Gert‐Jan Bakker

ORCID: 0000-0003-3602-0014
Publications
Citations
Views
---
Saved
---
About
Contact & Profiles
Research Areas
  • Adenosine and Purinergic Signaling
  • CAR-T cell therapy research
  • Cancer Immunotherapy and Biomarkers
  • Nanoplatforms for cancer theranostics
  • Advanced Fluorescence Microscopy Techniques
  • Cell Image Analysis Techniques
  • Cellular Mechanics and Interactions
  • bioluminescence and chemiluminescence research
  • Photoacoustic and Ultrasonic Imaging
  • Cell Adhesion Molecules Research
  • 3D Printing in Biomedical Research
  • Medical Imaging Techniques and Applications
  • Adrenal and Paraganglionic Tumors
  • Smart Materials for Construction
  • Cancer Cells and Metastasis
  • Radiomics and Machine Learning in Medical Imaging
  • Adhesion, Friction, and Surface Interactions
  • Dermatologic Treatments and Research
  • Nanofabrication and Lithography Techniques
  • Engineering and Material Science Research
  • Photoreceptor and optogenetics research
  • Orthopedic Infections and Treatments
  • Advanced Physical and Chemical Molecular Interactions
  • Optical Imaging and Spectroscopy Techniques
  • AI in cancer detection

Radboud Institute for Molecular Life Sciences
2014-2023

Radboud University Nijmegen
2011-2023

Radboud University Medical Center
2012-2023

University Medical Center
2016-2022

Ball (France)
2014

National Superconducting Cyclotron Laboratory
2014

Michigan State University
2014

Moscow Engineering Physics Institute
2014

Institute for Bioengineering of Catalonia
2009-2012

Biomedical Research Networking Center in Bioengineering, Biomaterials and Nanomedicine
2012

Cancer cell invasion is an adaptive process based on cell-intrinsic properties to migrate individually or collectively, and their adaptation encountered tissue structure acting as barrier providing guidance. Whereas molecular physical mechanisms of cancer are well-studied in 3D vitro models, topographic relevance, classification validation toward interstitial organization vivo remain incomplete. Using combined intravital third second harmonic generation (THG, SHG), three-channel fluorescence...

10.4161/intv.21223 article EN cc-by-nc IntraVital 2012-07-01

Cancer invasion into an extracellular matrix (ECM) results from a biophysical reciprocal interplay between the expanding cancer lesion and tissue barriers imposed by adjacent microenvironment. In vivo, connective provides both densely packed ECM to channel/track-like spaces loosely organized zones, of which may impact mode efficiency; however little is known about how three-dimensional (3D) aligned tracks present in interstitial guide cell invasion. We here describe two-photon laser ablation...

10.1088/1478-3975/8/1/015010 article EN Physical Biology 2011-02-01

Three-photon excitation has recently been demonstrated as an effective method to perform intravital microscopy in deep, previously inaccessible regions of the mouse brain. The applicability 3-photon for deep imaging other, more heterogeneous tissue types much less explored. In this work, we analyze benefit high-pulse-energy 1 MHz pulse-repetition-rate infrared near 1300 and 1700 nm in-depth tumorous bone tissue. We show that regime provides a than 2-fold increased depth tumor compared...

10.7554/elife.63776 article EN cc-by eLife 2022-02-11

Integrins are cell membrane adhesion receptors involved in morphogenesis, immunity, tissue healing, and metastasis. A central, yet unresolved question regarding the function of integrins is how these regulate both their conformation dynamic nanoscale organization on to generate adhesion-competent microclusters upon ligand binding. Here we exploit high spatial (nanometer) accuracy temporal resolution single-dye tracking dissect relationship between conformational state, lateral mobility,...

10.1073/pnas.1116425109 article EN Proceedings of the National Academy of Sciences 2012-03-12

Abstract The tumour microenvironment (TME) forms a major obstacle in effective cancer treatment and for clinical success of immunotherapy. Conventional co-cultures have shed light onto multiple aspects immunobiology, but they are limited by the lack physiological complexity. We develop human organotypic skin melanoma culture (OMC) that allows real-time study host-malignant cell interactions within multicellular tissue architecture. By co-culturing decellularized dermis with keratinocytes,...

10.1038/s41467-020-16583-0 article EN cc-by Nature Communications 2020-06-02

Abstract Sphingolipids are essential constituents of the plasma membrane (PM) and play an important role in signal transduction by modulating clustering dynamics receptors. Changes lipid composition therefore likely to influence receptor organisation function, but how this precisely occurs is difficult address given intricacy PM lipid-network. Here, we combined biochemical assays single molecule dynamic approaches demonstrate that local environment regulates adhesion integrin receptors...

10.1038/srep20693 article EN cc-by Scientific Reports 2016-02-12
Glyn Nelson Ulrike Boehm Steve Bagley Peter Bajcsy Johanna Bischof and 95 more Claire M. Brown Aurélien Dauphin Ian M. Dobbie John Eriksson Orestis Faklaris Julia Fernández-Rodrı́guez Alexia Ferrand Laurent Gelman Ali Gheisari Hella Hartmann Christian Kukat Alex Laude Mišo Mitkovski Sebastian Munck Alison J. North Tobias M. Rasse Ute Resch‐Genger Lucas C. Schuetz Arne Seitz Caterina Strambio‐De‐Castillia Jason R. Swedlow Ioannis Alexopoulos Karin Aumayr Sergiy Avilov Gert‐Jan Bakker Rodrigo Roberto Bammann Andrea Li Bassi Hannes Beckert Sebastian M. J. Beer Yury Belyaev Jakob Bierwagen Konstantin A. Birngruber Manel Bosch Juergen Breitlow Lisa Cameron Joe Chalfoun James J. Chambers C. Chen Eduardo Conde‐Sousa Alexander D. Corbett Fabrice P. Cordelières Elaine Del Nery Ralf Dietzel Frank Eismann Elnaz Fazeli Andreas Felscher Hans‐Ulrich Fried Nathalie Gaudreault Wah Ing Goh Thomas Guilbert Roland Hadleigh Peter Hemmerich Gerhard Holst Michelle S. Itano C. Jaffe Helena Jambor Stuart C. Jarvis Antje Keppler David Kirchenbüechler Marcel Kirchner Norio Kobayashi Gabriel Krens Susanne Kunis Judith Lacoste Marco Marcello Gabriel G. Martins Daniel Metcalf C. A. Mitchell Josh Moore Tobias Mueller Michael S. Nelson Stephen C. Ogg Shuichi Onami Alexandra L. Palmer Perrine Paul‐Gilloteaux Jaime A. Pimentel Laure Plantard Santosh Podder Elton Rexhepaj Arnaud Royon Markku Saari Damien Schapman Vincent Th. G. Schoonderwoert Britta Schroth‐Diez Stanley Schwartz Michael K. Shaw Martin Spitaler Martin T. Stoeckl Damir Sudar Jérémie Teillon Stefan Terjung Roland Thuenauer Christian Wilms Graham Wright Roland Nitschke

A modern day light microscope has evolved from a tool devoted to making primarily empirical observations what is now sophisticated , quantitative device that an integral part of both physical and life science research. Nowadays, microscopes are found in nearly every experimental laboratory. However, despite their prevalent use capturing quantifying scientific phenomena, neither thorough understanding the principles underlying imaging techniques nor appropriate knowledge how calibrate,...

10.1111/jmi.13041 article EN Journal of Microscopy 2021-07-02

Cell migration research has become a high-content field. However, the quantitative information encapsulated in these complex and high-dimensional datasets is not fully exploited owing to diversity of experimental protocols non-standardized output formats. In addition, typically are open for reuse. Making data Findable, Accessible, Interoperable, Reusable (FAIR) will enable meta-analysis, integration, mining. Standardized formats controlled vocabularies essential building suitable...

10.1093/gigascience/giaa041 article EN cc-by GigaScience 2020-05-01

The interstitial tumor microenvironment is composed of heterogeneously organized collagen-rich porous networks as well channel-like structures and interfaces which provide both barriers guidance for invading cells. Tumor cells 3D random collagen depend upon actomyosin contractility to deform translocate the nucleus, whereas Rho/Rho-associated kinase-dependent largely dispensable migration in stiff capillary-like confining microtracks. To investigate whether this dichotomy dependence also...

10.1140/epje/s10189-022-00182-6 article EN cc-by The European Physical Journal E 2022-05-01

High-content image-based cell phenotyping provides fundamental insights into a broad variety of life science disciplines. Striving for accurate conclusions and meaningful impact demands high reproducibility standards, with particular relevance high-quality open-access data sharing meta-analysis. However, the sources degree biological technical variability, thus usefulness meta-analysis results from live-cell microscopy, have not been systematically investigated. Here, using high-content...

10.15252/msb.202211490 article EN cc-by Molecular Systems Biology 2023-04-17

Cytotoxic T lymphocytes (CTL) are antigen-specific effector cells with the ability to eradicate cancer in a contact-dependent manner. Metabolic perturbation compromises CTL response tumor subregions, resulting failed cell elimination despite infiltration of tumor-specific CTLs. Restoring functionality these tumor-infiltrating CTLs is key improve immunotherapy. Extracellular adenosine an immunosuppressive metabolite produced within microenvironment. Here, by applying single-cell reporter...

10.1158/2326-6066.cir-22-0113 article EN cc-by-nc-nd Cancer Immunology Research 2022-09-26

Images document scientific discoveries and are prevalent in modern biomedical research. Microscopy imaging particular is currently undergoing rapid technological advancements. However for scientists wishing to publish the obtained images image analyses results, there date no unified guidelines. Consequently, microscopy data publications may be unclear or difficult interpret. Here we present community-developed checklists preparing light analysis publications. These offer authors, readers,...

10.48550/arxiv.2302.07005 preprint EN cc-by-sa arXiv (Cornell University) 2023-01-01

Ligand-patterned surfaces alter the spatio-temporal organization of specific receptors on cell membrane. Chemically confined are fabricated using microcontact patterning. The dynamic re-organization integrin LFA-1 in living cells is monitored at single-molecule level total internal reflection fluorescence. image left shows individual nanoclusters a single being recruited to ligand-rich areas pattern.

10.1002/smll.200801699 article EN Small 2009-04-14

10.1080/14786440609463573 article EN The London Edinburgh and Dublin Philosophical Magazine and Journal of Science 1906-12-01

XH. O~ tl, e Theo~?/ of Surface Forces.--V.Thermod~dnamk, the Capilla~ T Laser between Homogeneo~,s Phases Liq,ld and Vapot,r.B S G

10.1080/14786441008636888 article EN The London Edinburgh and Dublin Philosophical Magazine and Journal of Science 1910-07-01

10.1080/14786440308636610 article EN The London Edinburgh and Dublin Philosophical Magazine and Journal of Science 1909-03-01

Abstract Cell migration research has become a high-content field. However, the quantitative information encapsulated in these complex and high-dimensional datasets is not fully exploited due to diversity of experimental protocols non-standardised output formats. In addition, typically are open for reuse. Making data Findable, Accessible, Interoperable, Reusable (FAIR) will enable meta-analysis, integration, mining. Standardised formats controlled vocabularies essential building suitable...

10.1101/803064 preprint EN cc-by bioRxiv (Cold Spring Harbor Laboratory) 2019-10-14
Coming Soon ...