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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Jan 06, 2020 |
| Title |
Microglia, Input1 |
| Sample type |
SRA |
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| Source name |
Microglia
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| Organism |
Mus musculus |
| Characteristics |
strain: C57Bl6
age: 5 mo
tissue: Brain
cell type: Microglia
rip antibody: none
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| Extracted molecule |
total RNA |
| Extraction protocol |
Ribosome-bound RNA was immunoprecipitated using anti-HA antibody and Dynabeads conjugated to Protein A. Total RNA was obtained with Qiagen RNAeasy Plus Micro kit from an Input aliquot and from the entire immunoprecipitate.
The cDNA was synthesized with SMART-Seq v4 Ultra Low Input RNA Kit. Libraries were constructed with Nextera XT DNA Library Prep Kit using the cDNA as input.
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| Library strategy |
RIP-Seq |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 4000 |
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| Data processing |
Demultiplexed reads were pseudo-mapped to the mouse genome using Salmon 0.13.1
Transcript abundance was summarized to gene-level using Tximport 1.12
Differential expression was analyzed with DESeq2 1.24
Genome_build: mm10
Supplementary_files_format_and_content: Tab separated files containing counts, the output from the DESeq2 analysis (including Gene symbol, Log2Fold change, p-value, and FDR-corrected p-value)
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| Submission date |
Oct 02, 2019 |
| Last update date |
Oct 03, 2024 |
| Contact name |
Nicolas Santander |
| E-mail(s) |
nicolas.santander@uoh.cl
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| Organization name |
Universidad de O´Higgins
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| Street address |
Libertador Bernardo O'Higgins 611
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| City |
Rancagua |
| ZIP/Postal code |
2841959 |
| Country |
Chile |
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| Platform ID |
GPL21103 |
| Series (1) |
| GSE138333 |
Translational profiling of microglia |
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| Relations |
| BioSample |
SAMN12898192 |
| SRA |
SRX6938199 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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