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Transcriptome data or GO annotation for A. thaliana bud stage

Hi,

Does anyone know where can I download the transcriptome data or GO annotation for A. thaliana bud stage? Would appreciate all the help I can get! Thank you.

gene
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updated by EagleEye EagleEye • written by khadijahr • khadijahr

See if this works from EBI-ENA for RNAseq data.

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written by GenoMax GenoMax

1 answer

Using GeneSCF you can extract GO annotations with list of genes (text file as table) for any organism available in Geneontology.org,

A: focus on specific pathway

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written by EagleEye EagleEye

Thank you for the info. So do I need to have the input data in order to do that?

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written by khadijahr • khadijahr

  1. If you want to do gene enrichment analysis, you need to have list of significant genes (differentially expressed) from your analysis.

  2. If you just need all GO_ID, GO_name and list of corresponding genes from A. thaliana, use "prepare_database" module from GeneSCF. It will extract the information in simplified table format in a text file.

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written by EagleEye EagleEye

Wow that's nice! Will it have a database specific for the bud stage? Or is it for the whole A. thaliana plant?

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written by khadijahr • khadijahr

Not specific for bud stage, it is as a whole.

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written by EagleEye EagleEye

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