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Updating counts of analyzed cases
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@mwyczalkowski
mwyczalkowski committed May 20, 2021
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27 changes: 13 additions & 14 deletions DCC_Analysis_Summary/README.Y3.md
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Last updated: 4/15/21
Last updated: 5/20/21

**Bold fields** are new since 20210318

## Analysis Summaries - Case counts - Y3 only
Pipeline | AML | CCRCC | CM | GBM | HNSCC | LSCC | LUAD | PDA | SAR | UCEC | Total
--- | --- | ----- | --- | --- | ----- | ---- | ---- | --- | --- | ---- | ---
Methylation Array | 43 | 222 | 8 |**169**| 111 | 113 | 229 | 164 | 19 | 249 | **1327**
RNA-Seq Expression | 42 | 222 | 8 |**176**| 111 | 113 | 229 | 164 | 19 | 252 | **1336**
RNA-Seq Fusion | 0 | 110 | 0 | 0 | 0 | 0 | 0 | 81 | 0 | 170 | 361
RNA-Seq Transcript + Splicing | 0 | 110 | 0 |**69**| 0 | 0 |**109**| 81 | 0 | 170 | 539
Methylation Array | 43 | 222 | 8 | 169 | 111 | 113 | 229 | 164 | 19 | 249 | 1327
miRNA-Seq | 4 | 43 | 3 |**83**| 22 | 15 | 72 | 82 | 0 | 35 | **359**
RNA-Seq Expression | 42 | 222 | 8 |176| 111 | 113 | 229 | 164 | 19 | 252 | 1336
RNA-Seq Fusion | 0 | 110 | 0 |**69**| 0 | 0 |**109**| 81 | 0 | 170 |**539**
RNA-Seq Transcript + Splicing | 0 | 110 | 0 |69| 0 | 0 |109| 81 | 0 | 170 | 539
WGS CNV Somatic | 0 | 146 | 0 | 115 | 111 | 113 | 0 | 166 | 0 | 242| 893
WGS SV | 0 | 222 | 0 |**114**| 111 | 85 |**109**| 89 | 0 | 203 | **1024**
miRNA-Seq | 4 | 43| 3 | 14 | 22 | 15 | 72 | 82 | 0 | 35 | 290
WGS SV | 0 | 222 | 0 |114| 111 | 85 |109| 89 | 0 | 203 | 1024
WXS MSI | 0 | 156 | 0 | 0 | 0 | 0 | 0 | 166 | 0 | 104 | 426
WXS Somatic TD | 0 | 0 | 0 |**57**| 0 | 113 |**109**| 0 | 0 | 0 | **279**
WXS Somatic SW | 0 | 0 | 0 | 0 | 0 | 113 | 0 | 166 | 0 | 247 | 526
WXS Germline | 0 | 110 | 0 |**157**|110 | 110 |**218**| 145 | 0 | 95 | **945**
WXS Somatic TD | 0 | 0 | 0 |57| 0 | 113 |109| 0 | 0 | 0 | 279
WXS Somatic SW | 0 | 0 | 0 |**57**| 0 | 113 |**109**| 166 | 0 | 247 | **692**
WXS Germline | 0 | 110 | 0 |157|110 | 110 |218| 145 | 0 | 95 | 945

<!-- Note, WXS Somatic CCRCC was not reported to DCC analysis summary -->
## All results (Y1, Y2, Y3) - Case counts

Pipeline | AML | CCRCC | CM | GBM | HNSCC | LSCC | LUAD | PDA | SAR | UCEC | Total
--- | --- | ----- | --- | --- | ----- | ---- | ---- | --- | --- | ---- | ---
Methylation Array | 43 | 222 | 8 | 169 | 111 | 113 | 229 | 164 | 19 | 249 | 1327
miRNA-Seq | 42 | 222 | 8 | 114 | 111 | 113 | 229 | 164 | 19 | 250 | 1272
miRNA-Seq | 42 | 264 | 8 | 184 | 125 | 126 | 235 | 165 | 19 | 253 | 1341
RNA-Seq Expression | 42 | 222 | 8 | 176 | 111 | 113 | 229 | 164 | 19 | 252 | 1336
RNA-Seq Fusion | 11 | 222 | 8 | 119 | 111 | 113 | 164 | 164 | 19 | 247 | 1177
RNA-Seq Fusion | 11 | 222 | 8 | 188 | 111 | 113 | 273 | 164 | 19 | 247 | 1311
RNA-Seq Transcript + Splicing | 1 | 222 | 3 | 188 | 111 | 113 | 162 | 164 | 0 | 247 | 1167
WGS SV | 0 | 222 | 0 | 173 | 132 | 113 | 220 | 166 | 0 | 242 | 1337
WGS CNV Somatic | 0 | 222 | 0 | 115 | 111 | 113 | 121 | 166 | 0 | 242 | 1090
WXS MSI | 0 | 222 | 0 | 118 | 111 | 113 | 111 | 166 | 0 | 247 | 1088
WXS Somatic TD | 0 | 0 | 0 | 57 | 0 | 113 | 109 | 0 | 0 | 0 | 279
WXS Somatic SW | 0 | 0 | 0 | 0 | 0 | 113 | 109 | 166 | 0 | 247 | 635
WXS Somatic SW | 0 | 0 | 0 | 59 | 0 | 113 | 218 | 166 | 0 | 247 | 800
WXS Germline | 0 | 110 | 0 | 157 |110 | 110 | 218 | 145 | 0 | 95 | 945


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8 changes: 4 additions & 4 deletions DCC_Analysis_Summary/README.md
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Expand Up @@ -28,18 +28,18 @@ Pipelines which generate multiple result files per case will have multiple entri

Counts of cases processed per disease and pipeline. Counts of results to reference other than GDC hg38 excluded.

Pipeline (last updated 4/15/21) | AML | CCRCC | CM | GBM | HNSCC | LSCC | LUAD | PDA | SAR | UCEC | Total
Pipeline (last updated 5/20/21) | AML | CCRCC | CM | GBM | HNSCC | LSCC | LUAD | PDA | SAR | UCEC | Total
--- | --- | ----- | --- | --- | ----- | ---- | ---- | --- | --- | ---- | ---
Methylation Array | 43 | 222 | 8 | 169 | 111 | 113 | 229 | 164 | 19 | 249 | 1327
miRNA-Seq | 42 | 222 | 8 | 114 | 111 | 113 | 229 | 164 | 19 | 250 | 1272
miRNA-Seq | 42 | 264 | 8 | 184 | 125 | 126 | 235 | 165 | 19 | 253 | 1341
RNA-Seq Expression | 42 | 222 | 8 | 176 | 111 | 113 | 229 | 164 | 19 | 252 | 1336
RNA-Seq Fusion | 11 | 222 | 8 | 119 | 111 | 113 | 164 | 164 | 19 | 247 | 1177
RNA-Seq Fusion | 11 | 222 | 8 | 188 | 111 | 113 | 273 | 164 | 19 | 247 | 1311
RNA-Seq Transcript + Splicing | 1 | 222 | 3 | 188 | 111 | 113 | 162 | 164 | 0 | 247 | 1167
WGS SV | 0 | 222 | 0 | 173 | 132 | 113 | 220 | 166 | 0 | 242 | 1337
WGS CNV Somatic | 0 | 222 | 0 | 115 | 111 | 113 | 121 | 166 | 0 | 242 | 1090
WXS MSI | 0 | 222 | 0 | 118 | 111 | 113 | 111 | 166 | 0 | 247 | 1088
WXS Somatic TD | 0 | 0 | 0 | 57 | 0 | 113 | 109 | 0 | 0 | 0 | 279
WXS Somatic SW | 0 | 0 | 0 | 0 | 0 | 113 | 109 | 166 | 0 | 247 | 635
WXS Somatic SW | 0 | 0 | 0 | 59 | 0 | 113 | 218 | 166 | 0 | 247 | 800
WXS Germline | 0 | 110 | 0 | 157 |110 | 110 | 218 | 145 | 0 | 95 | 945


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