Skip to content
Snippets Groups Projects

Compare revisions

Changes are shown as if the source revision was being merged into the target revision. Learn more about comparing revisions.

Source

Select target project
No results found

Target

Select target project
  • usadellab/solanum_lycopersicoides_rnasequencing
  • ceplas/solanum_lycopersicoides_rnasequencing
2 results
Show changes
Commits on Source (31)
Hide whitespace changes
Inline Side-by-side
Showing
with 113 additions and 7 deletions
.arc/.gitkeep 0 → 100644
View file @ e1bf97c3
.gitattributes 0 → 100644
View file @ e1bf97c3
*.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T0L1_P1_S1_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T0L1_P1_S1_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T0L1_P2_S2_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T0L1_P2_S2_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T0L1_P3_S3_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T0L1_P3_S3_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T0L1_P4_S4_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T0L1_P4_S4_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T0L2_P1_S5_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T0L2_P1_S5_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T0L2_P2_S6_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T0L2_P2_S6_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T0L2_P3_S7_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T0L2_P3_S7_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T0L2_P4_S8_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T0L2_P4_S8_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L1CP1_S9_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L1CP1_S9_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L1CP2_S10_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L1CP2_S10_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L1CP3_S11_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L1CP3_S11_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L1CP4_S12_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L1CP4_S12_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L1SP1_S17_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L1SP1_S17_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L1SP2_S18_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L1SP2_S18_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L1SP3_S19_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L1SP3_S19_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L1SP4_S20_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L1SP4_S20_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L2CP1_S13_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L2CP1_S13_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L2CP2_S14_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L2CP2_S14_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L2CP3_S15_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L2CP3_S15_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L2CP4_S16_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L2CP4_S16_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L2SP1_S21_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L2SP1_S21_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L2SP2_S22_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L2SP2_S22_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L2SP3_S23_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L2SP3_S23_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L2SP4_S24_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T1L2SP4_S24_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L1CP1_S33_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L1CP1_S33_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L1CP2_S34_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L1CP2_S34_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L1CP3_S35_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L1CP3_S35_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L1CP4_S36_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L1CP4_S36_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L1SP1_S25_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L1SP1_S25_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L1SP2_S26_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L1SP2_S26_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L1SP3_S27_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L1SP3_S27_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L1SP4_S28_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L1SP4_S28_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L2CP1_S37_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L2CP1_S37_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L2CP2_S38_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L2CP2_S38_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L2CP3_S39_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L2CP3_S39_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L2CP4_S40_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L2CP4_S40_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L2SP1_S29_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L2SP1_S29_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L2SP2_S30_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L2SP2_S30_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L2SP3_S31_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L2SP3_S31_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L2SP4_S32_LALL_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
assays/RNA_Sequencing/dataset/T2L2SP4_S32_LALL_R2_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
README.md
View file @ e1bf97c3
# Solanum_lycopersicoides_RNAsequencing
## Project Description
To make it easy for you to get started with GitLab, here's a list of recommended next steps.
Already a pro? Just edit this README.md and make it your own. Want to make it easy? [Use the template at the bottom](#editing-this-readme)!
This ARC is based on the extraction and seqencing of RNA from _Solanum lycopersicoides_ plants, performed for the manuscript entitled "A _Solanum lycopersicoides_ reference genome facilitates insights into tomato specialized metabolism and immunity."
## Publication Information
......@@ -21,7 +17,7 @@ Summary: Wild relatives of tomato are a valuable source of natural variation in
Keywords: Solanum lycopersicoides, genome, carotenoids, anthocyanin, disease resistance, drought
##### Research Funding
### Research Funding
Biotechnology and Biological Sciences Research Council.\
Grant Number: BB/N005023/1
......@@ -42,6 +38,6 @@ Grant Numbers: 664621, 739582
National Science Foundation.\
Grant Numbers: IOS-1539831, IOS-1546625, IOS-1855585
##### Article Funding
### Article Funding
Open access funding enabled and organized by ProjektDEAL.
assays/.gitkeep 0 → 100644
View file @ e1bf97c3
assays/RNA_Extraction/README.md 0 → 100644
View file @ e1bf97c3
assays/RNA_Extraction/dataset/.gitkeep 0 → 100644
View file @ e1bf97c3
assays/RNA_Extraction/dataset/RNA_Extraction.xlsx 0 → 100644
View file @ e1bf97c3
File added
assays/RNA_Extraction/isa.assay.xlsx 0 → 100644
View file @ e1bf97c3
File added
assays/RNA_Extraction/protocols/.gitkeep 0 → 100644
View file @ e1bf97c3
assays/RNA_Extraction/protocols/RNAextraction_protocol.md 0 → 100644
View file @ e1bf97c3
RNA was extracted from approximately 50 mg of tissue using a Zymo DirectZol miniprep Kit.
A DNase digestion was performed on the RNA extractions using Baseline-ZERO DNase (Epicenter).
Samples were run on a 1% agarose gel to check quality.
assays/RNA_Sequencing/README.md 0 → 100644
View file @ e1bf97c3
assays/RNA_Sequencing/dataset/.gitkeep 0 → 100644
View file @ e1bf97c3
assays/RNA_Sequencing/dataset/T0L1_P1_S1_LALL_R1_001.fastq.gz 0 → 100644 LFS
View file @ e1bf97c3
File added
assays/RNA_Sequencing/dataset/T0L1_P1_S1_LALL_R2_001.fastq.gz 0 → 100644 LFS
View file @ e1bf97c3
File added
assays/RNA_Sequencing/dataset/T0L1_P2_S2_LALL_R1_001.fastq.gz 0 → 100644 LFS
View file @ e1bf97c3
File added
assays/RNA_Sequencing/dataset/T0L1_P2_S2_LALL_R2_001.fastq.gz 0 → 100644 LFS
View file @ e1bf97c3
File added
assays/RNA_Sequencing/dataset/T0L1_P3_S3_LALL_R1_001.fastq.gz 0 → 100644 LFS
View file @ e1bf97c3
File added
assays/RNA_Sequencing/dataset/T0L1_P3_S3_LALL_R2_001.fastq.gz 0 → 100644 LFS
View file @ e1bf97c3
File added
assays/RNA_Sequencing/dataset/T0L1_P4_S4_LALL_R1_001.fastq.gz 0 → 100644 LFS
View file @ e1bf97c3
File added
assays/RNA_Sequencing/dataset/T0L1_P4_S4_LALL_R2_001.fastq.gz 0 → 100644 LFS
View file @ e1bf97c3
File added