How do I select data i the followig way?
To verify the proposed approach, Illumina 27K and 450K datasets were obtained from
the Breast Invasive Carcinoma project from GDC Data Portal [20]. The disease types chosen
were Ductal and Lobular Neoplasms. A total of 1188 samples were retrieved. Table 1 shows
the distribution of methylation data from the Illumina platform
To select the data in the specified way, you would first need to access the Illumina 27K and 450K datasets from the Breast Invasive Carcinoma project on the GDC Data Portal [20].
Once you have obtained the datasets, you would need to filter the samples based on the disease types Ductal and Lobular Neoplasms. This can be done by querying the dataset for samples that belong to these specific disease types.
After filtering by disease type, you will be left with a subset of samples that meet the criteria. In this case, you mentioned that a total of 1188 samples were retrieved.
Finally, to visualize the distribution of methylation data from the Illumina platform, you would refer to Table 1 where the distribution of methylation data is presented for the obtained samples.
To select data in the following way:
1. Access the GDC Data Portal website (https://portal.gdc.cancer.gov/) and navigate to the Breast Invasive Carcinoma project.
2. Look for the Illumina 27K and 450K datasets within the project. These datasets contain methylation data.
3. Filter the datasets to only include samples with disease types labeled as Ductal and Lobular Neoplasms. This will help narrow down the samples to the desired disease types.
4. Retrieve the methylation data for the selected samples. The data will include information about the methylation levels across various genomic locations.
5. Organize the retrieved data into a table format, with the samples as rows and the methylation data from the Illumina platform as columns. This will allow you to analyze and interpret the data more easily.
Table 1 should display the distribution of methylation data from the Illumina platform, showing the number of samples for each disease type and potentially other relevant information, such as methylation levels or genomic locations.
Note: The exact steps may vary depending on the specific tools or platforms used to access and retrieve the data.