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| Status |
Public on Apr 21, 2017 |
| Title |
OPC_Ctrl_1_genes |
| Sample type |
SRA |
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| Source name |
Oligodendrocyte, control
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| Organism |
Rattus norvegicus |
| Characteristics |
cell type: Oligodendrocyte
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| Extracted molecule |
total RNA |
| Extraction protocol |
Cells and optic nerves were collected, flash frozen on dry ice, and total RNA was extracted using Trizol reagent.
Libraries were prepared according to Illumina's instructions accompanying Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001).
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
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| Data processing |
Illumina Casava software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and then mapped to mm9 or rn4 whole genome using TopHat using default options.
Fragment Per Kilobase of exon per Megabase of library size (FPKM) were calculated using Cufflinks with default options. Outputs from Cufflinks are provided as supplementary files.
Genome_build: rn4 (RGSC_v3.4)
Supplementary_files_format_and_content: *.fpkm_tracking: Cufflinks output: Tab-delimited text files include FPKM values for each Sample.
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| Submission date |
Apr 19, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Richard Lu |
| Organization name |
Cincinnati Children's Hospital Medical Center
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| Department |
CBDI
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| Lab |
Lu Lab,T6.525
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| Street address |
3333 Burnet Ave
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| City |
Cincinnati |
| State/province |
OH |
| ZIP/Postal code |
45229 |
| Country |
USA |
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| Platform ID |
GPL14844 |
| Series (1) |
| GSE80439 |
miR-219 Cooperates with miR-338 in Myelination and Promotes Myelin Repair in the CNS |
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| Relations |
| BioSample |
SAMN04870001 |
| SRA |
SRX1713242 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM2127372_OPC_Ctrl_1_genes.fpkm_tracking.gz |
559.9 Kb |
(ftp)(http) |
FPKM_TRACKING |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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