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| Status |
Public on Jan 17, 2024 |
| Title |
Cerebellum, Control male |
| Sample type |
SRA |
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| Source name |
cerebellum
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| Organism |
Macaca mulatta |
| Characteristics |
tissue: cerebellum
developmental stage: fetus, 130 days
Sex: male
treatment: no intervention
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| Extracted molecule |
total RNA |
| Extraction protocol |
Flash frozen cerebellar hemispheres from 2 rhesus macaque fetuses per group were homogenized and lysed with Triton X-100in RNase-free water for nuclei isolation. Isolated nuclei were purified, centrifuged, and resuspended in PBS with RNase inhibitor, and diluted to 700 nuclei/µl for standardized 10x capture and library preparation protocol using 10x Genomics Chromium Next GEM 3’ Single Cell Reagent kits v3.1 (10x Genomics, Pleasanton, CA).
Library was performed according to the manufacter’s instructions. The libraries were sequenced with a Illumina NovaSeq 6000 (Illumina, San Diego, CA). Raw sequencing files were processed with CellRanger 5.0 (10x Genomics) and mapped to the rhesus macaque genome (Mmul_8.0.1) with the option include introns and generated count matrices.
snRNA-seq
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
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| Description |
10x Genomics
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| Data processing |
The demultiplexing, barcoded processing, gene counting and aggregation were made using the Cell Ranger software v4
Supplementary files format and content: Mmul_8.0.1
Supplementary files format and content: Tab-separated values files and matrix files
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| Submission date |
May 27, 2022 |
| Last update date |
Jan 17, 2024 |
| Contact name |
Augusto F Schmidt |
| E-mail(s) |
aschmidt@med.miami.edu
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| Phone |
3052430156
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| Organization name |
University of Miami Miller School of Medicine
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| Street address |
1611 NW 12th ave
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| City |
Miami |
| State/province |
FL |
| ZIP/Postal code |
33136 |
| Country |
USA |
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| Platform ID |
GPL23949 |
| Series (1) |
| GSE205001 |
Single-nuclei sequencing of late gestation rhesus macaques exposed to chorioamnionitis |
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| Relations |
| BioSample |
SAMN28699144 |
| SRA |
SRX15484197 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM6203863_AS218_barcodes.tsv.gz |
18.5 Mb |
(ftp)(http) |
TSV |
| GSM6203863_AS218_features.tsv.gz |
223.0 Kb |
(ftp)(http) |
TSV |
| GSM6203863_AS218_matrix.mtx.gz |
96.8 Mb |
(ftp)(http) |
MTX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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