Brain Tumor GEO data-Ncbi

Analyses related to genomic, proteomic, clinical and envirointal interactions in brain tumor

Brain Tumor GEO data-Ncbi

Postby schen072 » Sun Feb 14, 2016 5:54 pm

This attached file contains accession code and demographic details on brain cancer data available in GEO-Ncbi. This covers only human data.
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Brain cancer GEO DAta.docx
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Re: Brain Tumor GEO data-Ncbi

Postby cwyoo » Sun Apr 03, 2016 7:50 pm

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?
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Brain Tumor data.docx
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Re: BrainTumour GEO data-Ncbi

Postby schen072 » Mon Apr 04, 2016 9:14 am

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
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Re: BrainTumour GEO data-Ncbi

Postby schen072 » Thu Apr 14, 2016 7:17 pm

below is the dataset that contains the data on the variables that are significantly correlated with the disease.
Attachments
Significant variables.csv
Significant variables chosed based on Correlation coefficients
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Re: BrainTumour GEO data-Ncbi

Postby schen072 » Wed Apr 20, 2016 7:03 pm

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)
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Re: BrainTumour GEO data-Ncbi

Postby lsand039 » Mon Jul 25, 2016 10:21 am

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.
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Brain Tumor with USA,Gender,Age.xlsx
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Re: BrainTumour GEO data-Ncbi

Postby lsand039 » Tue Jul 26, 2016 8:53 am

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).
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Brain Tumor with Gender,Age,Multiple Countries.xlsx
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Re: Brain Tumor GEO data-Ncbi

Postby lsand039 » Wed Jul 27, 2016 10:12 am

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.
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USA Brain Tumor .xlsx
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Re: Brain Tumor GEO data-Ncbi

Postby ktchi001 » Fri Mar 03, 2017 3:38 pm

Queries are named after the GSE file. Additional numbers are the GPL file.
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Query81934.xlsx
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Query49810_9128.xlsx
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Query34718.xlsx
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Query32374.xlsx
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Query28026.xlsx
(19.11 MiB) Downloaded 944 times
Query14412.xlsx
(41.38 MiB) Downloaded 905 times
Query13041_570.xlsx
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Query4412_97.xlsx
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Query4271_97.xlsx
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Query4271_96.xlsx
(31.64 MiB) Downloaded 917 times
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Re: Brain Tumor GEO data-Ncbi

Postby ktchi001 » Tue Mar 21, 2017 11:22 am

Additional queries
Attachments
Query13041_8300.xlsx
(9.54 MiB) Downloaded 917 times
Query4412_96.xlsx
(41.47 MiB) Downloaded 936 times
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