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| Status |
Public on May 14, 2024 |
| Title |
DC2.4 cells mLCAP-3 |
| Sample type |
SRA |
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| Source name |
DC2.4 cells
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| Organism |
Mus musculus |
| Characteristics |
cell line: DC2.4 cells
genotype: WT
treatment: co-cultured with mLCAP
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| Extracted molecule |
total RNA |
| Extraction protocol |
mRNA was enriched from total RNA using oligomer (dT) magnetic beads. The mRNA fragments were cut into short fragments of about 300bp using a cleavage buffer. The first cDNA was synthesized by using mRNA as template and random hexamer as primer.
The purified double-stranded cDNA was subjected to terminal repair, A-tail modification and sequencing joint connection. Select fragment size using AMPure XP beads. PCR amplification was performed to obtain the final cDNA library.
Q-PCR and other methods were used for quality control and quantification of the library to ensure that the effective concentration of the library was greater than 2nM
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer |
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| Data processing |
Different libraries are assembled according to the amount of target data and sequenced on the Illumina platform
Trimmomatic (Version: 0.36; Parameters: LEADING:3 TRAILING:3 SLIDINGWINDOW:4:18 MINLEN:36) was used to clean raw data, and clean data was obtained after data cleaning. HISAT2 (http://ccb.jhu.edu/software/hisat2/index.shtml) (version: 2.2.1) was used for clean reads alignment. After reads alignment, String Tie was used to quantify the above reads.
Supplementary files format and content: Excel file with FPKM, TPM, readcounts for every gene and every sample
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| Submission date |
May 09, 2024 |
| Last update date |
May 14, 2024 |
| Contact name |
文 李 |
| E-mail(s) |
2017301040028@whu.edu.cn
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| Organization name |
Wuhan University
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| Street address |
Wuhan
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| City |
Hubei |
| ZIP/Postal code |
430072 |
| Country |
China |
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| Platform ID |
GPL9185 |
| Series (1) |
| GSE267162 |
A multi-adjuvant nanovaccine platform based on targeted delivery of specific antigens for cancer immunotherapy |
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| Relations |
| BioSample |
SAMN41315500 |
| SRA |
SRX24514440 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM8261278_mCLAP-3_expression.xlsx |
1.4 Mb |
(ftp)(http) |
XLSX |
SRA Run Selector |
| Raw data are available in SRA |
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