zgong001 wrote:I merged some datasets of Glioblastoma, then finally got 5754 genes and 619 subjects. The merged datasets are
GSE31545
GSE63035
GSE34824
GSE24558
GSE10878
GSE25632
GSE42670
GSE81934
GSE36245
GSE9885
GSE10878
GSE7344
GSE49822
GSE53228
GSE6014
GSE36426
GSE32374
cwyoo wrote:zgong001 wrote:I merged some datasets of Glioblastoma, then finally got 5754 genes and 619 subjects. The merged datasets are
GSE31545
GSE63035
GSE34824
GSE24558
GSE10878
GSE25632
GSE42670
GSE81934
GSE36245
GSE9885
GSE10878
GSE7344
GSE49822
GSE53228
GSE6014
GSE36426
GSE32374
In the merged Glioblastoma (and Astrocytoma) dataset,
* you should have a clinical variable representing Glioblastoma stages (where 0 represent normal subjects). I do not see it. In Astrocytoma dataset, Astrocytoma stages should be in the merged dataset as well.
* no missing data (I see missing data in some variables, e.g., age, sex). the GEO studies that have missing clinical variables, e.g., age, sex, Glioblastoma (or Astrocytoma) stages, should be excluded (this information should be available in the master's table).
Please update the merged datasets (continuous and discrete) of Glioblastoma and Astrocytoma and post them here.
cwyoo wrote:cwyoo wrote:zgong001 wrote:I merged some datasets of Glioblastoma, then finally got 5754 genes and 619 subjects. The merged datasets are
GSE31545
GSE63035
GSE34824
GSE24558
GSE10878
GSE25632
GSE42670
GSE81934
GSE36245
GSE9885
GSE10878
GSE7344
GSE49822
GSE53228
GSE6014
GSE36426
GSE32374
In the merged Glioblastoma (and Astrocytoma) dataset,
* you should have a clinical variable representing Glioblastoma stages (where 0 represent normal subjects). I do not see it. In Astrocytoma dataset, Astrocytoma stages should be in the merged dataset as well.
* no missing data (I see missing data in some variables, e.g., age, sex). the GEO studies that have missing clinical variables, e.g., age, sex, Glioblastoma (or Astrocytoma) stages, should be excluded (this information should be available in the master's table).
Please update the merged datasets (continuous and discrete) of Glioblastoma and Astrocytoma and post them here.
For Glioblastoma, I suggest we prepare following six datasets (note each category has continuous and discrete datasets):
Category: Case-control (Glio-Case-Control-Continuous and Glio-Case-Control-Discrete)
Merge the following series
GSE7696
GSE6014
GSE41467
GSE36278
GSE25632
GSE10878
Category: Treatment (Glio-Treatment-Continuous and Glio-Treatment-Discrete)
Merge the following series
GSE84010
GSE7696
GSE7344
Category: Grade (Glio-Grade-Continuous and Glio-Grade-Discrete)
Merge the following series
GSE9885
GSE84010
GSE73038
GSE53228
GSE42670
GSE36426
GSE31545
GSE25632
GSE10878
Category: Survival (Glio-Grade-Continuous and Glio-Grade-Discrete)
Merge the following series
GSE84010
GSE7696
GSE42670
GSE31545
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