From 5d24327ba574e494c128bd47816b58e67792b39d Mon Sep 17 00:00:00 2001
From: Viktoria Petrova <vipet103@hhu.de>
Date: Wed, 12 Mar 2025 13:48:38 +0000
Subject: [PATCH] Revert "rename assay"

This reverts commit 1c6646fe12afb061393b686d7fefa93ab4d10984
---
 assays/RNAseq_analysis_of_leaf/isa.assay.xlsx | Bin 0 -> 15832 bytes
 assays/ThreeDRNAseq/README.md                 |   6 ++++++
 assays/ThreeDRNAseq/dataset/.gitkeep          |   0
 .../dataset/Count_leaf/counts_gene_leaf.csv   |   3 +++
 .../Count_leaf/counts_transcript_leaf.csv     |   3 +++
 .../dataset/TPM_leaf/TPM_genes_leaf.csv       |   3 +++
 .../dataset/TPM_leaf/TPM_transcripts_leaf.csv |   3 +++
 assays/ThreeDRNAseq/isa.assay.xlsx            | Bin 15832 -> 16005 bytes
 assays/ThreeDRNAseq/protocols/.gitkeep        |   0
 9 files changed, 18 insertions(+)
 create mode 100644 assays/RNAseq_analysis_of_leaf/isa.assay.xlsx
 create mode 100644 assays/ThreeDRNAseq/README.md
 create mode 100644 assays/ThreeDRNAseq/dataset/.gitkeep
 create mode 100644 assays/ThreeDRNAseq/dataset/Count_leaf/counts_gene_leaf.csv
 create mode 100644 assays/ThreeDRNAseq/dataset/Count_leaf/counts_transcript_leaf.csv
 create mode 100644 assays/ThreeDRNAseq/dataset/TPM_leaf/TPM_genes_leaf.csv
 create mode 100644 assays/ThreeDRNAseq/dataset/TPM_leaf/TPM_transcripts_leaf.csv
 create mode 100644 assays/ThreeDRNAseq/protocols/.gitkeep

diff --git a/assays/RNAseq_analysis_of_leaf/isa.assay.xlsx b/assays/RNAseq_analysis_of_leaf/isa.assay.xlsx
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diff --git a/assays/ThreeDRNAseq/README.md b/assays/ThreeDRNAseq/README.md
new file mode 100644
index 0000000..4aa060d
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+++ b/assays/ThreeDRNAseq/README.md
@@ -0,0 +1,6 @@
+RNAseq analysis was conducted on the leaf and main shoot apex (MSA) samples separately.
+
+The tables of Count and Transcript per Million (TPM) were obtained using ThreeDRNAseq R package.
+The tables of differentially expressed genes were obtained using EdgeR R package.
+Gene Ontology analysis was performed using the Triticeae-Gene Tribe database (http://wheat.cau.edu.cn/TGT/m15/?navbar=GOEnrichment).
+WCGNA analysis was performed using the WGCNA R package.
diff --git a/assays/ThreeDRNAseq/dataset/.gitkeep b/assays/ThreeDRNAseq/dataset/.gitkeep
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index 0000000..279960f
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diff --git a/assays/ThreeDRNAseq/protocols/.gitkeep b/assays/ThreeDRNAseq/protocols/.gitkeep
new file mode 100644
index 0000000..e69de29
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