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Status |
Public on Dec 31, 2019 |
Title |
leaf_2 |
Sample type |
SRA |
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Source name |
leaf
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Organism |
Rosa rugosa |
Characteristics |
tissue: leaf
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Treatment protocol |
no treatment
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Growth protocol |
The rose were grown in greenhouse, Kunming university of science and technology, Kunming, Yunnan, China
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Extracted molecule |
total RNA |
Extraction protocol |
Total RNA were extracted with Trizol (Amion). RNA libraries were prepared for sequencing using standard Illumina protocols with only ribosomal RNA removal.
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Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 4000 |
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Description |
grown in greenhouse, Kunming university of science and technology, Kunming, Yunnan, China rose-cDNA-fpkm.xls
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Data processing |
Trinity (v2.0.6) was used to the options of "--seqType fq --max_memory 400G --min_contig_length 150 --CPU 30 --min_kmer_cov 3 --min_glue 3 --bfly_opts '-V 5 --edge-thr=0.1 --stderr" Align_and_estimate_abundance.pl in the Trinity package was used to estimate the abundances of trinity sequences in the 8 genomics RNA sequencing profiles. Supplementary_files_format_and_content: FPKM values of genes
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Submission date |
Apr 15, 2018 |
Last update date |
Dec 31, 2019 |
Contact name |
Yun Zheng |
E-mail(s) |
zhengyun5488@gmail.com
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Organization name |
Yunnan Agricultural University
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Street address |
452 Fengyuan Road
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City |
Kunming |
State/province |
Yunnan |
ZIP/Postal code |
650201 |
Country |
China |
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Platform ID |
GPL24893 |
Series (1) |
GSE113148 |
Analysis of microRNAs, phased small interfering RNAs and their functions in Rosa rugosa Thunb |
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Relations |
BioSample |
SAMN08933799 |
SRA |
SRX3937395 |
Supplementary data files not provided |
SRA Run Selector |
Raw data are available in SRA |
Processed data are available on Series record |
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