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Sample GSM7778680 Query DataSets for GSM7778680
Status Public on Jan 11, 2024
Title Spinal 7_spatial
Sample type SRA
Source name Spinal cord
Organism Homo sapiens
Characteristics tissue: Spinal cord
age: 51 years old
Extracted molecule polyA RNA
Extraction protocol Samples were immediately cleaned from the blood and connective tissue and frozen on dry ice. Spinal cord tissues were cut transversely, parts were embedded in optimal cutting temperature (OCT) compound for spatial transcriptomics. Cryosections were cut at 10-μm thickness and mounted onto the GEX arrays. Sections were placed on a Thermocycler Adaptor with the active surface facing up and were incubated at 37°C for 1 min. Then, sections were fixed with methyl alcohol at -20°C for 30 min, followed by staining with hematoxylin and eosin (H&E) (Eosin, Dako CS701, Hematoxylin Dako S3309, bluing buffer CS702).
Visum spatial libraries were constructed using Visum spatial Library construction kit (10x Genomics, PN-1000184) according to the manufacture’s introduction.
Library strategy OTHER
Library source transcriptomic
Library selection other
Instrument model Illumina NovaSeq 6000
Data processing Basecalls performed using bcl2fastq tools
Visum spatial gene expression was processed using Visum spatial gene expression slide and Reagent Kit (10x Genomics, PN-1000184).
Assembly: GRCh38
Supplementary files format and content: Tab separated values files with barcode sequences corresponding to column indices, features corresponding to row indices
Library strategy: spatial transcriptomics
Submission date Sep 13, 2023
Last update date Jan 11, 2024
Contact name Donghang Zhang
Organization name West China Hospital of Sichuan University
Street address No.37, guoxue lane, wuhou district, chengdu city, sichuan province
City Chengdu
State/province Sichuan
ZIP/Postal code 610041
Country China
Platform ID GPL24676
Series (2)
GSE243074 Spatial transcriptomics and single-nucleus RNA-sequencing reveal a transcriptomic atlas of human spinal cord [Spinal spatial]
GSE243077 Spatial transcriptomics and single-nucleus RNA-sequencing reveal a transcriptomic atlas of human spinal cord
BioSample SAMN37383416
SRA SRX21767134

Supplementary file Size Download File type/resource
GSM7778680_Spinal_7L_ch00.jpg.gz 38.6 Mb (ftp)(http) JPG
GSM7778680_Spinal_spatial_7_filtered_feature_bc_matrix.tar.gz 32.2 Mb (ftp)(http) TAR
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Raw data are available in SRA

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