Integracja Atlasu Komórkowego

Workflow - Data Acquisition

The initial data acquisition phase involves the use of high-resolution imaging systems, such as confocal microscopes and multi-photon microscopy, to capture detailed images of cellular structures and processes. These systems are carefully calibrated and controlled to ensure accurate measurements and minimize artifacts.

Following image acquisition, raw data undergoes preprocessing steps, including noise reduction, contrast enhancement, and geometric correction, to improve its quality and prepare it for downstream analysis. Quality control (QC) standards are implemented throughout the process to monitor data integrity and identify potential issues.

Batch correction and embedding procedures are then applied to align images from different batches or experiments, accounting for variations in imaging parameters and experimental conditions. Label transfer and validation steps ensure the accurate assignment of labels to specific regions within the images, facilitating subsequent analysis and interpretation.

Cellular Atlas Construction – Preliminary Steps

1. Establish a baseline for tissue preparation, ensuring consistent staining protocols across all samples. This includes meticulous control of fixation time and temperature to minimize artifacts.

2. Implement a standardized preprocessing workflow, encompassing decalcification, embedding, sectioning, and staining. Precise measurements of tissue thickness are critical for accurate atlas development.

3. Develop a comprehensive annotation scheme, utilizing both qualitative and quantitative data to characterize cellular features within each atlas. This includes detailed morphological descriptions alongside numerical measurements where possible.

4. Employ orthogonal validation techniques – such as immunohistochemistry (IHC) and digital pathology analysis – to confirm the accuracy of annotations and ensure consistency across atlases.

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