Overview
This human fresh frozen breast cancer data showcases results using the Atera Whole Transcriptome Assay (WTA). The Atera Human WTA panel was used to profile gene expression.
How to view data
Atera Onboard Analysis output file formats are documented on the Atera Instrument Software support site.
Interactively explore data with 10x Explorer by downloading the Atera Output Bundle file. Follow these instructions to view the post-Atera H&E image or image alignment files in 10x Explorer.
Biomaterials
Fresh frozen human breast sample (infiltrating ductal carcinoma) purchased from ProteoGenex, pre-embedded in OCT.
Tissue preparation
Tissue was prepared following the Atera Gene Expression - Fresh Frozen Tissue Preparation Handbook (CG001670). Probe hybridization, washing, ligation, amplification, and cell segmentation staining were performed following the Atera Gene Expression User Guide (CG001672). Post-instrument processing followed the Atera Gene Expression - Post-Atera H&E Staining Demonstrated Protocol (CG001722).
Atera Instrument
The instrument run was performed following the Atera Instrument User Guide (CG001673). The on-instrument analysis was run with Atera Onboard Analysis v1.1.1.
| Metric | Breast cancer |
|---|---|
| Number of cells detected | 485,985 |
| Median transcripts per cell | 5,345 |
| Median genes per cell | 3,027 |
| Total high quality decoded transcripts | 3,755,934,427 |
| Region area (mm2) | 88.6 |