Core Infrastructure
The CCB Core Infrastructure is organized into two complementary technology domains: Imaging & Image Analysis and Transcriptomics & Systems Biology. Together, these platforms provide end‑to‑end workflows from sample preparation to multimodal quantitative analysis.
Imaging and Image Analysis
This domain integrates advanced microscopy platforms with analytical tools for quantitative imaging across scales—from subcellular structures to whole organoids.
Imaging Platforms
Light Sheet Microscopy
- 3D imaging of organoids and cleared tissues
- Integrated with ARVIS for segmentation and volumetric analysis
Leica SP8 Confocal Microscope
- High‑resolution confocal imaging
- Live and fixed sample imaging
ImageXpress HCS.ai System
- High‑content screening
- AI‑assisted phenotyping and multiparametric analysis
CeTraMed UKJ Core Facility Instruments
Zeiss LSM 980 Airyscan
- Super‑resolution confocal imaging
- High sensitivity and speed
LSM 980 Airyscan + FLIM
- Fluorescence lifetime imaging (FLIM)
- Metabolic and molecular interaction readouts
FCS on LSM 980
- Fluorescence Correlation Spectroscopy
- Molecular diffusion and dynamics
Image Analysis
- 3D reconstruction and volumetric quantification
- Cell segmentation, tracking, and morphometrics
- AI‑driven phenotyping and pattern discovery
Transcriptomics and Systems Biology
This domain provides a complete workflow for high‑resolution molecular profiling, powered by the 10x Genomics platform and integrated systems biology pipelines.
Core Technologies
10x Genomics Chromium
- Single‑cell & single‑nucleus RNA‑seq
- Bulk RNA workflows
- Multiomic analysis
End‑to‑End Workflow
- scRNA sample preparation and QC
- Library preparation and sequencing coordination
- Bioinformatics processing: alignment, QC, clustering, annotation
- Systems‑level analysis: trajectories, GRNs, cell–cell communication