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| Status |
Public on Oct 30, 2017 |
| Title |
A Comparative Analysis of Library Prep Approaches for Sequencing Low Input Translatome Samples |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We evaluated the performance of 5 library prep protocols by using total mRNA and IP RNA of mouse liver,we found all the 5 library preparation kits detect more enrichment effects than depletion effect. The profiles being generated by SMARTer kit is different than all other kits.
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| Overall design |
Cell-type specific RNA from livers of P30 mice was obtained using the RiboTag protocol. Briefly, liver tissue expressing HA-tagged ribosomes in specific cells was homogenized followed by immunoprecipitation of the tagged ribosomes using an HA antibody. The RNA was extracted from the immunoprecipitated ribosomes to obtain cell-type specific enriched transcripts (IP samples). An aliquot of the homogenized tissue before immunoprecipitation was used for total RNA extraction (input samples).
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| Contributor(s) |
Milon B, Hertzano R |
| Citation(s) |
30241496 |
| Submission date |
Sep 25, 2017 |
| Last update date |
Jul 25, 2021 |
| Contact name |
yang song |
| E-mail(s) |
ysong@som.umaryland.edu
|
| Organization name |
University of Maryland in Baltimore
|
| Department |
Department: Institute for Genome Sciences
|
| Street address |
HSF-3, 3rd Floor; 670 W Baltimore St.
|
| City |
Baltimore |
| State/province |
MD |
| ZIP/Postal code |
21201 |
| Country |
USA |
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| Platforms (2) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
| GPL18480 |
Illumina HiSeq 1500 (Mus musculus) |
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| Samples (42)
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| Relations |
| BioProject |
PRJNA412077 |
| SRA |
SRP118820 |
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