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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Jan 13, 2023 |
| Title |
Dlx3WT_AdGFP_Rep2 |
| Sample type |
SRA |
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| Source name |
Primary cultured cells
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| Organism |
Mus musculus |
| Characteristics |
genotype: Dlx3WT
transduction: AdGFP
cell type: Primary cultured cells
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| Extracted molecule |
polyA RNA |
| Extraction protocol |
Skin epidermis was dissected using a protocol derived from Li et al., 2017, from the transgenic mice and the cells were plated. After 24 hours, cells were transduced with adeno-virus (either Ad-GFP or SAd-Dlx3).
RNA libraries were prepared according to standard Illumina protocol (NEBNext Ultra II RNA Library Prep kit for Illumina; Cat# E7775)
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Description |
s05
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| Data processing |
Demultiplex and convert to FastQ using bcl2fastq v2.20.0.422
Map to mm10 using Tophat 2.1.1
Calculate RPKM (Partek GS 7.0)
ANOVA comparison (Partek GS)
Genome_build: mm10
Supplementary_files_format_and_content: RPKM and ANOVA results in Excel format
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| Submission date |
Feb 18, 2022 |
| Last update date |
Jan 13, 2023 |
| Contact name |
Stephen R Brooks |
| E-mail(s) |
[email protected]
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| Organization name |
NIAMS/NIH
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| Department |
Biodata Mining and Discovery Section
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| Street address |
50 SOUTH DR, RM 1140
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| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20814 |
| Country |
USA |
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| Platform ID |
GPL24247 |
| Series (2) |
| GSE197019 |
Epigenetic modules governing skin epidermal homeostasis [Dlx3 WT and KO primary cells] |
| GSE197024 |
Epigenetic modules governing skin epidermal homeostasis |
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| Relations |
| BioSample |
SAMN26084660 |
| SRA |
SRX14224230 |
| 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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