2021 | In this webinar you will learn how the Evosep One, with high reproducibility and robustness, is ideally suited for analysis of large sample cohorts of blood plasma. | Roman Fischer & Lili Niu | University of Oxford & Novo Nordisk Foundation Center for Protein Research | 30 SPD | Bruker timsTOF Pro, Thermo Orbitrap Exploris 480 | dia liver plasma | 30-spd | bruker-timstof-pro thermo-orbitrap-exploris-480 | |
| Discovery Proteomics for COVID-19: Where We Are Now | Publication | 2021 | This review by the Van Eyk group at Cedars-Sinai Medical Center summarizes the proteomics research, that has helped elucidate hallmark proteins associated with the disease with respect to both short- and long-term diagnosis and prognosis. | Angela McArdle, Kirstin E. Washington, Blandine Chazarin Orgel, Aleksandra Binek, Danica-Mae Manalo, Alejandro Rivas, Matthew Ayres, Rakhi Pandey, Connor Phebus, Koen Raedschelders, Justyna Fert-Bober & Jennifer E Van Eyk | Cedars-Sinai Medical Center, Los Angeles, California, United States | |||||||
| AlphaTims: Indexing trapped ion mobility spectrometry – time of flight data for fast and easy accession and visualization | DDA, DIA, Technology | Publication | 2021 | This publication by the Mann group, introduces the open-source AlphaTims package with a stand-alone graphical user interface or as part of their AlphaPept ecosystem. With this package, unprocessed data are indexed, accessed, and visualized by a combination of tools. | Sander Willems, Eugenia Voytik, Patricia Skowronek, Maximilian T. Strauss & Matthias Mann | Max Planck Institute of Biochemistry, Martinsried, Germany. OmicEra Diagnostics GmbH, Planegg, Germany. University of Copenhagen, Copenhagen, Denmark | 200 SPD, 60 SPD | Bruker timsTOF Pro | dda dia technology | 200-spd 60-spd | bruker-timstof-pro | |
| Deep neural network for detecting arbitrary precision peptide features through attention based segmentation | Publication | 2021 | This publication by the Li group from University of Waterloo, Canada introduces PointIso, a point cloud based arbitrary-precision deep learning network for peptide feature detection. They used a dataset of HeLa proteomes measured with the Evosep One on a timsTOF Pro mass spectrometer to benchmark their algorithm. | Fatema Tuz Zohora, M. Ziaur Rahman, Ngoc Hieu Tran, Lei Xin, Baozhen Shan & Ming Li | University of Waterloo, Waterloo, Canada. Bioinformatics Solutions Inc., Waterloo, Canada. | |||||||
| A deeper look at carrier proteome effects for single-cell proteomics | DDA, Single cell, TMT | Publication | 2021 | This publication by the Olsen group at University of Copenhagen describes the carrier proteome effects in single cell proteomics with mixed species TMTpro-labeled samples. Using the 30 SPD method, they show that quantitative precision and signal intensity are limited at high carrier levels, hindering the recognition of regulated proteins. | Zilu Ye, Tanveer Batth, Patrick L. Rüther, Jesper V. Olsen | University of Copenhagen | 30 SPD | Thermo Orbitrap Exploris 480 | dda single-cell tmt | 30-spd | thermo-orbitrap-exploris-480 | |
| Time evolution of PEG-shedding and serum protein coronation determines the cell uptake kinetics and delivery of lipid nanoparticle formulated mRNA | DDA, Drug discovery, Protein interaction | Publication | 2021 | This publication, led by the Esbjörner group at the Chalmers University of Technology in Gothenburg, Sweden investigates the uptake and delivery of mRNA formulated into MC3 lipid nanoparticles focusing on the role of serum proteins in driving the temporal evolution of PEG-shedding reactions and protein coronation events. | A. Gallud, M. J. Munson, K. Liu, A. Idström, H. M. G. Barriga, S. R. Tabaei, N. Aliakbarinodehi, M. Ojansivu, Q. Lubart, J. J. Doutch, M. N. Holme, L. Evenäs, L. Lindfors, M. M. Stevens, A. Collén, A. Sabirsh, F. Höök, E. K. Esbjörner. | Chalmers University of Technology, Gothenburg, Sweden. AstraZeneca, Gothenburg, Sweden. Karolinska Institute, Stockholm, Sweden. Rutherford Appleton Laboratory, Didcot, UK. Imperial College London, UK. | 30 SPD | Thermo Q Exactive HF | dda drug-discovery protein-interaction | 30-spd | thermo-q-exactive-hf | |
| PD-L1 Overexpression, SWI/SNF Complex Deregulation, and Profound Transcriptomic Changes Characterize Cancer-Dependent Exhaustion of Persistently Activated CD4+ T Cells | Breast cancer, DDA, Secretome | Publication | 2021 | This publication from the Sarnowska group at Maria Sklodowska-Curie National Research Institute of Oncology in Poland investigates the mechanisms of immune response during continuous stimulation of tumor-infiltrating lymphocytes by tumors. They use the Evosep One to measure the secreted proteins from restimulated CD4+ T cells grown with cancer cells. | Iga Jancewicz, Joanna Szarkowska, Ryszard Konopinski, Malgorzata Stachowiak, Monika Swiatek, Katarzyna Blachnio, Szymon Kubala, Paulina Oksinska, Pawel Cwiek, Natalia Rusetska, Agnieszka Tupalska, Natalia Zeber-Lubecka, Ewa Grabowska, Bianka Swiderska, | Maria Sklodowska-Curie National Research Institute of Oncology, Warsaw, Poland. Polish Academy of Sciences, 02-106 Warsaw, Poland. University Hospital Basel and University of Basel, 4001 Basel, Switzerland. Centre of Postgraduate Medical Education, 01-8 | 30 SPD | Thermo Orbitrap Exploris 480 | breast-cancer dda secretome | 30-spd | thermo-orbitrap-exploris-480 | |
| A universal peptide matrix interactomics approach to disclose motif dependent protein binding | DDA, Protein interaction | Publication | 2021 | This publication by the Mertins group describes an optimized method to study protein-protein interactions mediated by intrinsically disordered regions. They demonstrate the feasibility of an optimized method for a PRotein Interaction Screen on a peptide MAtrix (PRISMA) with the 60 samples per day method. | Evelyn Ramberger, Lorena Suarez-Artiles, Daniel Perez-Hernandez, Mohamad Haji, Oliver Popp, Ulf Reimer, Achim Leutz, Gunnar Dittmar & Philipp Mertins | Max Delbrück Center for Molecular Medicine in the Helmholtz Association, Berlin, Germany. Luxembourg Institute of Health, Luxembourg. JPT Peptide Technologies GmbH, Berlin, Germany. Humboldt University of Berlin, Berlin, Germany. University of Luxembourg | 60 SPD | Thermo Q Exactive HF-X | dda protein-interaction | 60-spd | thermo-q-exactive-hf-x | |
| Immunophenotyping assessment in a COVID-19 cohort (IMPACC): A prospective longitudinal study | Covid-19, Plasma | Publication | 2021 | This resource by the IMmunoPhenotyping Assessment in a Covid-19 cohort (IMPACC) describes a longitudinal study designed to enroll 1000 hospitalized patients with Covid-19. The Evosep One will be used to analyze depleted plasma samples. | IMPACC Manuscript Writing Team | IMPACC | Bruker timsTOF Pro | covid-19 plasma | bruker-timstof-pro | |||
| AlphaPept, a modern and open framework for MS-based proteomics | DDA, Technology | Publication | 2021 | This publication by the Mann group, introduces AlphaPept, a Python-based open-source framework for efficient processing of large high resolution MS data sets. They used the 200 samples per day method on the Evosep One to generate test data for computational functionality. | Maximilian T. Strauss, Isabell Bludau, Wen-Feng Zeng, Eugenia Voytik, Constantin Ammar, Julia Schessner, Rajesh Ilango, Michelle Gill, Florian Meier, Sander Willems & Matthias Mann | Max Planck Institute of Biochemistry, Martinsried, Germany. University of Copenhagen, Denmark. Nvidia Corporation, Santa Clara, CA, USA. OmicEra Diagnostics GmbH, Planegg, Germany. Jena University Hospital, Jena, Germany. | 200 SPD | Bruker timsTOF Pro | dda technology | 200-spd | bruker-timstof-pro | |
| A personalized mass spectrometry-based assay to monitor M-protein in multiple myeloma patients (EasyM) | Antibodies, DDA, Myeloma, Targeted workflow | Publication | 2021 | This publication by the Trudel group describes the development of a non-invasive MS-based assay, called EasyM, which is used to assess minimal residual disease, a measure of depth of response to treatment, which has become an important parameter in assessing the disease burden in multiple myeloma. | Mariya Liyasova, Zac McDonald, Paul Taylor, Kathleen Gorospe, Xin Xu, Chenyu Yao, Qixin Liu, Liqiang Yang, Eshetu G. Atenafu, Giovanni Piza, Bin Ma, Donna Reece, Suzanne Trudel | Rapid Novor, Canada. University of Waterloo, Canada. Princess Margaret Cancer Centre, Canada. | 30 SPD, 60 SPD | Thermo Orbitrap Fusion, Thermo Q Exactive | antibodies dda myeloma targeted-workflow | 30-spd 60-spd | thermo-orbitrap-fusion thermo-q-exactive | |
| Exploitation of the Secretory Pathway by SARS-CoV-2 Envelope | Covid-19, DDA, Protein interaction | Publication | 2021 | This publication by the Carlton group investigates the mechanism, by which Coronaviral Eenvelope proteins achieves its steady state localization to the Endoplasmic Reticulum Golgi Intermediate Compartment. They use proximity biotinylation to define the vicinal proteome of wild type and ER-restricted versions of Envelope. | Guy J Pearson, Malgorzata Broncel, Ambrosius P Snijders & Jeremy G Carlton | King’s College London, UK. The Francis Crick Institute, UK. | 30 SPD | Thermo Orbitrap Fusion Lumos | covid-19 dda protein-interaction | 30-spd | thermo-orbitrap-fusion-lumos | |
| Mass Spectrometry Provides a Highly Sensitive Noninvasive Means of Sequencing and Tracking M-Protein in the Blood of Multiple Myeloma Patients | Antibodies, DDA, Myeloma, Targeted workflow | Publication | 2021 | The amino acid sequence of the M-protein for multiple myeloma is unique compared to the polyclonal antibodies in patients’ blood. This publication from Rapid Novor describes a targeted MS/MS assay to detect and quantify the unique M-protein sequence in serum samples from multiple myeloma patients. | Zac McDonald, Paul Taylor, Mariya Liyasova, Qixin Liu & Bin Ma | Rapid Novor, Canada | 30 SPD | Thermo Q Exactive | antibodies dda myeloma targeted-workflow | 30-spd | thermo-q-exactive | |
| Rapid and Accurate Detection of Aminoglycoside-Modifying Enzymes and 16S rRNA Methyltransferases by Targeted Liquid Chromatography-Tandem Mass | Antimicrobial resistance, Targeted workflow | Publication | 2021 | This publication by the Dekker group describes the development of an accurate and rapid targeted LC-MS/MS assay based on parallel reaction monitoring for detection of the most prevalent aminoglycoside-modifying enzymes and 16S rRNA methyltransferases in Escherichia coli and Klebsiella pneumoniae that confer resistance to aminoglycosides. | Dimard E. Foudrainehttps, Nikolaos Strepisa, Corné H. W. Klaassenhttps, Merel N. Raaphorsta, Annelies Verbona, Theo M. Luiderb, Wil H. F. Goessensa & Lennard J. M. | Erasmus MC University Medical Center, Rotterdam, The Netherlands | 100 SPD | Thermo Q Exactive HF | antimicrobial-resistance targeted-workflow | 100-spd | thermo-q-exactive-hf | |
| Synthetic Antigen Presenting cells reveal the diversity and functional specialisation of extracellular vesicles composing the fourth signal of T cell immunological synapses | DDA | Publication | 2021 | In this publication, the Dustin group investigates the synaptic particle biogenesis and composition in different T-cell subsets. They use proteomics to reveal the diversity and functional specialization of extracellular vesicles composing the fourth signal of T cell immunological synapses. | Pablo F. Céspedes, Ashwin Jainarayanan, Lola Fernández-Messina, Salvatore Valvo, David G. Saliba, Audun Kvalvaag, Elke Kurz, Huw Colin-York, Marco Fritzsche, Yanchun Peng, Tao Dong, Jesús A. Siller-Farfán, Omer Dushek, Michal Maj, Erdinc Sezgin, Ben Peaco | The University of Oxford, Oxford, UK. Universidad Autónoma de Madrid, Madrid, Spain. Centro Nacional de Investigaciones Cardiovasculares (CNIC), Madrid, Spain. Karolinska Institutet, Stockholm, Sweden. MediCity, Nottingham, UK. | 60 SPD | Bruker timsTOF Pro | dda | 60-spd | bruker-timstof-pro | |
| A blood atlas of COVID-19 defines hallmarks of disease severity and specificity | Covid-19, DDA, Plasma | Publication | 2021 | This publication is a major collaboration led by the Knight group at University of Oxford describing the hallmarks of Covid-19 severity and specificity. It is an integrative multi-omics analysis, where the Evosep One was used for measuring 340 plasma proteomes providing excellent patient stratification. | COvid-19 Multi-omics Blood ATlas (COMBAT) Consortium, Julian C Knight. | University of Oxford | 100 SPD | Bruker timsTOF Pro | covid-19 dda plasma | 100-spd | bruker-timstof-pro | |
| An ultrasensitive method for analysis of viral spike N-glycoforms | DDA, Glycosylation, PTM | Publication | 2021 | This publication from the Yates group describes a new ultrasensitive “single-pot” method applicable for analysis of site-specific glycosylation of any glycoprotein and characterizing glycosylation of viral spike proteins and potential vaccines. | Sabyasachi Baboo, Jolene K Diedrich, Salvador Martínez-Bartolomé, Xiaoning Wang, Torben Schiffner, Bettina Groschel, William R Schief, James C Paulson & John R Yates III | Massachusetts Institute of Technology and Harvard, Cambridge, MA, USA. The Scripps Research Institute, La Jolla, CA, USA. | 30 SPD, Extended method | Bruker timsTOF Pro | dda glycosylation ptm | 30-spd extended-method | bruker-timstof-pro | |
| Proteomics of resistance to Notch1 inhibition in acute lymphoblastic leukemia reveals targetable kinase signatures | Automation, DDA, DIA, Phosphorylation, PTM, T-ALL | Publication | 2021 | In this publication, the Olsen group highlights the potential of proteomics to dissect alterations in cellular signaling and identify druggable pathways in cancer. They identify protein kinase C delta (PKCδ) inhibition as a strategy to overcome resistance to Notch1 inhibition in T-cell acute lymphoblastic leukemia. | Giulia Franciosa, Jos G. A. Smits, Sonia Minuzzo, Ana Martinez-Val, Stefano Indraccolo & Jesper V. Olsen | University of Padova, Padova, Italy. University of Copenhagen, Denmark. | 30 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | automation dda dia phosphorylation ptm t-all | 30-spd 60-spd | thermo-orbitrap-exploris-480 | |
| Inhibition of eEF2K synergizes with glutaminase inhibitors or 4EBP1 depletion to suppress growth of triple-negative breast cancer cells | Breast cancer, DDA, Fractionation | Publication | 2021 | In this publication by the Zacksenhaus group, they use LC-MS to investigate the global changes in the proteome following eEF2K and 4EBP1 knock-down in triple-negative breast cancer cell lines using TMT and high pH fractionation. | YoungJun Ju, Yaacov Ben-David, Daniela Rotin & Eldad Zacksenhaus | University Health Network, Toronto, Canada. Chinese Academic of Sciences, Guiyang, China. Guizhou Medical University, Guiyang, China. The Hospital for Sick Children, Toronto, Canada. | Thermo Orbitrap Fusion Lumos | breast-cancer dda fractionation | thermo-orbitrap-fusion-lumos | |||
| A fleet of Evosep One instruments supports a proteomics factory at Rapid Novor | Technology | Case study | 2021 | This Case Study provides a glimpse behind the scenes at Rapid Novor, a core facility equipped with eight Evosep One instruments running 24/7. Read how instrument-to-instrument standardization played a vital role in the creation of de novo sequencing workflows in the laboratory. | Evosep. Rapid Novor | Evosep. Rapid Novor | technology | |||||
| High Sensitivity Evotips | Technology | Brochure | 2021 | This brochure describes the High Sensitivity Evotips for more efficient peptide recovery of small sample loads (< ~100 ng). They have superior performance at very low loads and almost identical retention times for other applications. | Evosep | Evosep | technology | |||||
| Unleashing the power of DIA combined with short gradients using Evosep One | DIA, Technology | Webinar | 2021 | This webinar is part of our Evosep webinar series and hosted by Nicolai Bache, Evosep. Florian Meier and Vadim Demichev discuss their use of the Evosep One, using novel DIA methodologies. | Florian Meier & Vadim Demchev | Friedrich Shiller University, Jena, Germany. Francis Crick Institute, UK. | 100 SPD, 200 SPD, 60 SPD | Bruker timsTOF Pro | dia technology | 100-spd 200-spd 60-spd | bruker-timstof-pro | |
| Towards a Standardized Omics Platform with the 30 samples per day method | Technology | Application note | 2020 | This application note describes the 30 samples per day standard method. Get an overview of the method, the chromatographic performance and the results expected from Hela standard injections. | Evosep | Evosep | 30 SPD | Thermo Orbitrap Exploris 480 | technology | 30-spd | thermo-orbitrap-exploris-480 | |
| Towards a Standardized Omics Platform with the 60 samples per day method | Technology | Application note | 2020 | This application note describes the 60 samples per day standard method. Get an overview of the method, the chromatographic performance and the results expected from Hela standard injections. | Evosep | Evosep | 60 SPD | Thermo Orbitrap Exploris 480 | technology | 60-spd | thermo-orbitrap-exploris-480 | |
| Towards a Standardized Omics Platform with the 100 samples per day method | Technology | Application note | 2019 | This application note describes the 100 samples per day standard method. Get an overview of the method, the chromatographic performance and the results expected from Hela standard injections. | Evosep | Evosep | 100 SPD | Thermo Orbitrap Exploris 480 | technology | 100-spd | thermo-orbitrap-exploris-480 | |
| Towards a Standardized Omics Platform with the 200 samples per day method | Technology | Application note | 2019 | This application note describes the 200 samples per day standard method. Get an overview of the method, the chromatographic performance and the results expected from Hela standard injections. | Evosep | Evosep | 200 SPD | Thermo Orbitrap Exploris 480 | technology | 200-spd | thermo-orbitrap-exploris-480 | |
| Towards a Standardized Omics Platform with the 300 samples per day method | Technology | Application note | 2020 | This application note describes the 300 samples per day standard method. Get an overview of the method, the chromatographic performance and the results expected from Hela standard injections. | Evosep | Evosep | 300 SPD | Thermo Orbitrap Exploris 480 | technology | 300-spd | thermo-orbitrap-exploris-480 | |
| Unleashing the true power of DIA/SWATH data acquisition with short gradients – Rapid profiling of pre-clinical models and proteome dynamics | Clinical research, DIA, Technology | Application note | 2019 | Achieving sufficient statistical power for the analysis of a comprehensive set of target proteins requires processing of a large number of samples. With finite resources, researchers face a difficult choice: should they aim at deeper proteomic coverage or higher sample throughput? | Evosep | clinical-research dia technology | ||||||
| Improve and enhance your proteome coverage with the Performance column | Technology | Application note | 2019 | We have developed an additional Performance column for the 60 and 100 samples per day methods (SPD) to address applications with high demands. | Evosep | 100 SPD, 60 SPD | technology | 100-spd 60-spd | ||||
| The proteomics dilemma – High throughput analysis versus proteome depth | Fractionation, Technology | Application note | 2019 | With the five standard methods, the Evosep One covers a range of use cases from comprehensive proteome analysis with fractionation strategies to ultra high-throughput single-shot analysis. | Evosep | 100 SPD, 200 SPD, 30 SPD, 300 SPD, 60 SPD | fractionation technology | 100-spd 200-spd 30-spd 300-spd 60-spd | ||||
| Evosep One: A Separation Tool Designed for Clinical Omics | Technology | Brochure | 2019 | Evosep aims to improve quality of life and patient care by radically innovating protein-based clinical diagnostics. This brochure introduces our instrument Evosep One. | Evosep | technology | ||||||
| Co-translational assembly and localized translation of nucleoporins in nuclear pore complex biogenesis | DDA, Protein interaction | Publication | 2021 | In this study, the Palancade group provides the complete depiction of the co-translational events involved in the biogenesis of a large multiprotein assembly, the nuclear pore complex (NPC) in yeast. Their data reveal that distinct, spatially segregated modes of co-translational interactions foster the ordered assembly of NPC subunits. | Ophélie Lautier, Arianna Penzo, Jérôme Rouvière, Guillaume Chevreux, Louis Collet, Isabelle Loïodice, Angela Taddei, Frédéric Devaux, Martine A. Collart & Benoit Palancade | Université de Paris, Paris, France. Sorbonne Université, Paris, France. University of Geneva, Geneva, Switzerland. | 30 SPD | dda protein-interaction | 30-spd | |||
| Hemorrhage and saline resuscitation are associated with epigenetic and proteomic reprogramming in the rat lung | DDA, Fractionation, Lung, Tissue | Publication | 2021 | In this study, the Sillesen group investigates the alteration of the proteome in the context of hemorrhage and saline resuscitation in trauma patients. They used rat lungs as a model and pooled 10 rats in one combined TMT experiment subjected to high pH offline fractionation. | Alexander Bonde, Trine G. Eskesen, Jacob Steinmetz, Erwin M. Schoof, Lene H.D. Blicher, Lars S. Rasmussen & Martin Sillesen | Rigshospitalet, University of Copenhagen, Denmark. Technical University of Denmark, Lyngby, Denmark. | 30 SPD | Thermo Orbitrap Fusion | dda fractionation lung tissue | 30-spd | thermo-orbitrap-fusion | |
| Standardized workflow for precise mid- and high-throughput proteomics of blood biofluids | Automation, Clinical research, DIA, Plasma | Webinar | 2021 | In this seminar from the Canadian National Proteomics Network (CNPN) meeting 2021, Angela McArdle presents a standardized workflow for precise high-throughput proteomics of blood biofluids. They established optimal conditions for sample preparation and DIA analysis in plasma, then automated and adapted this for depleted plasma and whole blood. | Angela Mc Ardle, Aleksandra Binek, Annie Moradian, Blandine Chazarin Orgel, Alejandro Rivas, Kirstin E. Washington, Conor Phebus, Danica-Mae Manalo, James Go, Vidya Venkatraman, Casey Johnson, Qin Fu, Susan Cheng, Koen Raedschelders, Justyna-Fert Bober, S | Cedars-Sinai Medical Center, Los Angeles, CA, United States. University College Dublin, Dublin, Ireland. | 60 SPD | Thermo Orbitrap Exploris 480 | automation clinical-research dia plasma | 60-spd | thermo-orbitrap-exploris-480 | |
| Malaria Parasite Schizont Egress Antigen-1 Plays an Essential Role in Nuclear Segregation during Schizogony | DDA, Malaria, Protein interaction | Publication | 2021 | This publication by the Blackman group describes the role of SEA1, a suggested malaria vaccine antigen candidate. They conclude that SEA1 does not play a direct mechanistic role in egress to invade new erythrocytes but instead is an essential blood-stage protein that plays an important role in orchestrating the correct partitioning of DNA into merozoites. | Abigail J. Perrin, Claudine Bisson, Peter A. Faull, Matthew J. Renshaw, Rebecca A. Lees, Roland A. Fleck, Helen R. Saibil, Ambrosius P. Snijders, David A. Baker & Michael J. Blackman | The Francis Crick Institute, London, UK. University of London, London, UK. King’s College London, London, UK. London School of Hygiene & Tropical Medicine, London, UK | 30 SPD | Thermo Orbitrap Fusion Lumos | dda malaria protein-interaction | 30-spd | thermo-orbitrap-fusion-lumos | |
| The COVIDome Explorer Researcher Portal | Clinical research, Covid-19, DDA, Plasma | Publication | 2021 | Researchers from University of Colorado led by Joaquin M. Espinosa, have created a user-friendly researcher portal enabling easy access and real-time analysis of matched multi-omics datasets for COVID-19, termed the COVIDome Explorer. They illustrate the use through a multi-omics analysis of biosignatures associated with C-reactive protein (CRP), an established marker of poor prognosis in COVID-19. | Kelly D. Sullivan, Matthew D. Galbraith, Kohl T. Kinning, Kyle Bartsch, Nik Levinsky, Paula Araya, Keith P. Smith, Ross E. Granrath, Jessica R. Shaw, Ryan Baxter, Kimberly R. Jordan, Seth Russell, Monika Dzieciatkowska, Julie A. Reisz, Fabia Gamboni, Fran | University of Colorado, CO, USA. University of Colorado Anschutz Medical Campus, Aurora, CO, USA. Colorado School of Public Health, Aurora, CO, USA. | 30 SPD | Bruker timsTOF Pro | clinical-research covid-19 dda plasma | 30-spd | bruker-timstof-pro | |
| High sensitivity dia-PASEF proteomics with DIA-NN and FragPipe | diaPASEF, Technology development | Publication | 2021 | The Ralser and Nesvizhskii groups introduce the latest addition to the DIA-NN software with a neural network-based ion mobility module. DIA-NN was originally conceived to maximize the performance of fast proteomics experiments and here they demonstrate the identification of more than 5000 proteins from the 200 SPD method. | Vadim Demichev, Fengchao Yu, Guo Ci Teo, Lukasz Szyrwiel, George A. Rosenberger, Jens Decker, Stephanie Kaspar-Schoenefeld, Kathryn S. Lilley, Michael Mülleder, Alexey I. Nesvizhskii & Markus Ralser | The Francis Crick Institute, London, UK. Charité – Universitätsmedizin Berlin, Germany. University of Cambridge, UK. University of Michigan, Ann Arbor, USA. Columbia University, New York, USA. Bruker Daltonics, Bremen, Germany | 100 SPD, 200 SPD, 60 SPD | Bruker timsTOF Pro | Download publication or learn more on our website | diapasef technology-development | 100-spd 200-spd 60-spd | bruker-timstof-pro |
| A robust mass spectrometer for precision medicine – the Orbitrap Exploris 240 mass spectrometer for large-scale plasma protein profiling | DDA, Plasma | Application note | 2021 | This application note from Thermo Fisher Scientific Precision Medicine Science Center demonstrates the reliability and robustness of the Evosep One coupled with the Orbitrap Exploris 240 MS for large-scale, untargeted plasma protein profiling. They observed excellent reproducibility of protein and peptide identifications over 100 injections of human serum performed five weeks apart. | Michelle L Dubuke, Sitara Chauhan, Sarah Trusiak & Emily I. Chen | Thermo Fisher Scientific, United States | 60 SPD | Thermo Orbitrap Exploris 240 | dda plasma | 60-spd | thermo-orbitrap-exploris-240 | |
| Integrative analysis of cell state changes in lung fibrosis with peripheral protein biomarkers | Clinical research, DIA, Fibrosis, Plasma | Publication | 2021 | In this study, the Theis and Schiller groups at the Helmholtz Zentrum München, investigated the correspondence of cell state changes in diseased organs to peripheral protein signatures in pulmonary fibrosis patient cohorts. From plasma proteome profiling of more than 122 patients, they propose CRTAC1 protein levels in plasma as a novel biomarker. | Christoph H Mayr, Lukas M Simon, Gabriela Leuschner, Meshal Ansari, Janine Schniering, Philipp E Geyer, Ilias Angelidis, Maximilian Strunz, Pawandeep Singh, Nikolaus Kneidinger, Frank Reichenberger, Edith Silbernagel, Stephan Böhm, Heiko Adler, Michael Li | Helmholtz Zentrum München, Munich, Germany. Ludwig‐Maximilians University (LMU) Munich, Munich, Germany. University Hospital Zurich, Zurich, Switzerland. Max Planck Institute of Biochemistry, Martinsried, Germany. Asklepios Fachkliniken Munich‐Gauting, Mu | 100 SPD, 60 SPD | Thermo Q Exactive HF | clinical-research dia fibrosis plasma | 100-spd 60-spd | thermo-q-exactive-hf | |
| Global proteomic analysis of extracellular matrix in mouse and human brain highlights relevance to cerebrovascular disease | Brain, Clinical research, DDA | Publication | 2021 | In this study, the Cader group from University of Oxford, presents a global proteomic analysis of the extracellular matrix (ECM) in mouse and human brains. They report the identification of 147 core ECM proteins of the human brain vascular matrisome, including collagens, laminins, fibronectin and nidogens. Network analysis revealed the connection between the ECM proteins … | Alexandra Pokhilko, Gaia Brezzo, Lahiru Handunnetthi, Raphael Heilig, Rachel Lennon, Colin Smith, Stuart M Allan, Alessandra Granata, Sanjay Sinha, Tao Wang, Hugh S Markus, Alexandra Naba, Roman Fischer, Tom Van Agtmael, Karen Horsburgh & M. Zameel Cader | University of Oxford, UK. University of Edinburgh, UK. University of Glasgow. UK. University of Manchester, UK. Manchester Academic Health Science Centre, UK. Cambridge Biomedical Campus, Hills Road, UK. University of Illinois at Chicago, USA. | 60 SPD | Bruker timsTOF Pro | brain clinical-research dda | 60-spd | bruker-timstof-pro | |
| Evotips: Quick guide | Brochure | 2022 | Using Evotips results in simplified workflows as integrating elution with liquid chromatography removes several sample handling steps as well as reduces injection cycle overheads. | Evosep | ||||||||
| Rapid, robust and reproducible host-cell protein analysis with Evosep One | DDA, HCP | Webinar | 2021 | This webinar is part of our Evosep webinar series and hosted by Nicolai Bache, Evosep. Jiao Ma and Anders Giessing discuss their use of the Evosep One to perform rapid, robust and reproducible HCP analysis. | Jiao Ma & Anders Giessing | AstraZeneca, Novozymes | 200 SPD, 60 SPD | Bruker timsTOF Pro, Thermo Orbitrap Fusion Lumos | dda hcp | 200-spd 60-spd | bruker-timstof-pro thermo-orbitrap-fusion-lumos | |
| Covid-19 research with Evosep One | Covid-19, DIA, Technology | Webinar | 2021 | This webinar is part of our Evosep webinar series and hosted by Nicolai Bache, Evosep. Angela McArdle and Mathias Trost discuss their use of the Evosep One technology in their development of rapid Covid-19 assays. | Angela McArdle & Mathias Trost | Cedars Sinai, Newcastle University | 60 SPD | Thermo Orbitrap Exploris 480 | covid-19 dia technology | 60-spd | thermo-orbitrap-exploris-480 | |
| A beginner’s guide to Evosep | DDA, Technology | Webinar | 2021 | This webinar is part of our Evosep webinar series and hosted by Nicolai Bache, Evosep. Nicolai Bache introduces the basics of the Evosep technology, while Alexey Chernobrovkin and Raja Nirojogi share their experience with the Evosep One and present their own data. | Nicolai Bache, Alexey Chernobrovkin & Raja Nirojogi | Evosep, Pelago Bioscience, University of Dundee | 60 SPD | Thermo Orbitrap Exploris 480 | dda technology | 60-spd | thermo-orbitrap-exploris-480 | |
| Whisper is coming | Webinar | 2021 | Whisper is the latest Evosep One innovation that allow plug-and-play, split-free 100 nl/min performance. The new methods make use of Evosep’s unique low pressure gradient formation and very accurate flow control on the same standard system without technical modifications. | Evosep | Whisper 40 SPD | whisper-40spd | ||||||
| EVOSEP+ | Webinar | 2020 | On June 3rd at ASMS 2020, we launched EVOSEP+ which is a software and application addition to the Evosep One platform. The new set of methods extend the potential for clinical research. | Evosep | Extended method | extended-method | ||||||
| Powerful pairing of technologies and analytical approaches | Technology, Tissue | Webinar | 2019 | In this webinar, Thomas Angel from the Exploratory Biomarker Assay group at GSK presents his latest data and hands-on experience using the Evosep One. | Thomas Angel | GlaxoSmithKline | technology tissue | |||||
| Whisper™ step-by-step guide | Brochure | 2021 | Spray stability is essential for ultra-sensitive proteomics. The highest sensitivity at low flow rates is achieved with the EVOSEP+ Whisper methods. | Evosep | Whisper 40 SPD | whisper-40spd | ||||||
| SPIN – Species by Proteome Investigation | Ancient proteomics, DIA | Publication | 2021 | This publication from the Olsen Group, introduces “Species by Proteome INvestigation” (SPIN), a proteomics workflow capable of querying over 150 mammalian species 200 times a day with the Evosep One. Genetic species determination is an indispensable tool in forensics, archaeology, ecology, and food authentication. | Patrick L. Rüther, Immanuel M. Husic, Pernille Bangsgaard, Kristian M. Gregersen, Pernille Pantmann, Milena Carvalho, RitaM. Godinho, Lukas Friedl, Joao Cascalheira, Marie Louise S. Jørkov, Michael Benedetti, Jonathan Haws, Nuno Bicho, Frido Welker, Enric | University of Copenhagen, Denmark. University of Algarve, Portugal. University of Louisville, USA. University of North Carolina, USA. University of West Bohemia, Czech Republic. University of New Mexico, Albuquerque, USA. Museum Nordsjælland, Denmark. Roy | 100 SPD, 200 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | ancient-proteomics dia | 100-spd 200-spd 60-spd | thermo-orbitrap-exploris-480 | |
| High-resolution longitudinal serum proteome trajectories in COVID-19 reveal patients-specific seroconversion | Automation, Clinical research, Covid-19 | Publication | 2021 | This publication from OmicEra Diagnostics, describes alterations of the serum proteome during COVID-19 using a scalable plasma proteome profiling workflow. It comprises the most detailed longitudinal protein trajectories during hospitalization, based on one of the largest MS-based body fluid proteomics efforts with a total of 720 plasma serum samples. | Philipp E. Geyer, Florian M. Arend, Sophia Doll, Marie-Luise Louiset, Sebastian Virreira Winter, Johannes B. Müller-Reif, Furkan M. Torun, Michael Weigand, Peter Eichhorn, Mathias Bruegel, Maximilian T. Strauss, Lesca M. Holdt, Matthias Mann & Daniel Teup | OmicEra Diagnostics GmbH, Germany. University Hospital, LMU Munich, Germany. University of Copenhagen, Denmark. | 60 SPD | Bruker timsTOF Pro | automation clinical-research covid-19 | 60-spd | bruker-timstof-pro | |
| The Host Interactome of Spike Expands the Tropism of SARS-CoV-2 | Clinical research, Covid-19, Protein interaction | Publication | 2021 | This publication from the Yates lab, investigates the host interactome determining whether a SARS-CoV-2 infection is productive. They find an “S2 only” dependent, alternative infection of additional cell types with SARS-CoV-2 may impact vaccination strategies and provide a molecular explanation for a severe or prolonged progression of disease in select COVID-19 patients. | Casimir Bamberger, Sandra Pankow, Salvador Martínez-Bartolomé, Jolene Diedrich, Robin Park & John Yates III | Department of Molecular Medicine, The Scripps Research Institute, La Jolla, CA, USA | 30 SPD | Bruker timsTOF Pro | clinical-research covid-19 protein-interaction | 30-spd | bruker-timstof-pro | |
| Molecular origin of blood-based infrared fingerprints | Clinical research, Fractionation, Lung, Tissue | Publication | 2021 | This publication led by the Zigman group describes the molecular understanding of infrared molecular fingerprints (IMFs) by examining a prospective clinical study with both IR spectroscopy ad MS-based proteomics. They find the disease-related differences in IMFs of blood sera are dominated by contributions from the protein fractions, rather than metabolites. | Liudmila Voronina, Cristina Leonardo, Johannes B. Mueller-Reif, Philipp E. Geyer, Marinus Huber, Michael Trubetskov, Kosmas V. Kepesidis, Jürgen Behr, Matthias Mann, Ferenc Krausz & Mihaela Žigman | Department of Physics, Ludwig Maximilian University of Munich, Germany. Max Planck Institute of Quantum Optics, Garching, Germany. Department of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry,Germany. Novo Nordisk Foundation Cent | Thermo Q Exactive HF-X | clinical-research fractionation lung tissue | thermo-q-exactive-hf-x | |||
| R1441G but not G201S Mutation Enhances LRRK2 Mediated Rab10 phosporylation in human Peripheral blood neutrophils | Clinical research, Parkinson's disease, Targeted workflow | Publication | 2021 | This publication from University of Dundee led by Esther Sammler, describes that in vivo LRRK2 dependent | Ying Fan, Raja S. Nirujogi, Alicia Garrido, Javier Ruiz Martínez, Alberto Bergareche-Yarza, Elisabet Mondragón Rezola, Ana Vinagre Aragón, Ioana Croitoru, Ana Gorostidi Pagola, Laura Paternain Markinez, Roy Alcalay, Richard A. Hickman, Jonas Duering, Neri | University of Dundee, UK. Hospital Clínic de Barcelona, Spain. Universitat de Barcelona, Spain. Biodonostia Health Research Institute, Spain. Columbia University Medical Center, New York, USA. The Michael J Fox Foundation for Parkinson's Research, New Yor | 60 SPD | Thermo Q Exactive HF-X | clinical-research parkinsons-disease targeted-workflow | 60-spd | thermo-q-exactive-hf-x | |
| Spatial-proteomics reveal in-vivo phospho-signaling dynamics at subcellular resolution | DIA, FAIMS, Fractionation, Phosphorylation, Spatial proteomics | Publication | 2021 | This publication from the Olsen group at the Novo Nordisk Foundation Center for Protein Research, describes a high-throughput workflow based on sequential cell fractionation to profile the global proteome and phospho-proteome dynamics across six distinct subcellular fractions. | Ana Martinez-Val, Dorte B. Bekker-Jensen, Sophia Steigerwald, Adi Mehta, Trung Tran, Krzysztof Sikorski, Estefanía Torres-Vega, Ewa Kwasniewicz, Sólveig Hlín Brynjólfsdóttir, Lisa B. Frankel, Rasmus Kjøbsted, Nicolai Krogh, Alicia Lundby, Simon Bekker-Jen | University of Copenhagen, Denmark. Oslo University Hospital, Norway. | 60 SPD | Thermo Orbitrap Exploris 480 | dia faims fractionation phosphorylation spatial-proteomics | 60-spd | thermo-orbitrap-exploris-480 | |
| Basement membrane stiffness determines metastases formation | DDA, Lung, Tissue, TMT | Publication | 2021 | In this study, the Erler group from the BRIC Institute at University of Copenhagen, Denmark identifies Net4 as a key regulator of basement membrane stiffness, a special type of extracellular matrix, which presents the major barrier cancer cells have to overcome multiple times to form metastases. | Raphael Reuten, Sina Zendehroud, Monica Nicolau, Lutz Fleischhauer, Anu Laitala, Stefanie Kiderlen, Denise Nikodemus, Lena Wullkopf, Sebastian Rune Nielsen, Sarah McNeilly, Carina Prein, Maria Rafaeva, Erwin M. Schoof, Benjamin Furtwängler, Bo T. Porse, H | University of Copenhagen, Denmark. Freie Universität Berlin, Germany. Munich University of Applied Sciences, Germany. Center for Nanoscience-CeNS, Germany. University of Glasgow, UK. Technical University of Denmark, Denmark. KU Leuven, Belgium. Queen Mary | 30 SPD | Thermo Orbitrap Exploris 480 | dda lung tissue tmt | 30-spd | thermo-orbitrap-exploris-480 | |
| Crystal structure of bacterial cytotoxic necrotizing factor CNFY reveals molecular building blocks for intoxication | DDA, Structural proteomics | Publication | 2021 | In this study, researchers from the Helmholtz Centre for Infection Research determined the crystal structure of full-length Yersinia pseudotuberculosis CNFY, bacterial single-chain exotoxins that modulate cytokinetic and inflammatory processes through activation of host cell Rho GTPases. They used Evosep One to study the deamidation activity of RhoA. | Paweena Chaoprasid, Peer Lukat, Sabrina Mühlen, Thomas Heidler, Emerich‐Mihai Gazdag, Shuangshuang Dong, Wenjie Bi, Christian Rüter, Marco Kirchenwitz, Anika Steffen, Lothar Jänsch, Theresia E B Stradal, Petra Dersch & Wulf Blankenfeldt | University of Münster, Germany. Helmholtz Centre for Infection Research, Germany. Deutsches Zentrum für Infektionsforschung, Germany. Technische Universität Braunschweig, Germany. | Bruker timsTOF Pro | dda structural-proteomics | bruker-timstof-pro | |||
| Interactions of Viral Proteins from Pathogenic and Low or Non-Pathogenic Orthohantaviruses with Human Type I Interferon Signaling | DDA, Protein interaction | Publication | 2021 | A collaboration led by the Ermonval group from Institute Pasteur describes the interactions of structural and non-structural proteins of pathogenic and low or non-pathogenic orthohantaviruses with human type I Interferon signaling. They suggest that the activation of IFN-I is probably not the only antiviral pathway to be counteracted by orthohantaviruses. | Giulia Gallo, Grégory Caignard, Karine Badonnel, Guillaume Chevreux, Samuel Terrier, Agnieszka Szemiel, Gleyder Roman-Sosa, Florian Binder, Quan Gu, Ana Da Silva Filipe, Rainer G. Ulrich, Alain Kohl, Damien Vitour, Noël Tordo & Myriam Ermonval | Institut Pasteur, France. Ecole Doctorale Complexité du Vivant, France. UMR 1161 Virologie, France. BREED, INRAE, Université Paris-Saclay, France. Université de Paris, France. MRC-University of Glasgow Centre for Virus Research, UK. Institute of Novel and | 30 SPD | Thermo Orbitrap Fusion | dda protein-interaction | 30-spd | thermo-orbitrap-fusion | |
| Fluvastatin mitigates SARS-CoV-2 infection in human lung cells | Clinical research, Covid-19 | Publication | 2020 | Clinical data of patients suffering from COVID-19 have indicated that statin therapy, used to treat high cholesterol, is associated with a better clinical outcome. A collaboration led by Gisa Gerold investigated the effect of statins on SARS-CoV-2 infection in human lung cells and found that fluvastatin inhibited coronavirus infection, while other tested statins did not. | Francisco J. Zapatero-Belinchón, Rebecca Moeller, Lisa Lasswitz, Marco van Ham, Miriam Becker, Graham Brogden, Ebba Rosendal, Wenjie Bi, Belén Carriquí, Koushikul Islam, Annasara Lenman, Antonia P. Gunesch, Jared Kirui, Thomas Pietschmann, Anna K Överby, | Medical School Hannover, Germany. Helmholtz Centre for Infection Research, Germany. University of Veterinary Medicine Hannover, Germany. Umeå University, Sweden. German Centre for Infection Research (DZIF), Germany. | Extended method | Bruker timsTOF Pro | clinical-research covid-19 | extended-method | bruker-timstof-pro | |
| ABPP-HT – high-throughput activity-based profiling of deubiquitylating enzyme inhibitors in a cellular context | IAP-MS, Technology | Publication | 2020 | This publication from University of Oxford led by Adan Pinto-Fernandez, describes a new methodology named ABPP-HT (high-throughput-compatible activity-based protein profiling), implementing a semi-automated proteomic sample preparation workflow that increases the throughput capabilities of the classical ABPP workflow approximately ten times while preserving its enzyme profiling characteristics. | Hannah Jones, Raphael Heilig, Roman Fischer, Benedikt M Kessler & Adan Pinto-Fernandez | University of Oxford, United Kingdom. | 100 SPD | Bruker timsTOF Pro | iap-ms technology | 100-spd | bruker-timstof-pro | |
| Seroconversion stages COVID19 into distinct pathophysiological states | Clinical research, Covid-19, Plasma | Publication | 2020 | In this study, researchers from University of Colorado led by Joaquin M. Espinosa, found highly variable seroconversion status among hospitalized Covid-19 patients. Their results support the existence of distinct pathophysiological states, with seroconversion status being potentially useful as a surrogate marker of underlying processes. | Matthew D. Galbraith, Kohl T. Kinning, Kelly D. Sullivan, Ryan Baxter, Paula Araya, Kimberly R. Jordan, Seth Russell, Keith P. Smith, Ross E. Granrath, Jessica Shaw, Monika Dzieciatkowska, Tusharkanti Ghosh, Andrew A. Monte, Angelo D’Alessandro, Kirk C. H | University of Colorado, United States. | 30 SPD | Bruker timsTOF Pro | clinical-research covid-19 plasma | 30-spd | bruker-timstof-pro | |
| Deciphering the LRRK code: LRRK1 and LRRK2 phosphorylate distinct Rab proteins and are regulated by diverse mechanisms | Parkinson's disease, Targeted workflow | Publication | 2020 | This publication from University of Dundee led by Dario R Alessi, describes how LRRK1, a less studied homologue of LRRK2 regulates growth factor receptor trafficking and osteoclast biology reinforcing that the LRRK enzymes have evolved as major regulators of Rab biology in Parkinson’s disease. | Asad U. Malik, Athanasios Karapetsas, Raja S. Nirujogi, Sebastian Mathea, Prosenjit Pal, Pawel Lis, Matthew Taylor, Elena Purlyte, Robert Gourlay, Mark Dorward, Simone Weidlich, Rachel Toth, Nicole K. Polinski, Stefan Knapp, Francesca Tonelli & Dario R Al | University of Dundee, United Kingdom. Johann Wolfgang Goethe University, Germany. Michael J Fox Foundation for Parkinson’s Research, United States. | 60 SPD | Thermo Q Exactive HF-X | parkinsons-disease targeted-workflow | 60-spd | thermo-q-exactive-hf-x | |
| Development of a multiplexed targeted mass spectrometry assay for LRRK2-phosphorylated Rabs and Ser910/Ser935 biomarker sites | Clinical research, Parkinson's disease, Targeted workflow | Publication | 2020 | This publication from University of Dundee led by Dario R Alessi, describes the validation and development of a new, multiplexed targeted assay that enables the relative quantification of the key components of the LRRK2 pathway, defining the impact of LRRK2 inhibitors and Parkinson’s disease causing mutations. | Raja S Nirujogi, Francesca Tonelli, Matthew Taylor, Pawel Lis, Alexander Zimprich, Esther Sammler & Dario R Alessi | University of Dundee, United States. Medical University of Vienna, Austria. | 30 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | clinical-research parkinsons-disease targeted-workflow | 30-spd 60-spd | thermo-orbitrap-exploris-480 | |
| diaPASEF: parallel accumulation–serial fragmentation combined with data-independent acquisition | diaPASEF, Technology | Publication | 2020 | A collaboration led by the Mann group at the Max Planck Institute for Biochemistry, Münich describes the development of the latest addition to the PASEF technology. The diaPASEF workflow combines the advantages of DIA such as high degree of reproducibility and data completeness with the effective PASEF technology. | Florian Meier, Andreas-David Brunner, Max Frank, Annie Ha, Isabell Bludau, Eugenia Voytik, Stephanie Kaspar-Schoenefeld, Markus Lubeck, Oliver Raether, Nicolai Bache, Ruedi Aebersold, Ben C. Collins, Hannes L. Röst & Matthias Mann | Max Planck Institute of Biochemistry, Martinsried, Germany. Bruker Daltonik, Germany. ETH Zürich, Switzerland. University of Belfast, United Kingdom. University of Toronto, Canada. | 100 SPD, 200 SPD, 60 SPD | Bruker timsTOF Pro | Download publication or learn more on our website
| diapasef technology | 100-spd 200-spd 60-spd | bruker-timstof-pro |
| High throughput proteome and phosphorpoteome sample processing coupled to fast gradient DIA | DDA, DIA, FAIMS, Phosphorylation, PTM, Technology, Tissue, TMT | Publication | 2020 | High throughput workflows for proteomics | Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Denmark | 100 SPD, 200 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | dda dia faims phosphorylation ptm technology tissue tmt | 100-spd 200-spd 60-spd | thermo-orbitrap-exploris-480 | ||
| Peptidomic analysis of urine from youths with early type 1 diabetes reveals novel bioactivity of uromodulin peptides in vitro | Clinical research, Peptidomics, Targeted workflow, Urine | Publication | 2019 | Urinary peptidomics in early type 1 diabetes | SickKids Proteomics, Analytics, Robotics, and Chemical Biology Centre, Canada | 60 SPD | Thermo Q Exactive HF-X | clinical-research peptidomics targeted-workflow urine | 60-spd | thermo-q-exactive-hf-x | ||
| Tech note: Evosep One: A gradient off-set focusing HPLC instrument for robust and high throughput proteomics | Technology | 2017 | Evosep One descriptive technical note | technology | ||||||||
| Evosep One Field Test at the Max-Planck Institute of Biochemistry | Technology | Application note | 2017 | Evosep One case study with Philipp Geyer | technology | |||||||
| Gradient off-set focusing HPLC insturment for robust and high throughput clinical proteomics | Clinical research, Plasma, Technology | Application note | 2017 | Evosep One for clinical analysis | clinical-research plasma technology | |||||||
| Sample loading protocol for Evotips | Technology | Application note | 2022 | Evosep One Tip loading guide | technology | |||||||
| Introducing the Evosep One – Instrument Overview | Technology | Video | 2017 | Evosep One instrument video | technology | |||||||
| Optimizing data processing parameters for samples acquired on instruments using Advanced Peak Determination | DDA, Technology | Poster | 2018 | Improving ID rates with APD on Q Exactive HF-X | Thermo Fisher Scientific, United States | 100 SPD | Thermo Q Exactive HF-X | dda technology | 100-spd | thermo-q-exactive-hf-x | ||
| New Orbitrap Exploris 480 Mass Spectrometer Coupled with Evosep One | DDA, DIA, FAIMS, Technology | Brochure | 2020 | Brochure of Exploris 480 with Evosep data from piece no 1 | Thermo Fisher Scientific, United States | 100 SPD, 200 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | dda dia faims technology | 100-spd 200-spd 60-spd | thermo-orbitrap-exploris-480 | ||
| Development of a robust and reprodusible method for detection of citrullination in complex samples | Bacteria, Citrullination, DDA, PTM | Poster | 2018 | Detection of citrullination in complex samples | University of Southern Denmark, Denmark | 60 SPD | Thermo Orbitrap Fusion Lumos | bacteria citrullination dda ptm | 60-spd | thermo-orbitrap-fusion-lumos | ||
| A tale of two tails – efficient profiling of protein degraders by specific functional and target engagement readouts | CETSA, DDA, TMT | Publication | 2020 | CETSA MS profiling | Pelago Biosciences, Sweden | Thermo Q Exactive HF-X | cetsa dda tmt | thermo-q-exactive-hf-x | ||||
| How to get Speed and Depth in yout Host Cell Protein | Biopharma, DDA, HCP | Video | 2018 | Bruker Daltonics, Germany | 60 SPD | Bruker timsTOF Pro | biopharma dda hcp | 60-spd | bruker-timstof-pro | |||
| A Novel LC System Embeds Analytes in Pre-formed Gradients for Rapid, Ultra-Robust Proteomics | DDA, DIA, Plasma, Technology | Publication | 2018 | Description of Evosep | Max Planck Institute of Biochemistry, Martinsried Germany and Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Denmark | 60 SPD | Thermo Q Exactive HF-X | dda dia plasma technology | 60-spd | thermo-q-exactive-hf-x | ||
| Online parallel accumulation – serial fragmentation (PASEF) with a novel trapped ion mobility mass spectrometer | DDA, Technology | Publication | 2018 | Description of timsTOF | Max Planck Institute of Biochemistry, Martinsried and Bruker Daltonics, Germany | 200 SPD | Bruker timsTOF Pro | dda technology | 200-spd | bruker-timstof-pro | ||
| Robust and Reprodusible Protein Quantification in Plasma Using the Evosep One and the Agilent 6495 Triple Quadrupole LC/MS | Plasma, Targeted workflow, Technology | Application note | 2020 | Agilent feasibility study | Agilent Technologies, United States | 60 SPD | Agilent 6495 Triple Quadrupole | plasma targeted-workflow technology | 60-spd | agilent-6495-triple-quadrupole | ||
| High dynamic range proteome analysis with BoxCar DIA and super-resolution Orbitrap mass spectrometry | DIA, Plasma, Technology | Poster | 2020 | BoxCar DIA | Max Planck Institute of Biochemistry, Martinsried, Germany | 100 SPD, 30 SPD | Thermo Orbitrap Exploris 480 | dia plasma technology | 100-spd 30-spd | thermo-orbitrap-exploris-480 | ||
| Clinical proteomics | Clinical research, Plasma | Poster | 2018 | Clinical proteomics poster | Max Planck Institute of Biochemistry, Martinsried, Germany | Thermo | clinical-research plasma | thermo | ||||
| Development of a Novel LC Concept for Clinical Proteomics | DDA, Plasma, Technology | Poster | 2018 | Description of Evosep One | Max Planck Institute of Biochemistry, Martinsried and Bruker Daltonics, Germany | 60 SPD | Thermo | dda plasma technology | 60-spd | thermo | ||
| Increasing proteome coverage using cysteine-specific DIA Mass spectrometry – Cys-DIA | DIA, PTM | Publication | 2020 | DIA on cysteine-specific peptides | University of Southern Denmark | 60 SPD | Thermo Q Exactive HF-X | dia ptm | 60-spd | thermo-q-exactive-hf-x | ||
| A network of RNA-binding proteins controls translation efficiency to activate anaerobic metabolism | DDA, TMT | Publication | 2020 | SickKids Proteomics, Analytics, Robotics, and Chemical Biology Centre, Canada | 60 SPD | Thermo Orbitrap Fusion Lumos | dda tmt | 60-spd | thermo-orbitrap-fusion-lumos | |||
| Improving proteome coverage and peptide identification rates in short LC gradients | DDA, DIA, FAIMS, Phosphorylation, PTM, Technology | Video | 2020 | Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Denmark | 100 SPD, 200 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | dda dia faims phosphorylation ptm technology | 100-spd 200-spd 60-spd | thermo-orbitrap-exploris-480 | |||
| High-throughput proteomics with Evosep One | DDA, DIA, FAIMS, Phosphoproteomics, PTM, Technology | Video | 2020 | Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Denmark | 100 SPD, 200 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | dda dia faims phosphoproteomics ptm technology | 100-spd 200-spd 60-spd | thermo-orbitrap-exploris-480 | |||
| Rapid proteome analyses using the Evosep One | DDA, DIA, Phosphorylation, PTM | Video | 2018 | Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Denmark | 60 SPD | Thermo Q Exactive HF | dda dia phosphorylation ptm | 60-spd | thermo-q-exactive-hf | |||
| Targeted assay development for quantifying protein half-life over a range of mouse tissues | Biopharma, DDA, Targeted workflow | Video | 2019 | Protein turnover | Glaxo Smith Kline, Unites States | 300 SPD | biopharma dda targeted-workflow | 300-spd | ||||
| Sensitive, Rapid, Robust and Reproducible Workflow for Host Cell Protein Profiling in Biopharmaceutical Process Development | Biopharma, DDA, HCP | Publication | 2020 | HCP analysis in Biopharma | Glaxo Smith Kline, Unites States | 30 SPD, 60 SPD | Thermo Orbitrap Fusion Lumos | biopharma dda hcp | 30-spd 60-spd | thermo-orbitrap-fusion-lumos | ||
| Using Artificial Intelligence on Ultrafast LC-MSMS-DIA runs for Bacterial Identification in Urine | Bacteria, Clinical research, DIA | Video | 2019 | View the recording of our HUPO 2019 lunch seminar, where Florence Roux-Dalvai from Québec Research Center, Canada presents a new strategy for bacterial species identification in urinary tract infection using artificial intelligence on ultrafast LCMS DIA runs. | CHU Québec Université Laval Research Center, Canada | 100 SPD, 200 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | bacteria clinical-research dia | 100-spd 200-spd 60-spd | thermo-orbitrap-exploris-480 | ||
| Characterization of glutathione proteome in CHO cells and its relationship with productivity and cholesterol synthesis | DDA, TMT | Publication | 2020 | Technical University of Denmark | 30 SPD | Thermo Q Exactive HF-X | dda tmt | 30-spd | thermo-q-exactive-hf-x | |||
| High-throughput 4D-Proteomics – Application of dia-PASEF® and the Evosep One for short gradients | DIA, Technology | Application note | 2020 | diaPASEF app note | Bruker Daltonics, Germany | 100 SPD, 200 SPD, 300 SPD, 60 SPD | Bruker timsTOF Pro | dia technology | 100-spd 200-spd 300-spd 60-spd | bruker-timstof-pro | ||
| MaxQuant software for ion moiblity enhanced shotgun proteomics | DDA, Plasma, Technology | Publication | 2020 | MaxQuant for timsTOF analysis | Bruker Daltonics, Germany | 100 SPD | Bruker timsTOF Pro | dda plasma technology | 100-spd | bruker-timstof-pro | ||
| Plasma proteomics goes high-throughput – timsTOF Pro with PASEF and 4D feature alignment to quantify 500 plasma proteins in 11.5 min | Clinical research, DDA, Plasma | Application note | 2019 | The timsTOF Pro with PASEF and the Evosep One for biomarker discovery in large sample cohorts of human blood plasma (blood plasma from 192 severe infection patients). | Bruker Daltonics, Germany | 100 SPD | Bruker timsTOF Pro | clinical-research dda plasma | 100-spd | bruker-timstof-pro | ||
| Fast and reproducible phosphoproteomics using MagReSyn® Amine and Tim-IMAC HP magnetic beads and the Evosep One | Phosphorylation, PTM, Technology | Application note | 2020 | Read this application note to learn about the automated workflows for sample preparation developed by the Olsen group in collaboration with Resyn Biosciences. Protein digestion and phosphoenrichment is fully automated for up to 96 samples in parallel with the Kingfisher Flex robot from Thermo Scientific. | Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Denmark | 60 SPD | Thermo Orbitrap Exploris 480 | phosphorylation ptm technology | 60-spd | thermo-orbitrap-exploris-480 | ||
| Consistency, consistency – Automated Sample Prep for Translational Proteomics | Clinical research, Plasma | Video | 2020 | In this webinar, Emily Chen, Sr. Director at the Thermo Fisher Precision Medicine Science Center presents an automated, robust and scalable sample preparation pipeline for large-scale clinical research samples. | Thermo Fisher Scientific, United States | 60 SPD | Thermo | clinical-research plasma | 60-spd | thermo | ||
| An Ultra High-Throughput Plasma Protein Profiling (uHTPPP) Workflow Using a Modified Quadrupole-Orbitrap Mass Spectrometer | Clinical research, DDA, Lung, Plasma, Serum, Tissue | Application note | 2020 | In this application note, the group of Emily Chen at the Thermo Fisher Precision Medicine Science Center describes a high-throughput plasma and serum proteomics analysis workflow for large population cohort studies that utilizes a standardized sample preparation method, high-throughput data acquisition, and easy to implement QC standard. | Thermo Fisher Scientific, United States | 30 SPD, 60 SPD | Thermo Orbitrap Exploris 240 | clinical-research dda lung plasma serum tissue | 30-spd 60-spd | thermo-orbitrap-exploris-240 | ||
| Scalable and Automated Plasma Workflow Based on the Thermo Scientific Q Exactive HF-X MS Platform | Clinical research, DDA, Lung, Plasma, Serum | Application note | 2019 | In this application note, the group of Emily Chen at PMSC describes a high-throughput plasma and serum proteomics analysis workflow for large population cohort studies that utilizes a standardized sample preparation method, high-throughput data acquisition, and easy to implement QC standard. | Thermo Fisher Scientific, United States | 100 SPD, 30 SPD, 60 SPD | Thermo Q Exactive HF-X | clinical-research dda lung plasma serum | 100-spd 30-spd 60-spd | thermo-q-exactive-hf-x | ||
| Advancing Interactomics Workflows with 4D-Proteomics on the timsTOF Pro | DDA, Yeast | Video | 2020 | In this webinar organized by Bruker, André Michaelis from Matthias Mann’s group presents his large-scale yeast interactome study. He describes a robust platform for affinity purification and an LCMS workflow with Evosep One and timsTOF Pro with more than 8000 LCMS runs completed in just 20 weeks. | Max Planck Institute of Biochemistry, Martinsried, Germany | 60 SPD | Bruker timsTOF Pro | dda yeast | 60-spd | bruker-timstof-pro | ||
| Oncogenic Mutations Rewire Signaling Pathways by Switching Protein Recruitment to Phosphotyrosine Sites | DIA, Liver, Lung, Protein interaction, Tissue | Publication | 2019 | In this publication, the Olsen Group have combined DIA with short LC gradients to describe how cancer mutations close to tyrosine phosphorylation sites in the EGF receptor rewire signaling pathways by switching protein interactors. The performed 1200 pulldown experiments in just 20 days of LC-MS instrument time. | Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Denmark | 60 SPD | Thermo Q Exactive HF-X | dia liver lung protein-interaction tissue | 60-spd | thermo-q-exactive-hf-x | ||
| timsTOF Pro with PASEF and Evosep One: Maximizing throughput, robustness and analytical depth for shotgun proteomics | DDA, Technology | Application note | 2018 | Read this application note to learn more about the timsTOF Pro with PASEF and the Evosep One for maximizing throughput, robustness and analytical depth for shotgun proteomics. Increased peak capacity via trapped ion mobility spectrometry allows the analysis of 200 samples/day, at formidable analytical depth, with unparalleled robustness. | Bruker Daltonics, Germany | 100 SPD, 200 SPD, 60 SPD | Bruker timsTOF Pro | dda technology | 100-spd 200-spd 60-spd | bruker-timstof-pro | ||
| Evidence of Structural Protein Damage and Membrane Lipid Remodeling in Red Blood Cells from COVID-19 Patients | Clinical research, Covid-19, DDA | Publication | 2020 | In this study, researchers from University of Colorado led by Angelo D’Alessandro, performed proteomics analysis of Covid-19 patients and healthy control individuals. They measured the proteomes of red blood cells (RBC) and identified increased glycolysis in RBCs from COVID-19 patients, accompanied by increased oxidation of key structural proteins. | University of Colorado, United States | Bruker timsTOF Pro | clinical-research covid-19 dda | bruker-timstof-pro | ||||
| Development of mass spectrometry-based targeted assay for direct detection of novel SARS-CoV-2 coronavirus from clinical specimens | Clinical research, Covid-19, DDA, Targeted workflow | Publication | 2020 | This publication by the Akhilesh Pandey group describes a targeted FAIMS-PRM assay on an Orbitrap Exploris 480 MS. More than 700 nasopharyngeal swab samples were analyzed with high specificity and comparable sensitivity to the gold standard RT-PCR method for the diagnosis of SARS-CoV-2. | Mayo Clinic Rochester, United States | 100 SPD, 200 SPD | Thermo Orbitrap Exploris 480 | clinical-research covid-19 dda targeted-workflow | 100-spd 200-spd | thermo-orbitrap-exploris-480 | ||
| Multi-level proteomics reveals host-perturbation strategies of SARS-CoV-2 and SARS-CoV | Clinical research, Covid-19, DIA, PTM | Publication | 2020 | This publication describes the molecular functions of viral proteins and their interactions with the host proteome of SARS-CoV-2. The impact of viral infection on the proteome and phosphoproteome were analyzed in a time-resolved manner by DIA. The analysis revealed key pathways perturbed during the infection identifying potential vulnerable points of SARS-CoV-2. | Max Planck Institute of Biochemistry, Martinsried, Germany | 30 SPD, 60 SPD | Thermo Q Exactive HF-X | clinical-research covid-19 dia ptm | 30-spd 60-spd | thermo-q-exactive-hf-x | ||
| Serum Proteomics in COVID-19 Patients: Altered Coagulation and Complement Status as a Function of IL-6 Level | Clinical research, Covid-19, DDA, Serum | Publication | 2020 | This publication describes a serum proteomics analysis of COVID-19 patients, stratified by the degree of inflammation, represented by IL-6 levels. It highlights an increase in the levels of inhibitory components of the fibrinolytic cascade in severe COVID-19 disease, providing potential therapeutic interventions, such as the use of pro-fibrinolytic agents. | University of Colorado, US | Bruker timsTOF Pro | clinical-research covid-19 dda serum | bruker-timstof-pro | ||||
| A paired liver biopsy and plasma proteomics study reveals circulating biomarkers for alcohol-related liver disease | Clinical research, DIA, Liver, Plasma | Publication | 2020 | This publication from Matthias Mann groups in Copenhagen and Münich describes a paired liver biopsy and plasma proteomics study, which make use of Boxcar DIA scanning for a large clinical cohort of nearly 600 patients. They have developed a machine learning model based on their biomarker panel, which for the first time outperforms existing tests, … | Max Planck Institute of Biochemistry, Martinsried, Germany and Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Denmark | 30 SPD | Thermo Q Exactive HF-X | clinical-research dia liver plasma | 30-spd | thermo-q-exactive-hf-x | ||
| Evosep One Enables Robust Deep Proteome Coverage Using Tandem Mass Tags While Significantly Reducing Instrument Time | Fractionation, Tissue, TMT | Video | 2019 | Comparison study with TMT, same coverage in shorter time | SickKids Proteomics, Analytics, Robotics, and Chemical Biology Centre, Canada | 30 SPD, 60 SPD | Thermo Orbitrap Fusion Lumos |
| fractionation tissue tmt | 30-spd 60-spd | thermo-orbitrap-fusion-lumos | |
| Increasing Throughput: From Pre-Clinical Models To Protein Complexes | DIA, Large-scale | Video | 2019 | Comparison study with >400 samples, same coverage in shorter time | ETH Zürich, Switzerland | 60 SPD | SCIEX | dia large-scale | 60-spd | sciex | ||
| In-Depth Characterization of Staurosporine Induced Proteome Thermal Stability Changes | CETSA, DDA, Fractionation, TMT | Publication | 2020 | Deep CETSA MS profiling of Staurosporine | Pelago Biosciences, Sweden | Thermo Q Exactive HF | cetsa dda fractionation tmt | thermo-q-exactive-hf | ||||
| Fast and Robust Proteome Screening Platform Identifies Neutrophil Extracellular Trap Formation in the Lung in Response to Cobalt Ferrite Nanoparticles | DDA, Lung, Tissue | Publication | 2020 | In vivo study of biocompatibility of magnetic nanoparticles. Toxicity of magnetic metal oxide nanoparticles on the respiratory system was examined in vivo by single intratracheal instillation in mice. Bronchoalveolar lavage fluid (BALF) samples were collected for proteome analyses by LC−MS/MS. | University of Southern Denmark | 60 SPD | Thermo Orbitrap Fusion Lumos | dda lung tissue | 60-spd | thermo-orbitrap-fusion-lumos | ||
| A Compact Quadrupole-Orbitrap Mass Spectrometer With Faims Interface Improves Proteome Coverage In Short Lc Gradients | Automation, DDA, DIA, FAIMS, Fractionation, Phosphoproteomics, PTM, Technology, Tissue, TMT | Publication | 2020 | Test of Orbitrap Exploris with DIA and TMT, proteome and phospho. | Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Denmark | 100 SPD, 200 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | automation dda dia faims fractionation phosphoproteomics ptm technology tissue tmt | 100-spd 200-spd 60-spd | thermo-orbitrap-exploris-480 | ||
| Covalent Protein Painting Reveals Structural Changes In The Proteome In Alzheimer Disease | Alzheimer Disease, Brain, DDA, Fractionation, Tissue | Publication | 2020 | Development of Covalent Protein Painting (CPP), a structural proteomics approach to quantify changes in protein fold or altered protein-protein interaction for any protein in a proteome. CPP directly determines the relative surface accessibility of amino acid side chains by measuring the molar fraction of a chemical functionality that is accessible for chemical modification on the … | Scripps Research Institute, United States | 30 SPD | Thermo Orbitrap Fusion Lumos | alzheimer-disease brain dda fractionation tissue | 30-spd | thermo-orbitrap-fusion-lumos | ||
| Advanced Host Cell Protein (Hcp) Analysis With Tims Qtof Ms Powers Biopharmaceutical Development | Antibodies, DDA, HCP | Publication | 2019 | Descriptive piece of HCP analysis on the timsTOF | Bruker Daltonics, Germany | 60 SPD | Bruker timsTOF Pro | antibodies dda hcp | 60-spd | bruker-timstof-pro | ||
| Accurate Detection Of The Four Most Prevalent Carbapenemases In E. Coli And K. Pneumoniae By High-Resolution Mass Spectrometry | Bacteria, Targeted workflow | Publication | 2019 | “Proof of concept” study showing the potential of targeted high resolution MS in detecting different resistance mechanisms. Accurate detection of KPC, OXA-48-like, NDM and VIM carbapenemases. | Erasmus MC, The Netherlands | 100 SPD | Thermo Q Exactive HF | bacteria targeted-workflow | 100-spd | thermo-q-exactive-hf | ||
| Study: Increased De Novo Protein Sequencing Coverage With Optimal Protease Cocktail | Antibodies, DDA | Poster | 2019 | Increased De Novo Protein Sequencing Coverage with Optimal Protease Cocktail | Rapid Novor, Canada | Thermo Orbitrap Fusion | antibodies dda | thermo-orbitrap-fusion | ||||
| High-Throughput Proteomics Quantification Enabled by Fast LC Separation and Advanced PRM Acquisition | Phosphorylation, PTM, Targeted workflow | Poster | 2018 | High throughput LC-PRM to monitor the main protein components of AKT/mTOR signaling pathway. | Thermo Fisher Scientific, United States | 100 SPD, 200 SPD, 60 SPD | Thermo Q Exactive HF-X | phosphorylation ptm targeted-workflow | 100-spd 200-spd 60-spd | thermo-q-exactive-hf-x | ||
| Fast Confirmatory Analysis of Rhuepos in Plasma for Horseracing Doping Control | Plasma, rHuEPO, Targeted workflow | Application note | 2019 | This application note describes a rapid targeted analysis monitoring two tryptic rHuEPO peptides in plasma for horseracing doping control. The results illustrate the promising capabilities of the Evosep One innovative technology for the analysis of protein/peptide-based drugs in the context of drug testing. | Le Laboratoire des Courses Hippiques (LCH), France | 100 SPD | Thermo Q Exactive HF | plasma rhuepo targeted-workflow | 100-spd | thermo-q-exactive-hf |
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