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Brain Tumor GEO data-Ncbi

PostPosted: Sun Feb 14, 2016 5:54 pm
by schen072
This attached file contains accession code and demographic details on brain cancer data available in GEO-Ncbi. This covers only human data.

Re: Brain Tumor GEO data-Ncbi

PostPosted: Sun Apr 03, 2016 7:50 pm
by cwyoo
schen072 wrote:This attached file contains accession code and demographic details on brain cancer data available in GEO-Ncbi. This covers only human data.


I have the following table that you have sent me. Is this the most recent updated table? Did you update this table with TCGA dataset?

Re: BrainTumour GEO data-Ncbi

PostPosted: Mon Apr 04, 2016 9:14 am
by schen072
As TCGA dataset was taken directly as a dataset. this selection process was done only for GEO datasets. I will update the GEO to the document and upload it.
thank you

Re: BrainTumour GEO data-Ncbi

PostPosted: Thu Apr 14, 2016 7:17 pm
by schen072
below is the dataset that contains the data on the variables that are significantly correlated with the disease.

Re: BrainTumour GEO data-Ncbi

PostPosted: Wed Apr 20, 2016 7:03 pm
by schen072
Prediction analysis for the dataset with Significant variables using logistic regression:


Null deviance: 5.2544e+01 on 178 degrees of freedom
Residual deviance: 1.0385e-09 on 0 degrees of freedom
AIC: 358

Number of Fisher Scoring iterations: 25
Since the p-value of the chi-square test is so less, our model significantly fits the data better than an empty/null model (one containing only an intercept and no predictors).
8.63646e-22

logLik(mylogit)
'log Lik.' -5.192078e-10 (df=179)

Re: BrainTumour GEO data-Ncbi

PostPosted: Mon Jul 25, 2016 10:21 am
by lsand039
Attached is the file that lists the series and datasets of the brain tumor glioblastoma and brain tumor GEO searches. There are 21 from the USA and have both gender and age information available. The entries in blue were already in the Brain Tumor data.docx & Brain cancer GEO DAta.docx files listed earlier.

Re: BrainTumour GEO data-Ncbi

PostPosted: Tue Jul 26, 2016 8:53 am
by lsand039
This attachment contains the series & datasets I've found that contain both gender & age. The studies were from: USA (22), China (6), South Korea (4), UK (4), Canada (3), Germany (3), Japan (3), Norway (3), Spain (3), France (2), India (2), Italy(2), Switzerland (2), and Poland (1).

Re: Brain Tumor GEO data-Ncbi

PostPosted: Wed Jul 27, 2016 10:12 am
by lsand039
This file contains 106 studies I found from the USA. Not all of them include age & gender demographic data, but other information when provided was listed.

Re: Brain Tumor GEO data-Ncbi

PostPosted: Fri Mar 03, 2017 3:38 pm
by ktchi001
Queries are named after the GSE file. Additional numbers are the GPL file.

Re: Brain Tumor GEO data-Ncbi

PostPosted: Tue Mar 21, 2017 11:22 am
by ktchi001
Additional queries