Cell Shooter is an interactive viewer intended to discover potential drug targets for clusters from single-cell tumor profiling data. After uploading your own single-cell data or choosing from a couple example datasets, dimensionality reduction with PCA and automatic identification of clusters with the Leiden algorithm is performed. Users can click on data points in the viewer to select a source and target cluster. Then, by clicking on the Submit button, DGE analysis finds the most differentially expressed genes, which are submitted to SigCom LINCS and queried on the LINCS L1000 dataset to find the top-ranked reversers and mimickers that may push cells in the desired direction.
SigCom LINCS is a webserver that facilitates Cell Shooter's analysis by providing a rapid signature similarity search against searchable signatures from LINCS, GTEx, and GEO. https://maayanlab.cloud/sigcom-lincs/#/
Load Your Data
Load your data matrix and metadata in comma/tab separated formats. Genes should be in rows and samples should be in columns.
Expression data format
| Sample 1 | Sample 2 | ... | |
|---|---|---|---|
| Gene 1 | ... | ... | ... |
| Gene 2 | ... | ... | ... |
Metadata format
| Field 1 | Field 2 | ... | |
|---|---|---|---|
| Sample 1 | ... | ... | ... |
| Sample 2 | ... | ... | ... |
Load Example Data
| Clinical Proteomic Tumor Analysis Consortium 3 (CPTAC-3) | The Clinical Proteomic Tumor Analysis Consortium (CPTAC) is a national effort to accelerate the understanding of the molecular basis of cancer through the application of large-scale proteome and genome analysis, or proteogenomics. CPTAC-3 is the Phase III of the CPTAC Initiative. The dataset contains open RNA-Seq Gene Expression Quantification data. | 1470 samples from patients | LUAD, LSCC, CCRCC, PDA, HNSCC, BR, UCEC, CO, GBM, OV | https://registry.opendata.aws/cptac-3/https://pdc.cancer.gov/pdc/browse | |
| CPTAC-3 | CPTAC-3 is the Phase III of the CPTAC Initiative. The dataset contains open RNA-Seq Gene Expression Quantification data. | 121 tumor samples | BR (breast) | https://registry.opendata.aws/cptac-3/https://pdc.cancer.gov/pdc/browse | |
| CPTAC-3 | CPTAC-3 is the Phase III of the CPTAC Initiative. The dataset contains open RNA-Seq Gene Expression Quantification data. | 110 tumor samples, 75 adjacent samples | CCRCC (kidney) | https://registry.opendata.aws/cptac-3/https://pdc.cancer.gov/pdc/browse | |
| CPTAC-3 | CPTAC-3 is the Phase III of the CPTAC Initiative. The dataset contains open RNA-Seq Gene Expression Quantification data. | 106 tumor samples | CO (colon) | https://registry.opendata.aws/cptac-3/https://pdc.cancer.gov/pdc/browse | |
| CPTAC-3 | CPTAC-3 is the Phase III of the CPTAC Initiative. The dataset contains open RNA-Seq Gene Expression Quantification data. | 99 tumor samples | GBM (brain) | https://registry.opendata.aws/cptac-3/https://pdc.cancer.gov/pdc/browse | |
| CPTAC-3 | CPTAC-3 is the Phase III of the CPTAC Initiative. The dataset contains open RNA-Seq Gene Expression Quantification data. | 110 tumor samples, 60 adjacent samples | HNSCC (head/neck) | https://registry.opendata.aws/cptac-3/https://pdc.cancer.gov/pdc/browse | |
| CPTAC-3 | CPTAC-3 is the Phase III of the CPTAC Initiative. The dataset contains open RNA-Seq Gene Expression Quantification data. | 110 tumor samples, 97 adjacent samples | LSCC (lung) | https://registry.opendata.aws/cptac-3/https://pdc.cancer.gov/pdc/browse | |
| CPTAC-3 | CPTAC-3 is the Phase III of the CPTAC Initiative. The dataset contains open RNA-Seq Gene Expression Quantification data. | 110 tumor samples, 101 adjacent samples | LUAD (lung) | https://registry.opendata.aws/cptac-3/https://pdc.cancer.gov/pdc/browse | |
| CPTAC-3 | CPTAC-3 is the Phase III of the CPTAC Initiative. The dataset contains open RNA-Seq Gene Expression Quantification data. | 82 tumor samples | OV (ovary) | https://registry.opendata.aws/cptac-3/https://pdc.cancer.gov/pdc/browse | |
| CPTAC-3 | CPTAC-3 is the Phase III of the CPTAC Initiative. The dataset contains open RNA-Seq Gene Expression Quantification data. | 140 tumor samples, 39 adjacent samples | PDA (pancreas) | https://registry.opendata.aws/cptac-3/https://pdc.cancer.gov/pdc/browse | |
| CPTAC-3 | CPTAC-3 is the Phase III of the CPTAC Initiative. The dataset contains open RNA-Seq Gene Expression Quantification data. | 95 tumor samples, 15 adjacent samples | UCEC (uterus) | https://registry.opendata.aws/cptac-3/https://pdc.cancer.gov/pdc/browse | |
| Single-cell RNAseq of childhood medulloblastoma | Medulloblastoma (MB) is a heterogeneous disease in which neoplastic cells and associated immune cells contribute to disease progression. This dataset aims to determine the influence of neoplastic and immune cell diversity on MB biology in patient samples. | 39946 cells | Medulloblastoma | https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE155446https://pubmed.ncbi.nlm.nih.gov/34077540/ |
