id  name

syn21991015 41591_2018_16_MOESM8_ESM_CNV_ANNOT.txt

syn21991016 450array_methylation_GMM_profile_3m.txt

syn21991017 aml_bm_hla2tscore_comparison.txt

syn21991018 aml_bm_tnk_cytscore_comparison.txt

syn21991020 AML_Galen_scRNA.Rdata

syn21991021 analysis

syn21991025 analysis.zip

syn21991026 BeatAML_cohorts.pdf

syn21991027 BeatAML_cytscore_correlations.tsv

syn21991028 BeatAML_fm_annot.Rdata

syn21991029 BeatAML_fm.Rdata

syn21991030 BeatAML_subtypes.Rdata

syn21991031 BeatAML_survival_data.Rdata

syn21991032 bindea_scores.Rdata

syn21991033 cancermap_GSE86952_AML_15pct_genes_BH-SNE_mean-shift_BW1.5.txt

syn21991041 CCLE_combined_methylation.Rdata

syn21991052 CCLE_DepMap_18q3_RNAseq_RPKM_20180718.gct

syn21991109 CCLE_RNASEQ_SYMBOL_COUNTS.Rdata

syn21991114 CCLE_RNASEQ_SYMBOL_RPKM.Rdata

syn21991115 CCLE_RRBS_TSS_1kb_20180614.txt

syn21991117 CCLE_RRBS_TSS_CpG_clusters_20180614.txt

syn21991118 CCLE_sample_info_file_2012-10-18_modified.csv

syn21991119 CCLE_sample_info_file_2012-10-18.txt

syn21991120 cd70_crispr_flow_cytometry.txt

syn21991121 CD8_NK_normals.pdf

syn21991122 CEBPA_mutations.txt

syn21991123 cellphonedb

syn21991157 cga.txt

syn21991158 Chapuy_DLBCL_subtypes.Rdata

syn21991159 CIBERSORT-Results.txt

syn21991160 CIITA_HLAII_correlation.pdf

syn21991161 CLL_D0_scRNA.Rdata

syn21991162 colors_hemap_immunology.tsv

syn21991163 colors_lineage.txt

syn21991164 Combined_pathway_signatures_2017_filtered_robust.gmt

syn21991165 Combined_pathway_signatures_2017_filtered_robust.Rdata

syn21991166 CoMMpass_MM_cohorts.pdf

syn21991167 CoMMpass_MM_subtypes.Rdata

syn21991168 CoMMpass_survival_data.Rdata

syn21991169 Compare_NK_CD8.pdf

syn21991170 costim_ligands_final.txt

syn21991171 CpGexpanded_annotations.Rdata

syn21991172 CpGregion_annotations.Rdata

syn21991173 CpGregion_CIITA_annotations.Rdata

syn21991174 CTdatabase.txt

syn21991175 cytogenetics_GSE49031.txt

syn21991176 Cytolytic_all_normal_genes.pdf

syn21991177 cytolytic_genes_best_separation.pdf

syn21991178 data_meth_parse.txt

syn21991190 data9544_with_gene_symbols.RData

syn21991191 DepMap-2018q3-celllines.csv

syn21991192 DLBC.rnaseqv2.counts.Rdata

syn21991193 drive-download-20200428T095405Z-001.zip

syn21991194 dufva_bindea_2013_geneset_listA_tempfile.Rdata

syn21991195 dufva_mw_hgt_pval_all_TNKspecific_genes.Rdata

syn21991196 dufva_mw_hgt_pval_cancer_overexpressed.Rdata

syn21991197 dufva_mw_hgt_pval_normal_expressed.Rdata

syn21991203 DUFVA_TCGA_AML_FM_meth.Rdata

syn21991204 DUFVA_TCGA_DLBCL_FM_meth.Rdata

syn21991205 Fig1B_S1C.pdf

syn21991206 Fig1F.pdf

syn21991207 Fig1G.pdf

syn21991208 Fig1H.pdf

syn21991209 Fig3K_IFNG_analysis.pdf

syn21991210 Fig4G_CIITA_CpG_Volcanoplot.pdf

syn21991211 Fig4H_boxplot_CIITA_CpG.pdf

syn21991212 Fig5B_ALL.pdf

syn21991213 Fig5B_AML.pdf

syn21991214 Fig5B_DLBCL.pdf

syn21991215 Fig5B_MM.pdf

syn21991217 Fig6C_FigS6B_HEMAP_CGA_heatmap.pdf

syn21991218 Fig6D_CCLE_ComplexHeatmap_testis_antigens.pdf

syn21991219 Fig6H_FigS6H__GSE98588_DLBCL_ABC_CGA_heatmap.pdf

syn21991220 Fig6H_FigS6H__GSE98588_DLBCL_CGA_heatmap.pdf

syn21991221 Fig6H_FigS6H_GSE98588_DLBCL_ABC_CGA_heatmap.pdf

syn21991222 Fig6H_FigS6H_GSE98588_DLBCL_GCB_CGA_heatmap.pdf

syn21991223 Fig7A_univariate_forestPlot.pdf

syn21991224 Fig7B_KM_VISTA.pdf

syn21991225 Fig7D_KM_CD163_LYZ.pdf

syn21991227 Fig7E_Chapuy_model_fm_complexheatmap.pdf

syn21991228 Fig7E_CoMMpass_model_fm_complexheatmap.pdf

syn21991229 Fig7F_Chapuy_model_fm_complexheatmap.pdf

syn21991230 Figre2B_NormalCells.pdf

syn21991231 FigS1GtoI.pdf

syn21991232 FigS3O_IFNG_analysis_vln.pdf

syn21991233 FigS4D_Global_hypermethylation_HLAIIlow_TCGA_clusters.pdf

syn21991234 FigS4J_GSE49031_CIITA_methylation.pdf

syn21991236 FigS4K_CCLE_CIITA_methylation.pdf

syn21991237 FigS4L_Euclidean.pdf

syn21991238 FigS5A_FigS3D_Fig6E_FigS6F_subtypes_scatterplot.pdf

syn21991239 FigS5B_dotplot.pdf

syn21991240 FigS5C_VISTA_FIMM_dotplot.pdf

syn21991241 FigS6B_TSNE_CGA_hemap.pdf

syn21991242 FigS6F_TSNE_CGA_hemap_MM_subtypes.pdf

syn21991243 FigS6G_CGA_GSVA_GSE16716_GSE24080.pdf

syn21991244 FigS6I_GSE98588_DLBCL_ABC_CytScore.pdf

syn21991245 FigS7A_CGA_CoMMpass.pdf

syn21991246 FigS7A_CGA_Hemap.pdf

syn21991247 FigS7B_univariate_pancan_forestPlot.pdf

syn21991248 FigS7C_MM_model_cox.pdf

syn21991249 FigS7D_DLBCL_model_cox.pdf

syn21991250 FigS7E_Risk_AML_validation.pdf

syn21991251 FigS7F_Subset_data_model.pdf

syn21991252 FigS7G_BeatAML_model_fm_complexheatmap.pdf

syn21991253 Figure_S3M_FIMM_AML_reclustered_Tcell.pdf

syn21991254 Figure1C_AML_cytolytic_score_flow_scatter.pdf

syn21991255 Figure2A.pdf

syn21991256 Figure2A.pdf-g48-683.png

syn21991257 Figure2B.pdf

syn21991258 Figure3A_DLBCL_cytscore_oncoprint.pdf

syn21991260 Figure3BC_DLBCL_cytscore_boxplots.pdf

syn21991261 FIgure3D_TCGA_AML_cytscore_oncoprint.pdf

syn21991262 Figure3E_FigureS3D.pdf

syn21991263 Figure3F.pdf_fm_scatterplot.pdf

syn21991264 Figure3G.pdf_fm_scatterplot.pdf

syn21991265 Figure3H_blast_proportion_HCA.pdf

syn21991266 Figure3H_blast_proportion.pdf

syn21991267 Figure3H_CTL_NK_proportion_HCA.pdf

syn21991268 Figure3H_CTL_NK_proportion.pdf

syn21991269 Figure3I_Density_MDSlike_Tcell.pdf

syn21991271 Figure3I_FigureS3M_Szabo_markers_FIMM_AML_HCA_Tcells_Scores_blend.pdf

syn21991272 Figure3J_Density_MDSlike_NKcell.pdf

syn21991273 Figure3J_Yang_markers_FIMM_AML_HCA_Yang_NKcells_Scores_blend.pdf

syn21991275 Figure3K_CellPhoneDB.pdf

syn21991276 Figure4D_TCGA_AML_ComplexHeatmap_CIITA_gexp.pdf

syn21991277 Figure5A_Hemap_ligands_heatmap.pdf

syn21991278 Figure5C_TCGA_AML_ligand_correlations_volcanoplot.pdf

syn21991279 Figure5D_DLBCL_GSE98588_CD70_boxplot.pdf

syn21991280 Figure5D_DLBCL_GSE98588_ligand_correlations_volcanoplot.pdf

syn21991281 Figure5E_PDL1_IHC_boxplot.pdf

syn21991282 Figure5F_VISTA_IHC_boxplot.pdf

syn21991283 Figure5G_CD70_CRISPR_T_cell_stimulation.pdf

syn21991284 Figure6D_CCLE_CGA_heatmap.pdf

syn21991285 Figure6F_CoMMpass_CGA_subtype_boxplot.pdf

syn21991286 Figure6G_CoMMpass_CGA_oncoprint.pdf

syn21991287 Figure6H_DLBCL_GSE98588_CGA_oncoprint.pdf

syn21991288 FigureS1E_AML_cytolytic_score_flow_TNKseparately_scatter.pdf

syn21991289 FigureS2A.pdf

syn21991290 FigureS2B.pdf

syn21991291 FigureS2C.pdf

syn21991292 FigureS2D.pdf

syn21991293 FigureS2E.pdf

syn21991294 FigureS3B_DLBCL_ABC_cytscore_oncoprint.pdf

syn21991295 FigureS3C_DLBCL_GCB_cytscore_oncoprint.pdf

syn21991296 FigureS3K.pdf

syn21991297 FigureS3L.pdf

syn21991298 FigureS3M_singleR_fm_scatterplot.pdf

syn21991299 FigureS3M_Szabo_markers_FIMM_AML_HCA_Tcells_Scores_scaled.pdf

syn21991300 FigureS3N_NK_FIMM_AML_reclustered.pdf

syn21991301 FigureS3N_Yang_markers_FIMM_AML_HCA_Yang_NKcells_Scores_scaled.pdf

syn21991302 FigureS4A_HLAII_Significant_genes.pdf

syn21991303 FigureS4B_HLAII_corHeatmap2.pdf

syn21991307 FigureS4C_AML_HLAIIscore_flow_RNAseq_scatter.pdf

syn21991308 FigureS5F_TCGA_DLBCL_ligand_correlations_volcanoplot.pdf

syn21991309 FigureS5G_DLBCL_GSE98588_MICB_TNFRSF14_CD274_PDCD1LG2_boxplot.pdf

syn21991310 FigureS6C_Hemap_CGA_dotplots.pdf

syn21991311 FigureS6D_TCGA_DLBCL_AML_methylation_MAGEB1_heatmap.pdf

syn21991312 FigureS6D_TCGA_DLBCL_AML_methylation_MAGEB2_heatmap.pdf

syn21991313 FigureS6E_CoMMpass_CGA_heatmap.pdf

syn21991314 FIMM_AML_erythroid_genes.pdf

syn21991316 FIMM_AML_HCA_T_scRNA.Rdata

syn21991317 FIMM_AML_HCA_Yang_NK_scRNA.Rdata

syn21991318 FIMM_AML_HSC_genes.pdf

syn21991319 FIMM_AML_Lineage_fm_scatterplot.pdf

syn21991320 FIMM_AML_MDS_samples_fm_scatterplot.pdf

syn21991338 FIMM_AML_scRNA.Rdata

syn21991339 GPL13534_HumanMethylation450_15017482_v.1.1.csv

syn21991340 GSE49031_ciita.txt

syn21991350 GSE49031_processed.txt

syn21991351 GSE86952_gsm2patient.txt

syn21991352 GSE98588_annot.Rdata

syn21991353 GSE98588_DLBCL_ABC_HLA.pdf

syn21991354 GSE98588_DLBCL_ABC_HLAII.pdf

syn21991355 GSE98588_DLBCL_ABC_TNFA.pdf

syn21991356 GSE98588_DLBCL_mixtureM_profile.Rdata

syn21991357 GSE98588_DLBCL_survival_data.Rdata

syn21991358 GSE98588_fm.Rdata

syn21991359 GSE98588_symbol_rma_normalized.Rdata

syn21991360 GSEA

syn21994862 GSVA_MM_COMPASS_scores.Rdata

syn21994863 GTEx_Analysis_v6p_RNA-seq_RNA-SeQCv1.1.8_gene_median_rpkm.gct

syn21994864 GTEx_Analysis_v6p_RNA-seq_RNA-SeQCv1.1.8_gene_median_rpkm.txt

syn21994865 HALLMARKS.gmt

syn21994866 HCA_erythroid_genes.pdf

syn21994867 HCA_HSC_erythroid_genes_filt.pdf

syn21994868 HCA_HSC_genes.pdf

syn21995190 HCA_scRNA.Rdata

syn21995192 Hemap_ALL_subtypes.Rdata

syn21995194 Hemap_AML_cox_datasets_filt_adj20_revision.Rdata

syn21995203 Hemap_AML_subtypes.Rdata

syn21995208 Hemap_AML_survival_data.Rdata

syn21995211 Hemap_cytolytic_correlated_genes_TableS2_onlysignif.Rdata

syn21995212 Hemap_cytolytic_correlated_genes_TableS2.txt

syn21995213 Hemap_DLBCL_cox_datasets_filt_adj20_revision.Rdata

syn21995214 Hemap_DLBCL_subtypes.Rdata

syn21995215 Hemap_DLBCL_survival_data.Rdata

syn21995216 Hemap_immunology_Annotations.Rdata

syn21995217 Hemap_microenvironment_summary_statistics.Rdata

syn21995218 Hemap_MM_cox_datasets_filt_adj20_revision.Rdata

syn21995219 Hemap_MM_subtypes.Rdata

syn21995234 Hemap_MM_survival_data.Rdata

syn21995235 HLAII_low_samples_Zscore_minus1.txt

syn21995236 HLAIIScore_APC_nonAPC_Allgroups.Rdata

syn21995237 HLAIIScore_APC_nonAPC.Rdata

syn21995238 LAML.rnaseqv2.counts.Rdata

syn21995239 ligands.xlsx

syn21995240 logical_matrix_subtypes_GSE47051.txt

syn21995241 markers.all.filt.allgenes.Rdata

syn21995242 MCP_counter_data.Rdata

syn21995243 MDS_genesets.Rdata

syn21995244 MDS_signature_markers_celltype_AML.txt

syn21995403 meth_hlalow_pml.Rdata

syn21995419 mixtureM_profile.Rdata

syn21995423 MM_COMPASS_ANNOT.Rdata

syn21995455 MM_COMPASS_FM.Rdata

syn21995456 MM_model_cox_subset.pdf

syn21995479 myDiffSigboth_hlalow_pml.Rdata

syn21995481 pdl1_ihc.txt

syn21995497 Pecan_ALL_835_subtypes.Rdata

syn21995526 PecanALL_subtypes.Rdata

syn21995527 probenames.txt

syn21995528 REDDY_DLBCL_annot.Rdata

syn21995529 REDDY_DLBCL_fm.Rdata

syn21995531 Reddy_DLBCL_subtypes.Rdata

syn21995553 Reddy_DLBCL_survival_data.Rdata

syn21995556 refGene_coding_transcripts.bed

syn21995561 refGene_non_coding_transcripts.bed

syn21995565 reRMA210915.RData

syn21995568 Risk_MM_validation.pdf

syn21995569 Rplots.pdf

syn21995573 Szabo_HCA_AML_cluster_cell.Rdata

syn21995610 Szabo_Tcell_BM_scRNA.Rdata

syn21995612 Szabo_Tcell_markers.txt

syn21995615 t.antigen_df.txt

syn21995617 TableS2.txt

syn21995621 TableS3_BeatAML_cytscore_correlations.tsv

syn21995624 TableS3_GSE98588_DLBCL_CytScore_correlations_ABC_all.tsv

syn21995628 TableS3_GSE98588_DLBCL_CytScore_correlations_ABC.tsv

syn21995632 TableS3_GSE98588_DLBCL_CytScore_correlations_GCB_all.tsv

syn21995635 TableS3_GSE98588_DLBCL_CytScore_correlations_GCB.tsv

syn21995637 TableS3_GSE98588_DLBCL_CytScore_correlations.tsv

syn21995638 TableS3_MDS_signature_markers_celltype_AML.txt

syn21995640 TableS3_MDS_signature_markers_celltype_HCA.txt

syn21995641 TableS3_MDSlike_DE_pathways_up.txt

syn21995643 TableS3_Reddy_DLBCL_CytScore_correlations_ABC.tsv

syn21995644 TableS3_Reddy_DLBCL_CytScore_correlations_GCB.tsv

syn21995645 TableS3_Reddy_DLBCL_CytScore_correlations.tsv

syn21995646 TableS3_Significant_genes_MDSlike_bulk.txt

syn21995647 TableS3_Significant_genes_MDSlike_scRNA_all.txt

syn21995648 TableS3_TCGA_AML_cytScore_correlations.tsv

syn21995649 TableS4_BeatAML_HLAscore_correlations.tsv

syn21995650 TableS4_CoMMpass_MM_HLA_correlations.tsv

syn21995651 TableS4_GSE98588_DLBCL_HLA_correlations_ABC.tsv

syn21995652 TableS4_GSE98588_DLBCL_HLA_correlations_GCB.tsv

syn21995653 TableS4_GSE98588_DLBCL_HLA_correlations.tsv

syn21995654 TableS4_HLAIIScore_APC_genes.txt

syn21995655 TableS4_Reddy_DLBCL_HLA_correlations_ABC.tsv

syn21995656 TableS4_Reddy_DLBCL_HLA_correlations_GCB.tsv

syn21995657 TableS4_Reddy_DLBCL_HLA_correlations.tsv

syn21995659 TableS4_TCGA_AML_CIITA_correlations.tsv

syn21995660 TableS4_TCGA_AML_HLA_correlations.tsv

syn21995661 TableS5_ALL_costim_DEgenes.txt

syn21995662 TableS5_AML_costim_DEgenes.txt

syn21995663 TableS5_BeatAML_coStim_correlations.tsv

syn21995664 TableS5_CoMMpass_MM_costim_correlations.tsv

syn21995665 TableS5_DLBCL_costim_DEgenes.txt

syn21995666 TableS5_GSE98588_DLBCL_costim_correlations_ABC.tsv

syn21995667 TableS5_GSE98588_DLBCL_costim_correlations_GCB.tsv

syn21995668 TableS5_GSE98588_DLBCL_costim_correlations.tsv

syn21995669 TableS5_MM_costim_DEgenes.txt

syn21995670 TableS5_Reddy_DLBCL_costim_correlations_ABC.tsv

syn21995671 TableS5_Reddy_DLBCL_costim_correlations_GCB.tsv

syn21995672 TableS5_Reddy_DLBCL_costim_correlations.tsv

syn21995673 TableS5_TCGA_AML_costim_LR_correlations.tsv

syn21995674 TableS6_CoMMpass_MM_antigen_correlations.tsv

syn21995675 TableS6_CoMMpass_MM_nCGA_correlations.tsv

syn21995677 TableS6_GSE98588_DLBCL_antigen_correlations_ABC.tsv

syn21995678 TableS6_GSE98588_DLBCL_antigen_correlations_GCB.tsv

syn21995679 TableS6_GSE98588_DLBCL_antigen_correlations.tsv

syn21995680 tableS7_beatAML_signif.tsv

syn21995681 tableS7_beatAML.tsv

syn21995682 tableS7_CoMMpass_signif.tsv

syn21995686 tableS7_CoMMpass.tsv

syn21995688 TableS7_cox.xlsx

syn21995689 tableS7_GSE98588_DLBCL_signif.tsv

syn21995690 tableS7_GSE98588_DLBCL.tsv

syn21995691 tableS7_Hemap_AML_signif.tsv

syn21995693 tableS7_Hemap_AML.tsv

syn21995694 tableS7_Hemap_DLBCL_CHOP_signif.tsv

syn21995695 tableS7_Hemap_DLBCL_CHOP.tsv

syn21995696 tableS7_Hemap_DLBCL_RCHOP_signif.tsv

syn21995697 tableS7_Hemap_DLBCL_RCHOP.tsv

syn21995698 tableS7_Hemap_MM_GSE19784_signif.tsv

syn21995699 tableS7_Hemap_MM_GSE19784.tsv

syn21995700 tableS7_Hemap_MM_GSE24080_signif.tsv

syn21995702 tableS7_Hemap_MM_GSE24080.tsv

syn21995703 tableS7_Reddy_DLBCL_signif.tsv

syn21995704 tableS7_Reddy_DLBCL.tsv

syn21995705 tableS7_TCGA_AML_signif.tsv

syn21995706 tableS7_TCGA_AML.tsv

syn21995707 TCGA_AML_DLBCL_ligand_differential_expression_methylation_supplement.csv

syn21995719 TCGA_AML_FM_DUFVA.Rdata

syn21995720 TCGA_AML_meth_probes_genelist.Rdata

syn21995721 TCGA_AML_subtypes.Rdata

syn21995722 TCGA_AML_survival_data.Rdata

syn21995724 TCGA_DLBCL_CGA_correlations.tsv

syn21995726 TCGA_DLBCL_costim_LR_correlations.tsv

syn21995728 TCGA_DLBCL_cytScore_correlations.tsv

syn21995730 TCGA_DLBCL_FM_DUFVA.Rdata

syn21995731 TCGA_DLBCL_HLA_correlations.tsv

syn21995732 TCGA_DLBCL_meth_probes_genelist.Rdata

syn21995733 temp

syn21996587 uniprot-all_netMHCpan3.0_strongbinders_genesymbols.csv

syn21996590 uniprot-all.fasta

syn21996592 vista_ihc.txt

syn21996593 Yang_2019_allgenes.txt

syn21996594 Yang_2019.txt

syn21996595 Yang_HCA_AML_cluster_cell.Rdata