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Bioinformatics
In cell biology, new approaches to imaging - including high-throughput imaging, super-resolution imaging and high-resolution datasets from 3D models or tissues - generate huge image data sets. In the past, such images could only be analysed visually, leading to a biased and incomplete set of possible interpretations.
The Bioinformatics Image Core (BIONIC) has trained bioinformaticians which link biology with mathematics, image processing, computer science and statistics to develop computational tools for image analysis. We use PerkinElmer Opera and Phenix high-content screening microscopes, ImageJ analysis software and the statistical program R with Bioconductor packages such as CellHTS2, in monolayer and 3D tissue culture.
Key methodologies include:
- Applied image segmentation
- Thresholding
- Morphological operations
- Filtering
- Feature extractions
- High-throughput statistical analysis
- Algorithm development
Selected publications
Wilson GA et al (2023). Active growth signaling promotes senescence and cancer cell sensitivity to CDK7 inhibition.
Molecular Cell 83(22):4078-4092.e6 doi: 10.1016/j.molcel.2023.10.017
Papandreou A et al (2023). Automated High-Content Imaging in iPSC-derived Neuronal Progenitors.
SLAS Discovery doi: 10.1016/j.slasd.2022.12.002
Ketteler R, Kriston-Vizi J (2022). High-Content Screening in Cell Biology
in: Encyclopedia of Cell Biology: Volume 1-6, Second Edition: 472-483 doi: 10.1016/B978-0-12-821618-7.00032-8
Kriston-Vizi J et al (2022). Salmonella Exhibit Altered Cellular Localization in the Presence of HLA-B27 and Codistribute with Endo-Reticular Membrane.
Journal of Immunology Research 2022:1-9
doi: 10.1155/2022/9493019
Resources
User policies
BIONIC is potentially accessible to UCL researchers, as well as external users, on a collaboration basis. Please contact Janos Kriston-Vizi for details.
Collaborations
Sara Mole (LMCB, UK)
Mark Marsh (LMCB, UK)
Dan Cutler (LMCB, UK)
Rob de Bruin (LMCB, UK)
Chris Stefan (LMCB, UK)
Antonella Riccio (LMCB, UK)
Adolfo Saiardi (LMCB, UK)
Alison Lloyd (LMCB, UK)
EM Core Facility (LMCB, UK)
Sarah Tabrizi (UCL, UK)
Daniel Hochhauser (UCL, UK)
Derek Hausenloy (UCL, UK)
Imre Lengyel (UCL, UK)
Ariberto Fassati (UCL, UK)
Szabadkai Lab (UCL, UK)
Masazumi Tada (UCL, UK)
Paola Vergani (UCL, UK)
Noursadeghi Lab (UCL, UK)
Antony N. Antoniou and David Guiliano (UCL, UK)
Towers lab, Richard Miles (UCL, UK
Paul Gissen (ICH, UCL, UK)
Vania Braga (Imperial College London, UK)
Buzz Baum (MRC LMB, UK)
Jason Mercer (Birmingham University, UK))
Hiroyuki Osada (RIKEN CSRS, Japan)
Hwee Kuan Lee (A-STAR Bioinformatics Institute, Singapore)
Gabor Foldes, Sian Harding (Imperial College, UK)