| [{"Section":"GSE175540_GSM5924032","GEO Series":"GSE175540","GEO Sample":"GSM5924032","Repository accession":"GSM5924032","Species":"Human","Organ":"Kidney","Study":"Meylan 2022","Study reference":"Meylan, M. et al. Tertiary lymphoid structures generate and propagate anti-tumor antibody-producing plasma cells in renal cell cancer. Immunity 55, 527–541.e5 (2022).","Biological category":"Immune microenvironment","Biological target":"RCC TLS regions","Marker reference":"Meylan et al. 29-gene TLS imprint","Markers used":"IGHA1;IGHG1;IGHG2;IGHG3;IGHG4;IGHM;IGKC;IGLC1;JCHAIN;CD79A;FCRL5;MZB1;SSR4;XBP1;TRBC2;IL7R;CXCL12;LUM;C1QA;C7;CD52;APOE;PTGDS;PIM2;DERL3","Measured ST AUPRC":0.3245601669520188,"HistAgent AUPRC":0.3355731053952719,"STPath AUPRC":0.0918393311402195,"OmiCLIP AUPRC":0.0489870608274966},{"Section":"GSE175540_GSM5924038","GEO Series":"GSE175540","GEO Sample":"GSM5924038","Repository accession":"GSM5924038","Species":"Human","Organ":"Kidney","Study":"Meylan 2022","Study reference":"Meylan, M. et al. Tertiary lymphoid structures generate and propagate anti-tumor antibody-producing plasma cells in renal cell cancer. Immunity 55, 527–541.e5 (2022).","Biological category":"Immune microenvironment","Biological target":"RCC TLS regions","Marker reference":"Meylan et al. 29-gene TLS imprint","Markers used":"IGHA1;IGHG1;IGHG2;IGHG3;IGHG4;IGHM;IGKC;IGLC1;JCHAIN;CD79A;FCRL5;MZB1;SSR4;XBP1;TRBC2;IL7R;CXCL12;LUM;C1QA;C7;CD52;APOE;PTGDS;PIM2;DERL3","Measured ST AUPRC":0.5916157111446855,"HistAgent AUPRC":0.5858872581099256,"STPath AUPRC":0.1274888192482297,"OmiCLIP AUPRC":0.5134783314514242},{"Section":"GSE175540_GSM5924041","GEO Series":"GSE175540","GEO Sample":"GSM5924041","Repository accession":"GSM5924041","Species":"Human","Organ":"Kidney","Study":"Meylan 2022","Study reference":"Meylan, M. et al. Tertiary lymphoid structures generate and propagate anti-tumor antibody-producing plasma cells in renal cell cancer. Immunity 55, 527–541.e5 (2022).","Biological category":"Immune microenvironment","Biological target":"RCC TLS regions","Marker reference":"Meylan et al. 29-gene TLS imprint","Markers used":"IGHA1;IGHG1;IGHG2;IGHG3;IGHG4;IGHM;IGKC;IGLC1;JCHAIN;CD79A;FCRL5;MZB1;SSR4;XBP1;TRBC2;IL7R;CXCL12;LUM;C1QA;C7;CD52;APOE;PTGDS;PIM2;DERL3","Measured ST AUPRC":0.5677869607479896,"HistAgent AUPRC":0.2164468733496585,"STPath AUPRC":0.2874892109572736,"OmiCLIP AUPRC":0.2147015543286485},{"Section":"GSE175540_GSM5924044","GEO Series":"GSE175540","GEO Sample":"GSM5924044","Repository accession":"GSM5924044","Species":"Human","Organ":"Kidney","Study":"Meylan 2022","Study reference":"Meylan, M. et al. Tertiary lymphoid structures generate and propagate anti-tumor antibody-producing plasma cells in renal cell cancer. Immunity 55, 527–541.e5 (2022).","Biological category":"Immune microenvironment","Biological target":"RCC TLS regions","Marker reference":"Meylan et al. 29-gene TLS imprint","Markers used":"IGHA1;IGHG1;IGHG2;IGHG3;IGHG4;IGHM;IGKC;IGLC1;JCHAIN;CD79A;FCRL5;MZB1;SSR4;XBP1;TRBC2;IL7R;CXCL12;LUM;C1QA;C7;CD52;APOE;PTGDS;PIM2;DERL3","Measured ST AUPRC":0.4698010181952017,"HistAgent AUPRC":0.299444957580776,"STPath AUPRC":0.052984231461785,"OmiCLIP AUPRC":0.0531524940980637},{"Section":"GSE175540_GSM5924046","GEO Series":"GSE175540","GEO Sample":"GSM5924046","Repository accession":"GSM5924046","Species":"Human","Organ":"Kidney","Study":"Meylan 2022","Study reference":"Meylan, M. et al. Tertiary lymphoid structures generate and propagate anti-tumor antibody-producing plasma cells in renal cell cancer. Immunity 55, 527–541.e5 (2022).","Biological category":"Immune microenvironment","Biological target":"RCC TLS regions","Marker reference":"Meylan et al. 29-gene TLS imprint","Markers used":"IGHA1;IGHG1;IGHG2;IGHG3;IGHG4;IGHM;IGKC;IGLC1;JCHAIN;CD79A;FCRL5;MZB1;SSR4;XBP1;TRBC2;IL7R;CXCL12;LUM;C1QA;C7;CD52;APOE;PTGDS;PIM2;DERL3","Measured ST AUPRC":0.6079634933642918,"HistAgent AUPRC":0.743032435032611,"STPath AUPRC":0.1807023284665895,"OmiCLIP AUPRC":0.2178663241938052},{"Section":"GSE213688_GSM6592052","GEO Series":"GSE213688","GEO Sample":"GSM6592052","Repository accession":"GSM6592052","Species":"Human","Organ":"Breast","Study":"Coutant 2023","Study reference":"Coutant, A. et al. Spatial Transcriptomics Reveal Pitfalls and Opportunities for the Detection of Rare High-Plasticity Breast Cancer Subtypes. Laboratory Investigation 103, 100258 (2023).","Biological category":"Immune microenvironment","Biological target":"Breast TIL / lymphoid compartment","Marker reference":"Published positive T-cell marker component from the breast-cancer TME classifier","Markers used":"CD3D;CD3E;CD3G","Measured ST AUPRC":0.3951369146823507,"HistAgent AUPRC":0.6256978419174334,"STPath AUPRC":0.4058741116540961,"OmiCLIP AUPRC":0.5275338195208694},{"Section":"GSE213688_GSM6592054","GEO Series":"GSE213688","GEO Sample":"GSM6592054","Repository accession":"GSM6592054","Species":"Human","Organ":"Breast","Study":"Coutant 2023","Study reference":"Coutant, A. et al. Spatial Transcriptomics Reveal Pitfalls and Opportunities for the Detection of Rare High-Plasticity Breast Cancer Subtypes. Laboratory Investigation 103, 100258 (2023).","Biological category":"Immune microenvironment","Biological target":"Breast TIL / lymphoid compartment","Marker reference":"Published positive T-cell marker component from the breast-cancer TME classifier","Markers used":"CD3D;CD3E;CD3G","Measured ST AUPRC":0.5434819308805219,"HistAgent AUPRC":0.7927631563791024,"STPath AUPRC":0.472038698059974,"OmiCLIP AUPRC":0.4350745140974631},{"Section":"Human_Prostate_Erickson_08102022_Visium_Patient_1_H2_1","GEO Series":"","GEO Sample":"","Repository accession":"10.17632/svw96g68dv.1 | Patient_1_H2_1","Species":"Human","Organ":"Prostate","Study":"Erickson 2022","Study reference":"Erickson, A. et al. Spatially resolved clonal copy number alterations in benign and malignant tissue. Nature 608, 360–367 (2022).","Biological category":"Stromal / fibrotic microenvironment","Biological target":"Prostate stromal compartment","Marker reference":"Composite of the published fibroblast and pericyte marker sets","Markers used":"DCN;LUM;PTN;IGF1;APOD;COL1A2;FBLN1;MEG3;CXCL12;RGS5;ACTA2;MYH11;MT1M;FRZB;MT1A;NDUFA4L2;PPP1R14A;MYLK;PHLDA1","Measured ST AUPRC":0.6454658467418909,"HistAgent AUPRC":0.8098626740035776,"STPath AUPRC":0.282197274269499,"OmiCLIP AUPRC":0.7325925302433924},{"Section":"Human_Prostate_Erickson_08102022_Visium_Patient_1_H2_2","GEO Series":"","GEO Sample":"","Repository accession":"10.17632/svw96g68dv.1 | Patient_1_H2_2","Species":"Human","Organ":"Prostate","Study":"Erickson 2022","Study reference":"Erickson, A. et al. Spatially resolved clonal copy number alterations in benign and malignant tissue. Nature 608, 360–367 (2022).","Biological category":"Stromal / fibrotic microenvironment","Biological target":"Prostate stromal compartment","Marker reference":"Composite of the published fibroblast and pericyte marker sets","Markers used":"DCN;LUM;PTN;IGF1;APOD;COL1A2;FBLN1;MEG3;CXCL12;RGS5;ACTA2;MYH11;MT1M;FRZB;MT1A;NDUFA4L2;PPP1R14A;MYLK;PHLDA1","Measured ST AUPRC":0.6813464403017034,"HistAgent AUPRC":0.9479273231153827,"STPath AUPRC":0.479604656611474,"OmiCLIP AUPRC":0.9707621359391516},{"Section":"Human_Prostate_Erickson_08102022_Visium_Patient_1_V1_2","GEO Series":"","GEO Sample":"","Repository accession":"10.17632/svw96g68dv.1 | Patient_1_V1_2","Species":"Human","Organ":"Prostate","Study":"Erickson 2022","Study reference":"Erickson, A. et al. Spatially resolved clonal copy number alterations in benign and malignant tissue. Nature 608, 360–367 (2022).","Biological category":"Stromal / fibrotic microenvironment","Biological target":"Prostate stromal compartment","Marker reference":"Composite of the published fibroblast and pericyte marker sets","Markers used":"DCN;LUM;PTN;IGF1;APOD;COL1A2;FBLN1;MEG3;CXCL12;RGS5;ACTA2;MYH11;MT1M;FRZB;MT1A;NDUFA4L2;PPP1R14A;MYLK;PHLDA1","Measured ST AUPRC":0.66351131103667,"HistAgent AUPRC":0.9305924296175988,"STPath AUPRC":0.5802491516471776,"OmiCLIP AUPRC":0.9325284677790344},{"Section":"GSE213688_GSM6592049","GEO Series":"GSE213688","GEO Sample":"GSM6592049","Repository accession":"GSM6592049","Species":"Human","Organ":"Breast","Study":"Coutant 2023","Study reference":"Coutant, A. et al. Spatial Transcriptomics Reveal Pitfalls and Opportunities for the Detection of Rare High-Plasticity Breast Cancer Subtypes. Laboratory Investigation 103, 100258 (2023).","Biological category":"Stromal / fibrotic microenvironment","Biological target":"Breast CAF / stromal compartment","Marker reference":"Published positive CAF marker component from the breast-cancer TME classifier","Markers used":"PDGFRB;PDGFRA;PDPN;DCN;COL1A1;COL1A2;FAP;THY1;CXCL12;MCAM;ACTA2;MYLK;MYL9;TAGLN;CALD1;CAV1;MEF2C;NOTCH3;RGS5","Measured ST AUPRC":0.3215091704522756,"HistAgent AUPRC":0.583980156300487,"STPath AUPRC":0.4479413445180808,"OmiCLIP AUPRC":0.6594440217800369},{"Section":"GSE213688_GSM6592051","GEO Series":"GSE213688","GEO Sample":"GSM6592051","Repository accession":"GSM6592051","Species":"Human","Organ":"Breast","Study":"Coutant 2023","Study reference":"Coutant, A. et al. Spatial Transcriptomics Reveal Pitfalls and Opportunities for the Detection of Rare High-Plasticity Breast Cancer Subtypes. Laboratory Investigation 103, 100258 (2023).","Biological category":"Stromal / fibrotic microenvironment","Biological target":"Breast CAF / stromal compartment","Marker reference":"Published positive CAF marker component from the breast-cancer TME classifier","Markers used":"PDGFRB;PDGFRA;PDPN;DCN;COL1A1;COL1A2;FAP;THY1;CXCL12;MCAM;ACTA2;MYLK;MYL9;TAGLN;CALD1;CAV1;MEF2C;NOTCH3;RGS5","Measured ST AUPRC":0.6348500639395558,"HistAgent AUPRC":0.9473764516398884,"STPath AUPRC":0.8107071158270132,"OmiCLIP AUPRC":0.9768425227145556},{"Section":"GSE213688_GSM6592052","GEO Series":"GSE213688","GEO Sample":"GSM6592052","Repository accession":"GSM6592052","Species":"Human","Organ":"Breast","Study":"Coutant 2023","Study reference":"Coutant, A. et al. Spatial Transcriptomics Reveal Pitfalls and Opportunities for the Detection of Rare High-Plasticity Breast Cancer Subtypes. Laboratory Investigation 103, 100258 (2023).","Biological category":"Stromal / fibrotic microenvironment","Biological target":"Breast CAF / stromal compartment","Marker reference":"Published positive CAF marker component from the breast-cancer TME classifier","Markers used":"PDGFRB;PDGFRA;PDPN;DCN;COL1A1;COL1A2;FAP;THY1;CXCL12;MCAM;ACTA2;MYLK;MYL9;TAGLN;CALD1;CAV1;MEF2C;NOTCH3;RGS5","Measured ST AUPRC":0.2765661952275118,"HistAgent AUPRC":0.625497347313072,"STPath AUPRC":0.3441745655825215,"OmiCLIP AUPRC":0.5049590252663657},{"Section":"GSE193460_GSM5808054","GEO Series":"GSE193460","GEO Sample":"GSM5808054","Repository accession":"GSM5808054","Species":"Mouse","Organ":"Lung","Study":"Dhainaut 2022","Study reference":"Dhainaut, M. et al. Spatial CRISPR genomics identifies regulators of the tumor microenvironment. Cell 185, 1223–1239.e20 (2022).","Biological category":"Tumour / epithelial state","Biological target":"WPRE-positive lung tumour","Marker reference":"Krt8, Krt18 and Epcam explicitly reported as tumour-lesion-enriched keratin and epithelial genes","Markers used":"Krt8;Krt18;Epcam","Measured ST AUPRC":0.8524757119378117,"HistAgent AUPRC":0.6417219014323887,"STPath AUPRC":0.2707631686069724,"OmiCLIP AUPRC":0.2415083998999807},{"Section":"GSE193460_GSM5808055","GEO Series":"GSE193460","GEO Sample":"GSM5808055","Repository accession":"GSM5808055","Species":"Mouse","Organ":"Lung","Study":"Dhainaut 2022","Study reference":"Dhainaut, M. et al. Spatial CRISPR genomics identifies regulators of the tumor microenvironment. Cell 185, 1223–1239.e20 (2022).","Biological category":"Tumour / epithelial state","Biological target":"WPRE-positive lung tumour","Marker reference":"Krt8, Krt18 and Epcam explicitly reported as tumour-lesion-enriched keratin and epithelial genes","Markers used":"Krt8;Krt18;Epcam","Measured ST AUPRC":0.8400711324733409,"HistAgent AUPRC":0.7381596410816733,"STPath AUPRC":0.3076329103976639,"OmiCLIP AUPRC":0.3421999888767961},{"Section":"GSE193460_GSM5808056","GEO Series":"GSE193460","GEO Sample":"GSM5808056","Repository accession":"GSM5808056","Species":"Mouse","Organ":"Lung","Study":"Dhainaut 2022","Study reference":"Dhainaut, M. et al. Spatial CRISPR genomics identifies regulators of the tumor microenvironment. Cell 185, 1223–1239.e20 (2022).","Biological category":"Tumour / epithelial state","Biological target":"WPRE-positive lung tumour","Marker reference":"Krt8, Krt18 and Epcam explicitly reported as tumour-lesion-enriched keratin and epithelial genes","Markers used":"Krt8;Krt18;Epcam","Measured ST AUPRC":0.8854232391771233,"HistAgent AUPRC":0.7389527199351767,"STPath AUPRC":0.3772879429817578,"OmiCLIP AUPRC":0.4196074185968733},{"Section":"GSE193460_GSM5808057","GEO Series":"GSE193460","GEO Sample":"GSM5808057","Repository accession":"GSM5808057","Species":"Mouse","Organ":"Lung","Study":"Dhainaut 2022","Study reference":"Dhainaut, M. et al. Spatial CRISPR genomics identifies regulators of the tumor microenvironment. Cell 185, 1223–1239.e20 (2022).","Biological category":"Tumour / epithelial state","Biological target":"WPRE-positive lung tumour","Marker reference":"Krt8, Krt18 and Epcam explicitly reported as tumour-lesion-enriched keratin and epithelial genes","Markers used":"Krt8;Krt18;Epcam","Measured ST AUPRC":0.7733351798223841,"HistAgent AUPRC":0.613434083356211,"STPath AUPRC":0.1536836783276255,"OmiCLIP AUPRC":0.1674456799998194},{"Section":"Human_Prostate_Erickson_08102022_Visium_Patient_1_H2_1","GEO Series":"","GEO Sample":"","Repository accession":"10.17632/svw96g68dv.1 | Patient_1_H2_1","Species":"Human","Organ":"Prostate","Study":"Erickson 2022","Study reference":"Erickson, A. et al. Spatially resolved clonal copy number alterations in benign and malignant tissue. Nature 608, 360–367 (2022).","Biological category":"Tumour / epithelial state","Biological target":"Prostate malignant versus benign epithelium","Marker reference":"Externally validated eight-gene Prostate Tumor Gene Signature","Markers used":"PCA3;AMACR;ERG;CACNA1D;FABP5;COL9A2;PHGR1;GCNT1","Measured ST AUPRC":0.4164578606076237,"HistAgent AUPRC":0.4686630883446406,"STPath AUPRC":0.2210123522927035,"OmiCLIP AUPRC":0.1880900866299258},{"Section":"Human_Prostate_Erickson_08102022_Visium_Patient_1_H2_2","GEO Series":"","GEO Sample":"","Repository accession":"10.17632/svw96g68dv.1 | Patient_1_H2_2","Species":"Human","Organ":"Prostate","Study":"Erickson 2022","Study reference":"Erickson, A. et al. Spatially resolved clonal copy number alterations in benign and malignant tissue. Nature 608, 360–367 (2022).","Biological category":"Tumour / epithelial state","Biological target":"Prostate malignant versus benign epithelium","Marker reference":"Externally validated eight-gene Prostate Tumor Gene Signature","Markers used":"PCA3;AMACR;ERG;CACNA1D;FABP5;COL9A2;PHGR1;GCNT1","Measured ST AUPRC":0.205095885676921,"HistAgent AUPRC":0.1184270240263498,"STPath AUPRC":0.0138738497517259,"OmiCLIP AUPRC":0.0224560601682868},{"Section":"GSE213688_GSM6592054","GEO Series":"GSE213688","GEO Sample":"GSM6592054","Repository accession":"GSM6592054","Species":"Human","Organ":"Breast","Study":"Coutant 2023","Study reference":"Coutant, A. et al. Spatial Transcriptomics Reveal Pitfalls and Opportunities for the Detection of Rare High-Plasticity Breast Cancer Subtypes. Laboratory Investigation 103, 100258 (2023).","Biological category":"Tumour / epithelial state","Biological target":"Breast normal epithelium","Marker reference":"Fixed human breast epithelial-component panel","Markers used":"EPCAM;KRT8;KRT18;CLDN4;DSC2;ELF3;SFN;ITGB4;ITGB6;KRT6A;KRT7;LAD1;LAMA3;LAMB3;SLPI;ST14;TGFA;SCEL;PTGES;SH2D3A;AP1M2;MPZL2;EHF;G0S2;LSR;S100A14","Measured ST AUPRC":0.9197102175039256,"HistAgent AUPRC":0.917191345687214,"STPath AUPRC":0.8298331726268193,"OmiCLIP AUPRC":0.570400072514115},{"Section":"Human_Brain_Maynard_02082021_Visium_151508","GEO Series":"","GEO Sample":"","Repository accession":"spatialLIBD sample 151508","Species":"Human","Organ":"Brain","Study":"Maynard 2021","Study reference":"Maynard, K. R. et al. Transcriptome-scale spatial gene expression in the human dorsolateral prefrontal cortex. Nature Neuroscience 24, 425–436 (2021).","Biological category":"Tissue anatomy","Biological target":"DLPFC white matter","Marker reference":"Independent known myelin transcript panel","Markers used":"CNP;PLP1;MAG;CLDN11","Measured ST AUPRC":0.3492274803091549,"HistAgent AUPRC":0.9001070361140725,"STPath AUPRC":0.0823911116714834,"OmiCLIP AUPRC":0.0274460610864636},{"Section":"Human_Brain_Maynard_02082021_Visium_151673","GEO Series":"","GEO Sample":"","Repository accession":"spatialLIBD sample 151673","Species":"Human","Organ":"Brain","Study":"Maynard 2021","Study reference":"Maynard, K. R. et al. Transcriptome-scale spatial gene expression in the human dorsolateral prefrontal cortex. Nature Neuroscience 24, 425–436 (2021).","Biological category":"Tissue anatomy","Biological target":"DLPFC white matter","Marker reference":"Independent known myelin transcript panel","Markers used":"CNP;PLP1;MAG;CLDN11","Measured ST AUPRC":0.8902736507070603,"HistAgent AUPRC":0.9400415547487908,"STPath AUPRC":0.65332741739147,"OmiCLIP AUPRC":0.5481470299952124},{"Section":"Human_Brain_Maynard_02082021_Visium_151674","GEO Series":"","GEO Sample":"","Repository accession":"spatialLIBD sample 151674","Species":"Human","Organ":"Brain","Study":"Maynard 2021","Study reference":"Maynard, K. R. et al. Transcriptome-scale spatial gene expression in the human dorsolateral prefrontal cortex. Nature Neuroscience 24, 425–436 (2021).","Biological category":"Tissue anatomy","Biological target":"DLPFC white matter","Marker reference":"Independent known myelin transcript panel","Markers used":"CNP;PLP1;MAG;CLDN11","Measured ST AUPRC":0.9288673654333514,"HistAgent AUPRC":0.985623975605608,"STPath AUPRC":0.3869527187536975,"OmiCLIP AUPRC":0.107501458121605},{"Section":"Human_Brain_Maynard_02082021_Visium_151675","GEO Series":"","GEO Sample":"","Repository accession":"spatialLIBD sample 151675","Species":"Human","Organ":"Brain","Study":"Maynard 2021","Study reference":"Maynard, K. R. et al. Transcriptome-scale spatial gene expression in the human dorsolateral prefrontal cortex. Nature Neuroscience 24, 425–436 (2021).","Biological category":"Tissue anatomy","Biological target":"DLPFC white matter","Marker reference":"Independent known myelin transcript panel","Markers used":"CNP;PLP1;MAG;CLDN11","Measured ST AUPRC":0.9185675368671627,"HistAgent AUPRC":0.9767052573788167,"STPath AUPRC":0.3614549083298954,"OmiCLIP AUPRC":0.1116136491866433},{"Section":"Human_Brain_Maynard_02082021_Visium_151676","GEO Series":"","GEO Sample":"","Repository accession":"spatialLIBD sample 151676","Species":"Human","Organ":"Brain","Study":"Maynard 2021","Study reference":"Maynard, K. R. et al. Transcriptome-scale spatial gene expression in the human dorsolateral prefrontal cortex. Nature Neuroscience 24, 425–436 (2021).","Biological category":"Tissue anatomy","Biological target":"DLPFC white matter","Marker reference":"Independent known myelin transcript panel","Markers used":"CNP;PLP1;MAG;CLDN11","Measured ST AUPRC":0.9094454317369068,"HistAgent AUPRC":0.9620889465504032,"STPath AUPRC":0.3111667645885169,"OmiCLIP AUPRC":0.0933240826363496},{"Section":"Mouse_Brain_10X_06232020_Visium_Sagittal_Anterior_Section_1","GEO Series":"","GEO Sample":"","Repository accession":"10.5281/zenodo.10698931 | mMAMP/MA | V1_Mouse_Brain_Sagittal_Anterior","Species":"Mouse","Organ":"Brain","Study":"GraphST annotation / BenchmarkST redistribution","Study reference":"Long, Y. et al. Spatially informed clustering, integration, and deconvolution of spatial transcriptomics with GraphST. Nature Communications 14, 1155 (2023).","Biological category":"Tissue anatomy","Biological target":"Mouse corpus callosum","Marker reference":"Independent mouse CNS spatial-atlas fibre-tract marker set","Markers used":"Mbp;Cldn11;Mal","Measured ST AUPRC":0.2554053194765088,"HistAgent AUPRC":0.167256027008141,"STPath AUPRC":0.057485448721897,"OmiCLIP AUPRC":0.032293986636971},{"Section":"Mouse_Brain_10X_06232020_Visium_Sagittal_Anterior_Section_1","GEO Series":"","GEO Sample":"","Repository accession":"10.5281/zenodo.10698931 | mMAMP/MA | V1_Mouse_Brain_Sagittal_Anterior","Species":"Mouse","Organ":"Brain","Study":"GraphST annotation / BenchmarkST redistribution","Study reference":"Long, Y. et al. Spatially informed clustering, integration, and deconvolution of spatial transcriptomics with GraphST. Nature Communications 14, 1155 (2023).","Biological category":"Tissue anatomy","Biological target":"Mouse cerebral cortex","Marker reference":"Shi et al., Nature 2023, Supplementary Table 5, https://doi.org/10.1038/s41586-023-06569-5","Markers used":"Nrgn;Slc17a7;Satb2;Cck;Pde1a","Measured ST AUPRC":0.8924834974292258,"HistAgent AUPRC":0.938707474286144,"STPath AUPRC":0.5436933678760899,"OmiCLIP AUPRC":0.5233846614069615},{"Section":"Mouse_Brain_10X_06232020_Visium_Sagittal_Anterior_Section_1","GEO Series":"","GEO Sample":"","Repository accession":"10.5281/zenodo.10698931 | mMAMP/MA | V1_Mouse_Brain_Sagittal_Anterior","Species":"Mouse","Organ":"Brain","Study":"GraphST annotation / BenchmarkST redistribution","Study reference":"Long, Y. et al. Spatially informed clustering, integration, and deconvolution of spatial transcriptomics with GraphST. Nature Communications 14, 1155 (2023).","Biological category":"Tissue anatomy","Biological target":"Mouse olfactory bulb","Marker reference":"Independent mouse CNS spatial-atlas OB_1 and OB_2 marker union","Markers used":"Gad1;Gng4;Meis2;Pbx3;Synpr;Th;Cdhr1;Kctd12","Measured ST AUPRC":0.880638410686903,"HistAgent AUPRC":0.9323627885250688,"STPath AUPRC":0.1970722768966918,"OmiCLIP AUPRC":0.5515111615495936},{"Section":"Mouse_Brain_10X_06232020_Visium_Sagittal_Anterior_Section_1","GEO Series":"","GEO Sample":"","Repository accession":"10.5281/zenodo.10698931 | mMAMP/MA | V1_Mouse_Brain_Sagittal_Anterior","Species":"Mouse","Organ":"Brain","Study":"GraphST annotation / BenchmarkST redistribution","Study reference":"Long, Y. et al. Spatially informed clustering, integration, and deconvolution of spatial transcriptomics with GraphST. Nature Communications 14, 1155 (2023).","Biological category":"Tissue anatomy","Biological target":"Mouse striatum","Marker reference":"Independent mouse CNS spatial-atlas STR marker set","Markers used":"Ppp1r1b;Gpr88;Scn4b;Rgs9;Penk","Measured ST AUPRC":0.831030303064979,"HistAgent AUPRC":0.7523077852481168,"STPath AUPRC":0.2408224764271848,"OmiCLIP AUPRC":0.3496659242761692}] |