|
| Status |
Public on Sep 01, 2009 |
| Title |
Systematic and single cell analysis of Xenopus Piwi-interacting RNAs and Xiwi |
| Organisms |
Xenopus laevis; Xenopus tropicalis |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Various small RNA libraries from purified microtubules or Xiwi immunoprecipitates or total extract from X.tropicalis or X.laevis egg extract. Various small RNA libraries from single X.tropicalis eggs. Analysis of this series of files is described in the manuscript "Systematic and single cell analysis of Xenopus Piwi-interacting RNAs and Xiwi".
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|
| Overall design |
Small RNAs were ligated with linkers and converted to cDNA by reverse transcription. cDNA library was amplified by PCR and was sequenced with either the 454 Genome Sequencer FLX platform or the Illumina GA-II platform.
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| Contributor(s) |
Lau NC, Ohsumi T, Borowsky M, Kingston RE, Blower MD |
| Citation(s) |
19713941 |
| |
| Submission date |
Apr 05, 2009 |
| Last update date |
Jun 11, 2013 |
| Contact name |
Nelson C Lau |
| Organization name |
Brandeis University
|
| Department |
Biology
|
| Lab |
Nelson Lau Lab
|
| Street address |
415 South St MS029
|
| City |
Waltham |
| State/province |
MA |
| ZIP/Postal code |
02454 |
| Country |
USA |
| |
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| Platforms (4)
|
| GPL9320 |
Illumina Genome Analyzer II (Xenopus (Silurana) tropicalis) |
| GPL9406 |
454 GS FLX (Xenopus (Silurana) tropicalis) |
| GPL9407 |
454 GS FLX (Xenopus laevis) |
| GPL9408 |
Illumina Genome Analyzer II (Xenopus laevis) |
|
| Samples (11)
|
| GSM389464 |
X. tropicalis Microtubules Small RNAs |
| GSM389472 |
X. tropicalis Egg Extract Small RNAs |
| GSM389473 |
X.tropicalis Xiwi IP Small RNAs |
| GSM389474 |
X.laevis Egg Extract Small RNAs |
| GSM389475 |
X.laevis Xiwi IP Small RNAs |
| GSM389476 |
X.laevis Microtubules Small RNAs |
| GSM389477 |
X.tropicalis Single Egg Small RNAs, sample B1_l7 |
| GSM389478 |
X.tropicalis Single Egg Small RNAs, sample A3 |
| GSM389479 |
X.tropicalis Single Egg Small RNAs, sample A4 |
| GSM389480 |
X.tropicalis Single Egg Small RNAs, sample B1 |
| GSM389481 |
X.tropicalis Single Egg Small RNAs, sample B2 |
|
| Relations |
| BioProject |
PRJNA116003 |
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