File download

In this part of the website, you will be able to download the data relative to the practicals :

  1. Day 1 and 2 - RNA-sequencing ;
  • First, here is the article in which the RNA-seq analysis was published (as well as the supplemental figures of the article) :
  • Scheepers_et_al-2020-The_Plant_Journal-article.pdf (1 MB)
  • Supplemental_Figures_Scheepers-article.pdf (478 KB)
    • The article describing the RIN score for RNA quality is available here :
  • RIN_method.pdf (729 KB)
    • The full pipeline of the analysis as well as the dataset resulting from the RNA-sequening are available here :
  • RNA-seq_full-pipeline-root.pdf (264 KB)
  • tophat_root.matrix (1 MB)
    • The annotation files are available here. You can download them and add them to the “data” folder.
  • Athaliana_167_synonym_TAIR10.csv (243 KB)
  • Athaliana_defline_167_TAIR10.txt (1 MB)
    • The list of transcription factors in Arabidopsis as well as the list of genes known to be involved in Fe/Zn homeostasis in Arabidopsis are available here :
  • Ath_TF_list.txt (61 KB)
  • goi_metals_list.csv (1 KB)
    1. Day 3 & 4 - RNA extraction and RT-qPCR ;

    The protocol for the RNA extraction is available below :

  • TP-from_RNA-seq-to-RT-qPCR.pdf (111 KB)

    1. Day 5 - RT-qPCR data analysis ;

    Here is the table with the processed results of the qPCR analysis :

  • final_results_qPCR_all_groups.csv (955 B)