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Swamy71 commited on
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Add external_reference

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  1. external_reference/README.md +19 -0
  2. external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/external_cell_line_overlap.parquet +3 -0
  3. external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/needed_lincs_signatures.parquet +3 -0
  4. external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/overlap_summary.parquet +3 -0
  5. external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_all_pairs.parquet +3 -0
  6. external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_compound_overlap.parquet +3 -0
  7. external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_correlation_summary.parquet +3 -0
  8. external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_null_per_compound.parquet +3 -0
  9. external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_null_summary.parquet +3 -0
  10. external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_signature_correlation_headline.parquet +3 -0
  11. external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_signature_correlation_long.parquet +3 -0
  12. external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_overlap_compound_rank_signatures_top_genes.parquet +3 -0
  13. external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_overlap_compound_signature_metadata.parquet +3 -0
  14. external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_tahoe_compound_overlap.parquet +3 -0
  15. external_reference/catalog/control_transcriptome_expansion_20260525_catalog_addendum.csv +5 -0
  16. external_reference/catalog/control_transcriptome_expansion_20260525_catalog_addendum.md +8 -0
  17. external_reference/catalog/external_reference_dataset_catalog.csv +18 -0
  18. external_reference/catalog/external_reference_file_manifest.csv +50 -0
  19. external_reference/catalog/processing_provenance.md +35 -0
  20. external_reference/catalog/source_aliases.csv +7 -0
  21. external_reference/check_lincs_metadata.py +19 -0
  22. external_reference/compound_atlases/control_transcriptome_expansion_20260525/PACKAGE_LOCAL_FILE_MANIFEST_20260525.csv +15 -0
  23. external_reference/compound_atlases/control_transcriptome_expansion_20260525/README.md +59 -0
  24. external_reference/compound_atlases/control_transcriptome_expansion_20260525/VALIDATION_control_transcriptome_expansion_20260525.json +67 -0
  25. external_reference/compound_atlases/control_transcriptome_expansion_20260525/control_30_rank_signatures_top_genes_same_schema_20260525.parquet +3 -0
  26. external_reference/compound_atlases/control_transcriptome_expansion_20260525/control_30_signature_metadata_same_schema_20260525.parquet +3 -0
  27. external_reference/compound_atlases/control_transcriptome_expansion_20260525/control_40_rank_signatures_top_genes_same_schema_20260525.parquet +3 -0
  28. external_reference/compound_atlases/control_transcriptome_expansion_20260525/control_40_signature_metadata_same_schema_20260525.parquet +3 -0
  29. external_reference/compound_atlases/control_transcriptome_expansion_20260525/control_transcriptome_expansion_file_manifest_20260525.csv +11 -0
  30. external_reference/compound_atlases/control_transcriptome_expansion_20260525/lincs_l1000_fetch_manifest_additional_29_sigcom_20260525.csv +0 -0
  31. external_reference/compound_atlases/control_transcriptome_expansion_20260525/lincs_l1000_rank_signatures_top_genes_additional_29_sigcom_20260525.parquet +3 -0
  32. external_reference/compound_atlases/control_transcriptome_expansion_20260525/lincs_l1000_signature_metadata_additional_29_sigcom_20260525.parquet +3 -0
  33. external_reference/compound_atlases/control_transcriptome_expansion_20260525/summary_control_transcriptome_expansion_20260525.json +45 -0
  34. external_reference/compound_atlases/control_transcriptome_expansion_20260525/tahoe_100m_fetch_manifest_capmatinib_harmonizome_20260525.csv +51 -0
  35. external_reference/compound_atlases/control_transcriptome_expansion_20260525/tahoe_100m_rank_signatures_top_genes_capmatinib_harmonizome_20260525.parquet +3 -0
  36. external_reference/compound_atlases/control_transcriptome_expansion_20260525/tahoe_100m_signature_metadata_capmatinib_harmonizome_20260525.parquet +3 -0
  37. external_reference/compound_atlases/lincs_l1000/processed/lincs_l1000_fetch_manifest_additional_29_sigcom_20260525.csv +0 -0
  38. external_reference/compound_atlases/lincs_l1000/processed/lincs_l1000_rank_signatures_top_genes.parquet +3 -0
  39. external_reference/compound_atlases/lincs_l1000/processed/lincs_l1000_rank_signatures_top_genes_additional_29_sigcom_20260525.parquet +3 -0
  40. external_reference/compound_atlases/lincs_l1000/processed/lincs_l1000_signature_metadata.parquet +3 -0
  41. external_reference/compound_atlases/lincs_l1000/processed/lincs_l1000_signature_metadata_additional_29_sigcom_20260525.parquet +3 -0
  42. external_reference/compound_atlases/tahoe_100m/metadata/tahoe_cell_line_metadata.parquet +3 -0
  43. external_reference/compound_atlases/tahoe_100m/metadata/tahoe_drug_metadata.parquet +3 -0
  44. external_reference/compound_atlases/tahoe_100m/metadata/tahoe_sample_metadata.parquet +3 -0
  45. external_reference/compound_atlases/tahoe_100m/processed/tahoe_100m_fetch_manifest_capmatinib_harmonizome_20260525.csv +51 -0
  46. external_reference/compound_atlases/tahoe_100m/processed/tahoe_100m_rank_signatures_top_genes_capmatinib_harmonizome_20260525.parquet +3 -0
  47. external_reference/compound_atlases/tahoe_100m/processed/tahoe_100m_signature_metadata_capmatinib_harmonizome_20260525.parquet +3 -0
  48. external_reference/crispr_perturbation_atlases/norman_weissman_2019_k562_crispra/norman_rank_signatures_top_genes.parquet +3 -0
  49. external_reference/crispr_perturbation_atlases/norman_weissman_2019_k562_crispra/norman_signature_metadata.parquet +3 -0
  50. external_reference/crispr_perturbation_atlases/replogle_2022_k562_gwps/replogle_rank_signatures_top_genes.parquet +3 -0
external_reference/README.md ADDED
@@ -0,0 +1,19 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
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+ # External Reference Data
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+
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+ This folder is the clean, reusable external-data surface for Z-Screen benchmarking.
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+
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+ Start with:
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+
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+ - `catalog/processing_provenance.md` for what was copied, converted, and not recomputed.
8
+ - `catalog/external_reference_dataset_catalog.csv` for dataset-level entry points.
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+ - `catalog/external_reference_file_manifest.csv` for file-level hashes and legacy source aliases.
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+
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+ Most experiments should use the Parquet tables under:
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+
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+ - `crispr_perturbation_atlases/` for Replogle, Norman, and selected THP1 scPerturb CRISPR comparisons.
14
+ - `compound_atlases/lincs_l1000/processed/` for LINCS L1000 compound signature comparisons.
15
+ - `compound_atlases/tahoe_100m/metadata/` for Tahoe metadata-only overlap checks.
16
+
17
+ `benchmark_outputs/` contains the prior LINCS versus Z-Screen overlap/correlation outputs from the legacy benchmark bundle. Treat those as historical benchmark outputs, not as primary external atlas inputs.
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+
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+ Raw external H5AD and LINCS GCTX matrices are not bundled here. The processed rank-signature tables and provenance scripts are bundled so downstream experiments do not need to rebuild them for routine comparisons.
external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/external_cell_line_overlap.parquet ADDED
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external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/needed_lincs_signatures.parquet ADDED
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external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/overlap_summary.parquet ADDED
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external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_all_pairs.parquet ADDED
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external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_compound_overlap.parquet ADDED
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external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_correlation_summary.parquet ADDED
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external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_null_per_compound.parquet ADDED
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external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_null_summary.parquet ADDED
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external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_signature_correlation_headline.parquet ADDED
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external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_signature_correlation_long.parquet ADDED
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external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_overlap_compound_rank_signatures_top_genes.parquet ADDED
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external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_overlap_compound_signature_metadata.parquet ADDED
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external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_tahoe_compound_overlap.parquet ADDED
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external_reference/catalog/control_transcriptome_expansion_20260525_catalog_addendum.csv ADDED
@@ -0,0 +1,5 @@
 
 
 
 
 
 
1
+ dataset_id,dataset_name,role,controls,signatures,rank_rows,primary_metadata_path,primary_rank_path,source
2
+ lincs_sigcom_additional_controls_20260525,LINCS SigCom L1000 additional named controls,additional control external transcriptome rank signatures,29,5463,2731500,compound_atlases/lincs_l1000/processed/lincs_l1000_signature_metadata_additional_29_sigcom_20260525.parquet,compound_atlases/lincs_l1000/processed/lincs_l1000_rank_signatures_top_genes_additional_29_sigcom_20260525.parquet,SigCom LINCS metadata API persistent S3 TSVs
3
+ tahoe_capmatinib_harmonizome_20260525,Tahoe-100M Capmatinib Harmonizome differential-expression gene sets,Capmatinib external transcriptome rank signatures,1,50,9954,compound_atlases/tahoe_100m/processed/tahoe_100m_signature_metadata_capmatinib_harmonizome_20260525.parquet,compound_atlases/tahoe_100m/processed/tahoe_100m_rank_signatures_top_genes_capmatinib_harmonizome_20260525.parquet,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API
4
+ control_30_expansion_same_schema_20260525,30-control external transcriptome expansion same-schema package,single handoff package with same schema as local LINCS processed files,30,5513,2741454,compound_atlases/control_transcriptome_expansion_20260525/control_30_signature_metadata_same_schema_20260525.parquet,compound_atlases/control_transcriptome_expansion_20260525/control_30_rank_signatures_top_genes_same_schema_20260525.parquet,LINCS SigCom plus Tahoe Harmonizome
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+ control_40_union_same_schema_20260525,40-control union same-schema package,existing 10 local-ready controls plus 30-control expansion,40,5621,2795454,compound_atlases/control_transcriptome_expansion_20260525/control_40_signature_metadata_same_schema_20260525.parquet,compound_atlases/control_transcriptome_expansion_20260525/control_40_rank_signatures_top_genes_same_schema_20260525.parquet,Existing local LINCS plus LINCS SigCom plus Tahoe Harmonizome
external_reference/catalog/control_transcriptome_expansion_20260525_catalog_addendum.md ADDED
@@ -0,0 +1,8 @@
 
 
 
 
 
 
 
 
 
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+ # Control transcriptome expansion catalog addendum, 2026-05-25
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+
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+ | dataset_id | dataset_name | role | controls | signatures | rank_rows | primary_metadata_path | primary_rank_path | source |
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+ |:------------------------------------------|:--------------------------------------------------------------------|:-----------------------------------------------------------------------|-----------:|-------------:|------------:|:---------------------------------------------------------------------------------------------------------------------|:----------------------------------------------------------------------------------------------------------------------------|:------------------------------------------------------------------|
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+ | lincs_sigcom_additional_controls_20260525 | LINCS SigCom L1000 additional named controls | additional control external transcriptome rank signatures | 29 | 5463 | 2731500 | compound_atlases/lincs_l1000/processed/lincs_l1000_signature_metadata_additional_29_sigcom_20260525.parquet | compound_atlases/lincs_l1000/processed/lincs_l1000_rank_signatures_top_genes_additional_29_sigcom_20260525.parquet | SigCom LINCS metadata API persistent S3 TSVs |
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+ | tahoe_capmatinib_harmonizome_20260525 | Tahoe-100M Capmatinib Harmonizome differential-expression gene sets | Capmatinib external transcriptome rank signatures | 1 | 50 | 9954 | compound_atlases/tahoe_100m/processed/tahoe_100m_signature_metadata_capmatinib_harmonizome_20260525.parquet | compound_atlases/tahoe_100m/processed/tahoe_100m_rank_signatures_top_genes_capmatinib_harmonizome_20260525.parquet | Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API |
7
+ | control_30_expansion_same_schema_20260525 | 30-control external transcriptome expansion same-schema package | single handoff package with same schema as local LINCS processed files | 30 | 5513 | 2741454 | compound_atlases/control_transcriptome_expansion_20260525/control_30_signature_metadata_same_schema_20260525.parquet | compound_atlases/control_transcriptome_expansion_20260525/control_30_rank_signatures_top_genes_same_schema_20260525.parquet | LINCS SigCom plus Tahoe Harmonizome |
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+ | control_40_union_same_schema_20260525 | 40-control union same-schema package | existing 10 local-ready controls plus 30-control expansion | 40 | 5621 | 2795454 | compound_atlases/control_transcriptome_expansion_20260525/control_40_signature_metadata_same_schema_20260525.parquet | compound_atlases/control_transcriptome_expansion_20260525/control_40_rank_signatures_top_genes_same_schema_20260525.parquet | Existing local LINCS plus LINCS SigCom plus Tahoe Harmonizome |
external_reference/catalog/external_reference_dataset_catalog.csv ADDED
@@ -0,0 +1,18 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
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+ dataset_id,source_alias,dataset_type,primary_metadata_path,primary_signature_path,metadata_rows,signature_rows,signature_columns,processing_summary
2
+ crispr_replogle_2022_k562_gwps,paper5_external_data,CRISPR KO Perturb-seq rank signatures,data/external_reference/crispr_perturbation_atlases/replogle_2022_k562_gwps/replogle_signature_metadata.parquet,data/external_reference/crispr_perturbation_atlases/replogle_2022_k562_gwps/replogle_rank_signatures_top_genes.parquet,8603.0,4301500.0,signature_id;dataset;cell_line;signature_type;perturbation;target_a;target_b;ensg_id;promoter;fold_expr;pct_expr;n_genes_measured;gene;gene_index;effect;direction;rank,"Legacy CSV converted to Parquet; signatures were originally built from Replogle K562 genome-wide pseudobulk with pct_expr <= -0.5, best promoter per gene, top 250 up and top 250 down genes."
3
+ crispr_norman_weissman_2019_k562_crispra,paper5_external_data,single and combinatorial CRISPRa rank signatures,data/external_reference/crispr_perturbation_atlases/norman_weissman_2019_k562_crispra/norman_signature_metadata.parquet,data/external_reference/crispr_perturbation_atlases/norman_weissman_2019_k562_crispra/norman_rank_signatures_top_genes.parquet,236.0,118000.0,signature_id;dataset;cell_line;signature_type;perturbation;target_a;target_b;n_cells;background_n_cells;gene;gene_index;effect;direction;rank,"Legacy CSV converted to Parquet; signatures were originally pseudobulk log-CPM effects versus control, min 50 cells per perturbation, top 250 up and top 250 down genes."
4
+ crispr_scperturb_thp1_selected,paper5_external_data,selected THP1 CRISPR rank signatures,data/external_reference/crispr_perturbation_atlases/scperturb_thp1_selected/scperturb_signature_metadata.parquet,data/external_reference/crispr_perturbation_atlases/scperturb_thp1_selected/scperturb_rank_signatures_top_genes.parquet,78.0,39000.0,signature_id;dataset;cell_line;signature_type;perturbation;target_a;target_b;n_cells;background_n_cells;h5ad_n_obs;gene;gene_index;effect;direction;rank,"Legacy CSV converted to Parquet; signatures were originally built from selected scPerturb H5ADs, using THP1 control-normalized pseudobulk effects with min-cell filters."
5
+ gene_sets_enrichr,paper5_external_metadata,pathway gene sets,data/external_reference/gene_sets/enrichr,,,,gmt pathway gene sets,GMT files copied unchanged from the legacy paper5 external metadata folder.
6
+ compound_lincs_l1000,benchmarking_external_data,LINCS L1000 compound rank signatures and metadata,data/external_reference/compound_atlases/lincs_l1000/processed/lincs_l1000_signature_metadata.parquet,data/external_reference/compound_atlases/lincs_l1000/processed/lincs_l1000_rank_signatures_top_genes.parquet,108.0,54000.0,signature_id;cell_line;compound_name;zscreen_compound;phase;pert_idose;pert_itime;gene;effect;direction;rank,Legacy CSV converted to Parquet; raw LINCS text metadata copied or gzip-compressed; rank signatures were previously sliced from GEO level-5 consensus signatures for Z-Screen overlap compounds.
7
+ compound_tahoe_100m_metadata,benchmarking_external_data,Tahoe-100M metadata,data/external_reference/compound_atlases/tahoe_100m/metadata/tahoe_cell_line_metadata.parquet;data/external_reference/compound_atlases/tahoe_100m/metadata/tahoe_drug_metadata.parquet;data/external_reference/compound_atlases/tahoe_100m/metadata/tahoe_sample_metadata.parquet,,2723.0,,metadata-only,Parquet metadata copied unchanged from the legacy benchmarking bundle; Tahoe pseudobulk rank signatures are not bundled.
8
+ legacy_lincs_zscreen_benchmark_outputs,benchmarking_tables,legacy Z-Screen vs LINCS benchmark outputs,data/external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428,,16873.0,,see individual Parquet files,"Legacy CSV result tables converted to Parquet for stable reuse. These are prior benchmark outputs, not raw external atlas data."
9
+ scperturb_AdamsonWeissman2016_GSM2406681_10X010,scperturb_h5ad_downloads,scPerturb Single-Cell H5AD,data/external_reference/scperturb_downloads/scperturb_summary_metadata.csv,data/external_reference/scperturb_downloads/AdamsonWeissman2016_GSM2406681_10X010.h5ad,115.0,65337.0,32738,"Raw H5AD downloaded from scPerturb Zenodo. Native AnnData format, enabling direct comparison."
10
+ scperturb_DixitRegev2016_K562_TFs_High_MOI,scperturb_h5ad_downloads,scPerturb Single-Cell H5AD,data/external_reference/scperturb_downloads/scperturb_summary_metadata.csv,data/external_reference/scperturb_downloads/DixitRegev2016_K562_TFs_High_MOI.h5ad,1726.0,51898.0,23529,"Raw H5AD downloaded from scPerturb Zenodo. Native AnnData format, enabling direct comparison."
11
+ scperturb_GasperiniShendure2019_highMOI,scperturb_h5ad_downloads,scPerturb Single-Cell H5AD,data/external_reference/scperturb_downloads/scperturb_summary_metadata.csv,data/external_reference/scperturb_downloads/GasperiniShendure2019_highMOI.h5ad,39088.0,47650.0,32738,"Raw H5AD downloaded from scPerturb Zenodo. Native AnnData format, enabling direct comparison."
12
+ scperturb_GasperiniShendure2019_lowMOI,scperturb_h5ad_downloads,scPerturb Single-Cell H5AD,data/external_reference/scperturb_downloads/scperturb_summary_metadata.csv,data/external_reference/scperturb_downloads/GasperiniShendure2019_lowMOI.h5ad,16532.0,41284.0,32738,"Raw H5AD downloaded from scPerturb Zenodo. Native AnnData format, enabling direct comparison."
13
+ scperturb_JoungZhang2023_combinatorial,scperturb_h5ad_downloads,scPerturb Single-Cell H5AD,data/external_reference/scperturb_downloads/scperturb_summary_metadata.csv,data/external_reference/scperturb_downloads/JoungZhang2023_combinatorial.h5ad,57.0,167947.0,37302,"Raw H5AD downloaded from scPerturb Zenodo. Native AnnData format, enabling direct comparison."
14
+ scperturb_ReplogleWeissman2022_rpe1,scperturb_h5ad_downloads,scPerturb Single-Cell H5AD,data/external_reference/scperturb_downloads/scperturb_summary_metadata.csv,data/external_reference/scperturb_downloads/ReplogleWeissman2022_rpe1.h5ad,2394.0,247914.0,8749,"Raw H5AD downloaded from scPerturb Zenodo. Native AnnData format, enabling direct comparison."
15
+ scperturb_SrivatsanTrapnell2020_sciplex2,scperturb_h5ad_downloads,scPerturb Single-Cell H5AD,data/external_reference/scperturb_downloads/scperturb_summary_metadata.csv,data/external_reference/scperturb_downloads/SrivatsanTrapnell2020_sciplex2.h5ad,5.0,24262.0,58347,"Raw H5AD downloaded from scPerturb Zenodo. Native AnnData format, enabling direct comparison."
16
+ scperturb_SrivatsanTrapnell2020_sciplex3,scperturb_h5ad_downloads,scPerturb Single-Cell H5AD,data/external_reference/scperturb_downloads/scperturb_summary_metadata.csv,data/external_reference/scperturb_downloads/SrivatsanTrapnell2020_sciplex3.h5ad,190.0,799317.0,110983,"Raw H5AD downloaded from scPerturb Zenodo. Native AnnData format, enabling direct comparison."
17
+ scperturb_SrivatsanTrapnell2020_sciplex4,scperturb_h5ad_downloads,scPerturb Single-Cell H5AD,data/external_reference/scperturb_downloads/scperturb_summary_metadata.csv,data/external_reference/scperturb_downloads/SrivatsanTrapnell2020_sciplex4.h5ad,9.0,98437.0,58347,"Raw H5AD downloaded from scPerturb Zenodo. Native AnnData format, enabling direct comparison."
18
+ scperturb_TianKampmann2021_CRISPRa,scperturb_h5ad_downloads,scPerturb Single-Cell H5AD,data/external_reference/scperturb_downloads/scperturb_summary_metadata.csv,data/external_reference/scperturb_downloads/TianKampmann2021_CRISPRa.h5ad,101.0,21193.0,33538,"Raw H5AD downloaded from scPerturb Zenodo. Native AnnData format, enabling direct comparison."
external_reference/catalog/external_reference_file_manifest.csv ADDED
@@ -0,0 +1,50 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ source_alias,source_relative_path,release_relative_path,bytes,sha256,curation_action
2
+ paper5_external_data,external_data/replogle_signature_metadata.csv,Clean_Source_Data_Public/external_reference/crispr_perturbation_atlases/replogle_2022_k562_gwps/replogle_signature_metadata.parquet,330685,faa59536363b4ab33cf46cffd1cf98763024a08694ffb5f5e4d19bf048488c5e,converted CSV to Parquet; row_count=8603
3
+ paper5_external_data,external_data/replogle_rank_signatures_top_genes.csv,Clean_Source_Data_Public/external_reference/crispr_perturbation_atlases/replogle_2022_k562_gwps/replogle_rank_signatures_top_genes.parquet,42344827,964e72add7b9ac876163be531c2dbb472affe16b2996aa52d7b34dcca3982135,converted CSV to Parquet; row_count=4301500
4
+ paper5_external_data,external_data/norman_signature_metadata.csv,Clean_Source_Data_Public/external_reference/crispr_perturbation_atlases/norman_weissman_2019_k562_crispra/norman_signature_metadata.parquet,10708,0ac0b3131090dec1f032a5557ca27c42dffefb5a56e4964a32b908b37454c98b,converted CSV to Parquet; row_count=236
5
+ paper5_external_data,external_data/norman_rank_signatures_top_genes.csv,Clean_Source_Data_Public/external_reference/crispr_perturbation_atlases/norman_weissman_2019_k562_crispra/norman_rank_signatures_top_genes.parquet,1553562,28451570362fae305607860f5d385bdf6529ad338b7b60655cae615fbea3725f,converted CSV to Parquet; row_count=118000
6
+ paper5_external_data,external_data/scperturb_signature_metadata.csv,Clean_Source_Data_Public/external_reference/crispr_perturbation_atlases/scperturb_thp1_selected/scperturb_signature_metadata.parquet,8524,efe4c92757d73998fb6aefcd9b430fff9415078b58a6efa696d5d22e4f2ebb24,converted CSV to Parquet; row_count=78
7
+ paper5_external_data,external_data/scperturb_rank_signatures_top_genes.csv,Clean_Source_Data_Public/external_reference/crispr_perturbation_atlases/scperturb_thp1_selected/scperturb_rank_signatures_top_genes.parquet,480267,dd09e3c3799b8c5a5cd122d2207569810cd291e4135b326b6065542f17c56671,converted CSV to Parquet; row_count=39000
8
+ paper5_external_metadata,external_metadata/scperturb_zenodo_files.csv,Clean_Source_Data_Public/external_reference/crispr_perturbation_atlases/scperturb_thp1_selected/source_manifest/scperturb_zenodo_files.csv,6220,ec69d040a2304571118299a0d165813a525fedfb5c234af4291269335f7ed819,copied unchanged
9
+ paper5_external_metadata,external_metadata/scperturb_zenodo_files.json,Clean_Source_Data_Public/external_reference/crispr_perturbation_atlases/scperturb_thp1_selected/source_manifest/scperturb_zenodo_files.json,15750,c96da2e47099e57b7501c237c64c9ea85745be3ebfbbe46251feff6b0b72a3b0,copied unchanged
10
+ paper5_external_metadata,external_metadata/enrichr_KEGG_2021_Human.gmt,Clean_Source_Data_Public/external_reference/gene_sets/enrichr/enrichr_KEGG_2021_Human.gmt,209951,58efbbf86113c52b3bde2888ff0f7914e4db257ee6ebe8a0e8f40b1e9fe057a1,copied unchanged
11
+ paper5_external_metadata,external_metadata/enrichr_MSigDB_Hallmark_2020.gmt,Clean_Source_Data_Public/external_reference/gene_sets/enrichr/enrichr_MSigDB_Hallmark_2020.gmt,44284,505fdf0d3ea747d79abe68d59352dae144d19305629fd305338bfdf231e7a87a,copied unchanged
12
+ paper5_external_metadata,external_metadata/enrichr_Reactome_2022.gmt,Clean_Source_Data_Public/external_reference/gene_sets/enrichr/enrichr_Reactome_2022.gmt,780730,ef3174607c913fe6cff03e2a7049fe470552cc0b6c5a72d8e41f5f92f1932bce,copied unchanged
13
+ benchmarking_external_data,external_data/GSE70138_sig_info.txt.gz,Clean_Source_Data_Public/external_reference/compound_atlases/lincs_l1000/raw_metadata/GSE70138_sig_info.txt.gz,1943865,b78284478d62029f600d4397334c538d363123110affd2454bf0055bd0678e01,copied unchanged
14
+ benchmarking_external_data,external_data/GSE92742_cell_info.txt.gz,Clean_Source_Data_Public/external_reference/compound_atlases/lincs_l1000/raw_metadata/GSE92742_cell_info.txt.gz,2528,88c6ca5ff8bb3cf3af22c2eb8cbe769f9ae8e305a760959b18711877d730d61c,copied unchanged
15
+ benchmarking_external_data,external_data/GSE92742_gene_info.txt.gz,Clean_Source_Data_Public/external_reference/compound_atlases/lincs_l1000/raw_metadata/GSE92742_gene_info.txt.gz,216692,741216ccc53320119b47ab006de3bcad48963c57087c9e07f50f0d6cd088711a,copied unchanged
16
+ benchmarking_external_data,external_data/GSE92742_pert_info.txt.gz,Clean_Source_Data_Public/external_reference/compound_atlases/lincs_l1000/raw_metadata/GSE92742_pert_info.txt.gz,1138509,b1945b3fde51021865b12269929cc78ccf2665be27f53a4da9336e4ddcf4b42f,copied unchanged
17
+ benchmarking_external_data,external_data/GSE92742_sig_info.txt.gz,Clean_Source_Data_Public/external_reference/compound_atlases/lincs_l1000/raw_metadata/GSE92742_sig_info.txt.gz,11124404,19da29c0ee12ddf27f9698cd0da40beaff58657dcde9d382aae068737e831299,copied unchanged
18
+ benchmarking_external_data,external_data/lincs_l1000_cellinfo_beta.txt,Clean_Source_Data_Public/external_reference/compound_atlases/lincs_l1000/raw_metadata/lincs_l1000_cellinfo_beta.txt.gz,7808,d2e1690cb7f21e47a3522f4dad435c8bb4b2adde76dcb03779ff3c8ef9756b7a,gzip-compressed legacy plain text without changing decompressed content
19
+ benchmarking_external_data,external_data/lincs_l1000_compoundinfo_beta.txt,Clean_Source_Data_Public/external_reference/compound_atlases/lincs_l1000/raw_metadata/lincs_l1000_compoundinfo_beta.txt.gz,1062663,74133e1a759175989b3af5ff9ea67b59a672e031e8157ed706a770ee6d9a5b11,gzip-compressed legacy plain text without changing decompressed content
20
+ benchmarking_external_data,external_data/lincs_l1000_signature_metadata.csv,Clean_Source_Data_Public/external_reference/compound_atlases/lincs_l1000/processed/lincs_l1000_signature_metadata.parquet,5966,1a444d2556e419a125e342f9bc23578199905b8088cdb945ba7ae9dee30d30cc,converted CSV to Parquet; row_count=108
21
+ benchmarking_external_data,external_data/lincs_l1000_rank_signatures_top_genes.csv,Clean_Source_Data_Public/external_reference/compound_atlases/lincs_l1000/processed/lincs_l1000_rank_signatures_top_genes.parquet,508024,0a52b6040810ee9a32527329d29d94ed607fc8fa0065eaa7e3f2b15bb5d1c0e6,converted CSV to Parquet; row_count=54000
22
+ benchmarking_external_data,external_data/tahoe_cell_line_metadata.parquet,Clean_Source_Data_Public/external_reference/compound_atlases/tahoe_100m/metadata/tahoe_cell_line_metadata.parquet,19040,67641f5bdd3fb077978ff1fec4d0d617490674bcd42850515ae3997194c29d4d,copied unchanged
23
+ benchmarking_external_data,external_data/tahoe_drug_metadata.parquet,Clean_Source_Data_Public/external_reference/compound_atlases/tahoe_100m/metadata/tahoe_drug_metadata.parquet,40475,7a04c7a6611e74c92253163b994ff0a47191928ee7511f1c2ca508cee0e79f28,copied unchanged
24
+ benchmarking_external_data,external_data/tahoe_sample_metadata.parquet,Clean_Source_Data_Public/external_reference/compound_atlases/tahoe_100m/metadata/tahoe_sample_metadata.parquet,65636,33167f0ce28cff8357c503cda67d1c7fea200bff6918ee1de3c4f3549175b9d3,copied unchanged
25
+ benchmarking_tables,tables/external_cell_line_overlap.csv,Clean_Source_Data_Public/external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/external_cell_line_overlap.parquet,2304,cc18d45fca65c217f3784e4bcb818ff268daa02b32d93e5765499e70bcfcf59d,converted CSV to Parquet; row_count=6
26
+ benchmarking_tables,tables/needed_lincs_signatures.csv,Clean_Source_Data_Public/external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/needed_lincs_signatures.parquet,6558,609eded82b25a84cf0e8f6f287d92d6f39d24ca427a5840abda10fc5c46d8a48,converted CSV to Parquet; row_count=108
27
+ benchmarking_tables,tables/overlap_summary.csv,Clean_Source_Data_Public/external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/overlap_summary.parquet,4280,0b70028c03befb74e925de85dbc3b5d0b72481ad6dbf8f2c1a4687501d58ccc4,converted CSV to Parquet; row_count=2
28
+ benchmarking_tables,tables/zscreen_lincs_l1000_all_pairs.csv,Clean_Source_Data_Public/external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_all_pairs.parquet,20403,94458e2858875e47851850ea62a8cbacc48f3e54bf801cd260447817037d8d3a,converted CSV to Parquet; row_count=1570
29
+ benchmarking_tables,tables/zscreen_lincs_l1000_compound_overlap.csv,Clean_Source_Data_Public/external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_compound_overlap.parquet,5031,3fa7cc36ab2305190d0085ac042dfcfaa50fc317b46e57ca2925f14b41011c1a,converted CSV to Parquet; row_count=14
30
+ benchmarking_tables,tables/zscreen_lincs_l1000_correlation_summary.csv,Clean_Source_Data_Public/external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_correlation_summary.parquet,5590,de967c40705b226ac6f0b70d60dec1c86ecca1342e06e831dcf8e7f87e474bc1,converted CSV to Parquet; row_count=1
31
+ benchmarking_tables,tables/zscreen_lincs_l1000_null_per_compound.csv,Clean_Source_Data_Public/external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_null_per_compound.parquet,5547,26de0de9519e84c2434a2cd5d7938cd7fac5f41fe057bb68d8403b5330c5d759,converted CSV to Parquet; row_count=10
32
+ benchmarking_tables,tables/zscreen_lincs_l1000_null_summary.csv,Clean_Source_Data_Public/external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_null_summary.parquet,5823,955ee4ecba7b7faffa6adb31b04c7c9de0afcbdaa583b713e684a1189a196fb2,converted CSV to Parquet; row_count=2
33
+ benchmarking_tables,tables/zscreen_lincs_l1000_signature_correlation_headline.csv,Clean_Source_Data_Public/external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_signature_correlation_headline.parquet,10395,418d7bdfc5ead88aee81775fe6b72c7d70e793d9bdb2eb2d32a98712cdbd8ecd,converted CSV to Parquet; row_count=11
34
+ benchmarking_tables,tables/zscreen_lincs_l1000_signature_correlation_long.csv,Clean_Source_Data_Public/external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_lincs_l1000_signature_correlation_long.parquet,13232,a27cd5c9e0888bd8197b04c432e1bbc3e2f8c9417ee8c123cb28adcfab7b0929,converted CSV to Parquet; row_count=115
35
+ benchmarking_tables,tables/zscreen_tahoe_compound_overlap.csv,Clean_Source_Data_Public/external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_tahoe_compound_overlap.parquet,5240,8928d0eb6a77ba073186b74163b03f3fa53b1ede101903e08e67b8a1620c8efd,converted CSV to Parquet; row_count=4
36
+ benchmarking_external_data,external_data/zscreen_overlap_compound_signature_metadata.csv,Clean_Source_Data_Public/external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_overlap_compound_signature_metadata.parquet,5941,681f013e4b457a22afa977a5ad389da41a463835eaabb23a83f03e5a86a5a2c6,converted CSV to Parquet; row_count=30
37
+ benchmarking_external_data,external_data/zscreen_overlap_compound_rank_signatures_top_genes.csv,Clean_Source_Data_Public/external_reference/benchmark_outputs/lincs_zscreen_legacy_overlap_20260428/zscreen_overlap_compound_rank_signatures_top_genes.parquet,232959,1df74be06fe6723ed52a17dae99b43deb1f5318a723601ac2ae6ce4435cdfd7f,converted CSV to Parquet; row_count=15000
38
+ benchmarking_scripts,scripts/build_zscreen_overlap_signatures.py,Clean_Source_Data_Public/external_reference/provenance_scripts/lincs_tahoe_benchmarking/build_zscreen_overlap_signatures.py,7536,6c56796b49535ef91fdaae45b4ec4a7b5fd3a63a97211d9e2b1c4f34c200ed9f,copied unchanged
39
+ benchmarking_scripts,scripts/resume_lincs_downloads.sh,Clean_Source_Data_Public/external_reference/provenance_scripts/lincs_tahoe_benchmarking/resume_lincs_downloads.sh,1283,104318afdc3020a9e1fb4afa54e3f90b9dc6dd7a6e4d2c59b5ecb54fb839f7e0,copied unchanged
40
+ benchmarking_scripts,scripts/run_full_pipeline.py,Clean_Source_Data_Public/external_reference/provenance_scripts/lincs_tahoe_benchmarking/run_full_pipeline.py,3789,b17b95a2a5ea706b83d2662b583a0d070f9522328f3648b29dac68f065b22980,copied unchanged
41
+ benchmarking_scripts,scripts/run_overlap_analysis.py,Clean_Source_Data_Public/external_reference/provenance_scripts/lincs_tahoe_benchmarking/run_overlap_analysis.py,7231,e1a91b24ac8821a4635031d25cc201a5572ad2062ae28aab5c759e9023916d55,copied unchanged
42
+ benchmarking_scripts,scripts/run_signature_correlation.py,Clean_Source_Data_Public/external_reference/provenance_scripts/lincs_tahoe_benchmarking/run_signature_correlation.py,6757,5f6db9f3554e8882b5856fcd5541aa41abec1833f628508e9f8698dea2056f5a,copied unchanged
43
+ benchmarking_scripts,scripts/run_zscreen_lincs_correlation.py,Clean_Source_Data_Public/external_reference/provenance_scripts/lincs_tahoe_benchmarking/run_zscreen_lincs_correlation.py,7072,3ed0ded3fd47c49c947fae869f3c0af2f050a6935fb37e6e272b1319c3761b69,copied unchanged
44
+ benchmarking_scripts,scripts/run_zscreen_lincs_null.py,Clean_Source_Data_Public/external_reference/provenance_scripts/lincs_tahoe_benchmarking/run_zscreen_lincs_null.py,5792,2b7f00eb503471ad21ec026a323a1e5db662ef4ae9063d51fd6afdaf0781d315,copied unchanged
45
+ benchmarking_scripts,scripts/slice_lincs_gctx.py,Clean_Source_Data_Public/external_reference/provenance_scripts/lincs_tahoe_benchmarking/slice_lincs_gctx.py,8640,3638dd1b77c42cbfe724b4345c105594fcb517c55a355bf303b21b3753ba7689,copied unchanged
46
+ paper5_scripts,scripts/h5ad_light.py,Clean_Source_Data_Public/external_reference/provenance_scripts/crispr_signature_generation/h5ad_light.py,7456,5643955183c59fa1ebbd02fc55bb4e7d9f54f55240b09561eaba3492bbbc0654,copied unchanged
47
+ paper5_scripts,scripts/build_replogle_rank_signatures.py,Clean_Source_Data_Public/external_reference/provenance_scripts/crispr_signature_generation/build_replogle_rank_signatures.py,5010,f3b8593ac202b4417541fd9cca19e5fc6d70310eca0df4a1c0c823dffdd55e50,copied unchanged
48
+ paper5_scripts,scripts/build_norman_rank_signatures.py,Clean_Source_Data_Public/external_reference/provenance_scripts/crispr_signature_generation/build_norman_rank_signatures.py,4595,530375d38998ccfbb97a1f618934108f60caa7f3cb6bc282fff725ed2a9ab3e5,copied unchanged
49
+ paper5_scripts,scripts/build_scperturb_crispr_signatures.py,Clean_Source_Data_Public/external_reference/provenance_scripts/crispr_signature_generation/build_scperturb_crispr_signatures.py,5418,a121a781899f2bd817c65fa6cfa2cd7824641693fe15db8d5d1549f4413976b8,copied unchanged
50
+ paper5_scripts,scripts/probe_scperturb_h5ad_metadata.py,Clean_Source_Data_Public/external_reference/provenance_scripts/crispr_signature_generation/probe_scperturb_h5ad_metadata.py,8371,b21a7cdf994035373abc92a6e7dd4e6b12fd64c0fdb27b24c058f1935dcdcdd8,copied unchanged
external_reference/catalog/processing_provenance.md ADDED
@@ -0,0 +1,35 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ # External reference data provenance
2
+
3
+ Generated: 2026-05-17T21:08:16+00:00
4
+
5
+ ## What this layer is
6
+
7
+ `data/external_reference/` is the reusable external benchmark surface for Z-Screen experiments. It is intentionally separate from the internal Z-Screen source layers in `data/raw/`, `data/mrna_latents/`, `data/condition_representations/`, `data/gene_effects/`, and `data/image_features/`.
8
+
9
+ ## Curation done for this clean release
10
+
11
+ - Copied Tahoe metadata Parquets unchanged from the legacy benchmarking bundle.
12
+ - Copied LINCS compressed metadata unchanged where already compressed.
13
+ - Gzip-compressed two LINCS beta metadata text files so the clean release remains validation-friendly while preserving decompressed content.
14
+ - Converted legacy CSV rank-signature and benchmark-output tables to Parquet with zstd compression. No signatures or scores were recomputed during this curation pass.
15
+ - Copied scPerturb file manifests and Enrichr GMT gene sets unchanged.
16
+ - Copied the legacy build scripts into `data/external_reference/provenance_scripts/` as provenance only. They document how the current processed reference tables were originally produced.
17
+
18
+ ## Main processed reference tables
19
+
20
+ | Dataset | Primary path | Notes |
21
+ |---|---|---|
22
+ | Replogle K562 genome-wide CRISPR KO | `data/external_reference/crispr_perturbation_atlases/replogle_2022_k562_gwps/replogle_rank_signatures_top_genes.parquet` | Best promoter per target gene, knockdown-filtered pseudobulk Z-normalized signatures. |
23
+ | Norman and Weissman K562 CRISPRa | `data/external_reference/crispr_perturbation_atlases/norman_weissman_2019_k562_crispra/norman_rank_signatures_top_genes.parquet` | Single and combinatorial CRISPRa pseudobulk effects versus control. |
24
+ | Selected THP1 scPerturb CRISPR | `data/external_reference/crispr_perturbation_atlases/scperturb_thp1_selected/scperturb_rank_signatures_top_genes.parquet` | Local THP1 CRISPR signatures from selected scPerturb datasets. Raw H5AD files are not bundled. |
25
+ | LINCS L1000 overlap signatures | `data/external_reference/compound_atlases/lincs_l1000/processed/lincs_l1000_rank_signatures_top_genes.parquet` | Level-5 LINCS consensus signatures sliced for Z-Screen overlap compounds. |
26
+ | Tahoe-100M metadata | `data/external_reference/compound_atlases/tahoe_100m/metadata/` | Metadata-only. Tahoe pseudobulk signatures are not bundled. |
27
+
28
+ ## Important boundary
29
+
30
+ The CRISPR tables are external genetic-state references. They are useful for gene-rank and phenomimic comparisons, but a high similarity score should be treated as a perturbation-state hypothesis, not as direct target identification.
31
+
32
+ For exact file hashes and row counts, see:
33
+
34
+ - `data/external_reference/catalog/external_reference_file_manifest.csv`
35
+ - `data/external_reference/catalog/external_reference_dataset_catalog.csv`
external_reference/catalog/source_aliases.csv ADDED
@@ -0,0 +1,7 @@
 
 
 
 
 
 
 
 
1
+ source_alias,description
2
+ benchmarking_external_data,legacy Benchmarking/external_data folder used for LINCS and Tahoe input metadata plus prior LINCS rank signatures
3
+ benchmarking_tables,legacy Benchmarking/tables folder with prior Z-Screen versus LINCS overlap and correlation outputs
4
+ benchmarking_scripts,legacy Benchmarking/scripts folder documenting the prior LINCS/Tahoe comparison pipeline
5
+ paper5_external_data,legacy paper5/external_data folder with processed CRISPR rank-signature CSVs and metadata
6
+ paper5_external_metadata,legacy paper5/external_metadata folder with scPerturb file manifest and Enrichr GMT files
7
+ paper5_scripts,legacy paper5/scripts subset documenting CRISPR signature generation
external_reference/check_lincs_metadata.py ADDED
@@ -0,0 +1,19 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ import pandas as pd
2
+ import sys
3
+
4
+ metadata_path = "C:/Users/Swamy/OneDrive - Zafrens/Desktop/Z-Screen Deepdive/Shared_Source_Data_June2026/external_reference/compound_atlases/lincs_l1000/processed/lincs_l1000_signature_metadata.parquet"
5
+ try:
6
+ df = pd.read_parquet(metadata_path)
7
+ print("Columns:", df.columns.tolist())
8
+
9
+ if 'pert_type' in df.columns:
10
+ print("\nPerturbation Types:")
11
+ print(df['pert_type'].value_counts())
12
+
13
+ if 'cell_id' in df.columns:
14
+ cells_of_interest = ['A549', 'HEK293', 'HEK293T', 'THP1', 'H1650', 'AEC7']
15
+ print("\nCell Lines matching our interest:")
16
+ print(df[df['cell_id'].isin(cells_of_interest)]['cell_id'].value_counts())
17
+
18
+ except Exception as e:
19
+ print("Error:", e)
external_reference/compound_atlases/control_transcriptome_expansion_20260525/PACKAGE_LOCAL_FILE_MANIFEST_20260525.csv ADDED
@@ -0,0 +1,15 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ file,bytes,sha256
2
+ README.md,2466,b25fee762422f6dbbb0cc4fcce5c82a7f369289529c1f6ae5bf2f57e031d3e2b
3
+ VALIDATION_control_transcriptome_expansion_20260525.json,1375,174884aa2469471cd50dba3424170cf6c01885733e0b3617626b1f57842a9ce0
4
+ control_30_rank_signatures_top_genes_same_schema_20260525.parquet,28025549,addc03a0ec9fc7a84e62618c01d9294c45546fe295a7301f0a03f3a9736036d2
5
+ control_30_signature_metadata_same_schema_20260525.parquet,58116,18da15cbd81c9d5b7758e95dcefe8e14759ae7077a41d59f24f7300a77ea8b75
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+ control_40_rank_signatures_top_genes_same_schema_20260525.parquet,28498234,b8e7f9c45c56ab10d78582be682eaf71bfd4ba65046da65e5c87183572f35cb8
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+ control_40_signature_metadata_same_schema_20260525.parquet,59728,9d8c4f97f4374cc878d1392e5aba167757b22ab38cbce1ebbad14a3eaa6fc487
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+ control_transcriptome_expansion_file_manifest_20260525.csv,1887,6d519121ce86bc5d350138c47647b59dfed1c20827492460c8e9c3c39701142f
9
+ lincs_l1000_fetch_manifest_additional_29_sigcom_20260525.csv,2139169,b3f94bedfc4db446a7d8fc3255f65f6f5042f31a54bb1e573392ea1ee1aacce5
10
+ lincs_l1000_rank_signatures_top_genes_additional_29_sigcom_20260525.parquet,26438754,c56bcd089328b0918064975746d54f0d6093b73cf12ce52f21e7f6c1272bf7bc
11
+ lincs_l1000_signature_metadata_additional_29_sigcom_20260525.parquet,56950,d22c98eb957424a5403f6fe68b4f06d7e08843a5fd1ece8a4fd8f097a8ebfe1e
12
+ summary_control_transcriptome_expansion_20260525.json,1430,70a3a1e5af631813b9cd4fc26d8e468f5cad71c4b23c866ad50ba63c2074d0f2
13
+ tahoe_100m_fetch_manifest_capmatinib_harmonizome_20260525.csv,14813,0cc9ffe912758d279048bc51090895ba8fac9c3625e786ee7fcad76aaacdb425
14
+ tahoe_100m_rank_signatures_top_genes_capmatinib_harmonizome_20260525.parquet,136141,62634eacbdb85170e557064c34a643a0f5900488ab8ee5ef2ccfa9f7c0735d5f
15
+ tahoe_100m_signature_metadata_capmatinib_harmonizome_20260525.parquet,5621,f8348b307f78f0f00e1467028e160814cfe9a53bbc925201c91d655c09718053
external_reference/compound_atlases/control_transcriptome_expansion_20260525/README.md ADDED
@@ -0,0 +1,59 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ # Control transcriptome expansion package, 2026-05-25
2
+
3
+ This directory packages the 30 fetch-needed named-control external transcriptome references in the same long rank-signature schema as the existing local LINCS processed files.
4
+
5
+ ## Important boundary
6
+
7
+ - The original local-ready LINCS files for the 10 already benchmarked controls were not overwritten.
8
+ - The 30-control expansion is packaged as additive files.
9
+ - LINCS L1000 signatures are expression signatures, not full mRNA-seq.
10
+ - Capmatinib had no LINCS/SigCom signature in the checked source. Its external transcriptome reference is from Tahoe-100M via Harmonizome3 differential-expression gene sets.
11
+ - No private Z-Screen chemistry, SMILES, raw compound IDs, or private aliases are present in this package.
12
+
13
+ ## Same-schema files
14
+
15
+ Metadata schema:
16
+
17
+ `signature_id, cell_line, compound_name, zscreen_compound, phase, pert_idose, pert_itime`
18
+
19
+ Rank-signature schema:
20
+
21
+ `signature_id, cell_line, compound_name, zscreen_compound, phase, pert_idose, pert_itime, gene, effect, direction, rank`
22
+
23
+ ## Main package files
24
+
25
+ - `control_30_signature_metadata_same_schema_20260525.parquet`
26
+ - `control_30_rank_signatures_top_genes_same_schema_20260525.parquet`
27
+ - `control_40_signature_metadata_same_schema_20260525.parquet`
28
+ - `control_40_rank_signatures_top_genes_same_schema_20260525.parquet`
29
+ - `control_transcriptome_expansion_file_manifest_20260525.csv`
30
+ - `summary_control_transcriptome_expansion_20260525.json`
31
+
32
+ ## Counts
33
+
34
+ - Existing local-ready LINCS controls: 10
35
+ - Additional LINCS controls: 29
36
+ - Additional LINCS signatures: 5463
37
+ - Additional LINCS rank rows: 2731500
38
+ - Additional Tahoe controls: 1
39
+ - Additional Tahoe signatures: 50
40
+ - Additional Tahoe rank rows: 9954
41
+ - Additional 30-control package signatures: 5513
42
+ - Additional 30-control package rank rows: 2741454
43
+ - 40-control union signatures: 5621
44
+ - 40-control union rank rows: 2795454
45
+
46
+ ## Source-specific processed files
47
+
48
+ LINCS/SigCom files are also written under:
49
+
50
+ `compound_atlases/lincs_l1000/processed/`
51
+
52
+ Tahoe/Capmatinib files are also written under:
53
+
54
+ `compound_atlases/tahoe_100m/processed/`
55
+
56
+ ## Validation
57
+
58
+ - `VALIDATION_control_transcriptome_expansion_20260525.json` confirms the 30-control metadata and rank tables have the same column schemas as the existing LINCS processed files.
59
+ - `PACKAGE_LOCAL_FILE_MANIFEST_20260525.csv` records byte counts and SHA-256 hashes for the packaged handoff files.
external_reference/compound_atlases/control_transcriptome_expansion_20260525/VALIDATION_control_transcriptome_expansion_20260525.json ADDED
@@ -0,0 +1,67 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ {
2
+ "metadata_columns_match_existing": true,
3
+ "rank_columns_match_existing": true,
4
+ "existing_metadata_columns": [
5
+ "signature_id",
6
+ "cell_line",
7
+ "compound_name",
8
+ "zscreen_compound",
9
+ "phase",
10
+ "pert_idose",
11
+ "pert_itime"
12
+ ],
13
+ "new_metadata_columns": [
14
+ "signature_id",
15
+ "cell_line",
16
+ "compound_name",
17
+ "zscreen_compound",
18
+ "phase",
19
+ "pert_idose",
20
+ "pert_itime"
21
+ ],
22
+ "existing_rank_columns": [
23
+ "signature_id",
24
+ "cell_line",
25
+ "compound_name",
26
+ "zscreen_compound",
27
+ "phase",
28
+ "pert_idose",
29
+ "pert_itime",
30
+ "gene",
31
+ "effect",
32
+ "direction",
33
+ "rank"
34
+ ],
35
+ "new_rank_columns": [
36
+ "signature_id",
37
+ "cell_line",
38
+ "compound_name",
39
+ "zscreen_compound",
40
+ "phase",
41
+ "pert_idose",
42
+ "pert_itime",
43
+ "gene",
44
+ "effect",
45
+ "direction",
46
+ "rank"
47
+ ],
48
+ "new30_controls": 30,
49
+ "new30_signatures": 5513,
50
+ "new30_rank_rows": 2741454,
51
+ "rank_signatures_all_in_metadata": true,
52
+ "metadata_signatures_all_have_rank_rows": true,
53
+ "directions": [
54
+ "down",
55
+ "up"
56
+ ],
57
+ "min_rank_by_direction": {
58
+ "down": 1,
59
+ "up": 1
60
+ },
61
+ "max_rank_by_phase_direction": {
62
+ "LINCS-sigs-2021|down": 250,
63
+ "LINCS-sigs-2021|up": 250,
64
+ "Tahoe100M_Harmonizome3|down": 100,
65
+ "Tahoe100M_Harmonizome3|up": 100
66
+ }
67
+ }
external_reference/compound_atlases/control_transcriptome_expansion_20260525/control_30_rank_signatures_top_genes_same_schema_20260525.parquet ADDED
@@ -0,0 +1,3 @@
 
 
 
 
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+ oid sha256:addc03a0ec9fc7a84e62618c01d9294c45546fe295a7301f0a03f3a9736036d2
3
+ size 28025549
external_reference/compound_atlases/control_transcriptome_expansion_20260525/control_30_signature_metadata_same_schema_20260525.parquet ADDED
@@ -0,0 +1,3 @@
 
 
 
 
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+ oid sha256:18da15cbd81c9d5b7758e95dcefe8e14759ae7077a41d59f24f7300a77ea8b75
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+ size 58116
external_reference/compound_atlases/control_transcriptome_expansion_20260525/control_40_rank_signatures_top_genes_same_schema_20260525.parquet ADDED
@@ -0,0 +1,3 @@
 
 
 
 
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+ oid sha256:b8e7f9c45c56ab10d78582be682eaf71bfd4ba65046da65e5c87183572f35cb8
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external_reference/compound_atlases/control_transcriptome_expansion_20260525/control_40_signature_metadata_same_schema_20260525.parquet ADDED
@@ -0,0 +1,3 @@
 
 
 
 
1
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+ oid sha256:9d8c4f97f4374cc878d1392e5aba167757b22ab38cbce1ebbad14a3eaa6fc487
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+ size 59728
external_reference/compound_atlases/control_transcriptome_expansion_20260525/control_transcriptome_expansion_file_manifest_20260525.csv ADDED
@@ -0,0 +1,11 @@
 
 
 
 
 
 
 
 
 
 
 
 
1
+ relative_path,bytes,sha256
2
+ compound_atlases\lincs_l1000\processed\lincs_l1000_signature_metadata_additional_29_sigcom_20260525.parquet,56950,d22c98eb957424a5403f6fe68b4f06d7e08843a5fd1ece8a4fd8f097a8ebfe1e
3
+ compound_atlases\lincs_l1000\processed\lincs_l1000_rank_signatures_top_genes_additional_29_sigcom_20260525.parquet,32745804,d32bb69bb2a459b37cea0ee606e90bf1b89355cdc5daf687f1fcf4d0fd65ee45
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+ compound_atlases\lincs_l1000\processed\lincs_l1000_fetch_manifest_additional_29_sigcom_20260525.csv,2139169,b3f94bedfc4db446a7d8fc3255f65f6f5042f31a54bb1e573392ea1ee1aacce5
5
+ compound_atlases\tahoe_100m\processed\tahoe_100m_signature_metadata_capmatinib_harmonizome_20260525.parquet,5621,f8348b307f78f0f00e1467028e160814cfe9a53bbc925201c91d655c09718053
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+ compound_atlases\tahoe_100m\processed\tahoe_100m_rank_signatures_top_genes_capmatinib_harmonizome_20260525.parquet,136141,62634eacbdb85170e557064c34a643a0f5900488ab8ee5ef2ccfa9f7c0735d5f
7
+ compound_atlases\tahoe_100m\processed\tahoe_100m_fetch_manifest_capmatinib_harmonizome_20260525.csv,14813,0cc9ffe912758d279048bc51090895ba8fac9c3625e786ee7fcad76aaacdb425
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+ compound_atlases\control_transcriptome_expansion_20260525\control_30_signature_metadata_same_schema_20260525.parquet,58116,18da15cbd81c9d5b7758e95dcefe8e14759ae7077a41d59f24f7300a77ea8b75
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+ compound_atlases\control_transcriptome_expansion_20260525\control_40_signature_metadata_same_schema_20260525.parquet,59728,9d8c4f97f4374cc878d1392e5aba167757b22ab38cbce1ebbad14a3eaa6fc487
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external_reference/compound_atlases/control_transcriptome_expansion_20260525/lincs_l1000_fetch_manifest_additional_29_sigcom_20260525.csv ADDED
The diff for this file is too large to render. See raw diff
 
external_reference/compound_atlases/control_transcriptome_expansion_20260525/lincs_l1000_rank_signatures_top_genes_additional_29_sigcom_20260525.parquet ADDED
@@ -0,0 +1,3 @@
 
 
 
 
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+ version https://git-lfs.github.com/spec/v1
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+ oid sha256:c56bcd089328b0918064975746d54f0d6093b73cf12ce52f21e7f6c1272bf7bc
3
+ size 26438754
external_reference/compound_atlases/control_transcriptome_expansion_20260525/lincs_l1000_signature_metadata_additional_29_sigcom_20260525.parquet ADDED
@@ -0,0 +1,3 @@
 
 
 
 
1
+ version https://git-lfs.github.com/spec/v1
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+ oid sha256:d22c98eb957424a5403f6fe68b4f06d7e08843a5fd1ece8a4fd8f097a8ebfe1e
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+ size 56950
external_reference/compound_atlases/control_transcriptome_expansion_20260525/summary_control_transcriptome_expansion_20260525.json ADDED
@@ -0,0 +1,45 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ {
2
+ "generated": "2026-05-25",
3
+ "schema_metadata_columns": [
4
+ "signature_id",
5
+ "cell_line",
6
+ "compound_name",
7
+ "zscreen_compound",
8
+ "phase",
9
+ "pert_idose",
10
+ "pert_itime"
11
+ ],
12
+ "schema_rank_columns": [
13
+ "signature_id",
14
+ "cell_line",
15
+ "compound_name",
16
+ "zscreen_compound",
17
+ "phase",
18
+ "pert_idose",
19
+ "pert_itime",
20
+ "gene",
21
+ "effect",
22
+ "direction",
23
+ "rank"
24
+ ],
25
+ "existing_local_ready_lincs_controls": 10,
26
+ "existing_local_ready_lincs_signatures": 108,
27
+ "additional_lincs_controls": 29,
28
+ "additional_lincs_signatures": 5463,
29
+ "additional_lincs_rank_rows": 2731500,
30
+ "additional_tahoe_controls": 1,
31
+ "additional_tahoe_signatures": 50,
32
+ "additional_tahoe_rank_rows": 9954,
33
+ "additional_30_controls": 30,
34
+ "additional_30_signatures": 5513,
35
+ "additional_30_rank_rows": 2741454,
36
+ "control_40_union_controls": 40,
37
+ "control_40_union_signatures": 5621,
38
+ "control_40_union_rank_rows": 2795454,
39
+ "notes": [
40
+ "The original 10 local-ready LINCS files were not overwritten.",
41
+ "The additional 30 package uses the same metadata and rank-signature column schema as the existing LINCS processed files.",
42
+ "Twenty-nine additional controls came from LINCS/SigCom persistent TSVs.",
43
+ "Capmatinib had no LINCS/SigCom signature in the audit and is packaged from Tahoe-100M/Harmonizome3 differential-expression gene sets."
44
+ ]
45
+ }
external_reference/compound_atlases/control_transcriptome_expansion_20260525/tahoe_100m_fetch_manifest_capmatinib_harmonizome_20260525.csv ADDED
@@ -0,0 +1,51 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ signature_id,cell_line,compound_name,zscreen_compound,phase,pert_idose,pert_itime,source,persistent_id,status,rank_rows,error
2
+ Tahoe100M_Harmonizome3::Capmatinib::NCI-H460,NCI-H460,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_NCI-H460/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
3
+ Tahoe100M_Harmonizome3::Capmatinib::SW 1088,SW 1088,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SW+1088/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
4
+ Tahoe100M_Harmonizome3::Capmatinib::RKO,RKO,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_RKO/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
5
+ Tahoe100M_Harmonizome3::Capmatinib::HepG2,HepG2,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_HepG2%24slash%24C3A/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
6
+ Tahoe100M_Harmonizome3::Capmatinib::BT-474,BT-474,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_BT-474/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
7
+ Tahoe100M_Harmonizome3::Capmatinib::NCI-H2122,NCI-H2122,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_NCI-H2122/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
8
+ Tahoe100M_Harmonizome3::Capmatinib::A-172,A-172,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_A-172/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
9
+ Tahoe100M_Harmonizome3::Capmatinib::SW 1271,SW 1271,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SW+1271/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
10
+ Tahoe100M_Harmonizome3::Capmatinib::A549,A549,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_A549/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
11
+ Tahoe100M_Harmonizome3::Capmatinib::SW48,SW48,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SW48/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
12
+ Tahoe100M_Harmonizome3::Capmatinib::NCI-H1792,NCI-H1792,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_NCI-H1792/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
13
+ Tahoe100M_Harmonizome3::Capmatinib::J82,J82,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_J82/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
14
+ Tahoe100M_Harmonizome3::Capmatinib::MIA PaCa-2,MIA PaCa-2,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_MIA+PaCa-2/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
15
+ Tahoe100M_Harmonizome3::Capmatinib::C32,C32,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_C32/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
16
+ Tahoe100M_Harmonizome3::Capmatinib::A498,A498,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_A498/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
17
+ Tahoe100M_Harmonizome3::Capmatinib::Panc 03.27,Panc 03.27,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_Panc+03.27/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
18
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19
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20
+ Tahoe100M_Harmonizome3::Capmatinib::HT-29,HT-29,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_HT-29/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
21
+ Tahoe100M_Harmonizome3::Capmatinib::NCI-H2030,NCI-H2030,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_NCI-H2030/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
22
+ Tahoe100M_Harmonizome3::Capmatinib::AsPC-1,AsPC-1,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_AsPC-1/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
23
+ Tahoe100M_Harmonizome3::Capmatinib::SW1417,SW1417,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SW1417/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
24
+ Tahoe100M_Harmonizome3::Capmatinib::LS 180,LS 180,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_LS+180/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
25
+ Tahoe100M_Harmonizome3::Capmatinib::A-427,A-427,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_A-427/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
26
+ Tahoe100M_Harmonizome3::Capmatinib::NCI-H1573,NCI-H1573,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_NCI-H1573/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
27
+ Tahoe100M_Harmonizome3::Capmatinib::AN3 CA,AN3 CA,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_AN3+CA/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
28
+ Tahoe100M_Harmonizome3::Capmatinib::HS-578T,HS-578T,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_HS-578T/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
29
+ Tahoe100M_Harmonizome3::Capmatinib::COLO 205,COLO 205,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_COLO+205/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
30
+ Tahoe100M_Harmonizome3::Capmatinib::hTERT-HPNE,hTERT-HPNE,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_hTERT-HPNE/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
31
+ Tahoe100M_Harmonizome3::Capmatinib::CHP-212,CHP-212,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_CHP-212/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
32
+ Tahoe100M_Harmonizome3::Capmatinib::SW 900,SW 900,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SW+900/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
33
+ Tahoe100M_Harmonizome3::Capmatinib::HEC-1-A,HEC-1-A,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_HEC-1-A/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
34
+ Tahoe100M_Harmonizome3::Capmatinib::NCI-H23,NCI-H23,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_NCI-H23/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
35
+ Tahoe100M_Harmonizome3::Capmatinib::Hs 766T,Hs 766T,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_Hs+766T/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
36
+ Tahoe100M_Harmonizome3::Capmatinib::SK-MEL-2,SK-MEL-2,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SK-MEL-2/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
37
+ Tahoe100M_Harmonizome3::Capmatinib::SHP-77,SHP-77,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SHP-77/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
38
+ Tahoe100M_Harmonizome3::Capmatinib::NCI-H661,NCI-H661,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_NCI-H661/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
39
+ Tahoe100M_Harmonizome3::Capmatinib::HOP62,HOP62,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_HOP62/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
40
+ Tahoe100M_Harmonizome3::Capmatinib::KATO III,KATO III,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_KATO+III/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
41
+ Tahoe100M_Harmonizome3::Capmatinib::C-33 A,C-33 A,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_C-33+A/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
42
+ Tahoe100M_Harmonizome3::Capmatinib::HCT15,HCT15,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_HCT15/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
43
+ Tahoe100M_Harmonizome3::Capmatinib::NCI-H596,NCI-H596,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_NCI-H596/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,154,
44
+ Tahoe100M_Harmonizome3::Capmatinib::LOX-IMVI,LOX-IMVI,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_LOX-IMVI/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
45
+ Tahoe100M_Harmonizome3::Capmatinib::PANC-1,PANC-1,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_PANC-1/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
46
+ Tahoe100M_Harmonizome3::Capmatinib::RPMI-7951,RPMI-7951,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_RPMI-7951/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
47
+ Tahoe100M_Harmonizome3::Capmatinib::LoVo,LoVo,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_LoVo/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
48
+ Tahoe100M_Harmonizome3::Capmatinib::SW480,SW480,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SW480/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
49
+ Tahoe100M_Harmonizome3::Capmatinib::SNU-423,SNU-423,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SNU-423/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
50
+ Tahoe100M_Harmonizome3::Capmatinib::SNU-1,SNU-1,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SNU-1/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
51
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+ signature_id,cell_line,compound_name,zscreen_compound,phase,pert_idose,pert_itime,source,persistent_id,status,rank_rows,error
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+ Tahoe100M_Harmonizome3::Capmatinib::NCI-H460,NCI-H460,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_NCI-H460/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
3
+ Tahoe100M_Harmonizome3::Capmatinib::SW 1088,SW 1088,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SW+1088/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
4
+ Tahoe100M_Harmonizome3::Capmatinib::RKO,RKO,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_RKO/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
5
+ Tahoe100M_Harmonizome3::Capmatinib::HepG2,HepG2,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_HepG2%24slash%24C3A/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
6
+ Tahoe100M_Harmonizome3::Capmatinib::BT-474,BT-474,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_BT-474/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
7
+ Tahoe100M_Harmonizome3::Capmatinib::NCI-H2122,NCI-H2122,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_NCI-H2122/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
8
+ Tahoe100M_Harmonizome3::Capmatinib::A-172,A-172,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_A-172/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
9
+ Tahoe100M_Harmonizome3::Capmatinib::SW 1271,SW 1271,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SW+1271/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
10
+ Tahoe100M_Harmonizome3::Capmatinib::A549,A549,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_A549/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
11
+ Tahoe100M_Harmonizome3::Capmatinib::SW48,SW48,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SW48/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
12
+ Tahoe100M_Harmonizome3::Capmatinib::NCI-H1792,NCI-H1792,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_NCI-H1792/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
13
+ Tahoe100M_Harmonizome3::Capmatinib::J82,J82,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_J82/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
14
+ Tahoe100M_Harmonizome3::Capmatinib::MIA PaCa-2,MIA PaCa-2,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_MIA+PaCa-2/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
15
+ Tahoe100M_Harmonizome3::Capmatinib::C32,C32,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_C32/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
16
+ Tahoe100M_Harmonizome3::Capmatinib::A498,A498,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_A498/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
17
+ Tahoe100M_Harmonizome3::Capmatinib::Panc 03.27,Panc 03.27,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_Panc+03.27/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
18
+ Tahoe100M_Harmonizome3::Capmatinib::NCI-H2347,NCI-H2347,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_NCI-H2347/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
19
+ Tahoe100M_Harmonizome3::Capmatinib::H4,H4,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_H4/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
20
+ Tahoe100M_Harmonizome3::Capmatinib::HT-29,HT-29,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_HT-29/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
21
+ Tahoe100M_Harmonizome3::Capmatinib::NCI-H2030,NCI-H2030,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_NCI-H2030/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
22
+ Tahoe100M_Harmonizome3::Capmatinib::AsPC-1,AsPC-1,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_AsPC-1/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
23
+ Tahoe100M_Harmonizome3::Capmatinib::SW1417,SW1417,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SW1417/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
24
+ Tahoe100M_Harmonizome3::Capmatinib::LS 180,LS 180,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_LS+180/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
25
+ Tahoe100M_Harmonizome3::Capmatinib::A-427,A-427,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_A-427/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
26
+ Tahoe100M_Harmonizome3::Capmatinib::NCI-H1573,NCI-H1573,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_NCI-H1573/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
27
+ Tahoe100M_Harmonizome3::Capmatinib::AN3 CA,AN3 CA,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_AN3+CA/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
28
+ Tahoe100M_Harmonizome3::Capmatinib::HS-578T,HS-578T,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_HS-578T/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
29
+ Tahoe100M_Harmonizome3::Capmatinib::COLO 205,COLO 205,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_COLO+205/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
30
+ Tahoe100M_Harmonizome3::Capmatinib::hTERT-HPNE,hTERT-HPNE,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_hTERT-HPNE/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
31
+ Tahoe100M_Harmonizome3::Capmatinib::CHP-212,CHP-212,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_CHP-212/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
32
+ Tahoe100M_Harmonizome3::Capmatinib::SW 900,SW 900,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SW+900/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
33
+ Tahoe100M_Harmonizome3::Capmatinib::HEC-1-A,HEC-1-A,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_HEC-1-A/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
34
+ Tahoe100M_Harmonizome3::Capmatinib::NCI-H23,NCI-H23,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_NCI-H23/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
35
+ Tahoe100M_Harmonizome3::Capmatinib::Hs 766T,Hs 766T,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_Hs+766T/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
36
+ Tahoe100M_Harmonizome3::Capmatinib::SK-MEL-2,SK-MEL-2,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SK-MEL-2/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
37
+ Tahoe100M_Harmonizome3::Capmatinib::SHP-77,SHP-77,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SHP-77/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
38
+ Tahoe100M_Harmonizome3::Capmatinib::NCI-H661,NCI-H661,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_NCI-H661/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
39
+ Tahoe100M_Harmonizome3::Capmatinib::HOP62,HOP62,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_HOP62/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
40
+ Tahoe100M_Harmonizome3::Capmatinib::KATO III,KATO III,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_KATO+III/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
41
+ Tahoe100M_Harmonizome3::Capmatinib::C-33 A,C-33 A,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_C-33+A/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
42
+ Tahoe100M_Harmonizome3::Capmatinib::HCT15,HCT15,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_HCT15/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
43
+ Tahoe100M_Harmonizome3::Capmatinib::NCI-H596,NCI-H596,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_NCI-H596/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,154,
44
+ Tahoe100M_Harmonizome3::Capmatinib::LOX-IMVI,LOX-IMVI,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_LOX-IMVI/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
45
+ Tahoe100M_Harmonizome3::Capmatinib::PANC-1,PANC-1,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_PANC-1/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
46
+ Tahoe100M_Harmonizome3::Capmatinib::RPMI-7951,RPMI-7951,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_RPMI-7951/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
47
+ Tahoe100M_Harmonizome3::Capmatinib::LoVo,LoVo,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_LoVo/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
48
+ Tahoe100M_Harmonizome3::Capmatinib::SW480,SW480,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SW480/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
49
+ Tahoe100M_Harmonizome3::Capmatinib::SNU-423,SNU-423,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SNU-423/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
50
+ Tahoe100M_Harmonizome3::Capmatinib::SNU-1,SNU-1,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_SNU-1/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
51
+ Tahoe100M_Harmonizome3::Capmatinib::CFPAC-1,CFPAC-1,Capmatinib,Capmatinib,Tahoe100M_Harmonizome3,,,Harmonizome3 Tahoe Therapeutics Tahoe 100M Perturbation Atlas API,https://maayanlab.cloud/Harmonizome/api/1.0/gene_set/Capmatinib_CFPAC-1/Tahoe+Therapeutics+Tahoe+100M+Perturbation+Atlas,ok,200,
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