|
| Status |
Public on Mar 27, 2023 |
| Title |
Agrp neuron10 |
| Sample type |
SRA |
| |
|
| Source name |
Brain
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Brain
cell type: Neuron
genotype: Agrp-ires-Cre x Ai6
|
| Growth protocol |
GFP-labelled flourescent single cells were manually isolated from Agrp-Cre: Ai6 mice using a micropipette and visualizing cells under a fluorescent microscope.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Single cell cDNA libraries were prepared using oligo(dT) primed cDNA synthesis followed by PCR amplification of cDNAs, as described in previously published methods (Hanchate et al, 2015, Science, 1251-5; Malnic et al, 1999, Cell, 96:713.)
Libraries were prepared for sequencing using the TruSeq DNA sample prep kit following the manufacturer's instructions (Illumina)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
single-cell RNA sequencing
P15
|
| Data processing |
Image analysis and basecalling was performed using Illumina's Real Time Analysis v1.8.66.3 software, followed by demultiplexing of indexed reads and generation of FASTQ files with Illumina's bcl2fastq-1.8.4 software.
Sequenced reads were aligned to iGenome's UCSC mm10 using TopHat aligner v2.1.0.
Cufflinks (cuffquant followed by cuffnorm) were used to generate gene abundances
Assembly: mm10
Supplementary files format and content: tab-delimited file containing FPKM normalized gene counts per sample
Supplementary files format and content: tab-delimited file containing FPKM normalized GPCR counts per sample
|
| |
|
| Submission date |
Mar 21, 2023 |
| Last update date |
Mar 27, 2023 |
| Contact name |
Linda Buck |
| E-mail(s) |
lbuck@fhcrc.org
|
| Phone |
2066676316
|
| Organization name |
Fred Hutchinson Cancer Research Centre
|
| Department |
Basic Sciences
|
| Lab |
Buck Lab
|
| Street address |
1100 fairview ave North
|
| City |
Seattle |
| State/province |
Washington |
| ZIP/Postal code |
98109 |
| Country |
USA |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
| GSE227909 |
Olfactory and neuropeptide inputs to appetite neurons in the arcuate nucleus |
|
| Relations |
| BioSample |
SAMN33847269 |
| SRA |
SRX19744317 |
