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| Status |
Public on Jun 30, 2015 |
| Title |
Small RNA genes of Physcomitrella patens |
| Organism |
Physcomitrium patens |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
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| Summary |
Small RNA-seq from 10 day-old wild-type Physcomitrella patens was performed using 5 biological replicates. Replicates were grown in three batches at different times. Batch 1 had one replicate from strain "old WT", Batch 2 had two replicates from strain "old WT", and batch 3 had two replicates from strain "2009 WT". Old WT and 2009 WT were collected from Gransden wood, England; "old" has been in lab cultivation for at least 10 years, while "2009" was more recently collected from the wild (in 2009.)
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| Overall design |
Annotation and quantification of small RNA-producing genes in Physcomitrella patens
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| Contributor(s) |
Axtell MJ, Gregory BD |
| Citation(s) |
26209555 |
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| Submission date |
Mar 05, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Michael J Axtell |
| E-mail(s) |
[email protected]
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| Organization name |
Pennsylvania State University
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| Department |
Biology
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| Lab |
Axtell
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| Street address |
280 Mueller Lab
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| City |
University Park |
| State/province |
PA |
| ZIP/Postal code |
16802 |
| Country |
USA |
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| Platforms (1) |
| GPL16754 |
Illumina HiSeq 2500 (Physcomitrella patens subsp. patens) |
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| Samples (10)
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| GSM1093595 |
Wild-type small RNAs - "old wild-type" - batch 2, biological rep 1 of 2 |
| GSM1093596 |
Wild-type small RNAs - "old wild-type" - batch 2, biological rep 2 of 2 |
| GSM1093597 |
Wild-type small RNAs - "2009 wild-type" - batch 3, biological rep 1 of 2 |
| GSM1093598 |
Wild-type small RNAs - "2009 wild-type" - batch 3, biological rep 2 of 2 |
| GSM1194292 |
Wild-type small RNAs - "old wild-type" - batch 2, biological rep 1 of 2, technical replicate 2 |
| GSM1194293 |
Wild-type small RNAs - "old wild-type" - batch 2, biological rep 2 of 2, technical replicate 2 |
| GSM1194294 |
Wild-type small RNAs - "2009 wild-type" - batch 3, biological rep 1 of 2, technical replicate 2 |
| GSM1194295 |
Wild-type small RNAs - "2009 wild-type" - batch 3, biological rep 2 of 2, technical replicate 2 |
| GSM1194296 |
Wild-type small RNAs - "old wild-type" - batch 1, biological rep 1 of 2 |
| GSM1194297 |
Wild-type small RNAs - "old wild-type" - batch 1, biological rep 2 of 2 |
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| Relations |
| BioProject |
PRJNA192547 |
| SRA |
SRP018949 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE44900_RAW.tar |
67.7 Mb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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