ASOC offers
Spatial Omics
Histology
Bioinformatics
The Applied Spatial Omics Centre (ASOC) constitutes the hub of Spatial Transcriptomics/Proteomics and Bioinformatics. ASOC provides advanced genomic technologies and cutting-edge methods to researchers and clinicians at the University of Calgary as well as external academic and industry Scientists.
Latest Project Reports
Profiling of the CD4+ cells
10X Genomics Xenium by Dr. Pere Santamaria
Profiling Gut Tissues in Rat
10X Genomics Visium by Dr. Changting Xiao
Heterogeneous Gastric Cancer
10X Genomics VisiumHD by Dr. Pinaki Bose
Sarcoma Patient Case Study
10X Genomics VisiumHD by Dr. Sorana Morrissy
Molecular/Physiological Changes
Nanostring GeoMx by Dr. Jonathan Epp
Transcriptomics Analysis in Muscle
10X Genomics Xenium by Dr. Gerald Pfeffer
TME Changes across Tx Strategies
10X Genomics Xenium by Dr. Thomas Klonisch
Human GBM Subtyping
10X Genomics Visium by Dr. Sorana Morrissy
Characterization of the GBM Mice
10X Genomics Visium by Dr. Jennifer Chan
All project reports
You'll need your authentication credentials to access the project report.Sample QC/Analysis Reports
Xenium In Situ (FFPE/FF, 250)
See the reports
Preview Data (FFPE, 5k)
See the reports
Mouse Brain (FF, 5k)
See the reports
Three Cancers (FFPE, 5k)
See the reports
Mouse Pup (FFPE, 5k)
See the reports
Human Ovary (FF, 5k)
See the reports
What's in the package?
- Analysis Summary by Xenium Ranger
- Cell-level info
- Transcripts counts
- Nucleus boundaries
- Cell X Feature matrix
- Tissue overview scan
With QC/Analysis
- Quality assessment and diagnostic plots in a Web report
- Differential expression analysis
- Cell-type deconvolution/decomposition
- Cells and target Tx visualization in regions of interest
- Publication-quality Figures upon request
ASOC in Numbers
As of March 31, 2025 (update quarterly)
Infrastructure
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We have a few different strategies for backing up your data, as ARC (Advanced Research Computing) does not perform backups, and for recovering from disasters. We implemented a common backup rule, the 3-2-1 backup rule, which states that we should have three copies of data stored on at least two different types of media, one of which should be offsite. At ASOC, raw data is triplicated: (1) It remains in the instruments/internal storage, (2) We will copy it to the ARC storage, and (3) We will sync it to the offsite backup storage. We also triplicate the final products: (1) Web servers where users can directly access their reports, (2) The second snapshot is stored in the local computer/cloud storage where the final products were generated, and (3) The offsite backup storage.
In sum, we periodically back up both raw data and final products to the offsite backup storage. On the other hand, processed data, which can be generated again, will eventually be removed elsewhere. Please note that we only keep backup data for up to three years due to the limited storage space.
Publications
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Impaired parvalbumin interneurons in the retrosplenial cortex as the cause of sex-dependent vulnerability in Alzheimer's disease. Dylan J. Terstege, Yi Ren, Bo Young Ahn, Heewon Seo, Alzheimer’s Disease Neuroimaging Initiative, Liisa A. M. Galea, Derya Sargin, and Jonathan R. Epp Sci Adv 2025;11(18):eadt8976 | DOI: 10.1126/sciadv.adt8976 |
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Evaluating gene representation in spatial transcriptomics across pre-designed panels. Heewon Seo and Roman Krawetz bioRxiv 2025 | DOI: 10.1101/2025.04.07.647642 |
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