293T and 3T3 Cell Mixture

- \~1,000 cells detected
- Sequenced on Illumina NextSeq 500 High Output with \~106,000 reads per cell
- 98bp read1 (transcript), 8bp I5 sample barcode, 14bp I7 GemCode barcode and 10bp read2 (UMI)
- Analysis run with --cells=1200


FASTQs

Genome-aligned BAM

Genome-aligned BAM index

Per-molecule read information

Gene / cell matrix HDF5 (filtered)

Gene / cell matrix (filtered)

Gene / cell matrix HDF5 (raw)

Gene / cell matrix (raw)

Clustering analysis

Summary CSV

Summary HTML

Loupe Browser file

Summary

Files

GEM-X technology-powered assays with whole transcriptome coverage to gather broad information from diverse species

Universal 3'

Chromium X Series

Chromium

Advanced system for multiomic analysis of hundreds to millions of cells.

Gene Expression

Epigenomic Profiling

Immune Profiling

Protein co-detection

3' gene expression profiling at scale with single cell resolution.

Cell Ranger

Chromium Single Cell Gene Expression provides single cell transcriptome 3' gene expression and multiomic capabilities to profile tens of thousands of cells. Explore cellular heterogeneity, novel targets, and biomarkers with combined gene expression, cell surface protein expression, or CRISPR edits in each cell.

Cell Surface Protein

CRISPR Screening

Sample multiplexing

Reveal the full complexity of cellular diversity, <em>cell by cell</em>

Single Cell Gene Expression

Chromium Single Cell Immune Profiling provides a multiomic solution to your immunology questions. Analyze full-length V(D)J sequences for paired B-cell or T-cell receptors, cell surface protein expression, antigen specificity, and/or CRISPR edits, along with gene expression, all from a single cell.

Antigen Specificity

Multiomic profiling of immune diversity, <em>cell by cell</em>

Single Cell Immune Profiling

5' gene expression alongside V(D)J repertoire profiling and antigen specificity of T and B cells.

Profile a defined set of transcripts from single cells or tissue sections with Targeted Gene Expression. Reduce costs while increasing the number of samples, or increasing sequencing depth with customizable, comprehensive gene panels.

Discontinuation of Targeted Gene Expression

Chromium Connect

Automated system for single cell partitioning, barcoding, and library preparation.

Chromium Controller

Compact system for multiomic analysis of hundreds to tens of thousands of single cells.

Targeted Gene Expression

Visium

Profiling of defined transcript sets from single cells or fresh frozen tissue sections.

Analyze single cell gene expression data with a set of free, easy-to-use analysis pipelines.

293T and 3T3 Cell Mixture

Assess data quality

Visualize and explore data