Publications

HuBMAP Consortium, Nature, vol. 574, iss. 7777, pp. 187-192, 2019.
HuBMAP Consortium, Nature, vol. 574, iss. 7777, pp. 187-192, 2019.

Cassat et al., Science Translational Medicine, vol. 10, iss. 432, 2018.
Cassat et al., Science Translational Medicine, vol. 10, iss. 432, 2018.

Tideman et al., Analytica Chimica Acta, vol. 1177, p. 338522, 2021.
Tideman et al., Analytica Chimica Acta, vol. 1177, p. 338522, 2021.

Van de Plas et al., Nature Methods, vol. 12, iss. 4, pp. 366-72, 2015.
Van de Plas et al., Nature Methods, vol. 12, iss. 4, pp. 366-72, 2015.

Verbeeck et al., Analytical Chemistry, vol. 86, iss. 18, pp. 8974-82, 2014.
Verbeeck et al., Analytical Chemistry, vol. 86, iss. 18, pp. 8974-82, 2014.

Verbeeck et al., Mass Spectrometry Reviews, vol. 39, iss. 3, pp. 245-291, 2020,
Verbeeck et al., Mass Spectrometry Reviews, vol. 39, iss. 3, pp. 245-291, 2020,

Verbeeck et al., Biochimica et Biophysica Acta (BBA) – Proteins and Proteomics, vol. 1865, iss. 7, pp. 967-977, 2017.
Verbeeck et al., Biochimica et Biophysica Acta (BBA) – Proteins and Proteomics, vol. 1865, iss. 7, pp. 967-977, 2017.

Full publication list

2021

Jarod A Fincher, Katerina V Djambazova, Dustin R Klein, Martin Dufresne, Lukasz G Migas, Raf Van de Plas, Richard M Caprioli, Jeffrey M Spraggins

Molecular Mapping of Neutral Lipids Using Silicon Nanopost Arrays and TIMS Imaging Mass Spectrometry Journal Article

In: Journal of the American Society for Mass Spectrometry, vol. 32, no. 10, pp. 2519-2527, 2021.

Abstract | Links | BibTeX

Leonoor E M Tideman, Lukasz G Migas, Katerina V Djambazova, Nathan Heath Patterson, Richard M Caprioli, Jeffrey M Spraggins, Raf Van de Plas

Automated biomarker candidate discovery in imaging mass spectrometry data through spatially localized Shapley additive explanations Journal Article

In: Analytica Chimica Acta, vol. 1177, pp. 338522, 2021.

Abstract | Links | BibTeX

Elizabeth K Neumann, Nathan Heath Patterson, Jamie L Allen, Lukasz G Migas, Haichun Yang, Maya Brewer, David M Anderson, Jennifer Harvey, Danielle B Gutierrez, Raymond C Harris, Mark P deCaestecker, Agnes B Fogo, Raf Van de Plas, Richard M Caprioli, Jeffrey M Spraggins

Protocol for multimodal analysis of human kidney tissue by imaging mass spectrometry and CODEX multiplexed immunofluorescence Journal Article

In: STAR Protocols, vol. 2, no. 3, pp. 100747, 2021.

Abstract | Links | BibTeX

Nathan Heath Patterson, Elizabeth K Neumann, Kavya Sharman, Jamie Allen, Raymond Harris, Agnes B Fogo, Mark Caestecker, Richard M Caprioli, Raf Van de Plas, Jeffrey M Spraggins

Autofluorescence microscopy as a label-free tool for renal histology and glomerular segmentation Journal Article

In: bioRxiv, 2021.

Abstract | Links | BibTeX

Katerina Djambazova, Martin Dufresne, Lukasz Migas, Angela Kruse, Raf Van de Plas, Richard Caprioli, Jeffrey Spraggins

MALDI TIMS IMS of Disialoganglioside Isomers–GD1a and GD1b in Murine Brain Tissue Journal Article

In: ChemRxiv, 2021.

Abstract | Links | BibTeX

2020

Nico Verbeeck, Richard M Caprioli, Raf Van de Plas

Unsupervised machine learning for exploratory data analysis in imaging mass spectrometry Journal Article

In: Mass Spectrometry Reviews, vol. 39, no. 3, pp. 245-291, 2020.

Abstract | Links | BibTeX

Elizabeth K Neumann, Lukasz G Migas, Jamie L Allen, Richard M Caprioli, Raf Van de Plas, Jeffrey M Spraggins

Spatial Metabolomics of the Human Kidney using MALDI Trapped Ion Mobility Imaging Mass Spectrometry Journal Article

In: Analytical Chemistry, vol. 92, no. 19, pp. 13084-13091, 2020.

Abstract | Links | BibTeX

Katerina V Djambazova, Dustin R Klein, Lukasz G Migas, Elizabeth K Neumann, Emilio S Rivera, Raf Van de Plas, Richard M Caprioli, Jeffrey M Spraggins

Resolving the Complexity of Spatial Lipidomics Using MALDI TIMS Imaging Mass Spectrometry Journal Article

In: Analytical Chemistry, vol. 92, no. 19, pp. 13290-13297, 2020.

Abstract | Links | BibTeX

Marissa A Jones, Sung Hoon Cho, Nathan Heath Patterson, Raf Van de Plas, Jeffrey M Spraggins, Mark R Boothby, Richard M Caprioli

Discovering New Lipidomic Features Using Cell Type Specific Fluorophore Expression to Provide Spatial and Biological Specificity in a Multimodal Workflow with MALDI Imaging Mass Spectrometry Journal Article

In: Analytical Chemistry, vol. 92, no. 10, pp. 7079-7086, 2020.

Abstract | Links | BibTeX

William J Perry, Andy Weiss, Raf Van de Plas, Jeffrey M Spraggins, Richard M Caprioli, Eric P Skaar

Integrated molecular imaging technologies for investigation of metals in biological systems: A brief review Journal Article

In: Current Opinion in Chemical Biology, vol. 55, pp. 127-135, 2020.

Abstract | Links | BibTeX

2019

Jeffrey M Spraggins, Katerina V Djambazova, Emilio S Rivera, Lukasz G Migas, Elizabeth K Neumann, Arne Fuetterer, Juergen Suetering, Niels Goedecke, Alice Ly, Raf Van de Plas, Richard M Caprioli

High-Performance Molecular Imaging with MALDI Trapped Ion-Mobility Time-of-Flight (timsTOF) Mass Spectrometry Journal Article

In: Analytical Chemistry, vol. 91, no. 22, pp. 14552-14560, 2019.

Abstract | Links | BibTeX

HuBMAP Consortium, Raf Van de Plas

The human body at cellular resolution: the NIH Human Biomolecular Atlas Program Journal Article

In: Nature, vol. 574, no. 7777, pp. 187-192, 2019.

Abstract | Links | BibTeX

2018

Nathan Heath Patterson, Michael Tuck, Adam Lewis, Alexis Kaushansky, Jeremy L Norris, Raf Van de Plas, Richard M Caprioli

Next Generation Histology-Directed Imaging Mass Spectrometry Driven by Autofluorescence Microscopy Journal Article

In: Analytical Chemistry, vol. 90, no. 21, pp. 12404-12413, 2018.

Abstract | Links | BibTeX

Nathan Heath Patterson, Michael Tuck, Raf Van de Plas, Richard M Caprioli

Advanced Registration and Analysis of MALDI Imaging Mass Spectrometry Measurements through Autofluorescence Microscopy Journal Article

In: Analytical Chemistry, vol. 90, no. 21, pp. 12395-12403, 2018.

Abstract | Links | BibTeX

Boone M Prentice, Daniel J Ryan, Raf Van de Plas, Richard M Caprioli, Jeffrey M Spraggins

Enhanced Ion Transmission Efficiency up to m/ z 24 000 for MALDI Protein Imaging Mass Spectrometry Journal Article

In: Analytical Chemistry, vol. 90, no. 8, pp. 5090-5099, 2018.

Abstract | Links | BibTeX

James E Cassat, Jessica L Moore, Kevin J Wilson, Zach Stark, Boone M Prentice, Raf Van de Plas, William J Perry, Yaofang Zhang, John Virostko, Daniel C Colvin, Kristie L Rose, Audra M Judd, Michelle L Reyzer, Jeffrey M Spraggins, Caroline M Grunenwald, John C Gore, Richard M Caprioli, Eric P Skaar

Integrated molecular imaging reveals tissue heterogeneity driving host-pathogen interactions Journal Article

In: Science Translational Medicine, vol. 10, no. 432, 2018.

Abstract | Links | BibTeX

2017

Nico Verbeeck, Jeffrey M Spraggins, Monika J M Murphy, Hui-Dong Wang, Ariel Y Deutch, Richard M Caprioli, Raf Van de Plas

Connecting imaging mass spectrometry and magnetic resonance imaging-based anatomical atlases for automated anatomical interpretation and differential analysis Journal Article

In: Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, vol. 1865, no. 7, pp. 967-977, 2017.

Abstract | Links | BibTeX

Jeremy L Norris, Melissa A Farrow, Danielle B Gutierrez, Lauren D Palmer, Nicole Muszynski, Stacy D Sherrod, James C Pino, Jamie L Allen, Jeffrey M Spraggins, Alex L R Lubbock, Ashley Jordan, William Burns, James C Poland, Carrie Romer, M Lisa Manier, Yuan-Wei Nei, Boone M Prentice, Kristie L Rose, Salisha Hill, Raf Van de Plas, Tina Tsui, Nathaniel M Braman, M Ray Keller, Stacey A Rutherford, Nichole Lobdell, Carlos F Lopez, D Borden Lacy, John A McLean, John P Wikswo, Eric P Skaar, Richard M Caprioli

Integrated, High-Throughput, Multiomics Platform Enables Data-Driven Construction of Cellular Responses and Reveals Global Drug Mechanisms of Action Journal Article

In: Journal of Proteome Research, vol. 16, no. 3, pp. 1364-1375, 2017.

Abstract | Links | BibTeX

2016

Eyra Marien, Michael Meister, Thomas Muley, Teresa Gomez Del Pulgar, Rita Derua, Jeffrey M Spraggins, Raf Van de Plas, Frank Vanderhoydonc, Jelle Machiels, Maria Mercedes Binda, Jonas Dehairs, Jami Willette-Brown, Yinling Hu, Hendrik Dienemann, Michael Thomas, Philipp A Schnabel, Richard M Caprioli, Juan Carlos Lacal, Etienne Waelkens, Johannes V Swinnen

Phospholipid profiling identifies acyl chain elongation as a ubiquitous trait and potential target for the treatment of lung squamous cell carcinoma Journal Article

In: Oncotarget, vol. 7, no. 11, pp. 12582-97, 2016.

Abstract | Links | BibTeX

David M G Anderson, Raf Van de Plas, Kristie L Rose, Salisha Hill, Kevin L Schey, Anne C Solga, David H Gutmann, Richard M Caprioli

3-D imaging mass spectrometry of protein distributions in mouse Neurofibromatosis 1 (NF1)-associated optic glioma Journal Article

In: Journal of Proteomics, vol. 149, pp. 77-84, 2016.

Abstract | Links | BibTeX

2015

Eyra Marien, Michael Meister, Thomas Muley, Steffen Fieuws, Sergio Bordel, Rita Derua, Jeffrey Spraggins, Raf Van de Plas, Jonas Dehairs, Jens Wouters, Muralidhararao Bagadi, Hendrik Dienemann, Michael Thomas, Philipp A Schnabel, Richard M Caprioli, Etienne Waelkens, Johannes V Swinnen

Non-small cell lung cancer is characterized by dramatic changes in phospholipid profiles Journal Article

In: International Journal of Cancer, vol. 137, no. 7, pp. 1539-48, 2015.

Abstract | Links | BibTeX

Raf Van de Plas, Junhai Yang, Jeffrey Spraggins, Richard M Caprioli

Image fusion of mass spectrometry and microscopy: a multimodality paradigm for molecular tissue mapping Journal Article

In: Nature Methods, vol. 12, no. 4, pp. 366-72, 2015.

Abstract | Links | BibTeX

2014

Nico Verbeeck, Junhai Yang, Bart De Moor, Richard M Caprioli, Etienne Waelkens, Raf Van de Plas

Automated anatomical interpretation of ion distributions in tissue: linking imaging mass spectrometry to curated atlases Journal Article

In: Analytical Chemistry, vol. 86, no. 18, pp. 8974-82, 2014.

Abstract | Links | BibTeX

Piotr Dittwald, Vu Trung Nghia, Glenn A Harris, Richard M Caprioli, Raf Van de Plas, Kris Laukens, Anna Gambin, Dirk Valkenborg

Towards automated discrimination of lipids versus peptides from full scan mass spectra Journal Article

In: EuPA Open Proteomics, vol. 4, pp. 87-100, 2014.

Abstract | Links | BibTeX

2012

A Fassbender, N Verbeeck, D Börnigen, C M Kyama, A Bokor, A Vodolazkaia, K Peeraer, C Tomassetti, C Meuleman, O Gevaert, R Van de Plas, F Ojeda, B De Moor, Y Moreau, E Waelkens, T M D'Hooghe

Combined mRNA microarray and proteomic analysis of eutopic endometrium of women with and without endometriosis Journal Article

In: Human Reproduction, vol. 27, no. 7, pp. 2020-9, 2012.

Abstract | Links | BibTeX

Amelie Fassbender, Etienne Waelkens, Nico Verbeeck, Cleophas M Kyama, Attila Bokor, Alexandra Vodolazkaia, Raf Van de Plas, Christel Meuleman, Karen Peeraer, Carla Tomassetti, Olivier Gevaert, Fabian Ojeda, Bart De Moor, Thomas D'Hooghe

Proteomics analysis of plasma for early diagnosis of endometriosis Journal Article

In: Obstetrics and Gynecology, vol. 119, no. 2 Pt 1, pp. 276-85, 2012.

Abstract | Links | BibTeX

2011

Marco Signoretto, Raf Van de Plas, Bart De Moor, Johan AK Suykens

Tensor Versus Matrix Completion: A Comparison With Application to Spectral Data Journal Article

In: IEEE Signal Processing Letters, vol. 18, no. 7, pp. 403–406, 2011.

Abstract | Links | BibTeX

Cleophas M Kyama, Attila Mihalyi, Olivier Gevaert, Etienne Waelkens, Peter Simsa, Raf Van de Plas, Christel Meuleman, Bart De Moor, Thomas M D'Hooghe

Evaluation of endometrial biomarkers for semi-invasive diagnosis of endometriosis Journal Article

In: Fertility and Sterility, vol. 95, no. 4, pp. 1338-43.e1-3, 2011.

Abstract | Links | BibTeX

2010

Amelie Fassbender, Peter Simsa, Cleophas M Kyama, Etienne Waelkens, Attila Mihalyi, Christel Meuleman, Olivier Gevaert, Raf Van de Plas, Bart Moor, Thomas M D'Hooghe

TRIzol treatment of secretory phase endometrium allows combined proteomic and mRNA microarray analysis of the same sample in women with and without endometriosis Journal Article

In: Reproductive Biology and Endocrinology, vol. 8, pp. 123, 2010.

Abstract | Links | BibTeX

Fabian Ojeda, Marco Signoretto, Raf Van de Plas, Etienne Waelkens, Bart De Moor, Johan AK Suykens

Semi-supervised Learning of Sparse Linear Models in Mass Spectral Imaging Proceedings Article

In: pp. 325–334, 2010.

Abstract | Links | BibTeX

Raf Van de Plas

Tissue Based Proteomics and Biomarker Discovery–Multivariate Data Mining Strategies for Mass Spectral Imaging PhD Thesis

2010.

Links | BibTeX

Jan Luts, Fabian Ojeda, Raf Van de Plas, Bart De Moor, Sabine Van Huffel, Johan A K Suykens

A tutorial on support vector machine-based methods for classification problems in chemometrics Journal Article

In: Analytica Chimica Acta, vol. 665, no. 2, pp. 129-45, 2010.

Abstract | Links | BibTeX

2009

K Lemaire, M A Ravier, A Schraenen, J W M Creemers, R Van de Plas, M Granvik, L Van Lommel, E Waelkens, F Chimienti, G A Rutter, P Gilon, P A Veld, F C Schuit

Insulin crystallization depends on zinc transporter ZnT8 expression, but is not required for normal glucose homeostasis in mice Journal Article

In: Proceedings of the National Academy of Sciences of the United States of America, vol. 106, no. 35, pp. 14872-7, 2009.

Abstract | Links | BibTeX

Isabelle Cadron, Toon Van Gorp, Frederic Amant, Ignace Vergote, Philippe Moerman, Etienne Waelkens, Anneleen Daemen, Raf Van de Plas, Bart De Moor, Robert Zeillinger

The use of laser microdissection and SELDI-TOF MS in ovarian cancer tissue to identify protein profiles Journal Article

In: Anticancer Research, vol. 29, no. 4, pp. 1039-45, 2009.

Abstract | Links | BibTeX

2008

Raf Van de Plas, Bart De Moor, Etienne Waelkens

Discrete wavelet transform-based multivariate exploration of tissue via imaging mass spectrometry Proceedings Article

In: pp. 1307–1308, 2008.

Abstract | Links | BibTeX

2007

Raf Van de Plas, Kristiaan Pelckmans, Bart De Moor, Etienne Waelkens

Spatial Querying of Imaging Mass Spectrometry Data: A Nonnegative Least Squares Approach Conference

2007.

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Raf Van de Plas, Bart De Moor, Etienne Waelkens

Imaging mass spectrometry based exploration of biochemical tissue composition using peak intensity weighted PCA Proceedings Article

In: pp. 209–212, 2007.

Abstract | Links | BibTeX

Raf Van de Plas, Fabian Ojeda, Maarten Dewil, Ludo Van Den Bosch, Bart De Moor, Etienne Waelkens

Prospective exploration of biochemical tissue composition via imaging mass spectrometry guided by principal component analysis Proceedings Article

In: pp. 458-69, 2007.

Abstract | Links | BibTeX