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| Status |
Public on Oct 19, 2023 |
| Title |
Neural_K91R2 |
| Sample type |
SRA |
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| Source name |
Neural cells
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| Organism |
Mus musculus |
| Characteristics |
cell type: neural cells differentiated from mESCs
genotype: Stably expressing PiggyBAC_H4K91R_3HA
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| Extracted molecule |
polyA RNA |
| Extraction protocol |
Cells were harvested, washed with PBS, and flash frozen in liquid nitrogen. RNA was isolated using QIAGEN RNeasy kit.
Libraries were generated using NEBNext Ultra II kits.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
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| Description |
4Ddif_K91R2
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| Data processing |
Transcript abundance was computed from FASTQ files using Salmon (v0.8.2) and the GENCODE reference transcript sequences, transcript counts were imported into R with the tximport R Bioconductor package, and differential gene expression was determined with the DESeq2 R Bioconductor package
Assembly: mm10
Supplementary files format and content: Counts tables contain the raw counts quantified by Salmon and DESeq2.
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| Submission date |
May 03, 2023 |
| Last update date |
Oct 19, 2023 |
| Contact name |
Douglas Barrows |
| E-mail(s) |
dbarrows@rockefeller.edu
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| Phone |
7749940981
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| Organization name |
Rockefeller University
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| Street address |
1230 York Ave
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| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10065 |
| Country |
USA |
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| Platform ID |
GPL19057 |
| Series (2) |
| GSE231558 |
Altered chromatin occupancy of patient-associated H4 mutants misregulate neuronal differentiation [RNA-seq] |
| GSE231567 |
Altered chromatin occupancy of patient-associated H4 mutants misregulate neuronal differentiation |
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| Relations |
| BioSample |
SAMN34566678 |
| SRA |
SRX20204114 |
| 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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