Archive 4 checkpoints (1-4)

paper-releases/pbisc-diffusion/updates/20260930T065633Z-summary-deck-scsemi-final/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/sec01_corpus_datasets.csv

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+rank,label,cells,base_rows,overlay_rows,n_source_files,dataset_id,source
+1,Sound Life,13789548,13789548,0,8,065_A_GSE271896_GSE271896_Sound_Life_deep_longitudinal_immune_profiling,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+2,Parse 10M cytokine,9697974,9697974,0,39,304_A_Parse_10M_PBMC_12donor_90cytokines,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+3,RA at-risk (Savage),4117384,4117384,0,239,061_A_GSE274680_Savage_Allen_RA_at-risk_longitudinal_progression_PBMC_multi-omic_cohort,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+4,Immunobiology of Aging,3758514,3758514,0,1,200_A_GSE275067_Immunobiology_of_Aging_Cohort_PBMC_Profiling,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+5,AIFI Health Atlas,1821725,1821725,0,1,009_A_Human_Immune_Health_Atlas_Human_Immune_Health_Atlas_AIFI_immune_dynamics_across_healthy_age,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+6,AIDA,1265624,1239604,26020,1,006_A_collection_ced320a1-29f3-47c1-a735-513c7084d5_AIDA_Asian_Immune_Diversity_Atlas,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+7,Perez SLE,1263676,1255411,8265,1,001_A_collection_436154da-bcf1-4130-9c8b-120ff9a888_Perez_et_al._lupus_PBMC_cell-type-specific_molecular_genetic_associations_to_lup,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+8,OneK1K,1248980,1248849,131,1,005_A_collection_dde06e0f-ab3b-46be-96a2-a8082383c4_OneK1K_Yazar_et_al._single-cell_eQTL_mapping,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+9,cHSPC aging / MDS,1011884,987229,24655,2,204_B_CELLxGENE_cHSPC_aging_MDS_Human_circulating_hematopoietic_stem_and_progenitor_cells_in_aging_cytopenia_and,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+10,COMBAT,836148,777143,59005,1,074_A_COMBAT_CELLxGENE_collection_COMBAT_CELLxGENE_collection,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+11,ScaleBio PBMC,685024,685024,0,1,010_A_collection_4a9fd4d7-d870-4265-89a5-ad51ab811d_ScaleBio_single-cell_RNA_sequencing_of_human_PBMCs,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+12,Indonesia diversity,462034,460077,1957,1,203_B_CELLxGENE_665714af_Ancestral_and_environmental_diversity_shape_the_immune_landscape_in_Indonesia,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+13,SARS-CoV-2 local/systemic,422220,418627,3593,1,093_C_Local_and_systemic_SARS-CoV-2_response_CELLxG_Local_and_systemic_SARS-CoV-2_response_CELLxGENE,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+14,Fatal COVID time course,372081,371907,174,2,202_B_GSE161918_Time-resolved_Systems_Immunology_Reveals_a_Late_Juncture_Linked_to_Fatal_COVID-1,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+15,Hao CITE-seq,161764,161159,605,1,053_B_collection_b0cf0afa-ec40-4d65-b570-ed4ceacc68_Integrated_analysis_of_multimodal_single-cell_data_CITE-seq_PBMC,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+16,Miao RA,108717,108717,0,1,007_A_collection_e1a9ca56-f2ee-435d-980a-4f49ab7a95_Miao_et_al._RA_PBMC_disease_activity-associated_PBMC_subsets,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+17,JDM CITE-seq,105827,105827,0,1,071_C_JDM_CITE-seq_PBMC_CELLxGENE_JDM_CITE-seq_PBMC_CELLxGENE,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+18,COVID immunodeficiency,97499,97499,0,1,058_B_collection_eb735cc9-d0a7-48fa-b255-db726bf365_COVID_PBMC_nasal_swab_donors_with_immunodeficiencies_and_autoimmune_conditions,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+19,SLE IL-36 stim,64752,64752,0,1,302_A_GSE314010_SLE_IL36_stim_PBMC_scRNAseq,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+20,COVID atlas (Seq-Well),44721,44721,0,1,081_B_Single-cell_atlas_of_peripheral_immune_respon_Single-cell_atlas_of_peripheral_immune_response_to_SARS-CoV-2,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+21,DRESS / DiHS,34051,34051,0,1,300b_A_GSE132802_DRESS_DiHS_PBMC_only_scRNAseq,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id
+22,SLE B-cell study,25037,25037,0,1,301_A_GSE163121_SLE_healthy_Bcell_PBMC_scRNAseq,/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/dataset_manifest.json :: source_audit[].base_rows + overlay_rows (= raw_rows) summed by dataset_id; equals /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/full_recipe_allcells_6k_broad_20260909/topup_v1/shard_offsets.csv n_cells by dataset_id