|
| Status |
Public on Dec 31, 2019 |
| Title |
Lung, HDM + Normal Diet (48) |
| Sample type |
SRA |
| |
|
| Source name |
Lung
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: Lung
treatment: HDM + Normal Diet
|
| Treatment protocol |
Mice were first sensitized for 10 consecutive days with 40 µg house dust mite extract to induce allergic asthma and thereafter supplemented with the LCPUFA combination for 24 days. Within the last 3 days, mice daily received repetitive doses of HDM (recall).
|
| Growth protocol |
Mice were purchased at the age of 6-8 weeks.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Lungs were removed, stored immediately in RNA later, and RNA was harvested using miRNeasy Mini Kit.
RNA libraries were prepared with 1 ug of total RNA for sequencing using standard NEXTflex Small RNA-Seq Kit v3.
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina MiSeq |
| |
|
| Data processing |
PhiX Sequencing Control v3 and the MiSeq™ Desktop Sequencer (all Illumina Inc., San Diego, USA) for Base Calling
Results were processed according to Bioo Scientific Small RNA analysis pipeline.
Cutadapt V1.14 was used to remove adapter sequences and random bases and to discard too short reads
bowtie 2 (V2.2.9; http://www.bowtie-bio.sourceforge.net) was used to align readouts to murine mature miRNAs from miRBase (mature.fs, v21, June 2014; http://www.mirbase.org)
miRUtils (v1.0.0; http://www.mirutils.sourceforge.net) was used to process the aligned files
Genome_build: Mus musculus GRCm38 (v21)
Supplementary_files_format_and_content: coverage files including total reads per mapped miRNA
|
| |
|
| Submission date |
Aug 08, 2019 |
| Last update date |
Jan 01, 2020 |
| Contact name |
Daniela Fussbroich |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Applied Sciences Fulda
|
| Street address |
Leipziger Str. 123
|
| City |
Fulda |
| ZIP/Postal code |
36037 |
| Country |
Germany |
| |
|
| Platform ID |
GPL16417 |
| Series (1) |
| GSE135597 |
miRNA Analysis of lungs of LCPUFA-treated asthmatic C57BL/6 mice and respective controls |
|
| Relations |
| BioSample |
SAMN12538425 |
| SRA |
SRX6682877 |
