Starter pack: swap in 5 cell-resolution Visium H&E samples

Replaces 5 low-resolution Visium H&E samples with 5 at 0.73-0.93 um/px; still 88 samples, byte-identical to the gated release.

.gitattributes

@@ -206,3 +206,13 @@ samples/GSE234253/GSM7458248/spatial.h5ad filter=lfs diff=lfs merge=lfs -text
 samples/GSE156862/GSM4745615/spatial.h5ad filter=lfs diff=lfs merge=lfs -text
 samples/GSE325911/GSM9616853/spatial.h5ad filter=lfs diff=lfs merge=lfs -text
 samples/GSE325911/GSM9616845/spatial.h5ad filter=lfs diff=lfs merge=lfs -text
+samples/GSE182939/GSM5543483/spatial.h5ad filter=lfs diff=lfs merge=lfs -text
+samples/GSE182939/GSM5543483/image.tif filter=lfs diff=lfs merge=lfs -text
+samples/GSE224210/GSM7017459/spatial.h5ad filter=lfs diff=lfs merge=lfs -text
+samples/GSE224210/GSM7017459/image.tif filter=lfs diff=lfs merge=lfs -text
+samples/GSE189184/GSM5695835/spatial.h5ad filter=lfs diff=lfs merge=lfs -text
+samples/GSE189184/GSM5695835/image.tif filter=lfs diff=lfs merge=lfs -text
+samples/GSE287278/GSM8742923/spatial.h5ad filter=lfs diff=lfs merge=lfs -text
+samples/GSE287278/GSM8742923/image.tif filter=lfs diff=lfs merge=lfs -text
+samples/GSE223559/GSM6963121/spatial.h5ad filter=lfs diff=lfs merge=lfs -text
+samples/GSE223559/GSM6963121/image.tif filter=lfs diff=lfs merge=lfs -text

samples/GSE182939/GSM5543483/sample.json

@@ -0,0 +1,287 @@
+{
+  "schema": "sda-release-sample-1",
+  "release_id": "sda-unified-20261010-v3",
+  "gsm": "GSM5543483",
+  "gse": [
+    "GSE182939"
+  ],
+  "published_gse": "GSE182939",
+  "metadata": {
+    "organism": "Mus musculus",
+    "tissue": "kidney",
+    "platform": "Visium",
+    "technology": "10x Genomics Visium",
+    "fields": {
+      "organism": "Mus musculus",
+      "tissue": "kidney",
+      "disease": "acute kidney injury",
+      "sex": "female",
+      "age": "8–10 weeks",
+      "donor_id": null,
+      "condition": "Bi-IRI surgery",
+      "technology": "10x Genomics Visium",
+      "platform": "GPL24247",
+      "stain_type": "H&E",
+      "publication_doi": null,
+      "publication_pmid": "34853151",
+      "repository_id": "GSM5543483"
+    },
+    "field_sources": {
+      "organism": {
+        "raw_value": "Mus musculus",
+        "status": "unchanged",
+        "source": {
+          "source_path": "metadata/GSE182939_family.soft.gz",
+          "source_sha256": "6634a73ad3cfc27facd1d3ddfed413aeefcca3a7cb9a1a47e0954037da0c448d",
+          "source_key": "!Sample_organism_ch1"
+        }
+      },
+      "tissue": {
+        "raw_value": "kidney",
+        "status": "unchanged",
+        "source": {
+          "source_path": "metadata/GSE182939_family.soft.gz",
+          "source_sha256": "6634a73ad3cfc27facd1d3ddfed413aeefcca3a7cb9a1a47e0954037da0c448d",
+          "source_key": "!Sample_source_name_ch1"
+        }
+      },
+      "disease": {
+        "raw_value": "acute kidney injury",
+        "status": "unmapped",
+        "source": {
+          "source_path": "metadata/GSE182939_family.soft.gz",
+          "source_sha256": "6634a73ad3cfc27facd1d3ddfed413aeefcca3a7cb9a1a47e0954037da0c448d",
+          "source_key": "!Series_summary"
+        }
+      },
+      "sex": {
+        "raw_value": "Female",
+        "status": "normalized",
+        "source": {
+          "source_path": "metadata/GSE182939_family.soft.gz",
+          "source_sha256": "6634a73ad3cfc27facd1d3ddfed413aeefcca3a7cb9a1a47e0954037da0c448d",
+          "source_key": "!Sample_characteristics_ch1 = Sex: Female"
+        }
+      },
+      "age": {
+        "raw_value": "8-10 weeks",
+        "status": "normalized",
+        "source": {
+          "source_path": "metadata/GSE182939_family.soft.gz",
+          "source_sha256": "6634a73ad3cfc27facd1d3ddfed413aeefcca3a7cb9a1a47e0954037da0c448d",
+          "source_key": "!Sample_treatment_protocol_ch1"
+        }
+      },
+      "donor_id": {
+        "raw_value": null,
+        "status": "missing",
+        "source": null
+      },
+      "condition": {
+        "raw_value": "Bi-IRI surgery",
+        "status": "unchanged",
+        "source": {
+          "source_path": "metadata/GSE182939_family.soft.gz",
+          "source_sha256": "6634a73ad3cfc27facd1d3ddfed413aeefcca3a7cb9a1a47e0954037da0c448d",
+          "source_key": "!Sample_characteristics_ch1 = treatment: Bi-IRI surgery"
+        }
+      },
+      "technology": {
+        "raw_value": "10x Visium",
+        "status": "normalized",
+        "source": {
+          "source_path": "metadata/GSE182939_family.soft.gz",
+          "source_sha256": "6634a73ad3cfc27facd1d3ddfed413aeefcca3a7cb9a1a47e0954037da0c448d",
+          "source_key": "!Sample_characteristics_ch1 = platform: 10X Visium"
+        }
+      },
+      "platform": {
+        "raw_value": "GPL24247",
+        "status": "unchanged",
+        "source": {
+          "source_path": "metadata/GSE182939_family.soft.gz",
+          "source_sha256": "6634a73ad3cfc27facd1d3ddfed413aeefcca3a7cb9a1a47e0954037da0c448d",
+          "source_key": "!Sample_platform_id"
+        }
+      },
+      "stain_type": {
+        "raw_value": "H&E",
+        "status": "unchanged",
+        "source": {
+          "source_path": "metadata/GSE182939_family.soft.gz",
+          "source_sha256": "6634a73ad3cfc27facd1d3ddfed413aeefcca3a7cb9a1a47e0954037da0c448d",
+          "source_key": "!Sample_data_processing = H&E stain images"
+        }
+      },
+      "publication_doi": {
+        "raw_value": null,
+        "status": "missing",
+        "source": null
+      },
+      "publication_pmid": {
+        "raw_value": "34853151",
+        "status": "unchanged",
+        "source": {
+          "source_path": "metadata/GSE182939_family.soft.gz",
+          "source_sha256": "6634a73ad3cfc27facd1d3ddfed413aeefcca3a7cb9a1a47e0954037da0c448d",
+          "source_key": "!Series_pubmed_id"
+        }
+      },
+      "repository_id": {
+        "raw_value": "GSM5543483",
+        "status": "unchanged",
+        "source": {
+          "source_path": "metadata/GSE182939_family.soft.gz",
+          "source_sha256": "6634a73ad3cfc27facd1d3ddfed413aeefcca3a7cb9a1a47e0954037da0c448d",
+          "source_key": "!Sample_geo_accession"
+        }
+      }
+    }
+  },
+  "expression": {
+    "file": "spatial.h5ad",
+    "sha256": "74ac30f2e7e63057b0bfb83598d766af2ca40031b78ca39327a83bf538749d6f",
+    "n_obs": 1598,
+    "n_vars": 32285,
+    "state": "counts",
+    "observation_unit": "spot",
+    "verification": "human_visual_review"
+  },
+  "coordinates": {
+    "obsm_key": "spatial",
+    "units": "pixel",
+    "um_basis": "platform_constant",
+    "um_per_unit": 0.7299270072992701,
+    "um_basis_detail": "platform_constant: Visium spot pitch 100 um / median nearest-neighbour 137.0000 px",
+    "spatial_um": true
+  },
+  "image": {
+    "file": "image.tif",
+    "sha256": "516606c1a8f38d3afe135210e458d3bf67a55caac970e96f3e50f9aa7fe54c6f",
+    "shape": [
+      10357,
+      10732
+    ],
+    "dtype": "uint8",
+    "channels": [
+      "R",
+      "G",
+      "B"
+    ],
+    "stain": "H&E",
+    "stain_basis": "HESRT human review",
+    "um_per_px": 0.7299270072992701,
+    "spatial_to_pixel": [
+      [
+        1.0,
+        0.0,
+        0.0
+      ],
+      [
+        0.0,
+        1.0,
+        0.0
+      ],
+      [
+        0.0,
+        0.0,
+        1.0
+      ]
+    ],
+    "registration": "HESRT_HUMAN_REVIEW",
+    "review": null,
+    "inside_fraction": 1.0,
+    "source": [
+      {
+        "file": "wsi.tif (HESRT v1.3)",
+        "sha256": "7553f88c628059ea3e5f8f81b3cf1f9da92fc0c8d782e92dc33c341bf40c584b",
+        "transform": "identity: HESRT coordinates are WSI pixels"
+      }
+    ]
+  },
+  "segmentation": null,
+  "molecules": null,
+  "quality": {
+    "flags": [],
+    "qc_flags": [],
+    "drop_features": [],
+    "review": null,
+    "hesrt_review": {
+      "human_label": "PASS",
+      "reviewed_at": "2026-09-06T02:28:28.511102+00:00",
+      "review_version": "full-review-revision-110",
+      "scientific_status": "PASS",
+      "controller_status": "COMPLETE_PASS",
+      "integrity_status": "NOT_CERTIFIED_BY_HUMAN_REVIEW",
+      "current_integrity_decision": "NOT_RUN_HISTORICAL",
+      "gold_membership": true
+    }
+  },
+  "dedup": {
+    "content_group": "GSM5543483",
+    "group_kind": null,
+    "aliases": []
+  },
+  "split": "train",
+  "provenance": {
+    "pipeline": "hesrt",
+    "source_release": "hesrt-v1.3",
+    "files": [
+      {
+        "role": "hesrt_package",
+        "path": "source-reference://cw-storage/projects/spatial-data-agent/standardized_data/releases/hesrt-hf-20260917-v1/public/releases/2026-09-17/samples/GSE182939/GSM5543483.tar.zst",
+        "sha256": "36f6bb2210e0e6283bc48fb3c60c4516869d83748edc500cc8d59bd82ee08974"
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+      {
+        "role": "hesrt_source_expression (package member spatial.h5ad)",
+        "path": "source-reference://cw-storage/projects/spatial-data-agent/standardized_data/releases/hesrt-hf-20260917-v1/public/releases/2026-09-17/samples/GSE182939/GSM5543483.tar.zst",
+        "sha256": "df459fc37f03213e84b27f56ec9e9209779fe6de1d74db509fc1768a670457be"
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+      {
+        "role": "hesrt_wsi (package member wsi.tif)",
+        "path": "source-reference://cw-storage/projects/spatial-data-agent/standardized_data/releases/hesrt-hf-20260917-v1/public/releases/2026-09-17/samples/GSE182939/GSM5543483.tar.zst",
+        "sha256": "7553f88c628059ea3e5f8f81b3cf1f9da92fc0c8d782e92dc33c341bf40c584b"
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+      {
+        "role": "expression (normalized copy)",
+        "path": "source-reference://public-storage/sda_work/hesrt-v1.3-expanded/GSE182939/GSM5543483/spatial.h5ad",
+        "sha256": "74ac30f2e7e63057b0bfb83598d766af2ca40031b78ca39327a83bf538749d6f"
+      },
+      {
+        "role": "hesrt_alignment_qc.png",
+        "path": "source-reference://public-storage/sda_work/hesrt-v1.3-expanded/GSE182939/GSM5543483/alignment_qc.png",
+        "sha256": "842f5105b71bfc817cec18e3abc6371531c597d68f93d71b326e47d62ec05138"
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+      {
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+        "path": "source-reference://public-storage/sda_work/hesrt-v1.3-expanded/GSE182939/GSM5543483/alignment_strict_qc.png",
+        "sha256": "cfdf13322ee6de80a7c268324343942dbbcabf07b994e4c3826d96ec619dfd83"
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+      {
+        "role": "hesrt_metadata.json",
+        "path": "source-reference://public-storage/sda_work/hesrt-v1.3-expanded/GSE182939/GSM5543483/metadata.json",
+        "sha256": "eaa89027e711674dda3a82c014acc71c6f5589ce54d7a724c341d0e36cc18ef4"
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+      {
+        "role": "hesrt_provenance.json",
+        "path": "source-reference://public-storage/sda_work/hesrt-v1.3-expanded/GSE182939/GSM5543483/provenance.json",
+        "sha256": "8bffb861feb7a0c0b1134754f45147fa304f253353ed45d526d97d4d7d0c14d8"
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+        "path": "source-reference://public-storage/sda_work/hesrt-v1.3-expanded/GSE182939/GSM5543483/review.json",
+        "sha256": "6fb71558cbb3714a07338bc307743a2045bfbe8ed933f3a082ddfbddc1737e9f"
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+      {
+        "role": "hesrt_metadata.normalized.json",
+        "path": "source-reference://public-storage/sda_work/hesrt-v1.3-expanded/GSE182939/GSM5543483/metadata.normalized.json",
+        "sha256": "d1696f21f51b19706d1c94261af7939ae5428f20851c257b3282db2e9cb67258"
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+      {
+        "role": "hesrt_manifest.json",
+        "path": "source-reference://public-storage/sda_work/hesrt-v1.3-expanded/GSE182939/GSM5543483/manifest.json",
+        "sha256": "1774a6ca4ba5670e4130cd8cc2f806982418d12e22f26d513bbdb8532e7be7ca"
+      }
+    ]
+  }
+}

samples/{GSE270678/GSM8349918 → GSE182939/GSM5543483}/spatial.h5ad

@@ -1,3 +1,3 @@
 version https://git-lfs.github.com/spec/v1
-oid sha256:265665133962fda2ceb7ac1dd09f05a6d7a5441661b751b4d64063b42bf838f8
-size 8204613
+oid sha256:74ac30f2e7e63057b0bfb83598d766af2ca40031b78ca39327a83bf538749d6f
+size 49122803

samples/{GSE270678/GSM8349918 → GSE189184/GSM5695835}/sample.json

@@ -1,144 +1,149 @@
 {
   "schema": "sda-release-sample-1",
   "release_id": "sda-unified-20261010-v3",
-  "gsm": "GSM8349918",
+  "gsm": "GSM5695835",
   "gse": [
-    "GSE270678"
+    "GSE189184",
+    "GSE189185"
   ],
-  "published_gse": "GSE270678",
+  "published_gse": "GSE189184",
   "metadata": {
     "organism": "Homo sapiens",
-    "tissue": "Gastric cancer tumor",
+    "tissue": "colon",
     "platform": "Visium",
     "technology": "10x Genomics Visium",
     "fields": {
       "organism": "Homo sapiens",
-      "tissue": "Gastric cancer tumor",
-      "disease": "gastric cancer",
-      "sex": null,
-      "age": null,
-      "donor_id": "Donor 21",
-      "condition": "Edge",
+      "tissue": "colon",
+      "disease": "Ulcerative Colitis",
+      "sex": "female",
+      "age": "30",
+      "donor_id": null,
+      "condition": "Inflamed",
       "technology": "10x Genomics Visium",
-      "platform": "GPL24676",
-      "stain_type": null,
-      "publication_doi": "10.1038/s41467-026-68612-z",
-      "publication_pmid": "41593079",
-      "repository_id": "GSM8349918"
+      "platform": "GPL18573",
+      "stain_type": "H&E",
+      "publication_doi": null,
+      "publication_pmid": "38744246",
+      "repository_id": "GSM5695835"
     },
     "field_sources": {
       "organism": {
         "raw_value": "Homo sapiens",
         "status": "unchanged",
         "source": {
-          "source_path": "metadata/GSE270678_family.soft.gz",
-          "source_sha256": "42af7cc5d90bdce91878762a068a43ad0b58854a2f70676de095e640c8b288c7",
+          "source_path": "metadata/GSE189184_family.soft.gz",
+          "source_sha256": "451eabe5f643634d16df1d488b9768ae008773125ea7f580c9883a7d055145e2",
           "source_key": "!Sample_organism_ch1"
         }
       },
       "tissue": {
-        "raw_value": "Gastric cancer tumor",
-        "status": "unmapped",
+        "raw_value": "Colon",
+        "status": "normalized",
         "source": {
-          "source_path": "metadata/GSE270678_family.soft.gz",
-          "source_sha256": "42af7cc5d90bdce91878762a068a43ad0b58854a2f70676de095e640c8b288c7",
-          "source_key": "!Sample_characteristics_ch1 = tissue: Gastric cancer tumor"
+          "source_path": "metadata/GSE189184_family.soft.gz",
+          "source_sha256": "451eabe5f643634d16df1d488b9768ae008773125ea7f580c9883a7d055145e2",
+          "source_key": "!Sample_characteristics_ch1 = tissue: Colon"
         }
       },
       "disease": {
-        "raw_value": "gastric cancer",
-        "status": "unchanged",
+        "raw_value": "Ulcerative Colitis",
+        "status": "unmapped",
         "source": {
-          "source_path": "metadata/GSE270678_family.soft.gz",
-          "source_sha256": "42af7cc5d90bdce91878762a068a43ad0b58854a2f70676de095e640c8b288c7",
-          "source_key": "!Series_title = A spatially resolved atlas of gastric cancer characterises a lymphocyte aggregated region [Spatial Transcriptomics]"
+          "source_path": "metadata/GSE189184_family.soft.gz",
+          "source_sha256": "451eabe5f643634d16df1d488b9768ae008773125ea7f580c9883a7d055145e2",
+          "source_key": "!Sample_characteristics_ch1 = disease: ..."
         }
       },
       "sex": {
-        "raw_value": null,
-        "status": "missing",
-        "source": null
+        "raw_value": "Female",
+        "status": "normalized",
+        "source": {
+          "source_path": "metadata/GSE189184_family.soft.gz",
+          "source_sha256": "451eabe5f643634d16df1d488b9768ae008773125ea7f580c9883a7d055145e2",
+          "source_key": "!Sample_characteristics_ch1 = gender: ..."
+        }
       },
       "age": {
+        "raw_value": "30",
+        "status": "needs_review",
+        "source": {
+          "source_path": "metadata/GSE189184_family.soft.gz",
+          "source_sha256": "451eabe5f643634d16df1d488b9768ae008773125ea7f580c9883a7d055145e2",
+          "source_key": "!Sample_characteristics_ch1 = age: ..."
+        }
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+      "donor_id": {
         "raw_value": null,
         "status": "missing",
         "source": null
       },
-      "donor_id": {
-        "raw_value": "Donor 21",
-        "status": "unchanged",
-        "source": {
-          "source_path": "metadata/GSE270678_family.soft.gz",
-          "source_sha256": "42af7cc5d90bdce91878762a068a43ad0b58854a2f70676de095e640c8b288c7",
-          "source_key": "!Sample_characteristics_ch1 = subject id: Donor 21"
-        }
-      },
       "condition": {
-        "raw_value": "Edge",
+        "raw_value": "Inflamed",
         "status": "unchanged",
         "source": {
-          "source_path": "metadata/GSE270678_family.soft.gz",
-          "source_sha256": "42af7cc5d90bdce91878762a068a43ad0b58854a2f70676de095e640c8b288c7",
-          "source_key": "!Sample_characteristics_ch1 = sampling location: Edge"
+          "source_path": "metadata/GSE189184_family.soft.gz",
+          "source_sha256": "451eabe5f643634d16df1d488b9768ae008773125ea7f580c9883a7d055145e2",
+          "source_key": "!Sample_characteristics_ch1 = activity: ..."
         }
       },
       "technology": {
         "raw_value": "10x Visium",
         "status": "normalized",
         "source": {
-          "source_path": "metadata/GSE270678_family.soft.gz",
-          "source_sha256": "42af7cc5d90bdce91878762a068a43ad0b58854a2f70676de095e640c8b288c7",
-          "source_key": "!Sample_extract_protocol_ch1 = Spatial Transcriptomics sequencing libraries were prepared with 10x Genomics Visium Spatial Gene Expression Slides"
+          "source_path": "metadata/GSE189184_family.soft.gz",
+          "source_sha256": "451eabe5f643634d16df1d488b9768ae008773125ea7f580c9883a7d055145e2",
+          "source_key": "!Sample_extract_protocol_ch1 = 10x visium spatial platform (10x CG000239 Rev D)"
         }
       },
       "platform": {
-        "raw_value": "GPL24676",
+        "raw_value": "GPL18573",
         "status": "unchanged",
         "source": {
-          "source_path": "metadata/GSE270678_family.soft.gz",
-          "source_sha256": "42af7cc5d90bdce91878762a068a43ad0b58854a2f70676de095e640c8b288c7",
-          "source_key": "!Sample_platform_id = GPL24676"
+          "source_path": "metadata/GSE189184_family.soft.gz",
+          "source_sha256": "451eabe5f643634d16df1d488b9768ae008773125ea7f580c9883a7d055145e2",
+          "source_key": "!Sample_platform_id"
         }
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       "stain_type": {
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-        "status": "missing",
-        "source": null
-      },
-      "publication_doi": {
-        "raw_value": "10.1038/s41467-026-68612-z",
+        "raw_value": "H&E",
         "status": "unchanged",
         "source": {
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-          "source_sha256": "42af7cc5d90bdce91878762a068a43ad0b58854a2f70676de095e640c8b288c7",
-          "source_key": "!Series_web_link = https://www.nature.com/articles/s41467-026-68612-z"
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+          "source_sha256": "451eabe5f643634d16df1d488b9768ae008773125ea7f580c9883a7d055145e2",
+          "source_key": "!Sample_extract_protocol_ch1 = H&E"
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+        "status": "missing",
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+        "raw_value": "38744246",
         "status": "unchanged",
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-          "source_key": "!Series_pubmed_id = 41593079"
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+          "source_key": "!Series_pubmed_id"
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-        "raw_value": "GSM8349918",
+        "raw_value": "GSM5695835",
         "status": "unchanged",
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-          "source_sha256": "42af7cc5d90bdce91878762a068a43ad0b58854a2f70676de095e640c8b288c7",
-          "source_key": "!Sample_geo_accession = GSM8349918"
+          "source_path": "metadata/GSE189184_family.soft.gz",
+          "source_sha256": "451eabe5f643634d16df1d488b9768ae008773125ea7f580c9883a7d055145e2",
+          "source_key": "!Sample_geo_accession"
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-    "sha256": "265665133962fda2ceb7ac1dd09f05a6d7a5441661b751b4d64063b42bf838f8",
-    "n_obs": 1395,
-    "n_vars": 36601,
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+    "n_obs": 2081,
+    "n_vars": 33538,
     "state": "counts",
     "observation_unit": "spot",
     "verification": "human_visual_review"
@@ -147,16 +152,16 @@
     "obsm_key": "spatial",
     "units": "pixel",
     "um_basis": "platform_constant",
-    "um_per_unit": 4.711111243022193,
-    "um_basis_detail": "platform_constant: Visium spot pitch 100 um / median nearest-neighbour 21.2264 px",
+    "um_per_unit": 0.9038399867637336,
+    "um_basis_detail": "platform_constant: Visium spot pitch 100 um / median nearest-neighbour 110.6391 px",
     "spatial_um": true
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-    "sha256": "25f3c6a4d17356ac50ea5fac996311f87c0951718b97b173be0da0c9cdf08980",
+    "sha256": "06fc0ebc77ef89bebb69529d84c67441a44ba272b1b4c0c5f12d38110fd55143",
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-      2000,
-      1908
+      10000,
+      9087
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@@ -166,7 +171,7 @@
     ],
     "stain": "H&E",
     "stain_basis": "HESRT human review",
-    "um_per_px": 4.711111243022193,
+    "um_per_px": 0.9038399867637336,
     "spatial_to_pixel": [
       [
         1.0,
@@ -190,7 +195,7 @@
     "source": [
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-        "sha256": "5b1e6c201d1cb7e4abb5d86f482635d1ccc38de385b1dda37b185cbd4d34f027",
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         "transform": "identity: HESRT coordinates are WSI pixels"
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@@ -204,7 +209,7 @@
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     "hesrt_review": {
       "human_label": "PASS",
-      "reviewed_at": "2026-09-08T02:36:20.269682+00:00",
+      "reviewed_at": "2026-09-07T10:47:10.822165+00:00",
       "review_version": "full-review-revision-110",
       "scientific_status": "PASS",
       "controller_status": "COMPLETE_PASS",
@@ -214,7 +219,7 @@
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+    "content_group": "GSM5695835",
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@@ -225,58 +230,58 @@
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samples/{GSE269875/GSM8329298 → GSE189184/GSM5695835}/spatial.h5ad

@@ -1,3 +1,3 @@
 version https://git-lfs.github.com/spec/v1
-oid sha256:d84f2e1f703cea9630baaab6977c3c1846f79f3d96dd43e8b03d76562a1a9f3d
-size 5659687
+oid sha256:5677ab5f7543c2b62c2e8e96d90d27f66c635862ee9828b869375b35173b38c8
+size 26594882

samples/{GSE278936/GSM8558024 → GSE223559/GSM6963121}/sample.json

@@ -1,20 +1,20 @@
 {
   "schema": "sda-release-sample-1",
   "release_id": "sda-unified-20261010-v3",
-  "gsm": "GSM8558024",
+  "gsm": "GSM6963121",
   "gse": [
-    "GSE278936"
+    "GSE223559"
   ],
-  "published_gse": "GSE278936",
+  "published_gse": "GSE223559",
   "metadata": {
     "organism": "Homo sapiens",
-    "tissue": "Metastatic prostate cancer tumor, Liver metastasis, Patient sample",
+    "tissue": "Healthy liver explant",
     "platform": "Visium",
     "technology": "10x Genomics Visium",
     "fields": {
       "organism": "Homo sapiens",
-      "tissue": "Metastatic prostate cancer tumor, Liver metastasis, Patient sample",
-      "disease": "metastatic prostate cancer",
+      "tissue": "Healthy liver explant",
+      "disease": null,
       "sex": null,
       "age": null,
       "donor_id": null,
@@ -22,37 +22,33 @@
       "technology": "10x Genomics Visium",
       "platform": "GPL24676",
       "stain_type": null,
-      "publication_doi": "10.1038/s41467-024-54364-1",
-      "publication_pmid": "39550375",
-      "repository_id": "GSM8558024"
+      "publication_doi": "10.1038/s41586-024-07376-2",
+      "publication_pmid": "38693268",
+      "repository_id": "GSM6963121"
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     "field_sources": {
       "organism": {
         "raw_value": "Homo sapiens",
         "status": "unchanged",
         "source": {
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-          "source_sha256": "d052d8fbd43bdc222ec3aefa6a8f62dbd5dd5d884e584c71d56acc183f6bf91c",
+          "source_path": "metadata/GSE223559_family.soft.gz",
+          "source_sha256": "0b94d66ccaa38a857487735e5d631981a69dcaba8afa4afc2d41b69cd2bac207",
           "source_key": "!Sample_organism_ch1"
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       "tissue": {
-        "raw_value": "Metastatic prostate cancer tumor, Liver metastasis, Patient sample",
+        "raw_value": "Healthy liver explant",
         "status": "unmapped",
         "source": {
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-          "source_sha256": "d052d8fbd43bdc222ec3aefa6a8f62dbd5dd5d884e584c71d56acc183f6bf91c",
+          "source_path": "metadata/GSE223559_family.soft.gz",
+          "source_sha256": "0b94d66ccaa38a857487735e5d631981a69dcaba8afa4afc2d41b69cd2bac207",
           "source_key": "!Sample_characteristics_ch1"
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       "disease": {
-        "raw_value": "metastatic prostate cancer",
-        "status": "unmapped",
-        "source": {
-          "source_path": "metadata/GSE278936_family.soft.gz",
-          "source_sha256": "d052d8fbd43bdc222ec3aefa6a8f62dbd5dd5d884e584c71d56acc183f6bf91c",
-          "source_key": "!Sample_title"
-        }
+        "raw_value": null,
+        "status": "missing",
+        "source": null
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       "sex": {
         "raw_value": null,
@@ -78,8 +74,8 @@
         "raw_value": "10x Visium",
         "status": "normalized",
         "source": {
-          "source_path": "metadata/GSE278936_family.soft.gz",
-          "source_sha256": "d052d8fbd43bdc222ec3aefa6a8f62dbd5dd5d884e584c71d56acc183f6bf91c",
+          "source_path": "metadata/GSE223559_family.soft.gz",
+          "source_sha256": "0b94d66ccaa38a857487735e5d631981a69dcaba8afa4afc2d41b69cd2bac207",
           "source_key": "!Sample_extract_protocol_ch1"
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@@ -87,8 +83,8 @@
         "raw_value": "GPL24676",
         "status": "unchanged",
         "source": {
-          "source_path": "metadata/GSE278936_family.soft.gz",
-          "source_sha256": "d052d8fbd43bdc222ec3aefa6a8f62dbd5dd5d884e584c71d56acc183f6bf91c",
+          "source_path": "metadata/GSE223559_family.soft.gz",
+          "source_sha256": "0b94d66ccaa38a857487735e5d631981a69dcaba8afa4afc2d41b69cd2bac207",
           "source_key": "!Sample_platform_id"
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       },
@@ -98,29 +94,29 @@
         "source": null
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       "publication_doi": {
-        "raw_value": "10.1038/s41467-024-54364-1",
+        "raw_value": "10.1038/s41586-024-07376-2",
         "status": "unchanged",
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-          "source_sha256": "d052d8fbd43bdc222ec3aefa6a8f62dbd5dd5d884e584c71d56acc183f6bf91c",
+          "source_path": "metadata/GSE223559_family.soft.gz",
+          "source_sha256": "0b94d66ccaa38a857487735e5d631981a69dcaba8afa4afc2d41b69cd2bac207",
           "source_key": "!Series_web_link"
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+        "raw_value": "38693268",
         "status": "unchanged",
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-          "source_sha256": "d052d8fbd43bdc222ec3aefa6a8f62dbd5dd5d884e584c71d56acc183f6bf91c",
+          "source_path": "metadata/GSE223559_family.soft.gz",
+          "source_sha256": "0b94d66ccaa38a857487735e5d631981a69dcaba8afa4afc2d41b69cd2bac207",
           "source_key": "!Series_pubmed_id"
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       "repository_id": {
-        "raw_value": "GSM8558024",
+        "raw_value": "GSM6963121",
         "status": "unchanged",
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-          "source_sha256": "d052d8fbd43bdc222ec3aefa6a8f62dbd5dd5d884e584c71d56acc183f6bf91c",
+          "source_path": "metadata/GSE223559_family.soft.gz",
+          "source_sha256": "0b94d66ccaa38a857487735e5d631981a69dcaba8afa4afc2d41b69cd2bac207",
           "source_key": "!Sample_geo_accession"
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@@ -128,8 +124,8 @@
   },
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-    "sha256": "3aa4d730a5de050b1da89cff388b50b95bde058478b15881a815a4d62c661ac1",
-    "n_obs": 2190,
+    "sha256": "a406feb1cabea0fef7d1e889e00f20be23ba67a1f795b12bd9c9602cfeab16d1",
+    "n_obs": 2618,
     "n_vars": 33538,
     "state": "counts",
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@@ -139,16 +135,16 @@
     "obsm_key": "spatial",
     "units": "pixel",
     "um_basis": "platform_constant",
-    "um_per_unit": 4.757521989921981,
-    "um_basis_detail": "platform_constant: Visium spot pitch 100 um / median nearest-neighbour 21.0193 px",
+    "um_per_unit": 0.8771592358278378,
+    "um_basis_detail": "platform_constant: Visium spot pitch 100 um / median nearest-neighbour 114.0044 px",
     "spatial_um": true
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   "image": {
     "file": "image.tif",
-    "sha256": "d54dc8504092189d89c69cb6748195858367e4b9d6e4bec3a0cf05b99f9c6de0",
+    "sha256": "29f6423023763c744f683eef93ff8191ee344406e183e36d70518bee3c1b3596",
     "shape": [
-      2000,
-      1834
+      9132,
+      9024
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     "dtype": "uint8",
     "channels": [
@@ -158,7 +154,7 @@
     ],
     "stain": "H&E",
     "stain_basis": "HESRT human review",
-    "um_per_px": 4.757521989921981,
+    "um_per_px": 0.8771592358278378,
     "spatial_to_pixel": [
       [
         1.0,
@@ -182,7 +178,7 @@
     "source": [
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         "file": "wsi.tif (HESRT v1.3)",
-        "sha256": "6c26e1ad0192b9f8f71ff6bd7aecb3876fe1dce374d0763ecb63491aa9df0c4b",
+        "sha256": "13c5f7e82c3911ab1c1741fbb3030b88921d1c60b13492232b76dbb6fe0df054",
         "transform": "identity: HESRT coordinates are WSI pixels"
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@@ -196,7 +192,7 @@
     "review": null,
     "hesrt_review": {
       "human_label": "PASS",
-      "reviewed_at": "2026-09-08T02:37:51.809278+00:00",
+      "reviewed_at": "2026-09-07T13:50:50.555023+00:00",
       "review_version": "full-review-revision-110",
       "scientific_status": "PASS",
       "controller_status": "COMPLETE_PASS",
@@ -206,7 +202,7 @@
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-    "content_group": "GSM8558024",
+    "content_group": "GSM6963121",
     "group_kind": null,
     "aliases": []
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@@ -217,58 +213,58 @@
     "files": [
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samples/{GSE269875/GSM8329293 → GSE223559/GSM6963121}/spatial.h5ad

@@ -1,3 +1,3 @@
 version https://git-lfs.github.com/spec/v1
-oid sha256:647ca8e1d8c150c29bb0275be143bf4b8e5cc389a01e7b68189eb747097f5a9d
-size 4685783
+oid sha256:a406feb1cabea0fef7d1e889e00f20be23ba67a1f795b12bd9c9602cfeab16d1
+size 55345742

samples/{GSE269875/GSM8329298 → GSE224210/GSM7017459}/sample.json

@@ -1,67 +1,63 @@
 {
   "schema": "sda-release-sample-1",
   "release_id": "sda-unified-20261010-v3",
-  "gsm": "GSM8329298",
+  "gsm": "GSM7017459",
   "gse": [
-    "GSE269875"
+    "GSE224210"
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-  "published_gse": "GSE269875",
+  "published_gse": "GSE224210",
   "metadata": {
     "organism": "Homo sapiens",
-    "tissue": "Bone marrow",
+    "tissue": "lung",
     "platform": "Visium",
     "technology": "10x Genomics Visium",
     "fields": {
       "organism": "Homo sapiens",
-      "tissue": "Bone marrow",
-      "disease": "Multiple Myeloma",
-      "sex": "female",
+      "tissue": "lung",
+      "disease": "chronic lung allograft dysfunction",
+      "sex": null,
       "age": null,
       "donor_id": null,
-      "condition": "Multiple Myeloma",
+      "condition": "CLAD",
       "technology": "10x Genomics Visium",
-      "platform": "GPL30173",
-      "stain_type": null,
+      "platform": "GPL24676",
+      "stain_type": "H&E",
       "publication_doi": null,
-      "publication_pmid": "41954292",
-      "repository_id": "GSM8329298"
+      "publication_pmid": "36946463",
+      "repository_id": "GSM7017459"
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     "field_sources": {
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         "raw_value": "Homo sapiens",
         "status": "unchanged",
         "source": {
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-          "source_sha256": "ea921276d8001c698546fdf5b102bf6057e2d2e056c47d73e968b848c3140c95",
+          "source_path": "metadata/GSE224210_family.soft.gz",
+          "source_sha256": "0ed23b175f72be2e621fad1d0aaf93eeb9f3f3dd515bcf6e5322dc28011d736a",
           "source_key": "!Sample_organism_ch1"
         }
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       "tissue": {
-        "raw_value": "Bone marrow",
-        "status": "unmapped",
+        "raw_value": "Lung",
+        "status": "normalized",
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-          "source_sha256": "ea921276d8001c698546fdf5b102bf6057e2d2e056c47d73e968b848c3140c95",
-          "source_key": "!Sample_characteristics_ch1 = tissue: Bone marrow"
+          "source_path": "metadata/GSE224210_family.soft.gz",
+          "source_sha256": "0ed23b175f72be2e621fad1d0aaf93eeb9f3f3dd515bcf6e5322dc28011d736a",
+          "source_key": "!Sample_source_name_ch1 = Lung"
         }
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       "disease": {
-        "raw_value": "Multiple Myeloma",
+        "raw_value": "chronic lung allograft dysfunction",
         "status": "unmapped",
         "source": {
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-          "source_sha256": "ea921276d8001c698546fdf5b102bf6057e2d2e056c47d73e968b848c3140c95",
-          "source_key": "!Sample_characteristics_ch1 = tumor: MM"
+          "source_path": "metadata/GSE224210_family.soft.gz",
+          "source_sha256": "0ed23b175f72be2e621fad1d0aaf93eeb9f3f3dd515bcf6e5322dc28011d736a",
+          "source_key": "!Series_summary = Chronic lung allograft dysfunction (CLAD) is the leading cause"
         }
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       "sex": {
-        "raw_value": "female",
-        "status": "unchanged",
-        "source": {
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-          "source_sha256": "ea921276d8001c698546fdf5b102bf6057e2d2e056c47d73e968b848c3140c95",
-          "source_key": "!Sample_characteristics_ch1 = gender: Female/Male"
-        }
+        "raw_value": null,
+        "status": "missing",
+        "source": null
       },
       "age": {
         "raw_value": null,
@@ -74,36 +70,40 @@
         "source": null
       },
       "condition": {
-        "raw_value": "Multiple Myeloma",
+        "raw_value": "CLAD",
         "status": "unchanged",
         "source": {
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-          "source_sha256": "ea921276d8001c698546fdf5b102bf6057e2d2e056c47d73e968b848c3140c95",
-          "source_key": "!Sample_characteristics_ch1 = tumor: Not observed / MM"
+          "source_path": "metadata/GSE224210_family.soft.gz",
+          "source_sha256": "0ed23b175f72be2e621fad1d0aaf93eeb9f3f3dd515bcf6e5322dc28011d736a",
+          "source_key": "!Sample_characteristics_ch1 = condition: CLAD"
         }
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       "technology": {
         "raw_value": "10x Visium",
         "status": "normalized",
         "source": {
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-          "source_sha256": "ea921276d8001c698546fdf5b102bf6057e2d2e056c47d73e968b848c3140c95",
-          "source_key": "!Sample_characteristics_ch1 = technique: Visium Spatial Gene Expression"
+          "source_path": "metadata/GSE224210_family.soft.gz",
+          "source_sha256": "0ed23b175f72be2e621fad1d0aaf93eeb9f3f3dd515bcf6e5322dc28011d736a",
+          "source_key": "!Sample_extract_protocol_ch1 = Visium spatial gene expression slides (10x Genomics)"
         }
       },
       "platform": {
-        "raw_value": "GPL30173",
+        "raw_value": "GPL24676",
         "status": "unchanged",
         "source": {
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-          "source_sha256": "ea921276d8001c698546fdf5b102bf6057e2d2e056c47d73e968b848c3140c95",
-          "source_key": "!Sample_platform_id"
+          "source_path": "metadata/GSE224210_family.soft.gz",
+          "source_sha256": "0ed23b175f72be2e621fad1d0aaf93eeb9f3f3dd515bcf6e5322dc28011d736a",
+          "source_key": "!Sample_platform_id = GPL24676"
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       "stain_type": {
-        "raw_value": null,
-        "status": "missing",
-        "source": null
+        "raw_value": "H&E",
+        "status": "unchanged",
+        "source": {
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+          "source_sha256": "0ed23b175f72be2e621fad1d0aaf93eeb9f3f3dd515bcf6e5322dc28011d736a",
+          "source_key": "!Sample_data_processing = Fiducial 50µm spots on the H&E image were manually aligned using Loupe browser"
+        }
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       "publication_doi": {
         "raw_value": null,
@@ -111,30 +111,30 @@
         "source": null
       },
       "publication_pmid": {
-        "raw_value": "41954292",
+        "raw_value": "36946463",
         "status": "unchanged",
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-          "source_sha256": "ea921276d8001c698546fdf5b102bf6057e2d2e056c47d73e968b848c3140c95",
-          "source_key": "!Series_pubmed_id"
+          "source_path": "metadata/GSE224210_family.soft.gz",
+          "source_sha256": "0ed23b175f72be2e621fad1d0aaf93eeb9f3f3dd515bcf6e5322dc28011d736a",
+          "source_key": "!Series_pubmed_id = 36946463"
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-        "raw_value": "GSM8329298",
+        "raw_value": "GSM7017459",
         "status": "unchanged",
         "source": {
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-          "source_sha256": "ea921276d8001c698546fdf5b102bf6057e2d2e056c47d73e968b848c3140c95",
-          "source_key": "!Sample_geo_accession"
+          "source_path": "metadata/GSE224210_family.soft.gz",
+          "source_sha256": "0ed23b175f72be2e621fad1d0aaf93eeb9f3f3dd515bcf6e5322dc28011d736a",
+          "source_key": "!Sample_geo_accession = GSM7017459"
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   "expression": {
     "file": "spatial.h5ad",
-    "sha256": "d84f2e1f703cea9630baaab6977c3c1846f79f3d96dd43e8b03d76562a1a9f3d",
-    "n_obs": 875,
-    "n_vars": 18085,
+    "sha256": "e012a2002198ba700e26e4b0f896179cea90e2f030baf5b80b36528c813cd528",
+    "n_obs": 2524,
+    "n_vars": 36601,
     "state": "counts",
     "observation_unit": "spot",
     "verification": "human_visual_review"
@@ -143,16 +143,16 @@
     "obsm_key": "spatial",
     "units": "pixel",
     "um_basis": "platform_constant",
-    "um_per_unit": 7.142856785714311,
-    "um_basis_detail": "platform_constant: Visium spot pitch 100 um / median nearest-neighbour 14.0000 px",
+    "um_per_unit": 0.7352742413412813,
+    "um_basis_detail": "platform_constant: Visium spot pitch 100 um / median nearest-neighbour 136.0037 px",
     "spatial_um": true
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   "image": {
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-    "sha256": "edc28ce9ece9571ea1ef13dd54d89b9a8633eeb9f117d1d38e833ff51c0921b2",
+    "sha256": "d35d43c8034a8807588385c6f4bf8a95aff054a1bfaa5fb05a19d65c39c183dc",
     "shape": [
-      2000,
-      2000
+      11409,
+      11744
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     "channels": [
@@ -162,7 +162,7 @@
     ],
     "stain": "H&E",
     "stain_basis": "HESRT human review",
-    "um_per_px": 7.142856785714311,
+    "um_per_px": 0.7352742413412813,
     "spatial_to_pixel": [
       [
         1.0,
@@ -186,7 +186,7 @@
     "source": [
       {
         "file": "wsi.tif (HESRT v1.3)",
-        "sha256": "e566d4a140edc255c368d2cb8753a649ba7c52af228c2ef0f9f8fe857801757d",
+        "sha256": "8ec2b158c2b8ca88c9fdb26483bf97572eacee9a5c34bea2c525a9c029bbb928",
         "transform": "identity: HESRT coordinates are WSI pixels"
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@@ -200,7 +200,7 @@
     "review": null,
     "hesrt_review": {
       "human_label": "PASS",
-      "reviewed_at": "2026-09-08T02:15:01.487875+00:00",
+      "reviewed_at": "2026-09-06T02:52:56.338110+00:00",
       "review_version": "full-review-revision-110",
       "scientific_status": "PASS",
       "controller_status": "COMPLETE_PASS",
@@ -210,7 +210,7 @@
     }
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+    "content_group": "GSM7017459",
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     "aliases": []
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@@ -221,58 +221,58 @@
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samples/{GSE278936/GSM8558024 → GSE224210/GSM7017459}/spatial.h5ad

@@ -1,3 +1,3 @@
 version https://git-lfs.github.com/spec/v1
-oid sha256:3aa4d730a5de050b1da89cff388b50b95bde058478b15881a815a4d62c661ac1
-size 10405142
+oid sha256:e012a2002198ba700e26e4b0f896179cea90e2f030baf5b80b36528c813cd528
+size 43112041

samples/{GSE269875/GSM8329293 → GSE287278/GSM8742923}/sample.json

@@ -1,72 +1,76 @@
 {
   "schema": "sda-release-sample-1",
   "release_id": "sda-unified-20261010-v3",
-  "gsm": "GSM8329293",
+  "gsm": "GSM8742923",
   "gse": [
-    "GSE269875"
+    "GSE287278"
   ],
-  "published_gse": "GSE269875",
+  "published_gse": "GSE287278",
   "metadata": {
     "organism": "Homo sapiens",
-    "tissue": "Bone marrow",
+    "tissue": "uterine endometrium",
     "platform": "Visium",
     "technology": "10x Genomics Visium",
     "fields": {
       "organism": "Homo sapiens",
-      "tissue": "Bone marrow",
-      "disease": "Multiple Myeloma",
+      "tissue": "uterine endometrium",
+      "disease": "repeated implantation failure",
       "sex": "female",
-      "age": null,
+      "age": "25",
       "donor_id": null,
-      "condition": "Multiple Myeloma",
+      "condition": "repeated implantation failure",
       "technology": "10x Genomics Visium",
-      "platform": "GPL30173",
-      "stain_type": null,
+      "platform": "GPL24676",
+      "stain_type": "H&E",
       "publication_doi": null,
-      "publication_pmid": "41954292",
-      "repository_id": "GSM8329293"
+      "publication_pmid": "41162434",
+      "repository_id": "GSM8742923"
     },
     "field_sources": {
       "organism": {
         "raw_value": "Homo sapiens",
         "status": "unchanged",
         "source": {
-          "source_path": "metadata/GSE269875_family.soft.gz",
-          "source_sha256": "ea921276d8001c698546fdf5b102bf6057e2d2e056c47d73e968b848c3140c95",
+          "source_path": "metadata/GSE287278_family.soft.gz",
+          "source_sha256": "ceb1ed33d0572a34d11a1595a57a952cb410515c845a02030a2803f5ef06d6be",
           "source_key": "!Sample_organism_ch1"
         }
       },
       "tissue": {
-        "raw_value": "Bone marrow",
+        "raw_value": "uterine endometrium",
         "status": "unmapped",
         "source": {
-          "source_path": "metadata/GSE269875_family.soft.gz",
-          "source_sha256": "ea921276d8001c698546fdf5b102bf6057e2d2e056c47d73e968b848c3140c95",
-          "source_key": "!Sample_characteristics_ch1 = tissue: Bone marrow"
+          "source_path": "metadata/GSE287278_family.soft.gz",
+          "source_sha256": "ceb1ed33d0572a34d11a1595a57a952cb410515c845a02030a2803f5ef06d6be",
+          "source_key": "!Sample_source_name_ch1"
         }
       },
       "disease": {
-        "raw_value": "Multiple Myeloma",
+        "raw_value": "repeated implantation failure",
         "status": "unmapped",
         "source": {
-          "source_path": "metadata/GSE269875_family.soft.gz",
-          "source_sha256": "ea921276d8001c698546fdf5b102bf6057e2d2e056c47d73e968b848c3140c95",
-          "source_key": "!Sample_characteristics_ch1 = tumor: MM"
+          "source_path": "metadata/GSE287278_family.soft.gz",
+          "source_sha256": "ceb1ed33d0572a34d11a1595a57a952cb410515c845a02030a2803f5ef06d6be",
+          "source_key": "!Sample_description: repeated implantation failure"
         }
       },
       "sex": {
         "raw_value": "female",
         "status": "unchanged",
         "source": {
-          "source_path": "metadata/GSE269875_family.soft.gz",
-          "source_sha256": "ea921276d8001c698546fdf5b102bf6057e2d2e056c47d73e968b848c3140c95",
-          "source_key": "!Sample_characteristics_ch1 = gender: Female/Male"
+          "source_path": "metadata/GSE287278_family.soft.gz",
+          "source_sha256": "ceb1ed33d0572a34d11a1595a57a952cb410515c845a02030a2803f5ef06d6be",
+          "source_key": "!Sample_title"
         }
       },
       "age": {
-        "raw_value": null,
-        "status": "missing",
-        "source": null
+        "raw_value": "25",
+        "status": "needs_review",
+        "source": {
+          "source_path": "metadata/GSE287278_family.soft.gz",
+          "source_sha256": "ceb1ed33d0572a34d11a1595a57a952cb410515c845a02030a2803f5ef06d6be",
+          "source_key": "!Series_overall_design"
+        }
       },
       "donor_id": {
         "raw_value": null,
@@ -74,36 +78,40 @@
         "source": null
       },
       "condition": {
-        "raw_value": "Multiple Myeloma",
+        "raw_value": "repeated implantation failure",
         "status": "unchanged",
         "source": {
-          "source_path": "metadata/GSE269875_family.soft.gz",
-          "source_sha256": "ea921276d8001c698546fdf5b102bf6057e2d2e056c47d73e968b848c3140c95",
-          "source_key": "!Sample_characteristics_ch1 = tumor: Not observed / MM"
+          "source_path": "metadata/GSE287278_family.soft.gz",
+          "source_sha256": "ceb1ed33d0572a34d11a1595a57a952cb410515c845a02030a2803f5ef06d6be",
+          "source_key": "!Sample_characteristics_ch1: Case set / RIF description"
         }
       },
       "technology": {
         "raw_value": "10x Visium",
         "status": "normalized",
         "source": {
-          "source_path": "metadata/GSE269875_family.soft.gz",
-          "source_sha256": "ea921276d8001c698546fdf5b102bf6057e2d2e056c47d73e968b848c3140c95",
-          "source_key": "!Sample_characteristics_ch1 = technique: Visium Spatial Gene Expression"
+          "source_path": "metadata/GSE287278_family.soft.gz",
+          "source_sha256": "ceb1ed33d0572a34d11a1595a57a952cb410515c845a02030a2803f5ef06d6be",
+          "source_key": "!Sample_extract_protocol_ch1"
         }
       },
       "platform": {
-        "raw_value": "GPL30173",
+        "raw_value": "GPL24676",
         "status": "unchanged",
         "source": {
-          "source_path": "metadata/GSE269875_family.soft.gz",
-          "source_sha256": "ea921276d8001c698546fdf5b102bf6057e2d2e056c47d73e968b848c3140c95",
+          "source_path": "metadata/GSE287278_family.soft.gz",
+          "source_sha256": "ceb1ed33d0572a34d11a1595a57a952cb410515c845a02030a2803f5ef06d6be",
           "source_key": "!Sample_platform_id"
         }
       },
       "stain_type": {
-        "raw_value": null,
-        "status": "missing",
-        "source": null
+        "raw_value": "H&E",
+        "status": "unchanged",
+        "source": {
+          "source_path": "metadata/GSE287278_family.soft.gz",
+          "source_sha256": "ceb1ed33d0572a34d11a1595a57a952cb410515c845a02030a2803f5ef06d6be",
+          "source_key": "!Sample_extract_protocol_ch1: hematoxylin and eosin (H&E) staining"
+        }
       },
       "publication_doi": {
         "raw_value": null,
@@ -111,20 +119,20 @@
         "source": null
       },
       "publication_pmid": {
-        "raw_value": "41954292",
+        "raw_value": "41162434",
         "status": "unchanged",
         "source": {
-          "source_path": "metadata/GSE269875_family.soft.gz",
-          "source_sha256": "ea921276d8001c698546fdf5b102bf6057e2d2e056c47d73e968b848c3140c95",
+          "source_path": "metadata/GSE287278_family.soft.gz",
+          "source_sha256": "ceb1ed33d0572a34d11a1595a57a952cb410515c845a02030a2803f5ef06d6be",
           "source_key": "!Series_pubmed_id"
         }
       },
       "repository_id": {
-        "raw_value": "GSM8329293",
+        "raw_value": "GSM8742923",
         "status": "unchanged",
         "source": {
-          "source_path": "metadata/GSE269875_family.soft.gz",
-          "source_sha256": "ea921276d8001c698546fdf5b102bf6057e2d2e056c47d73e968b848c3140c95",
+          "source_path": "metadata/GSE287278_family.soft.gz",
+          "source_sha256": "ceb1ed33d0572a34d11a1595a57a952cb410515c845a02030a2803f5ef06d6be",
           "source_key": "!Sample_geo_accession"
         }
       }
@@ -132,9 +140,9 @@
   },
   "expression": {
     "file": "spatial.h5ad",
-    "sha256": "647ca8e1d8c150c29bb0275be143bf4b8e5cc389a01e7b68189eb747097f5a9d",
-    "n_obs": 373,
-    "n_vars": 18085,
+    "sha256": "c7a07bfde48bbbf4c25bad7990f4442d7bd815d03436cabfc57eac0a9f118fb7",
+    "n_obs": 914,
+    "n_vars": 36601,
     "state": "counts",
     "observation_unit": "spot",
     "verification": "human_visual_review"
@@ -143,16 +151,16 @@
     "obsm_key": "spatial",
     "units": "pixel",
     "um_basis": "platform_constant",
-    "um_per_unit": 7.142856785714311,
-    "um_basis_detail": "platform_constant: Visium spot pitch 100 um / median nearest-neighbour 14.0000 px",
+    "um_per_unit": 0.9345794392523364,
+    "um_basis_detail": "platform_constant: Visium spot pitch 100 um / median nearest-neighbour 107.0000 px",
     "spatial_um": true
   },
   "image": {
     "file": "image.tif",
-    "sha256": "98c8dce2cda17d64871a33381044baf3b688874dcf6998ee354033a6b32b6566",
+    "sha256": "33326a9cd853379773c648f48f4b9d2eb648f2b3e9e2978376aa2925033eda28",
     "shape": [
-      2000,
-      2000
+      8689,
+      8636
     ],
     "dtype": "uint8",
     "channels": [
@@ -162,7 +170,7 @@
     ],
     "stain": "H&E",
     "stain_basis": "HESRT human review",
-    "um_per_px": 7.142856785714311,
+    "um_per_px": 0.9345794392523364,
     "spatial_to_pixel": [
       [
         1.0,
@@ -186,7 +194,7 @@
     "source": [
       {
         "file": "wsi.tif (HESRT v1.3)",
-        "sha256": "9c3912ac4d20054a2996f8d07829cc140e93c1193b4dd8bf7ef03a391116b951",
+        "sha256": "5fe16983642908e5ab7257c1472ebea49f9a05275eafc6bd63ab0272bcbdf033",
         "transform": "identity: HESRT coordinates are WSI pixels"
       }
     ]
@@ -200,7 +208,7 @@
     "review": null,
     "hesrt_review": {
       "human_label": "PASS",
-      "reviewed_at": "2026-09-08T02:15:01.487875+00:00",
+      "reviewed_at": "2026-09-06T02:13:07.411023+00:00",
       "review_version": "full-review-revision-110",
       "scientific_status": "PASS",
       "controller_status": "COMPLETE_PASS",
@@ -210,7 +218,7 @@
     }
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   "dedup": {
-    "content_group": "GSM8329293",
+    "content_group": "GSM8742923",
     "group_kind": null,
     "aliases": []
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@@ -221,58 +229,58 @@
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         "role": "hesrt_package",
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-{
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+   "sha256": "33326a9cd853379773c648f48f4b9d2eb648f2b3e9e2978376aa2925033eda28",
+   "bytes": 90235488
+  },
+  "samples/GSE223559/GSM6963121/sample.json": {
+   "sha256": "e74ee56013c367a8d5a6ddab8067dbde3ad8ebda09526ffb677adcab0317672a",
+   "bytes": 9114
+  },
+  "samples/GSE223559/GSM6963121/spatial.h5ad": {
+   "sha256": "a406feb1cabea0fef7d1e889e00f20be23ba67a1f795b12bd9c9602cfeab16d1",
+   "bytes": 55345742
+  },
+  "samples/GSE223559/GSM6963121/image.tif": {
+   "sha256": "29f6423023763c744f683eef93ff8191ee344406e183e36d70518bee3c1b3596",
+   "bytes": 109485746
+  }
+ },
+ "changes": [
+  {
+   "date": "2026-11-03",
+   "replaced": [
+    "GSM8329293",
+    "GSM8329298",
+    "GSM8349918",
+    "GSM8558024",
+    "GSM9011363"
+   ],
+   "with": [
+    "GSM5543483",
+    "GSM7017459",
+    "GSM5695835",
+    "GSM8742923",
+    "GSM6963121"
+   ],
+   "reason": "swap 5 low-resolution Visium H&E (4.7-7.3 um/px) for 5 cell-resolution Visium H&E (0.73-0.93 um/px)"
   }
- }
+ ]
 }