|
| Status |
Public on Jul 09, 2022 |
| Title |
Kif1b-alpha soma |
| Sample type |
SRA |
| |
|
| Source name |
Neuro2a
|
| Organism |
Mus musculus |
| Characteristics |
cell line: Neuro2a
cell type: Neuroblastoma
treatment: Transfection of Kif1b-alpha tail
sample type: Soma
|
| Treatment protocol |
Transfections of plasmids were performed using TransIT X2 (Mirus, MIR6003).
|
| Growth protocol |
10% FBS in DMEM.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Quick-RNA Microprep Kit (Zymo, R1050).
NEBNext Ultra II Directional RNA Library Prep Kit (NEB, E7530L).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
1balpha_soma
|
| Data processing |
Fastq files were extracted using bcl2fastq v2.20.
Gene expression was quantitated using kallisto 0.43.0.
TPM values were loess normalized using the R function "cyclicLoess".
Assembly: mm10 (GRCm38)
Supplementary files format and content: TPM.xlsx contains TPM values for each transcript in each sample.
Supplementary files format and content: LR.xlsx contains localization ratios (log2 neurite/soma) for transcript with at least 5 TPM in all conditions.
|
| |
|
| Submission date |
Jul 06, 2022 |
| Last update date |
Jul 09, 2022 |
| Contact name |
Eric T Wang |
| Organization name |
University of Florida
|
| Street address |
2033 Mowry Rd
|
| City |
Gainesville |
| State/province |
FL |
| ZIP/Postal code |
32610 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (1) |
| GSE207597 |
Muscleblind-like proteins use modular domains to localize RNAs by riding kinesins and docking to membranes |
|
| Relations |
| BioSample |
SAMN29543041 |
| SRA |
SRX16046462 |
