All datasets

40k Mixture of Cells Dissociated from 4 Fixed Tumor Tissues, Multiplexed Samples, 4 Probe Barcodes

Single Cell Gene Expression Flex dataset analyzed using Cell Ranger 7.0.0

Assess data quality
View summary metrics to assess data quality and more.
Visualize and explore data
Discover differentially expressed genes, visualize your favorite genes, and explore your data with our visualization software.

Learn about Chromium analysis

Flash frozen tumor tissues from four different cancers were obtained by 10x Genomics from Discovery Life Sciences:

  • Ovarian cancer, Carcinosarcoma (MMMT) (Female, Age mid 70s)
  • Skin Cancer, Melanoma (Male, Age mid 70s)
  • Breast Cancer, Infiltrating Ductal Carcinoma (Female, Age mid 60s)
  • Lung Cancer, Adenocarcinoma (Male, Age mid 70s)

Tumor tissues were fixed for 24 hours at 4°C following the demonstrated protocol Tissue Fixation & Dissociation for Chromium Fixed RNA Profiling (CG000553).

The Fixed RNA Gene Expression library was generated as described in the Chromium Fixed RNA Profiling for Multiplexed Samples User Guide (CG000527). Samples were run as a 4-sample multiplexed experiment, in which each sample was hybridized with a unique Probe Barcode in a separate hybridization reaction. After hybridization, samples were pooled in equal proportions, washed, and then run in a single GEM lane. The resulting library was sequenced on an Illumina NovaSeq6000 with approximately 50k read pairs per cell.

  • Total 36,778 cells detected (Ovary: 6,566; Skin: 10,370; Breast: 9,386; Lung: 10,456)
  • Paired-end, dual indexing: 28 cycles Read 1, 10 cycles i7, 10 cycles i5, 90 cycles Read 2

This dataset is licensed under the Creative Commons Attribution license.