Frequently Asked Questions (FAQ) about GliomaBiolinks

We do our best to answer all questions from our community. Below is compilation of some of the most frequently asked or requested information

  • Can I upload sequencing data or beta values?

    At the moment, we can only process raw IDAT files generated from Illumina 450K or EPIC arrays. Coming soon, we will be able to process whole-genome bisulfite sequencing data.

  • I like to classify my own tumors in batch, how do I do that?

    We developed a stand alone R bioconductor tool which can classify batches of glioma samples. Please see TCGAbiolinks and TCGAbiolinksGUI

  • How should I cite your tool

    Please cite:
    1: Ceccarelli M, Barthel FP, Malta TM, Sabedot TS, et al., Noushmehr H, Iavarone A, Verhaak RG. Molecular Profiling Reveals Biologically Discrete Subsets and Pathways of Progression in Diffuse Glioma. Cell. 2016 Jan 28;164(3):550-63. doi: 10.1016/j.cell.2015.12.028. PubMed PMID: 26824661; PubMed Central PMCID: PMC4754110.

    2: Colaprico A, Silva TC, et al., Noushmehr H. TCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data. Nucleic Acids Res. 2016 May 5;44(8):e71. doi: 10.1093/nar/gkv1507. Epub 2015 Dec 23. PubMed PMID: 26704973; PubMed Central PMCID: PMC4856967.

    3: de Souza CF, et al., Noushmehr H. A Distinct DNA Methylation Shift in a Subset of Glioma CpG Island Methylator Phenotypes during Tumor Recurrence. Cell Rep. 2018 Apr 10;23(2):637-651. doi: 10.1016/j.celrep.2018.03.107. PubMed PMID: 29642018.

    4. Wells M, et al., Noushmehr H. GliomaBiolinks: Webtool to classify gliomas. 2020.

  • Do you offer internships or can you suggest some laboratories?

    Yes we do. We encourage those interested in interning in a laboratory to contact us at info AT lab DOT foundation

  • Can I use this tool in my clinic?

    You can do whatever you want, but keep in mind, this is a research tool and should only be used for research. If you use it for your clinics, please understand that this is not recommended by us.

  • I didn't receive an email after I submitted my samples

    Please wait at least 1 hour. If after an hour, you still haven't received the email - please check your spam folder. If it's not in your spam folder and you waited at least 1 hour, please contact us at . Thank you.

This tool is for research purpose only.

By using our tool, you acknowledge that the results will be used only for research purposes and not for clinical diagnosis.