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| Status |
Public on Dec 31, 2019 |
| Title |
petal_1 |
| Sample type |
SRA |
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| Source name |
petal
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| Organism |
Rosa rugosa |
| Characteristics |
tissue: petal
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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 |
SAMN08933798 |
| SRA |
SRX3937396 |
| 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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