| CPTAC GC Jan2025 clinical data |
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Clincally derived phenotypes |
clinical |
Phenotype |
31 |
159 |
tsi |
| CPTAC GC metatable |
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Molecularly derived phenotypes |
meta |
Phenotype |
2465 |
189 |
tsi |
| CPTAC GC WES gene-level-somatic-mutation-binary |
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Mutation Gene(WES,BCM mutation calling pipeline) |
Gene |
Mutation Status |
16325 |
157 |
cbt |
| CPTAC GC Broad WGS CNV by gene |
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SCNV Gene(WGS,Broad CNV calling pipeline) |
Gene |
Copy Number Change |
62659 |
157 |
cct |
| CPTAC GC methylation basic promoter gene Tumor AND NAT |
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DNA methylation Gene(EPIC betaValue, tumor and normal) |
Gene |
Expression (Beta value) |
18551 |
184 |
cct |
| CPTAC GC methylation basic promoter gene Tumor |
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DNA methylation Gene(EPIC betaValue, tumor only) |
Gene |
Expression (Beta value) |
18550 |
154 |
cct |
| CPTAC GC RNAseq gene rsem rm circRNA UQ log2(x+1) Tumor NAT |
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RNA expression (Gene upper quantile normalized log2(x+1), tumor and normal) |
Gene |
Expression (RSEM) |
62696 |
172 |
cct |
| CPTAC GC RNAseq gene rsem rm circRNA UQ log2(x+1) Tumor |
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RNA expression (Gene upper quantile normalized log2(x+1), tumor only) |
Gene |
Expression (RSEM) |
62696 |
151 |
cct |
| CPTAC GC linear isoform fpkm raw log2(x+1) Tumor NAT |
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RNA Isoform Expression (Transcript raw log2(x+1), tumor and normal) |
Transcript |
Expression (FPKM) |
117681 |
172 |
cct |
| CPTAC GC linear isoform fpkm raw log2(x+1) Tumor |
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RNA Isoform Expression (Transcript raw log2(x+1), tumor only) |
Transcript |
Expression (FPKM) |
117681 |
151 |
cct |
| CPTAC GC circRNA rsem UQ log2(x+1) Tumor NAT |
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circular RNA Expression (Gene upper quantile normalized log2(x+1), tumor and normal) |
Gene |
Expression (RSEM) |
8323 |
172 |
cct |
| CPTAC GC circRNA rsem UQ log2(x+1) Tumor |
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circular RNA Expression (Gene upper quantile normalized log2(x+1), tumor only) |
Gene |
Expression (RSEM) |
8323 |
151 |
cct |
| CPTAC GC mature-miRNA-expression-rpm-log2(+1) Tumor NAT |
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micro RNA Expression (Gene log2(x+1), tumor and normal) |
Gene |
Expression (RPM) |
2582 |
175 |
cct |
| CPTAC GC mature-miRNA-expression-rpm-log2(+1) Tumor |
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micro RNA Expression (Gene log2(x+1), tumor only) |
Gene |
Expression (RPM) |
2582 |
154 |
cct |
| CPTAC GC TMT proteomics ratio gene MD GencodeV42 Tumor NAT |
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Proteome Gene TMT (median centered log2 ratio, tumor and normal) |
Gene |
Expression (median centerted log2 ratio) |
11293 |
189 |
cct |
| CPTAC GC TMT proteomics ratio gene MD GencodeV42 Tumor |
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Proteome Gene TMT (median centered log2 ratio, tumor only) |
Gene |
Expression (median centerted log2 ratio) |
11293 |
159 |
cct |
| CPTAC GC TMT phospho ratio GencodeV42 Tumor NAT |
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Phosphoproteome Site TMT (median centered log2 ratio mapped to primary isoform, tumor and normal) |
Site |
Expression (median centerted log2 ratio) |
62815 |
189 |
cct |
| CPTAC GC TMT phospho ratio GencodeV42 Tumor |
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Phosphoproteome Site TMT (median centered log2 ratio mapped to primary isoform, tumor only) |
Site |
Expression (median centerted log2 ratio) |
62805 |
159 |
cct |
| CPTAC GC TMT nglycoform log2 ratios sitelevel Tumor NAT |
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Glycoproteome Glycoprotein TMT (median centered log2 ratio, tumor and normal) |
Glycoprotein |
Expression (median centerted log2 ratio) |
36018 |
189 |
cct |
| CPTAC GC TMT nglycoform log2 ratios sitelevel Tumor |
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Glycoproteome Glycoprotein TMT (median centered log2 ratio, tumor only) |
Glycoprotein |
Expression (median centerted log2 ratio) |
35890 |
159 |
cct |
| CPTAC GC DIA Ubiq gencode log2 MD primary mapped Tumor NAT |
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Ubiquitylome Peptide DIA (median centered log2 intensity tumor and normal mapped to primary isoform) |
Peptide |
Expression (median centered log2) |
26198 |
189 |
cct |
| CPTAC GC DIA Ubiq gencode log2 MD primary mapped Tumor |
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Ubiquitylome Peptide DIA (median centered log2 intensity tumor only mapped to primary isoform) |
Peptide |
Expression (median centered log2) |
25947 |
159 |
cct |
| CPTAC GC TMT acetyl primary mapped MD GencodeV42 Tumor NAT |
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Acetylome Site TMT (median centered log2 ratio, tumor and normal) |
Site |
Expression (median centerted log2 ratio) |
11502 |
189 |
cct |
| CPTAC GC TMT acetyl primary mapped MD GencodeV42 Tumor |
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Acetylome Site TMT (median centered log2 ratio, tumor only) |
Site |
Expression (median centerted log2 ratio) |
11470 |
159 |
cct |
| CPTAC GC metabolomics Weight Norm ints log2 Tumor NAT |
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Metabolome Metabolite TMT (Weight normalized log2, tumor and normal) |
Metabolite |
Expression (weight normalized log2) |
435 |
186 |
cct |
| CPTAC GC metabolomics Weight Norm ints log2 Tumor |
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Metabolome Metabolite (TMT Weight normalized log2, tumor only) |
Metabolite |
Expression (weight normalized log2) |
434 |
156 |
cct |
| CPTAC GC sepep matrix MD Tumor NAT |
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Structurally Equivalent Peptide Groups SEPEP TMT peptide rolled up to SEPEP level (median centered log2, tumor and normal) |
SEPEP |
Expression (median centerted log2 ratio) |
30534 |
189 |
cct |
| CPTAC GC sepep matrix MD Tumor |
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Structurally Equivalent Peptide Groups SEPEP TMT peptide rolled up to SEPEP level (median centered log2, tumor only) |
SEPEP |
Expression (median centerted log2 ratio) |
30534 |
159 |
cct |
| CPTAC GC peptide linkage with tmt ratio minlen6 Tumor NAT |
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Protein interaction peptide linkage (TMT peptide linkages, min peptide length 6, tumor and normal) |
peptide linkage |
Expression (log2 ratio) |
2790 |
173 |
cct |
| CPTAC GC peptide linkage with tmt ratio minlen6 Tumor |
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Protein interaction peptide linkage (TMT peptide linkages, min peptide length 6, tumor and normal) |
peptide linkage |
Expression (log2 ratio) |
2103 |
144 |
cct |