| [ |
| { |
| "dataset": "vesuvius", |
| "organism": "HeLa (human cervical carcinoma)", |
| "perturbation_type": "CRISPRko", |
| "perturbation_scale": "5,072 genes (20,537 sgRNAs)", |
| "sgrnas_per_gene_median": 4, |
| "hierarchy": "cell \u2192 sgRNA \u2192 gene", |
| "image_format": "PNG montages (2700\u00d72000)", |
| "channels": "4 (DNA, Tubulin, \u03b3H2AX, Actin)", |
| "public_access": true, |
| "archive": "Vesuvius portal (Whitehead Institute)", |
| "license": "Research use", |
| "benchmark_ready": true, |
| "benchmark_ready_reason": "Montage images + 98 phenotype features + cluster labels" |
| }, |
| { |
| "dataset": "idr0071", |
| "organism": "A549 (human lung carcinoma)", |
| "perturbation_type": "CRISPRko", |
| "perturbation_scale": "949 genes (experiment C)", |
| "sgrnas_per_gene_median": 6, |
| "hierarchy": "cell \u2192 sgRNA \u2192 gene", |
| "image_format": "TIFF (16-bit)", |
| "channels": "SBS + phenotype (DAPI, p65 antibody)", |
| "public_access": true, |
| "archive": "Cell-IDR (idr0071)", |
| "license": "CC BY 4.0", |
| "benchmark_ready": false, |
| "benchmark_ready_reason": "No pre-processed montages or phenotype features", |
| "sample_tiff": { |
| "path": "data/raw/idr0071/experimentC/input/10X_c1-SBS-1/10X_c1-SBS-1_A1_Tile-10.sbs.tif", |
| "width": 1024, |
| "height": 1024, |
| "bits_per_sample": 16 |
| } |
| }, |
| { |
| "dataset": "carlson_irf3", |
| "organism": "A549 (human lung carcinoma)", |
| "perturbation_type": "CRISPRko", |
| "perturbation_scale": "~20,000 genes (80,408 sgRNAs)", |
| "sgrnas_per_gene_median": 4, |
| "hierarchy": "cell \u2192 sgRNA \u2192 gene", |
| "image_format": "TIFF (16-bit, big-endian)", |
| "channels": 7, |
| "public_access": true, |
| "archive": "Google Cloud Storage (requester-pays)", |
| "license": "Research use", |
| "benchmark_ready": false, |
| "benchmark_ready_reason": "No pre-processed montages or phenotype features", |
| "sample_tiff": { |
| "path": "data/raw/carlson_irf3/sample/Figure1_Larger_FOV_WellA1_site1014_DAPI_MDA5_pIRF3_RIG-I_SeV_Mito_Pex.tif", |
| "width": 1140, |
| "height": 1140, |
| "bits_per_sample": 32 |
| } |
| }, |
| { |
| "dataset": "crisprmap", |
| "organism": "Various (multimodal CRISPR phenotyping)", |
| "perturbation_type": "CRISPRko/CRISPRi", |
| "perturbation_scale": "~500 genes", |
| "sgrnas_per_gene_median": "unknown", |
| "hierarchy": "cell \u2192 sgRNA \u2192 gene", |
| "image_format": "Imaris .ims (proprietary)", |
| "channels": "Multiple fluorescence", |
| "public_access": true, |
| "archive": "BioImage Archive (S-BIAD985)", |
| "license": "CC BY 4.0", |
| "benchmark_ready": false, |
| "benchmark_ready_reason": "Proprietary image format, no processed features", |
| "sample_file_count": 10 |
| }, |
| { |
| "dataset": "perturbmap", |
| "organism": "Mouse (in vivo lymphoid)", |
| "perturbation_type": "CRISPRko (in vivo spatial)", |
| "perturbation_scale": "~30 genes", |
| "sgrnas_per_gene_median": "unknown", |
| "hierarchy": "cell \u2192 sgRNA \u2192 gene (spatial context)", |
| "image_format": "Derived annotations only (JSON)", |
| "channels": "N/A (segmentation + annotations)", |
| "public_access": "Partial (annotations public, raw on request)", |
| "archive": "BioImage Archive (S-BIAD267)", |
| "license": "Research use", |
| "benchmark_ready": false, |
| "benchmark_ready_reason": "Derived data only, raw imaging on request" |
| } |
| ] |
