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Question: Question: RNAseq dataset for different cancers stages !!

Anjana
3160 days ago

Question: RNAseq dataset for different cancers stages !!

Is there any database exists which provides RNAseq data for different cancers stages?

Answers
0

The Cancer Genome Atlas (TCGA) Data Portal provides a platform for researchers to search, download, and analyze data sets generated by TCGA.

https://tcga-data.nci.nih.gov/tcga/

https://cghub.ucsc.edu/

Updatehttps://gdc-portal.nci.nih.gov/

EagleEye 2886 days ago

0

These resources are essential for cancer research, as they allow scientists and researchers to access and analyze large-scale genomics data to better understand the molecular mechanisms underlying different cancer types and stages. Keep in mind that new resources and datasets may have emerged since that time. Here are some notable resources:

  1. The Cancer Genome Atlas (TCGA): TCGA is a comprehensive resource that provides genomic and clinical data for a wide range of cancer types, including RNA sequencing data. Researchers can access TCGA data through the Genomic Data Commons (GDC) data portal.

  2. International Cancer Genome Consortium (ICGC): ICGC is a global initiative that focuses on characterizing the genomic alterations in various cancer types. It provides access to genomic data, including RNA sequencing data, for numerous cancer projects.

  3. Gene Expression Omnibus (GEO): GEO, managed by the National Center for Biotechnology Information (NCBI), offers a vast collection of gene expression data, including RNAseq datasets from various cancer studies. Researchers can search and download datasets relevant to their research.

  4. ArrayExpress: ArrayExpress, hosted by the European Bioinformatics Institute (EBI), is another repository for high-throughput functional genomics data. It contains a wide array of RNA sequencing datasets from cancer studies.

  5. GDC Data Portal: The Genomic Data Commons (GDC) is a platform for accessing and analyzing cancer genomics data, including RNAseq datasets. It collaborates with projects like TCGA to provide a user-friendly interface for researchers.

  6. UCSC Cancer Genomics Browser: The University of California, Santa Cruz (UCSC) offers a cancer genomics browser that allows users to explore and analyze genomic data for different cancer types, including RNAseq data.

  7. ENCODE (Encyclopedia of DNA Elements): While ENCODE primarily focuses on characterizing the functional elements in the human genome, it also includes RNA sequencing data from various cell lines and tissues, which can be relevant for cancer research.

  8. Broad Institute's Cancer Program: The Broad Institute hosts a wealth of cancer genomics data, including RNAseq datasets. They offer data through platforms like Firehose, which provides analysis-ready datasets for multiple cancer types.

  9. European Genome-phenome Archive (EGA): EGA provides access to a variety of genomics data, including RNAseq data, for cancer research. It is particularly useful for European-based studies.

To access and utilize these resources, researchers typically need to register for accounts, adhere to data usage policies, and may require specific software tools and bioinformatics expertise for data analysis. Additionally, the availability and specific datasets within these resources may vary, so it's essential to explore each resource to find datasets relevant to your research interests.