Applications of imzML

Multicenter study using imzML

Multicenter study

Andreas Römpp, Jean-Pierre Both, Alain Brunelle, Ron M. A. Heeren, Olivier Laprévote, Brendan Prideaux, Alexandre Seyer, Bernhard Spengler, Markus Stoeckli, and Donald F. Smith.

Mass spectrometry imaging of biological tissue: an approach for multicenter studies. Analytical and Bioanalytical Chemistry, 407(8):2329-2335, 2015.[ bib | DOI | http ]

Raw data repository supporting imzML

PRIDE

Andreas Römpp, Rui Wang, Juan Pablo Albar, Andrea Urbani, Henning Hermjakob, Bernhard Spengler, and Juan Antonio Vizcaíno.

A public repository for mass spectrometry imaging data. Analytical and Bioanalytical Chemistry, 407(8):2027-2033, mar 2015.[ bib | DOI | http ]

Result repository using imzML as import

METASPACE

Andrew Palmer, Prasad Phapale, Ilya Chernyavsky, Regis Lavigne, Dominik Fay, Artem Tarasov, Vitaly Kovalev, Jens Fuchser, Sergey Nikolenko, Charles Pineau, Michael Becker, and Theodore Alexandrov.

FDR-controlled metabolite annotation for high-resolution imaging mass spectrometry. Nature Methods, (November):1-8, 2016.[ bib | DOI | http ]

Extended list of applications of imzML

  • Eva Marxen, Jette Jacobsen, Birgitte Hyrup, and Christian Janfelt. Permeability Barriers for Nicotine and Mannitol in Porcine Buccal Mucosa Studied by High-Resolution MALDI Mass Spectrometry Imaging. Molecular Pharmaceutics, 15(2):519-526, 2018.[ bib | DOI ]
  • Assaf Vardi. “In plaque-mass spectrometry imaging” reveals a major metabolic shift towards odd-chain fatty acid lipids induced by host-virus interactions. 2018.[ bib ]
  • Tyler J. Yarger, Elizabeth M. Yuill, and Lane A. Baker. Probe-Substrate Distance Control in Desorption Electrospray Ionization. Journal of the American Society for Mass Spectrometry, 29(3):558-565, 2018.[ bib | DOI ]
  • Sara Piqueras, Carmen Bedia, Claudia Beleites, Christoph Krafft, Jürgen Popp, Marcel Maeder, Romà Tauler, and Anna de Juan. Handling Different Spatial Resolutions in Image Fusion by Multivariate Curve Resolution-Alternating Least Squares for Incomplete Image Multisets. Analytical Chemistry, 2529:acs.analchem.8b00630, may 2018.[ bib | DOI | http ]
  • Bin Li, Sage J. B. Dunham, Joseph F. Ellis, Justin D. Lange, Justin R. Smith, Ning Yang, Travis L. King, Kensey R. Amaya, Clint Matthew Arnett, and Jonathan V. Sweedler. A Versatile Strategy for Characterization and Imaging of Drip Flow Microbial Biofilms. Analytical Chemistry, page acs.analchem.8b00560, 2018.[ bib | DOI | http ]
  • John G Swales, Alex Dexter, Gregory Hamm, Anna Nilsson, Nicole Strittmatter, Filippos Michopoulos, Christopher Hardy, Pablo Morentin-Gutierrez, Martine Mellor, E Andren, Malcolm R Clench, Josephine Bunch, Susan E Critchlow, and Richard J A Goodwin. Quantitation of endogenous metabolites in mouse tumors using mass spectrometry imaging. Analytical Chemistry, 90:6051-6058, 2018.[ bib | DOI | http ]
  • Patrik Källback, Anna Nilsson, Mohammadreza Shariatgorji, and Per E. Andrén. A Space Efficient Direct Access Data Compression Approach for Mass Spectrometry Imaging. Analytical Chemistry, 90(6):3676-3682, 2018.[ bib | DOI ]
  • Måns Ekelöf and David C. Muddiman. IR-MALDESI method optimization based on time-resolved measurement of ion yields. Analytical and Bioanalytical Chemistry, 410(3):963-970, 2018.[ bib | DOI ]
  • Sage J. B. Dunham, Joseph F. Ellis, Nameera F. Baig, Nydia Morales-Soto, Tianyuan Cao, Joshua D. Shrout, Paul W Bohn, and Jonathan V. Sweedler. Quantitative SIMS Imaging of Agar-Based Microbial Communities. Analytical Chemistry, page acs.analchem.7b05180, 2018.[ bib | DOI | http ]
  • Adam Taylor, Alex Dexter, and Josephine Bunch. Exploring ion suppression in mass spectrometry imaging of a heterogeneous tissue. Analytical Chemistry, page acs.analchem.7b05005, 2018.[ bib | DOI | http ]
  • Aleksandra Aljakna, Estelle Lauer, Sébastien Lenglet, Silke Grabherr, Tony Fracasso, Marc Augsburger, Sara Sabatasso, and Aurélien Thomas. Multiplex quantitative imaging of human myocardial infarction by mass spectrometry-immunohistochemistry. International Journal of Legal Medicine, pages 1-10, 2018.[ bib | DOI ]
  • Måns Ekelöf, Jeffrey Manni, Milad Nazari, Mark Bokhart, and David C. Muddiman. Characterization of a novel miniaturized burst-mode infrared laser system for IR-MALDESI mass spectrometry imaging. Analytical and Bioanalytical Chemistry, 410(9):2395-2402, 2018.[ bib | DOI ]
  • Mark T. Bokhart, Milad Nazari, Kenneth P. Garrard, and David C. Muddiman. MSiReader v1.0: Evolving Open-Source Mass Spectrometry Imaging Software for Targeted and Untargeted Analyses. Journal of the American Society for Mass Spectrometry, 29(1):8-16, 2018.[ bib | DOI ]
  • Kenneth N. Robinson, Rory T. Steven, and Josephine Bunch. Matrix Optical Absorption in UV-MALDI MS. Journal of the American Society for Mass Spectrometry, 29(3):501-511, 2018.[ bib | DOI ]
  • Eva Marxen, Liang Jin, Jette Jacobsen, Christian Janfelt, Birgitte Hyrup, and Joseph A. Nicolazzo. Effect of Permeation Enhancers on the Buccal Permeability of Nicotine: Ex vivo Transport Studies Complemented by MALDI MS Imaging. Pharmaceutical Research, 35(3), 2018.[ bib | DOI ]
  • Dominika Luptakova, Ladislav Baciak, Tomas Pluhacek, Anton Skriba, Blanka Sediva, Vladimir Havlicek, and Ivo Juranek. Membrane depolarization and aberrant lipid distributions in the neonatal rat brain following hypoxic-ischaemic insult. Scientific Reports, 8(1):6952, 2018.[ bib | DOI | http ]
  • Kirill Veselkov, Jonathan Sleeman, Emmanuelle Claude, Johannes P.C. Vissers, Dieter Galea, Anna Mroz, Ivan Laponogov, Mark Towers, Robert Tonge, Reza Mirnezami, Zoltan Takats, Jeremy K. Nicholson, and James I. Langridge. BASIS: High-performance bioinformatics platform for processing of large-scale mass spectrometry imaging data in chemically augmented histology. Scientific Reports, 8(1):1-11, 2018.[ bib | DOI | http ]
  • Nethaji J. Gallage, Kirsten Jørgensen, Christian Janfelt, Agnieszka J.Z. Nielsen, Thomas Naake, Eryk Duński, Lene Dalsten, Michel Grisoni, and Birger Lindberg Møller. The Intracellular Localization of the Vanillin Biosynthetic Machinery in Pods of Vanilla planifolia. Plant and Cell Physiology, 59(2):304-318, 2018.[ bib | DOI ]
  • Shoraku Ryu, Mitsuhiro Hayashi, Hiroaki Aikawa, Isamu Okamoto, Yasuhiro Fujiwara, and Akinobu Hamada. Heterogeneous distribution of alectinib in neuroblastoma xenografts revealed by matrix-assisted laser desorption ionization mass spectrometry imaging: a pilot study. British Journal of Pharmacology, 175(1):29-37, 2018.[ bib | DOI ]
  • N. Desbenoit, A. Walch, B. Spengler, A. Brunelle, and A. Römpp. Correlative mass spectrometry imaging, applying time-of-flight secondary ion mass spectrometry and atmospheric pressure matrix-assisted laser desorption/ionization to a single tissue section. Rapid Communications in Mass Spectrometry, 32(2):159-166, 2018.[ bib | DOI ]
  • Jiarong Li, Milton Mihalcioiu, Lifeng Li, Mahvash Zakikhani, Anne Camirand, and Richard Kremer. Vitamin D prevents lipid accumulation in murine muscle through regulation of PPARγ and perilipin-2 expression. Journal of Steroid Biochemistry and Molecular Biology, 177(May 2017):116-124, 2018.[ bib | DOI | http ]
  • Xiang Tian, Genwei Zhang, Yihan Shao, and Zhibo Yang. Towards enhanced metabolomic data analysis of mass spectrometry image: Multivariate Curve Resolution and Machine Learning. Analytica Chimica Acta, pages 1-9, 2018.[ bib | DOI | http ]
  • Jonatan Hall-Andersen, Svend G. Kaasgaard, and Christian Janfelt. MALDI imaging of enzymatic degradation of glycerides by lipase on textile surface. Chemistry and Physics of Lipids, 211(August 2017):100-106, 2018.[ bib | DOI | http ]
  • Lucilia Kato, Aline Pereira Moraes, Cecília Maria Alves de Oliveira, Boniek Gontijo Vaz, Letícia de Almeida Gonçalves, Elienai Cândida e Silva, and Christian Janfelt. The Spatial Distribution of Alkaloids in Psychotria prunifolia (Kunth) Steyerm and Palicourea coriacea (Cham.) K. Schum Leaves Analysed by Desorption Electrospray Ionisation Mass Spectrometry Imaging. Phytochemical Analysis, 29(1):69-76, 2018.[ bib | DOI ]
  • Milad Nazari, Mark T Bokhart, Philip L Loziuk, and David Muddiman. Quantitative Mass Spectrometry Imaging of Glutathione in Healthy and Cancerous Hen Ovarian Tissue Sections by Infrared Matrix-Assisted Laser Desorption Electrospray Ionization (IR-MALDESI). The Analyst, pages 654-661, 2018.[ bib | DOI | http ]
  • Zoe Hall, Yajing Chu, and Julian L. Griffin. Liquid Extraction Surface Analysis Mass Spectrometry Method for Identifying the Presence and Severity of Nonalcoholic Fatty Liver Disease. Analytical Chemistry, 89(9):5161-5170, 2017.[ bib | DOI ]
  • Rian L. Griffiths, Elizabeth C. Randall, Alan M. Race, Josephine Bunch, and Helen J. Cooper. Raster-Mode Continuous-Flow Liquid Microjunction Mass Spectrometry Imaging of Proteins in Thin Tissue Sections. Analytical Chemistry, 89(11):5683-5687, 2017.[ bib | DOI ]
  • Alex Dexter, Alan M. Race, Rory T. Steven, Jennifer R. Barnes, Heather Hulme, Richard J. A. Goodwin, Iain B. Styles, and Josephine Bunch. Two-Phase and Graph-Based Clustering Methods for Accurate and Efficient Segmentation of Large Mass Spectrometry Images. Analytical Chemistry, 89(21):11293-11300, 2017.[ bib | DOI | http ]
  • Sarah Aboulmagd, Diego Esteban-Fernández, Estefanía Moreno-Gordaliza, Boris Neumann, A. H. El-Khatib, Alberto Lázaro, Alberto Tejedor, M. Milagros Gómez-Gómez, and Michael W. Linscheid. Dual Internal Standards with Metals and Molecules for MALDI Imaging of Kidney Lipids. Analytical Chemistry, 89(23):12727-12734, 2017.[ bib | DOI ]
  • Estelle Lauer, Max Villa, Morgane Jotterand, Raquel Vilarino, Marc Bollmann, Katarzyna Michaud, Silke Grabherr, Marc Augsburger, and Aurélien Thomas. Imaging mass spectrometry of elements in forensic cases by LA-ICP-MS. International Journal of Legal Medicine, 131(2):497-500, 2017.[ bib | DOI ]
  • Isabella S. Sørensen, Christian Janfelt, Mette Marie B. Nielsen, Rasmus W. Mortensen, Nina Knudsen, André H. Eriksson, Anders J. Pedersen, and Kim T. Nielsen. Combination of MALDI-MSI and cassette dosing for evaluation of drug distribution in human skin explant. Analytical and Bioanalytical Chemistry, 409(21):4993-5005, 2017.[ bib | DOI ]
  • Katrin Erich, Denis A. Sammour, Alexander Marx, and Carsten Hopf. Scores for standardization of on-tissue digestion of formalin-fixed paraffin-embedded tissue in MALDI-MS imaging. Biochimica et Biophysica Acta – Proteins and Proteomics, 1865(7):907-915, 2017.[ bib | DOI | http ]
  • Rian L. Griffiths, Emma K. Sisley, Andrea F. Lopez-Clavijo, Anna L. Simmonds, Iain B. Styles, and Helen J. Cooper. Native mass spectrometry imaging of intact proteins and protein complexes in thin tissue sections. International Journal of Mass Spectrometry, 2017.[ bib | DOI | http ]
  • Jiří Novák, Lucie Sokolová, Karel Lemr, Tomáš Pluháček, Andrea Palyzová, and Vladimír Havlíček. Batch-processing of imaging or liquid-chromatography mass spectrometry datasets and De Novo sequencing of polyketide siderophores. Biochimica et Biophysica Acta – Proteins and Proteomics, 1865(7):768-775, 2017.[ bib | DOI ]
  • Mark T. Bokhart, Jeffrey Manni, Kenneth P. Garrard, Måns Ekelöf, Milad Nazari, and David C. Muddiman. IR-MALDESI Mass Spectrometry Imaging at 50 Micron Spatial Resolution. Journal of the American Society for Mass Spectrometry, 28(10):2099-2107, 2017.[ bib | DOI ]
  • Jocelyn Tillner, Vincen Wu, Emrys A. Jones, Steven D. Pringle, Tamas Karancsi, Andreas Dannhorn, Kirill Veselkov, James S. McKenzie, and Zoltan Takats. Faster, More Reproducible DESI-MS for Biological Tissue Imaging. Journal of the American Society for Mass Spectrometry, 28(10):2090-2098, 2017.[ bib | DOI ]
  • James Alexander, Louise Gildea, Julia Balog, Abigail Speller, James McKenzie, Laura Muirhead, Alasdair Scott, Christos Kontovounisios, Shanawaz Rasheed, Julian Teare, Jonathan Hoare, Kirill Veselkov, Robert Goldin, Paris Tekkis, Ara Darzi, Jeremy Nicholson, James Kinross, and Zoltan Takats. A novel methodology for in vivo endoscopic phenotyping of colorectal cancer based on real-time analysis of the mucosal lipidome: a prospective observational study of the iKnife. Surgical Endoscopy and Other Interventional Techniques, 31(3):1361-1370, 2017.[ bib | DOI ]
  • Måns Ekelöf, Erin K. McMurtrie, Milad Nazari, Suzanne D. Johanningsmeier, and David C. Muddiman. Direct Analysis of Triterpenes from High-Salt Fermented Cucumbers Using Infrared Matrix-Assisted Laser Desorption Electrospray Ionization (IR-MALDESI). Journal of the American Society for Mass Spectrometry, 28(2):370-375, 2017.[ bib | DOI ]
  • Heather E. Hulme, Lynsey M. Meikle, Hannah Wessel, Nicole Strittmatter, John Swales, Carolyn Thomson, Anna Nilsson, Robert J.B. Nibbs, Simon Milling, Per E. Andren, C. Logan Mackay, Alex Dexter, Josephine Bunch, Richard J.A. Goodwin, Richard Burchmore, and Daniel M. Wall. Mass spectrometry imaging identifies palmitoylcarnitine as an immunological mediator during Salmonella Typhimurium infection. Scientific Reports, 7(1):1-13, 2017.[ bib | DOI ]
  • Nicholas J. Bond, Albert Koulman, Julian L. Griffin, and Zoe Hall. massPix: an R package for annotation and interpretation of mass spectrometry imaging data for lipidomics. Metabolomics, 13(11):1-5, 2017.[ bib | DOI | http ]
  • Dominika Luptáková, Tomáš Pluháček, Miloš Petřík, Jiří Novák, Andrea Palyzová, Lucie Sokolová, Anton Škríba, Blanka Šedivá, Karel Lemr, and Vladimír Havlíček. Non-invasive and invasive diagnoses of aspergillosis in a rat model by mass spectrometry. Scientific Reports, 7(1):1-10, 2017.[ bib | DOI ]
  • Melissa K. Passarelli, Alexander Pirkl, Rudolf Moellers, Dmitry Grinfeld, Felix Kollmer, Rasmus Havelund, Carla F. Newman, Peter S. Marshall, Henrik Arlinghaus, Morgan R. Alexander, Andy West, Stevan Horning, Ewald Niehuis, Alexander Makarov, Colin T. Dollery, and Ian S. Gilmore. The 3D OrbiSIMS – Label-free metabolic imaging with subcellular lateral resolution and high mass-resolving power. Nature Methods, 14(12):1175-1183, 2017.[ bib | DOI ]
  • Timothée Joye, Nasim Bararpour, Marc Augsburger, Benjamin Boutrel, and Aurélien Thomas. In situ metabolomic changes in rat hippocampus after acute cocaine administration. International Journal of Mass Spectrometry, pages 1-5, 2017.[ bib | DOI | http ]
  • Luming Liang and Zhi min Zhang. Structure-aware enhancement of imaging mass spectrometry data for semantic segmentation. Chemometrics and Intelligent Laboratory Systems, 171(May):259-265, 2017.[ bib | DOI | http ]
  • Carmen Bedia, Romà Tauler, and Joaquim Jaumot. Analysis of multiple mass spectrometry images from different Phaseolus vulgaris samples by multivariate curve resolution. Talanta, 175(May):557-565, 2017.[ bib | DOI | http ]
  • Kylie A. Bemis and Olga Vitek. Matter: An R package for rapid prototyping with larger-than-memory datasets on disk. Bioinformatics, 33(19):3142-3144, 2017.[ bib | DOI ]
  • Pere Ràfols, Sònia Torres, Noelia Ramírez, Esteban Del Castillo, Oscar Yanes, Jesús Brezmes, and Xavier Correig. RMSI: An R package for MS imaging data handling and visualization. Bioinformatics, 33(15):2427-2428, 2017.[ bib | DOI ]
  • Paolo Inglese, James S. McKenzie, Anna Mroz, James Kinross, Kirill Veselkov, Elaine Holmes, Zoltan Takats, Jeremy K. Nicholson, and Robert C. Glen. Deep learning and 3D-DESI imaging reveal the hidden metabolic heterogeneity of cancer. Chem. Sci., 8(5):3500-3511, 2017.[ bib | DOI | http ]
  • Zoe Hall, Nicholas J. Bond, Tom Ashmore, Francis Sanders, Zsuzsanna Ament, Xinzhu Wang, Andrew J. Murray, Elena Bellafante, Sam Virtue, Antonio Vidal-Puig, Michael Allison, Susan E. Davies, Albert Koulman, Michele Vacca, and Julian L. Griffin. Lipid zonation and phospholipid remodeling in nonalcoholic fatty liver disease. Hepatology, 65(4):1165-1180, 2017.[ bib | DOI ]
  • Nathan H. Patterson, Robert J. Doonan, Stella S. Daskalopoulou, Martin Dufresne, Sébastien Lenglet, Fabrizio Montecucco, Aurélien Thomas, and Pierre Chaurand. Three-dimensional imaging MS of lipids in atherosclerotic plaques: Open-source methods for reconstruction and analysis. Proteomics, 16(11-12):1642-1651, 2016.[ bib | DOI ]
  • Seda Okutan, Harald S. Hansen, and Christian Janfelt. Cryo-sectioning of mice for whole-body imaging of drugs and metabolites with desorption electrospray ionization mass spectrometry imaging – a simplified approach. Proteomics, 16(11-12):1633-1641, 2016.[ bib | DOI ]
  • Shane R. Ellis, Joanna Cappell, Nina Ogrinc Potočnik, Benjamin Balluff, Julie Hamaide, Annemie Van der Linden, and Ron M. A. Heeren. More from less: high-throughput dual polarity lipid imaging of biological tissues. The Analyst, 141(12):3832-3841, 2016.[ bib | DOI | http ]
  • Melanie J. Bailey, Elizabeth C. Randall, Catia Costa, Tara L. Salter, Alan M. Race, Marcel de Puit, Mattijs Koeberg, Mark Baumert, and Josephine Bunch. Analysis of urine, oral fluid and fingerprints by liquid extraction surface analysis coupled to high resolution MS and MS/MS – opportunities for forensic and biomedical science. Anal. Methods, 8(16):3373-3382, 2016.[ bib | DOI | arXiv | http ]
  • Andrea Kucharíková, Katarína Kimáková, Christian Janfelt, and Eva Čellárová. Interspecific variation in localization of hypericins and phloroglucinols in the genus Hypericum as revealed by desorption electrospray ionization mass spectrometry imaging. Physiologia Plantarum, 157(1):2-12, 2016.[ bib | DOI ]
  • Carmen Bedia, Romà Tauler, and Joaquim Jaumot. Compression strategies for the chemometric analysis of mass spectrometry imaging data. Journal of Chemometrics, 30(10):575-588, oct 2016.[ bib | DOI | http ]
  • Alex Dexter, Alan M. Race, Iain B. Styles, and Josephine Bunch. Testing for Multivariate Normality in Mass Spectrometry Imaging Data: A Robust Statistical Approach for Clustering Evaluation and the Generation of Synthetic Mass Spectrometry Imaging Data Sets. Analytical Chemistry, 88(22):10893-10899, 2016.[ bib | DOI | http ]
  • Alan M. Race, Andrew D. Palmer, Alex Dexter, Rory T. Steven, Iain B. Styles, and Josephine Bunch. SpectralAnalysis: Software for the Masses. Analytical Chemistry, 88(19):9451-9458, 2016.[ bib | DOI ]
  • Heidi Toft Hansen and Christian Janfelt. Aspects of Quantitation in Mass Spectrometry Imaging Investigated on Cryo-Sections of Spiked Tissue Homogenates. Analytical Chemistry, 88(23):11513-11520, 2016.[ bib | DOI | http ]
  • Alberto Cassese, Shane R. Ellis, Nina Ogrinc Potočnik, Elke Burgermeister, Matthias Ebert, Axel Walch, Arn M.J.M. Van Den Maagdenberg, Liam A. McDonnell, Ron M.A. Heeren, and Benjamin Balluff. Spatial Autocorrelation in Mass Spectrometry Imaging. Analytical Chemistry, 88(11):5871-5878, 2016.[ bib | DOI ]
  • Jocelyn Tillner, James S. McKenzie, Emrys A. Jones, Abigail V.M. Speller, James L. Walsh, Kirill A. Veselkov, Josephine Bunch, Zoltan Takats, and Ian S. Gilmore. Investigation of the Impact of Desorption Electrospray Ionization Sprayer Geometry on Its Performance in Imaging of Biological Tissue. Analytical Chemistry, 88(9):4808-4816, 2016.[ bib | DOI ]
  • Rian L. Griffiths, Andrew J. Creese, Alan M. Race, Josephine Bunch, and Helen J. Cooper. LESA FAIMS Mass Spectrometry for the Spatial Profiling of Proteins from Tissue. Analytical Chemistry, 88(13):6758-6766, 2016.[ bib | DOI ]
  • Milad Nazari and David C. Muddiman. Polarity switching mass spectrometry imaging of healthy and cancerous hen ovarian tissue sections by infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI). The Analyst, 141(2):595-605, 2016.[ bib | DOI | http ]
  • Eisuke Hayakawa, Yoshinori Fujimura, and Daisuke Miura. MSIdV: a versatile tool to visualize biological indices from mass spectrometry imaging data. Bioinformatics, 32(24):3852-3854, 2016.[ bib | DOI ]
  • Elizabeth C. Randall, Alan M. Race, Helen J. Cooper, and Josephine Bunch. MALDI Imaging of Liquid Extraction Surface Analysis Sampled Tissue. Analytical Chemistry, 88(17):8433-8440, 2016.[ bib | DOI ]
  • Nicole Strittmatter, Anna Lovrics, Judit Sessler, James S. McKenzie, Zsolt Bodai, M. Luisa Doria, Nora Kucsma, Gergely Szakacs, and Zoltan Takats. Shotgun Lipidomic Profiling of the NCI60 Cell Line Panel Using Rapid Evaporative Ionization Mass Spectrometry. Analytical Chemistry, 88(15):7507-7514, 2016.[ bib | DOI ]
  • Patrik Källback, Anna Nilsson, Mohammadreza Shariatgorji, and Per E. Andrén. MsIQuant – Quantitation Software for Mass Spectrometry Imaging Enabling Fast Access, Visualization, and Analysis of Large Data Sets. Analytical Chemistry, 88(8):4346-4353, 2016.[ bib | DOI ]
  • Elias P. Rosen, Corbin G. Thompson, Mark T. Bokhart, Heather M.A. Prince, Craig Sykes, David C. Muddiman, and Angela D.M. Kashuba. Analysis of Antiretrovirals in Single Hair Strands for Evaluation of Drug Adherence with Infrared-Matrix-Assisted Laser Desorption Electrospray Ionization Mass Spectrometry Imaging. Analytical Chemistry, 88(2):1336-1344, 2016.[ bib | DOI ]
  • Zoe Hall, Zsuzsanna Ament, Catherine H. Wilson, Deborah L. Burkhart, Tom Ashmore, Albert Koulman, Trevor Littlewood, Gerard I. Evan, and Julian L. Griffin. MYC expression drives aberrant lipid metabolism in lung cancer. Cancer Research, 76(16):4608-4618, 2016.[ bib | DOI ]
  • Nima Abbassi-Ghadi, Emrys A. Jones, Maria Gomez-Romero, Ottmar Golf, Sacheen Kumar, Juzheng Huang, Hiromi Kudo, Rob D. Goldin, George B. Hanna, and Zoltan Takats. A Comparison of DESI-MS and LC-MS for the Lipidomic Profiling of Human Cancer Tissue. Journal of the American Society for Mass Spectrometry, 27(2):255-264, 2016.[ bib | DOI ]
  • Manuel Galli, Italo Zoppis, Gabriele De Sio, Clizia Chinello, Fabio Pagni, Fulvio Magni, and Giancarlo Mauri. A Support Vector Machine Classification of Thyroid Bioptic Specimens Using MALDI-MSI Data. Advances in Bioinformatics, 2016, 2016.[ bib | DOI ]
  • Philip Loziuk, Florian Meier, Caroline Johnson, H. Troy Ghashghaei, and David C. Muddiman. TransOmic analysis of forebrain sections in Sp2 conditional knockout embryonic mice using IR-MALDESI imaging of lipids and LC-MS/MS label-free proteomics. Analytical and Bioanalytical Chemistry, 408(13):3453-3474, 2016.[ bib | DOI | http ]
  • Cai Yan Tian, Xue Lu Ding, Jin Wei Yin, and Yi Xiang Duan. Preliminary study of Microfabricated Glow Discharge Plasma for Mass Spectrometry Imaging. Chinese Journal of Analytical Chemistry, 44(1):8-12, 2016.[ bib | DOI | http ]
  • Mette M. B. Nielsen, Kate L. Lambertsen, Bettina H. Clausen, Morten Meyer, Dhaka R. Bhandari, Søren T. Larsen, Steen S. Poulsen, Bernhard Spengler, Christian Janfelt, and Harald S. Hansen. Mass spectrometry imaging of biomarker lipids for phagocytosis and signalling during focal cerebral ischaemia. Scientific Reports, 6(1):39571, 2016.[ bib | DOI | http ]
  • Annabelle Fülöp, Denis A. Sammour, Katrin Erich, Johanna Von Gerichten, Peter Van Hoogevest, Roger Sandhoff, and Carsten Hopf. Molecular imaging of brain localization of liposomes in mice using MALDI mass spectrometry. Scientific Reports, 6:1-10, 2016.[ bib | DOI ]
  • Louis J. Sparvero, Andrew A. Amoscato, Arthur B. Fink, Tamil Anthonymuthu, Lee Ann New, Patrick M. Kochanek, Simon Watkins, Valerian E. Kagan, and Hulya Bayır. Imaging mass spectrometry reveals loss of polyunsaturated cardiolipins in the cortical contusion, hippocampus, and thalamus after traumatic brain injury. Journal of Neurochemistry, 139(4):659-675, 2016.[ bib | DOI ]
  • Sage J. B. Dunham, Troy J. Comi, Kyungwon Ko, Bin Li, Nameera F. Baig, Nydia Morales-Soto, Joshua D. Shrout, Paul W. Bohn, and Jonathan V. Sweedler. Metal-assisted polyatomic SIMS and laser desorption/ionization for enhanced small molecule imaging of bacterial biofilms. Biointerphases, 11(2):02A325, 2016.[ bib | DOI | http ]
  • Cara A. Griffiths, Ram Sagar, Yiqun Geng, Lucia F. Primavesi, Mitul K. Patel, Melissa K. Passarelli, Ian S. Gilmore, Rory T. Steven, Josephine Bunch, Matthew J. Paul, and Benjamin G. Davis. Chemical intervention in plant sugar signalling increases yield and resilience. Nature, 540(7634):574-578, 2016.[ bib | DOI | arXiv | http ]
  • Rory T. Steven, Alan M. Race, and Josephine Bunch. Probing the Relationship Between Detected Ion Intensity, Laser Fluence, and Beam Profile in Thin Film and Tissue in MALDI MSI. Journal of The American Society for Mass Spectrometry, 27(8):1419-1428, 2016.[ bib | DOI | http ]
  • Maria Luisa Dória, James S Mckenzie, Anna Mróz, David L Phelps, Abigail Speller, Francesca Rosini, Nicole Strittmatter, Ottmar Golf, Kirill Veselkov, Robert Brown, and Zoltan Takats. Epithelial ovarian carcinoma diagnosis by Desorption Electrospray Ionization Mass Spectrometry Imaging. Nature Publishing Group, (August):1-11, 2016.[ bib | DOI | http ]
  • John G. Swales, Nicole Strittmatter, James W. Tucker, Malcolm R. Clench, Peter J. H. Webborn, and Richard J. A. Goodwin. Spatial Quantitation of Drugs in tissues using Liquid Extraction Surface Analysis Mass Spectrometry Imaging. Scientific Reports, 6(June):37648, 2016.[ bib | DOI | http ]
  • Andrew Palmer, Prasad Phapale, Ilya Chernyavsky, Regis Lavigne, Dominik Fay, Artem Tarasov, Vitaly Kovalev, Jens Fuchser, Sergey Nikolenko, Charles Pineau, Michael Becker, and Theodore Alexandrov. FDR-controlled metabolite annotation for high-resolution imaging mass spectrometry. Nature Methods, (November):1-8, 2016.[ bib | DOI | http ]
  • Nathan Heath Patterson, Balqis Alabdulkarim, Anthoula Lazaris, Aurélien Thomas, Mieczyslaw M. Marcinkiewicz, Zu-hua Gao, Peter B. Vermeulen, Pierre Chaurand, and Peter Metrakos. Assessment of pathological response to therapy using lipid mass spectrometry imaging. Scientific Reports, 6(1):36814, dec 2016.[ bib | DOI | http ]
  • Rian L. Griffiths, Alex Dexter, Andrew J. Creese, and Helen J. Cooper. Liquid extraction surface analysis field asymmetric waveform ion mobility spectrometry mass spectrometry for the analysis of dried blood spots. The Analyst, 140(20):6879-6885, 2015.[ bib | DOI | http ]
  • Sabine Schulz, Sebastian Wagner, Stefanie Gerbig, Herbert Wächter, Detlef Sielaff, Dieter Bohn, and Bernhard Spengler. DESI MS based screening method for phthalates in consumer goods. The Analyst, 140(10):3484-3491, 2015.[ bib | DOI | http ]
  • Dhaka Ram Bhandari, Qing Wang, Wolfgang Friedt, Bernhard Spengler, Sven Gottwald, and Andreas Römpp. High resolution mass spectrometry imaging of plant tissues: towards a plant metabolite atlas. The Analyst, 140(22):7696-7709, 2015.[ bib | DOI | http ]
  • Kyle D. Bemis, April Harry, Livia S. Eberlin, Christina Ferreira, Stephanie M. Van De Ven, Parag Mallick, Mark Stolowitz, and Olga Vitek. Cardinal: An R package for statistical analysis of mass spectrometry-based imaging experiments. Bioinformatics, 31(14):2418-2420, 2015.[ bib | DOI ]
  • Nima Abbassi-Ghadi, Emrys A. Jones, Kirill A. Veselkov, Juzheng Huang, Sacheen Kumar, Nicole Strittmatter, Ottmar Golf, Hiromi Kudo, Robert D. Goldin, George B. Hanna, and Zoltan Takats. Repeatability and reproducibility of desorption electrospray ionization-mass spectrometry (DESI-MS) for the imaging analysis of human cancer tissue: a gateway for clinical applications. Anal. Methods, 7(1):71-80, 2015.[ bib | DOI | http ]
  • Joscelyn Sarsby, Rian L. Griffiths, Alan M. Race, Josephine Bunch, Elizabeth C. Randall, Andrew J. Creese, and Helen J. Cooper. Liquid Extraction Surface Analysis Mass Spectrometry Coupled with Field Asymmetric Waveform Ion Mobility Spectrometry for Analysis of Intact Proteins from Biological Substrates. Analytical Chemistry, 87(13):6794-6800, 2015.[ bib | DOI ]
  • Jingjing He, Zhigang Luo, Lan Huang, Jiuming He, Yi Chen, Xianfang Rong, Shaobo Jia, Fei Tang, Xiaohao Wang, Ruiping Zhang, Jianjun Zhang, Jiangong Shi, and Zeper Abliz. Ambient mass spectrometry imaging metabolomics method provides novel insights into the action mechanism of drug candidates. Analytical Chemistry, 87(10):5372-5379, 2015.[ bib | DOI ]
  • Elias P. Rosen, Mark T. Bokhart, Milad Nazari, and David C. Muddiman. Influence of C-Trap Ion Accumulation Time on the Detectability of Analytes in IR-MALDESI MSI. Analytical Chemistry, 87(20):10483-10490, 2015.[ bib | DOI ]
  • Elias P. Rosen, Mark T. Bokhart, H. Troy Ghashghaei, and David C. Muddiman. Influence of desorption conditions on analyte sensitivity and internal energy in discrete tissue or whole body imaging by IR-MALDESI. Journal of the American Society for Mass Spectrometry, 26(6):899-910, 2015.[ bib | DOI ]
  • Sabine Guenther, Laura J. Muirhead, Abigail V.M. Speller, Ottmar Golf, Nicole Strittmatter, Rathi Ramakrishnan, Robert D. Goldin, Emrys Jones, Kirill Veselkov, Jeremy Nicholson, Ara Darzi, and Zoltan Takats. Spatially resolved metabolic phenotyping of breast cancer by desorption electrospray ionization mass spectrometry. Cancer Research, 75(9):1828-1837, 2015.[ bib | DOI ]
  • Stefanie Gerbig, Hubertus E. Brunn, Bernhard Spengler, and Sabine Schulz. Spatially resolved investigation of systemic and contact pesticides in plant material by desorption electrospray ionization mass spectrometry imaging (DESI-MSI). Analytical and bioanalytical chemistry, 407(24):7379-7389, 2015.[ bib | DOI ]
  • Roberto Gamboa-Becerra, Enrique Ramírez-Chávez, Jorge Molina-Torres, and Robert Winkler. MSI.R scripts reveal volatile and semi-volatile features in low-temperature plasma mass spectrometry imaging (LTP-MSI) of chilli (Capsicum annuum). Analytical and bioanalytical chemistry, 407(19):5673-5684, 2015.[ bib | DOI ]
  • Mark T. Bokhart, Elias Rosen, Corbin Thompson, Craig Sykes, Angela D.M. Kashuba, and David C. Muddiman. Quantitative mass spectrometry imaging of emtricitabine in cervical tissue model using infrared matrix-assisted laser desorption electrospray ionization. Analytical and bioanalytical chemistry, 407(8):2073-2084, 2015.[ bib | DOI ]
  • Line R.ørbæk Olsen, Steen H.onoré Hansen, and Christian Janfelt. Distribution of terfenadine and its metabolites in locusts studied by desorption electrospray ionization mass spectrometry imaging. Analytical and bioanalytical chemistry, 407(8):2149-2158, 2015.[ bib | DOI ]
  • Janina Oetjen, Kirill Veselkov, Jeramie Watrous, James S. McKenzie, Michael Becker, Lena Hauberg-Lotte, Jan Hendrik Kobarg, Nicole Strittmatter, Anna K. Mróz, Franziska Hoffmann, Dennis Trede, Andrew Palmer, Stefan Schiffler, Klaus Steinhorst, Michaela Aichler, Robert Goldin, Orlando Guntinas-Lichius, Ferdinand von Eggeling, Herbert Thiele, Kathrin Maedler, Axel Walch, Peter Maass, Pieter C. Dorrestein, Zoltan Takats, and Theodore Alexandrov. Benchmark datasets for 3D MALDI- and DESI-imaging mass spectrometry. GigaScience, 4(1), 2015.[ bib | DOI ]
  • Manuel Liebeke, Nicole Strittmatter, Sarah Fearn, A. John Morgan, Peter Kille, Jens Fuchser, David Wallis, Vitalii Palchykov, Jeremy Robertson, Elma Lahive, David J. Spurgeon, David Mcphail, Zoltán Takáts, and Jacob G. Bundy. Unique metabolites protect earthworms against plant polyphenols. Nature Communications, 6:4-10, 2015.[ bib | DOI ]
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  • Andreas Römpp, Jean-Pierre Both, Alain Brunelle, Ron M. A. Heeren, Olivier Laprévote, Brendan Prideaux, Alexandre Seyer, Bernhard Spengler, Markus Stoeckli, and Donald F. Smith. Mass spectrometry imaging of biological tissue: an approach for multicenter studies. Analytical and Bioanalytical Chemistry, 407(8):2329-2335, 2015.[ bib | DOI | http ]
  • Andreas Römpp, Rui Wang, Juan Pablo Albar, Andrea Urbani, Henning Hermjakob, Bernhard Spengler, and Juan Antonio Vizcaíno. A public repository for mass spectrometry imaging data. Analytical and Bioanalytical Chemistry, 407(8):2027-2033, mar 2015.[ bib | DOI | http ]
  • Andrew D. Palmer, Josephine Bunch, and Iain B. Styles. The use of random projections for the analysis of mass spectrometry imaging data. Journal of the American Society for Mass Spectrometry, 26(2):315-322, 2015.[ bib | DOI ]
  • Alan M. Race and Josephine Bunch. Optimisation of colour schemes to accurately display mass spectrometry imaging data based on human colour perception. Analytical and bioanalytical chemistry, 407(8):2047-54, mar 2015.[ bib | DOI | http ]
  • Kahoko Nishikawa, Masahiro Hashimoto, Yoshiyuki Itoh, Sadayuki Hiroi, Akihiko Kusai, Fumihiko Hirata, Toshihisa Sakamoto, and Keiichi Iwaya. Detection of changes in the structure and distribution map of triacylglycerol in fatty liver model by MALDI-SpiralTOF. FEBS Open Bio, 4:179-184, 2014.[ bib | DOI | http ]
  • Nicole Strittmatter, Monica Rebec, Emrys A. Jones, Ottmar Golf, Alireza Abdolrasouli, Julia Balog, Volker Behrends, Kirill A. Veselkov, and Zoltan Takats. Characterization and identification of clinically relevant microorganisms using rapid evaporative ionization mass spectrometry. Analytical Chemistry, 86(13):6555-6562, 2014.[ bib | DOI ]
  • John G. Swales, James W. Tucker, Nicole Strittmatter, Anna Nilsson, Diego Cobice, Malcolm R. Clench, C. Logan Mackay, Per E. Andren, Zoltán Takáts, Peter J.H. Webborn, and Richard J.A. Goodwin. Mass spectrometry imaging of cassette-dosed drugs for higher throughput pharmacokinetic and biodistribution analysis. Analytical Chemistry, 86(16):8473-8480, 2014.[ bib | DOI ]
  • Antonín Bednařík, Pavel Kuba, Eugene Moskovets, Iva Tomalová, Pavel Krásenský, Pavel Houška, and Jan Preisler. Rapid matrix-assisted laser desorption/ionization time-of-flight mass spectrometry imaging with scanning desorption laser beam. Analytical Chemistry, 86(2):982-986, 2014.[ bib | DOI ]
  • Ottmar Golf, Laura J. Muirhead, Abigail Speller, Júlia Balog, Nima Abbassi-Ghadi, Sacheen Kumar, Anna Mróz, Kirill Veselkov, and Zoltán Takáts. XMS: Cross-platform normalization method for multimodal mass spectrometric tissue profiling. Journal of the American Society for Mass Spectrometry, 26(1):44-54, 2014.[ bib | DOI ]
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  • Janina D’Alvise, Rasmus Mortensen, Steen H. Hansen, and Christian Janfelt. Detection of follicular transport of lidocaine and metabolism in adipose tissue in pig ear skin by DESI mass spectrometry imaging. Analytical and Bioanalytical Chemistry, 406(15):3735-3742, 2014.[ bib | DOI ]
  • Mauricio Maldonado-Torres, José Fabricio López-Hernández, Pedro Jiménez-Sandoval, and Robert Winkler. ‘Plug and Play’ assembly of a low-temperature plasma ionization mass spectrometry imaging (LTP-MSI) system. Journal of Proteomics, 102:60-65, 2014.[ bib | DOI | http ]
  • Robert Winkler. MASSyPup – An ‘Out of the Box’ solution for the analysis of mass spectrometry data. Journal of Mass Spectrometry, 49(1):37-42, 2014.[ bib | DOI ]
  • Johan Teleman, Andrew W. Dowsey, Faviel F. Gonzalez-Galarza, Simon Perkins, Brian Pratt, Hannes L. Röst, Lars Malmström, Johan Malmström, Andrew R. Jones, Eric W. Deutsch, and Fredrik Levander. Numerical Compression Schemes for Proteomics Mass Spectrometry Data. Molecular & Cellular Proteomics, 13(6):1537-1542, 2014.[ bib | DOI | http ]
  • Florian Meier, Kenneth P. Garrard, and David C. Muddiman. Silver dopants for targeted and untargeted direct analysis of unsaturated lipids via infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI). Rapid communications in mass spectrometry : RCM, 28(22):2461-2470, 2014.[ bib | DOI ]
  • Ivo Klinkert, Kamila Chughtai, Shane R. Ellis, and Ron M A Heeren. Methods for full resolution data exploration and visualization for large 2D and 3D mass spectrometry imaging datasets. International Journal of Mass Spectrometry, 362(1):40-47, 2014.[ bib | DOI | http ]
  • Christian Janfelt, Niels Wellner, Harald S. Hansen, and Steen H. Hansen. Displaced dual-mode imaging with desorption electrospray ionization for simultaneous mass spectrometry imaging in both polarities and with several scan modes. Journal of Mass Spectrometry, 48(3):361-366, 2013.[ bib | DOI ]
  • Alan M. Race, Rory T. Steven, Andrew D. Palmer, Iain B. Styles, and Josephine Bunch. Memory efficient principal component analysis for the dimensionality reduction of large mass spectrometry imaging data sets. Analytical Chemistry, 85(6):3071-3078, 2013.[ bib | DOI ]
  • Rian L. Griffiths, Joscelyn Sarsby, Emily J. Guggenheim, Alan M. Race, Rory T. Steven, Janine Fear, Patricia F. Lalor, and Josephine Bunch. Formal lithium fixation improves direct analysis of lipids in tissue by mass spectrometry. Analytical Chemistry, 85(15):7146-7153, 2013.[ bib | DOI ]
  • Andrew D. Palmer, Josephine Bunch, and Iain B. Styles. Randomized approximation methods for the efficient compression and analysis of hyperspectral data. Analytical Chemistry, 85(10):5078-5086, 2013.[ bib | DOI ]
  • Rory T. Steven, Andrew D. Palmer, and Josephine Bunch. Fluorometric beam profiling of UV MALDI lasers. Journal of the American Society for Mass Spectrometry, 24(7):1146-1152, 2013.[ bib | DOI ]
  • Bin Li, Steen Honoré Hansen, and Christian Janfelt. Direct imaging of plant metabolites in leaves and petals by desorption electrospray ionization mass spectrometry. International Journal of Mass Spectrometry, 348:15-22, 2013.[ bib | DOI | http ]
  • Bin Li, Camilla Knudsen, Natascha Krahl Hansen, Kirsten Jørgensen, Rubini Kannangara, Søren Bak, Adam Takos, Fred Rook, Steen H. Hansen, Birger Lindberg Møller, Christian Janfelt, and Nanna Bjarnholt. Visualizing metabolite distribution and enzymatic conversion in plant tissues by desorption electrospray ionization mass spectrometry imaging. The Plant Journal, 74(6):1059-1071, 2013.[ bib | DOI | http ]
  • Rory T. Steven and Josephine Bunch. Repeat MALDI MS imaging of a single tissue section using multiple matrices and tissue washes. Analytical and Bioanalytical Chemistry, 405(14):4719-4728, 2013.[ bib | DOI ]
  • Rory T. Steven, Alan M. Race, and Josephine Bunch. Para-nitroaniline is a promising matrix for MALDI-MS imaging on intermediate pressure MS systems. Journal of the American Society for Mass Spectrometry, 24(5):801-804, 2013.[ bib | DOI ]
  • Christian Janfelt and Asger W. Nørgaard. Ambient mass spectrometry imaging: A comparison of desorption ionization by sonic spray and electrospray. Journal of the American Society for Mass Spectrometry, 23(10):1670-1678, 2012.[ bib | DOI ]
  • Janina Thunig, Steen H. Hansen, and Christian Janfelt. Analysis of secondary plant metabolites by indirect desorption electrospray ionization imaging mass spectrometry. Analytical Chemistry, 83(9):3256-3259, 2011.[ bib | DOI ]
  • Bin Li, Nanna Bjarnholt, Steen H. Hansen, and Christian Janfelt. Characterization of barley leaf tissue using direct and indirect desorption electrospray ionization imaging mass spectrometry. Journal of Mass Spectrometry, 46(12):1241-1246, 2011.[ bib | DOI ]