ASOC offers
Spatial Omics Bioinformatics and Beyond

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.

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Latest Project Reports

Jun 2024

Immune Profiling in GBM Mice

  10X Genomics Xenium by Dr. Jennifer Chan

May 2024

Young Breast Cancer TME

  Nanostring GeoMx by Dr. Shirin Bonni

Apr 2024

Chronic Kidney Disease Biomarker

  Nanostring GeoMx by Dr. Daniel Muruve

Apr 2024

Alzheimer's Disease Mouse Brain

  10X Genomics Xenium by Dr. Jonathan Epp

Apr 2024

Spatial Profiling in Mouse Spleen

  10X Genomics Xenium by Dr. Pere Santamaria

 

Jan 2024

Sarcoma Patient Case Study

  10X Genomics Visium by Dr. Franz Zemp

Jan 2024

Mouse Brain Functional Study

  10X Genomics Visium by Dr. Raymond Turner

Dec 2023

Single-cell Analysis in Human Skin

  10X Genomics Xenium by Dr. Jeff Biernaskie

Dec 2023

Diabetic Kidney Disease

  Nanostring GeoMx DSP by Dr. Justin Chun


All project reports

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Sample QC/Analysis Reports

SOA Brain

Spatial Organ Atlas, Brain

See the report
Brain markers

Brain Tissue Markers

See the ROIs
SOA Kidney

Spatial Organ Atlas, Kidney

See the report
Kidney markers

Kidney Tissue Markers

See the ROIs
SOA Liver

Spatial Organ Atlas, Liver

See the report
Liver markers

Liver Tissue Markers

See the ROIs


What's in the package?

  1. Sequencing package
  2. FASTQ files
  3. DCC files
  4. PKC file
  5. ROI report
  6. Readout package
  7. Expression profiles in EXCEL (automated)


With QC/Analysis

  1. QC report in HTML
  2. Annotation in EXCEL
  3. Diagnostic plots
  4. GeoMx objects and expression profiles after QC
  5. YAML setting file for reproducibility
  6. Analysis results, e.g., volcano plots, GO enrichment plots, etc.
  7. Publication-quality Figures upon request
Tonsil

Tonsil
(1000-plex)

See the report
Frontal Cortex

Frontal Cortex (6,278-plex)

See the reports
Pancreas

Pancreas (18,946-plex)

See the reports


What's in the package?

  1. Count matrix/Metadata in CSV
  2. Seurat object

With QC/Analysis

  1. QC, normalization, and diagnostic plots in a Web report
  2. Cell typing using InSituType
  3. Discovering modules of spatially correlated genes using InSituCor
  4. Transcripts and Cells visualization in regions of interest
Lymph Node

Visium Spatial

See the reports
Glioblastoma

Visium CytAssist

See the reports
Mouse Embryo

Visium CytAssist

See the reports


What's in the package?

  1. Sequencing package
  2. BCL/FASTQ files
  3. Scan images
  4. Space Ranger report
  5. Clustering, DE analysis among clusters, tSNE results
    6. Currently building a pipeline for the downstream/secondary analysis
Humna Liver

Human Liver Non-deseased

See the reports
Human Breast Cancer

Human Breast Cancer

See the reports
Mouse Brain

Mouse Brain Replicate 1

See the reports


What's in the package?

  1. Count matrices and metadata
  2. Xenium Ranger report

With QC/Analysis

  1. QC, normalization, and diagnostic plots in a Web report
  2. DE analysis and functional annotation
  3. Cell-type deconvolution
  4. Transcripts and Cells visualization in regions of interest

ASOC in Numbers

 

Nanostring GeoMx DSP

    ProjectsCasesSegmentsROIsAOIs
    10 69 21 311 751

Nanostring CosMx SMI

    ProjectsCasesFOVsDetected cells
    1 2 289 237,972

10X Genomics Visium

    ProjectsCasesSlidesSpots
    2 10 5 22,407

10X Genomics Xenium In Situ

    ProjectsCasesFOVsDetected cells
    4 20 1,831 2,627,184
As of June 28, 2024

Pricing

Prices vary depending on cohort size, hypotheses, and expectations, which will determine the representation and interpretation. We may charge fees on an hourly basis or a project base. Please contact us for further inquiries.

We currently have very limited IT infrastructure support from the Research Computing Services at the University of Calgary. If you'd like to boost your project in a timely manner, we can fulfill services using Amazon Web Services (Cloud) at your expense. On the other hand, we can offer services at a reduced price when our Bioinformatics team can access your resources where we can store your data. If you have an account on Advanced Research Computing, we can work more seamlessly. Thank you very much for your consideration.

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