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Series GSE104213 Query DataSets for GSE104213
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
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.
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).
Contributor(s) Milon B, Hertzano R
Citation(s) 30241496
Submission date Sep 25, 2017
Last update date Jul 25, 2021
Contact name yang song
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
Platforms (2)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
GPL18480 Illumina HiSeq 1500 (Mus musculus)
Samples (42)
GSM2792590 NEB_input_rep1
GSM2792591 NEB_input_rep2
GSM2792592 NEB_input_rep3
BioProject PRJNA412077
SRA SRP118820

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE104213_RAW.tar 18.5 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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