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Sample GSM7746360 Query DataSets for GSM7746360
Status Public on Sep 04, 2023
Title two serial section of mutant olfactory bulb (same mouse as M1)
Sample type SRA
 
Source name olfactory bulb
Organism Mus musculus
Characteristics tissue: olfactory bulb
genotype: mutant
treatment: vegf blockade at e13.5
Treatment protocol A transgenic soluble form of VEGFR1 was used to block VEGF during development using a brain-specific, tetracycline regulated (camk2a-tTa) manner (see PMID: 25689256). Mouse was sacrificed at 5 months.
Extracted molecule total RNA
Extraction protocol olfactory bulbs were dissected, embedded in OCT and liquid nitrogen-isobutane (see visium protocol for fresh frozen tissue preparation https://www.10xgenomics.com/support/spatial-gene-expression-fresh-frozen 10 micrometer coronal slices were mounted on visium slide
spatial transcriptome sequencing were prepared with 10X Visium spatial gene expression slides and reagent kits according to instructions CG000239
Spatial transcriptomics
 
Library strategy RNA-Seq
Library source transcriptomic single cell
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Description fresh frozen spatial transcriptomics sequencing
Data processing Raw sequencing data was prepared using 10XGenomics Space ranger
sequences were aligned to genome using Space ranger
gene expression levels of coding genes were quantified using Space ranger
visium slide serial number V10T10-310
Assembly: GRCm39_Ens106
Supplementary files format and content: barcodes.tsv: a list of barcodes
Supplementary files format and content: features.tsv: list of genes IDs
Supplementary files format and content: matrix.mtx: gene expression count data in MTX format
 
Submission date Aug 30, 2023
Last update date Sep 04, 2023
Contact name Tamar Licht
E-mail(s) Tamarli@ekmd.huji.ac.il
Phone 972544703220
Organization name Hebrew University
Department Medical Neurobiology
Street address Hadassah ein karem
City Jerusalem
ZIP/Postal code 93211
Country Israel
 
Platform ID GPL24247
Series (1)
GSE241951 olfactory bulb from control mouse and a mouse with developmentally-induced olfactory bulb degeneration
Relations
BioSample SAMN37206738
SRA SRX21543786

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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