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| Status |
Public on Feb 18, 2012 |
| Title |
Digital Gene Expression Analysis Based on Integrated De Novo Transcriptome Assembly of Sweet Potato [Ipomoea batatas (L.) Lam.] |
| Organism |
Ipomoea batatas |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
More than 3.5 million raw DGE tags were obtained in each library. The clean tags in each sample ranged from 3.35 to 3.63 million, and the distinct clean tags ranged from 93,593 to 139,389. The 21 bp DGE clean tags were mapped to sweet potato transcripts. Then, we compared 7 libraries pair-wisely so that 21 pairs of comparisons were implemented. Among these comparisons, we found that 4,721 to 12,151 transcripts had significant changes in expression, and the average number was 9,657. We also observed a large number of specifically expressed transcripts between each two libraries. The expression profiles of those genes involved in root development and carbohydrates accumulation were characterized. Moreover, other genes of interest, such as potentially abiotic stress tolerance and insect resistance, were also characterized.
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| Overall design |
7 samples are examined: young leaves, mature leaves, stems, fibrous roots, initial tuberous roots, expanding tuberous roots and harvest tuberous roots.
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| Contributor(s) |
Zhang YZ, Tao X, Gu YH, Wang HY, Zheng W, Li X, Zhao CW |
| Citation(s) |
22558397 |
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| Submission date |
Feb 17, 2012 |
| Last update date |
Jun 11, 2013 |
| Contact name |
Yinghong Gu |
| Organization name |
Sichuan University
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| Street address |
No.24 South Section 1, Yihuan Road
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| City |
Chengdu |
| ZIP/Postal code |
610065 |
| Country |
China |
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| Platforms (1) |
| GPL15253 |
Illumina Genome Analyzer II (Ipomoea batatas) |
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| Samples (7)
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| GSM877557 |
Total RNA from Ipomoea batatas, young leaves |
| GSM877558 |
Total RNA from Ipomoea batatas, mature leaves |
| GSM877559 |
Total RNA from Ipomoea batatas, stems |
| GSM877560 |
Total RNA from Ipomoea batatas, fibrous roots |
| GSM877561 |
Total RNA from Ipomoea batatas, initial tuberous roots |
| GSM877562 |
Total RNA from Ipomoea batatas, expanding tuberous roots |
| GSM877563 |
Total RNA from Ipomoea batatas, harvest tuberous roots |
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| Relations |
| BioProject |
PRJNA152067 |
| Supplementary data files not provided |
| Raw data provided as supplementary file |
| Processed data included within Sample table |
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