{
  "version": "1.0.18",
  "name": "K562 ENCFF534PXC | chr11 | cCRE + ClinVar overlap + gene scores",
  "description": "K562 ENCODE rE2G extended ENCFF534PXC / ENCSR621BIJ, GRCh38 chr11 only. Original bigInteract value fields are preserved (not the 0-1000 display score); zero denotes an unreported source link. Elements and gene/TSS columns follow genomic order. cCRE classes represent positive-length overlaps with the GRCh38 registry, not cCRE-specific gene predictions. HBB, HBG1, HBG2, HBD, and HBE1 are included as reported target genes. This is regulatory-link data, not expression data. ClinVar source: clinvar_hg38_plp.vcf.gz (broader pathogenic/likely-pathogenic collection, without the previous GI restriction). ClinVar strip: number of supplied chr11 ClinVar records overlapping each element. Overlap uses [POS-1, POS-1+len(REF)), including indel anchor bases. Counts are stored as raw integers; hover labels provide exact counts. ClinVar associations do not establish K562 genotypes or regulatory effects. VCF annotated genes are not substituted for rE2G target genes. All rows are shown initially; overlap groups are selectable.",
  "initStrategy": "auto",
  "datasets": [
    {
      "uid": "K562",
      "name": "K562 ENCFF534PXC chr11",
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        {
          "fileType": "obsFeatureMatrix.csv",
          "url": "https://users.abdenlab.org/voy/vitessce_cvh/k562_sci/chr11.matrix.csv",
          "coordinationValues": {
            "obsType": "element",
            "featureType": "gene",
            "featureValueType": "score"
          }
        },
        {
          "fileType": "obsLabels.csv",
          "url": "https://users.abdenlab.org/voy/vitessce_cvh/k562_sci/chr11.ccre_metadata.csv",
          "coordinationValues": {
            "obsType": "element",
            "obsLabelsType": "Overlapping cCREs (ID: class)"
          },
          "options": {
            "obsIndex": "element_id",
            "obsLabels": "ccre_id_class"
          }
        },
        {
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          "url": "https://users.abdenlab.org/voy/vitessce_cvh/k562_sci/chr11.ccre_metadata.csv",
          "coordinationValues": {
            "obsType": "element",
            "obsLabelsType": "Overlapping cCRE count"
          },
          "options": {
            "obsIndex": "element_id",
            "obsLabels": "ccre_count"
          }
        },
        {
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          "url": "https://users.abdenlab.org/voy/vitessce_cvh/k562_sci/chr11.ccre.matrix.csv",
          "coordinationValues": {
            "obsType": "element",
            "featureType": "cCRE class",
            "featureValueType": "overlap"
          }
        },
        {
          "fileType": "obsFeatureMatrix.csv",
          "url": "https://users.abdenlab.org/voy/vitessce_cvh/k562_sci/chr11.clinvar.matrix.csv",
          "coordinationValues": {
            "obsType": "element",
            "featureType": "ClinVar annotation",
            "featureValueType": "variant count"
          }
        },
        {
          "fileType": "obsSets.json",
          "url": "https://users.abdenlab.org/voy/vitessce_cvh/k562_sci/chr11.clinvar.obsSets.json",
          "coordinationValues": {
            "obsType": "element"
          }
        },
        {
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          "url": "https://users.abdenlab.org/voy/vitessce_cvh/k562_sci/chr11.clinvar.metadata.csv",
          "coordinationValues": {
            "obsType": "element",
            "obsLabelsType": "ClinVar overlap count"
          },
          "options": {
            "obsIndex": "element_id",
            "obsLabels": "clinvar_count"
          }
        },
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          "coordinationValues": {
            "obsType": "element",
            "obsLabelsType": "Overlapping ClinVar variants"
          },
          "options": {
            "obsIndex": "element_id",
            "obsLabels": "clinvar_details"
          }
        }
      ]
    }
  ],
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      "A": "K562"
    },
    "obsType": {
      "A": "element"
    },
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      "A": "gene",
      "classes": "cCRE class",
      "clinvar": "ClinVar annotation"
    },
    "featureValueType": {
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      "classes": "overlap",
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    },
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      "classes": null,
      "clinvar": null
    },
    "featureHighlight": {
      "A": null,
      "classes": null,
      "clinvar": null
    },
    "obsHighlight": {
      "A": null
    },
    "obsLabelsType": {
      "ccre_matches": "Overlapping cCREs (ID: class)",
      "ccre_count": "Overlapping cCRE count",
      "clinvar_count": "ClinVar overlap count",
      "clinvar_details": "Overlapping ClinVar variants"
    },
    "heatmapZoomX": {
      "rows": 0
    },
    "heatmapZoomY": {
      "rows": 0
    },
    "heatmapTargetY": {
      "rows": 0
    },
    "heatmapTargetX": {
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      "classes": 0,
      "clinvar": 0
    },
    "featureValueColormap": {
      "scores": "plasma",
      "classes": "jet",
      "clinvar": "jet"
    },
    "featureValueColormapRange": {
      "scores": [
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      ],
      "classes": [
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        1
      ],
      "clinvar": [
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        1
      ]
    },
    "obsSetSelection": {
      "clinvar": []
    },
    "obsSetColor": {
      "clinvar": [
        {
          "path": [
            "ClinVar overlap",
            "With ClinVar overlap"
          ],
          "color": [
            255,
            140,
            0
          ]
        },
        {
          "path": [
            "ClinVar overlap",
            "No ClinVar overlap"
          ],
          "color": [
            110,
            110,
            110
          ]
        }
      ]
    }
  },
  "layout": [
    {
      "component": "heatmap",
      "coordinationScopes": {
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        "featureType": "classes",
        "featureValueType": "classes",
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        "featureHighlight": "classes",
        "obsHighlight": "A",
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        ],
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        "heatmapTargetY": "rows",
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        "featureValueColormap": "classes",
        "featureValueColormapRange": "classes",
        "obsSetSelection": "clinvar",
        "obsSetColor": "clinvar"
      },
      "props": {
        "transpose": false,
        "title": "K562 chr11: cCRE class overlap (0/1)",
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        "observationsLabelOverride": "Regulatory element"
      },
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      },
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        "featureValueColormapRange": "scores",
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        "title": "K562 chr11: element \u00d7 gene",
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      },
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    {
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      },
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}