|
| Status |
Public on Oct 28, 2016 |
| Title |
Re-programming of low-grade inflammatory monocytes |
| Organism |
Mus musculus |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
|
| Summary |
Purpose: The goals of this study are to compare the mircoRNA expression profiles from monocytes challegned with subclinical low dosage of LPS
Methods: Primary murine bone marrow derived monocytes treated with or without 5 pg/ml LPS in complete culture medium. Harvested mircoRNAs were used to prepare libaray for subsequent sequencing, in triplicate, using HiSeq 1000. Sequences were assayed to ensure high quality for all samples using a custom R script. Reads were first trimmed for adaptor and quality using a combination of custom perl scripts and Btrim64. After trimming, trimmed fastq sequences were imported into mirAnalyzer for mapping, miRNA assembly and prediction, quantitation and differential expression. qRT–PCR validation was performed to validate selected microRNAs.
Results: miRNA-seq data confirmed selective induction of a limited set of mircoRNAs in monocytes treated with subclinical super-low dose LPS.
Conclusions: Our study revealed that there are selected miroRNAs preferentially induced in monocytes challenged with subclinical low dosage of LPS.
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| Overall design |
microRNAs from monocytes cultured with or without 5 pg/ml LPS were harvested, prepared for sequencing, in triplicate, using HiSeq 1000.
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| Contributor(s) |
Li L |
| Citation(s) |
27824038 |
| |
| Submission date |
Sep 27, 2016 |
| Last update date |
Sep 13, 2019 |
| Contact name |
Liwu Li |
| Organization name |
Virginia Tech
|
| Street address |
970 Washington Street
|
| City |
Blacksburg |
| State/province |
VA |
| ZIP/Postal code |
24061-0910 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL15103 |
Illumina HiSeq 1000 (Mus musculus) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA344657 |
| SRA |
SRP090512 |
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