10x Genomics Support/Visium HD Spatial Gene Expression/Documentation/Probe Sets/

Visium Mouse Transcriptome Probe Set v2.0

Probe Set Contents

  • 19,405 gene_ids targeted by 55,538 probes.

    • 346 (1.8%) of these genes (targeted by 351 probes) are excluded by default due to predicted off-target activity to a different gene. See the probe filter section of the Space Ranger algorithms overview for more details.
    • 19,059 genes (targeted by 55,187 probes) are present in the final filtered output.
    • Some reagent lots may include a small number of probes whose ID includes the prefix DEPRECATED and are always excluded from analysis. Please contact [email protected] with any questions.

The gene_id information is included in the probe set reference CSV file.

Accompanying Probe Set Files

  • Visium Mouse Transcriptome Probe Set v2.0 - Probe Set Reference CSV file
  • Visium Mouse Transcriptome Probe Set v2.0 - BED file
  • Visium Mouse Transcriptome Probe Set v2.0 - Probe Off-target CSV file
  • Visium Mouse Transcriptome Probe Set v2.0 - Probe Set Metadata TSV file

These files are downloadable from the software downloads section.

For details on the file formats, see the probe set file descriptions.

Associated Part Numbers

  • Visium Mouse Transcriptome Probe Kit v2.0, Small PN-1000667
Document Type
Specifications

Last Modified
March 20, 2024