# how to analyse differential gene expression for denovo data

**URL:** <https://help.galaxyproject.org/t/how-to-analyse-differential-gene-expression-for-denovo-data/8961>\
**Category:** usegalaxy.org support\
**Tags:** gtn-tutorial, transcriptomics\
**Created:** [November 5, 2022, 6:15am UTC](https://help.galaxyproject.org/t/how-to-analyse-differential-gene-expression-for-denovo-data/8961 "2022-11-05T06:15:25Z")\
**Posts on this page:** 2\
**Page:** 1

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**Author:** ![Anand\_Mishra](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/anand_mishra/32/2039_2.png) [@Anand\_Mishra](https://help.galaxyproject.org/u/Anand_Mishra)\
**Post date:** [November 5, 2022, 6:15am UTC](https://help.galaxyproject.org/t/how-to-analyse-differential-gene-expression-for-denovo-data/8961/1 "2022-11-05T06:15:25Z")

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I am analyzing 4 SRA accessions having transcriptome libraries of two control and two disease conditions for plant samples which have no reference genome yet. I want to calculate differential gene expression from them.

1. SRX13450302 ---- R1 diseased
2. SRX13450301 ----R2 diseased
3. SRX13450300 ---- R1 Control
4. SRX13450299 ----- R2 Control

Can anyone provide support to do analysis as I tried many times on galaxy server but the job failed. please help me out.

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**Author:** ![jennaj](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/jennaj/32/27_2.png) [@jennaj](https://help.galaxyproject.org/u/jennaj)\
**Post date:** [November 11, 2022, 12:16am UTC](https://help.galaxyproject.org/t/how-to-analyse-differential-gene-expression-for-denovo-data/8961/2 "2022-11-11T00:16:29Z")

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Hi @Anand_Mishra

This related Q&A has tutorial links with an exact process [Differentially expressed genes](https://help.galaxyproject.org/t/differentially-expressed-genes/5167)

Also here [https://training.galaxyproject.org/](https://training.galaxyproject.org/)

More choices:

1. If you are not familiar with Galaxy, start with a few “Introduction to Galaxy Analysis” tutorials first then progress to domain specific tutorials for the topic “Transcriptomics”.
2. Try running through these with the tutorial data to learn the analysis process. Then, run the analysis on your own data. Most tutorials have an associated workflow that can be imported and used directly or customized.
3. You can ask for help troubleshooting errors at this forum.

> [@RESOLVED: usegalaxy.org is super slow: 11/8/2022 Confirmed job delays](https://help.galaxyproject.org/t/resolved-usegalaxy-org-is-super-slow-11-8-2022-confirmed-job-delays/8986/3):
>
> Any jobs that fail should be rerun at least once to eliminate technical issues. Persistent failures can be reported in new topics. Remember to include enough information so the community can help: tool/version and error messages at a minimum, with a shared history link ideal.
> 
> FAQs – entire page can also be browser searched with keywords like: datatypes, tool names, functions  
> [#troubleshooting-errors](https://training.galaxyproject.org/training-material/faqs/galaxy/#troubleshooting-errors)  
> [#understanding-input-error-messages](https://training.galaxyproject.org/training-material/faqs/galaxy/#understanding-input-error-messages)  
> [#sharing-your-history](https://training.galaxyproject.org/training-material/faqs/galaxy/#sharing-your-history)

Best