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| Status |
Public on Sep 12, 2018 |
| Title |
control |
| Sample type |
SRA |
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| Source name |
Oligodendrocyte
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| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: Forebrain tissue
age: post natal day 4-7
genotype: wild type
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| Growth protocol |
Mouse OPCs were obtained from cortices of mouse brains as described7. Briefly, dissociated P4-P7 mouse cortices cells were sequentially immunopanned on anti-GalC, and then anti-O4 antibody coated plates to harvest OPCs. Purified OPCs were trypsinized and plated onto poly-D-lysine-coated plates. Cells were grown in DMEM/F-12 (GIBCO) with addition of 2% B-27 (GIBCO), 1% N2 (GIBCO), 20 ng/ml PDGF-AA (Peprotech, 100-13A), 10 ng/ml CNTF (Peprotech, 450-02), 20 ng/ml bFGF (Sino Biological, 10014-HNAE), and 1 ng/ml NT3 (Peprotech, 450-03). For OPCs differentiation, triiodothyronine (T3) (60 nM) added to the media and PDGF-AA, bFGF and NT3 were removed.
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| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA fraction was extracted using Eastep®Super Total RNA Extraction Kit (Promega)
RNA libraries were prepared for sequencing using standard Illumina protocols
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
BGISEQ-500 |
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| Data processing |
RNA from control and Seh1cKO spinal cord or OPCs were subjected to 50-bp single-end sequencing with a BGISEQ-500 sequencer
At least 20 million clean reads of sequencing depth were obtained for each sample
ChIP was performed on rat oligodendrocyte progenitor cells and immature oligodendrocytes(T3 D1) using antibodies against seh1 or IgG. RNA-seq was performed on mouse control or Seh1cKO immature oligodendrocytes(T3 D2). Atac-seq was performed on mouse control or Seh1cKO oligodendrocyte progenitor cells and immature oligodendrocytes(T3 D1).
Raw counts for each gene were calculated by Htseq
StringTie was used to estimate the expression level of detected genes
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample ...
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| Submission date |
Sep 11, 2018 |
| Last update date |
Sep 12, 2018 |
| Contact name |
Liu Zhixiong |
| E-mail(s) |
2452503371@qq.com
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| Phone |
8615160067720
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| Organization name |
Xiamen University
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| Department |
School of Life Sciences
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| Lab |
State Key Laboratory for Cellular Stress Biology, Innovation Center for Cell Signaling Network
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| Street address |
Xiangan Nanlu 4221-120
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| City |
xiamen |
| State/province |
Fujian |
| ZIP/Postal code |
361102 |
| Country |
China |
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| Platform ID |
GPL23479 |
| Series (2) |
| GSE119812 |
Seh1 Interacts with Olig2 and Brd7 to Promote Oligodendrocyte Differentiation and Myelination (RNA-Seq) |
| GSE119816 |
Seh1 Interacts with Olig2 and Brd7 to Promote Oligodendrocyte Differentiation and Myelination |
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| Relations |
| BioSample |
SAMN10034160 |
| SRA |
SRX4670969 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM3384401_control.txt.gz |
1.7 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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