diff --git a/docs/pages/tools/index.md b/docs/pages/tools/index.md index 49ed984..9d83330 100644 --- a/docs/pages/tools/index.md +++ b/docs/pages/tools/index.md @@ -126,19 +126,8 @@ The above figure describes the driver genes associated to each cell line. Only a The above figure shows the sequencing statistics of the 7 cell lines. - ###### BE2 -The cell lines from BE1 will be used to generate surrogate tumor-tissues for spatial transcriptomics, by embedding pools of the 7 cell lines at different ratios in matrigel. For each cell ratio we will generate a slide (2 sections) using Visium for FFPE samples and six slides using [*Curio Bioscience*](https://curiobioscience.com/product/) spatial platform for OTC fresh frozen samples. In total we expect to produce three cell line ratios: - -- Cell line 1 40%, cell line 2 25% cell line 3 20%, cell line 4 5%, PBMC 10% -- Cell line 1 45% cell line 2 25%, cell line 3 10%, cell line 4 10%, cell line 5 5%, PBMC 5% -- Cell line 1 25%, cell line 2 25%, cell line 3 10%, cell line 4 10%, cell line 4 10%, cell line 5 5%, cell line 6 5%, cell line 7 5%, PBMC 5% - -Expected data availability: December 2024 - -###### BE3 - PC9 and DV90 cell lines will be used to generate a combined scRNA-seq and scATAC-seq experiment using [*10X genomics technology for multi-omics*](https://www.10xgenomics.com/products/single-cell-multiome-atac-plus-gene-expression). Specifically we will generate three experiments: - PC9 alone - DV90 alone @@ -149,6 +138,16 @@ All three experiments will also be analysed in triplicates for secreted microves In the above picture, the potential cross talk between PC9 and DV90 driver genes, mediated by soluble molecules, are shown. Data were generated using Ingenuity pathways analysis tool (Qiagen). +###### BE3 + +The cell lines from BE1 will be used to generate surrogate tumor-tissues for spatial transcriptomics, by embedding pools of the 7 cell lines at different ratios in matrigel. For each cell ratio we will generate a slide (2 sections) using Visium for FFPE samples and six slides using [*Curio Bioscience*](https://curiobioscience.com/product/) spatial platform for OTC fresh frozen samples. In total we expect to produce three cell line ratios: + +- Cell line 1 40%, cell line 2 25% cell line 3 20%, cell line 4 5%, PBMC 10% +- Cell line 1 45% cell line 2 25%, cell line 3 10%, cell line 4 10%, cell line 5 5%, PBMC 5% +- Cell line 1 25%, cell line 2 25%, cell line 3 10%, cell line 4 10%, cell line 4 10%, cell line 5 5%, cell line 6 5%, cell line 7 5%, PBMC 5% + +Expected data availability: December 2024 + #### Spatial omics datasets ##### [SODB](https://gene.ai.tencent.com/SpatialOmics/)