Tag: GEO

Are you a beginner trying to understand the Samples repository of GEO database of NCBI? We have put together a step-by-step guide to help you navigate through the process easily. Steps: Step 1: Visit the Samples repository homepage The first step is to visit the homepage of Samples repository of GEO database of NCBI. Click on this link: https://www.ncbi.nlm.nih.gov/geo/browse/?view=samplesStep 2: Check the entries available On the homepage of Samples, you will find a tabular form listing the available entries. The table provides details about each entry such as ‘Accession’, ‘Title’, ‘Sample type’, ‘Organism(s)’, ‘ch’, ‘Platforms’, ‘Supplementary’, ‘Contact’, and ‘Release Date’.Step 3: Find details about a particular entry Click on the accession link of any particular entry to get more detailed information about that entry. Once you open the accession page of a particular entry, it’ll provide the Platform accession on the top of the page. Then below this, it provides various details about that particular entry, such as ‘Status’, ‘Title’, ‘Technology type’, ‘Distribution’, ‘Submission date’, etc.Step 4: Check the linked Samples in a Series Scroll down to the ‘Series’ section of the page, where it provides the Series accession links that are linked to that particular Sample. It also provides the ‘Platform ID’ to which the particular Samples entry is linked. All of the entries available in the Samples list make a Platform together which are further linked in a single Series. The linked Samples in a Series provide the focal point, where the two Samples or researches overlap.Learn Cancer Genomics: NGS (Whole Exome Sequencing) Variant Calling Using LinuxStep 5: Access archives At the bottom of this page, it provides the accession links of the archives from where the datasets have been collected. You can access these archives to learn more about the datasets.Step 6: Download datasets You can also download the entire dataset of a particular entry by clicking on the hyperlinks available at the bottom of the page. Conclusion: This step-by-step guide provides you with a basic understanding of the Samples repository of GEO database of NCBI. By following these steps, you can easily navigate through the database and access the relevant information.

Tag: GEO

Gene Expression Omnibus – Samples

How to Navigate the GEO Platform Repository in NCBI’s GEO Database

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