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| Status |
Public on Aug 27, 2024 |
| Title |
WT_4_1 |
| Sample type |
SRA |
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| Source name |
Leaves
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| Organism |
Solanum lycopersicum |
| Characteristics |
tissue: Leaves
genotype: Wild type
treatment: Cold
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| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extraction was conducted as manufacturer’s instruction (Accurate Biology AG21019, Changsha, China).
The RNA sequencing library was constructed by RNA library Prep Kit for Illumina (NEB E7770, Ipswich MA, USA).
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
Raw data (raw reads) of fastq format were firstly processed through in-house perl scripts.
FeatureCounts v1.5.0-p3 was used to count the reads numbers mapped to each gene.
Assembly: Index of the reference genome was built using Hisat2 v2.0.5 and paired-endcleanreads were aligned to the reference genome using Hisat2 v2.0.5.
Supplementary files format and content: Tab-delimited text file inlcludes raw counts for each sample.
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| Submission date |
Jun 16, 2024 |
| Last update date |
Aug 27, 2024 |
| Contact name |
Chenxu Liu |
| E-mail(s) |
chenxuliu@zju.edu.cn
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| Organization name |
Zhejiang university
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| Department |
Horticulture
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| Street address |
Xihu District, No.866 Yuhangtang Road
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| City |
Hangzhou |
| State/province |
Zhejiang |
| ZIP/Postal code |
310058 |
| Country |
China |
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| Platform ID |
GPL27957 |
| Series (1) |
| GSE269997 |
Histone demethylase JMJ4 interacts with transcription factor BLH3 to modulate jasmonate biosynthesis in tomato response to cold stress [RNA-seq] |
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| Relations |
| BioSample |
SAMN41860325 |
| SRA |
SRX24942258 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
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