This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Where to find Bioinformatics datasets for the purpose of visualization

I am looking for a source to download datasets to practice visualization in R, mainly Arc Diagrams. Where can I find such datasets?

r
• 2,221 views • link
updated by michael.ante michael.ante • written by ' '

What kind of data are you interested in? There are MicroArray data, DNA-Seq data, transcriptomics, proteomics, population dynamics data and much much more.

Most data sets are in a raw format, from which you need to deduce your entities' relationships.

You can have e.g. a look at the kegg database to see enzymatic interactions.

• 0 views • link
written by michael.ante michael.ante

Thank you! I am mostly interested in gene expression data.

• 0 views • link
written by ' '

1 answer

Hi Lazarus,

you may have a look at EBI Expression atlas, or NCBI's Short read archive, or NCBI's Gene expression omnibus. These sides provide either MicroArray expression files or sequenced reads. You need to process them in order to compute gene-gene interactions.

Cheers,

Michael

• 0 views • link
written by michael.ante michael.ante

Log in to answer this question.

More posts like this