|
| Status |
Public on Feb 01, 2017 |
| Title |
48h-1_miRNA |
| Sample type |
SRA |
| |
|
| Source name |
Astrocytes
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: astrocytes
time point: 48 hours
infection status: Borrelia burdorferi infected
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA extraction protocol not provided.
Library construction protocol not provided.
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina MiSeq |
| |
|
| Data processing |
Sequences were trimmed using Cutadapt v1.6
Sequences were aligned to hg19 genome using Bowtie v1.1.1 as part of the mapper module of MirDeep v2.0.0.5
Sequences were assigned the miRNAs using the quantifier module of MirDeep v2.0.0.5
Differential expression analysis was performed using edgeR v3.10.2
Genome_build: hg19
Supplementary_files_format_and_content: comma separated text file that contains count data for all samples
|
| |
|
| Submission date |
Aug 03, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Archana Dhasarathy |
| E-mail(s) |
archana.dhasarathy@med.und.edu
|
| Organization name |
University of North Dakota
|
| Street address |
501 N Columbia Rd.
|
| City |
Grand Forks |
| State/province |
North Dakota |
| ZIP/Postal code |
58203 |
| Country |
USA |
| |
|
| Platform ID |
GPL15520 |
| Series (2) |
| GSE85142 |
microRNA changes in astrocytes following Borrelia burgdorferi infection |
| GSE85145 |
microRNA-seq and RNA-seq reveals changes in the astrocyte transcriptome following Borrelia burgdorferi infection |
|
| Relations |
| BioSample |
SAMN05509031 |
| SRA |
SRX1997255 |
