How Can Transcriptome Sequencing Data Be Submitted to the GEO Database?
The submission of transcriptome sequencing data to the Gene Expression Omnibus (GEO) involves several essential steps, outlined as follows:
Register a GEO Account
Before submitting data, you must register for a GEO account. This can be done by visiting the GEO website and clicking on the "Register" button to create an account.
Create a GEO Series
After logging into your account, initiate a new GEO Series to house your transcriptome sequencing data. Click the “Submit” button and select the “New GEO Series” option to begin the submission process.
Provide Metadata
When creating the GEO Series, you are required to complete a set of metadata fields that describe your experiment and dataset. This includes details such as experimental design, sample characteristics, sequencing platform, and data processing protocols. Ensure that all information is accurate and comprehensive to facilitate data interpretation and reuse by other researchers.
Upload the Data
Once the metadata form is completed, proceed to upload the transcriptome sequencing files. Click “Submit” and choose the “Data” option. At this stage, you will be prompted to upload your raw sequencing files in FASTQ format. You may either upload the files directly to GEO or provide a link to an external data repository.
Data Validation
After submission, the GEO team will initiate a validation process to check the integrity and completeness of your data. The duration of this process depends on factors such as file size and server workload. Once validation is successfully completed, your files will be officially incorporated into your GEO Series.
Publish the Data
Upon successful validation, you may choose to make your transcriptome data publicly accessible. Click “Submit” and select the “Publish” option. At this stage, you will be required to provide additional contextual information about your dataset, including the manuscript title, abstract, and relevant keywords.
Data Access and Availability
Once published, your transcriptome dataset becomes publicly available for browsing and download via the GEO database. Researchers can locate your dataset using the search function or by navigating GEO's data collections, and they can download the files for subsequent analysis and integration into their own studies.
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