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| Status |
Public on Jun 15, 2018 |
| Title |
Next Generation Sequencing Analysis of WT and Hectd3–/– BMDMs during F. novicida infection |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Purpose: The goals of this study are to compare NGS-derived WT and Hectd3–/– transcrip profiling (RNA-seq) in the absence and presence of F. novicida infection
Methods: Bone marrow derived macrophages (BMDMs) from WT and Hectd3–/– mice were infected with F .novicida for 8 and 12 hours. mRNA profiles were generated by deep sequencing using Illumina GAIIx.
Results: Using an optimized data analysis workflow, we mapped about 80 million sequence reads per sample (around 95% clean reads were successfully mapped) to the mouse genome and identified 22,589 transcripts in the WT and Hectd3–/– BMDMs with or without F. novicida infection.
Conclusions: Our study represents the first detailed analysis of HECTD3 deficiency regulated gene expression in response to F. novicida infection generated by RNA-seq technology. Our results demonstrated that the type I IFN signaling induced by F. novicida infection was impaired in the absence of HECTD3.
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| Overall design |
mRNA profiles of WT and Hectd3–/– BMDMs with or without F. novicida infection for 8 and 12 h were generated by deep sequencing, using Illumina Hiseq platform.
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| Contributor(s) |
Xiaopeng Q, Ceshi C |
| Citation(s) |
29920190 |
| Submission date |
Sep 22, 2017 |
| Last update date |
Jul 25, 2021 |
| Contact name |
Xiaopeng Qi |
| E-mail(s) |
qixiaopeng@mail.kiz.ac.cn
|
| Phone |
15398395819
|
| Organization name |
Kunming Institute of Zoology, CAS
|
| Street address |
32 East Jiaochang Rd
|
| City |
Kunm,ing |
| ZIP/Postal code |
650223 |
| Country |
China |
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| Platforms (1) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA411777 |
| SRA |
SRP118600 |
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