|
| Status |
Public on Jan 16, 2022 |
| Title |
FCtx2_ONT |
| Sample type |
SRA |
| |
|
| Source name |
Frontal Cortex
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Brain
age: 61
Sex: Male
disease state: Control (healthy) sample
|
| Extracted molecule |
total RNA |
| Extraction protocol |
As per recommendations of each individual platform
10x Chromium - single nuclei gene expression
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
PromethION |
| |
|
| Data processing |
Illumina basecaller
PacBio IsoSeq basecaller
Oxford Nanopore Guppy basecaller
10X sequencing output processed with 10X cellranger v3
Cellranger output analyzed with Seurat v3
PacBio long read mapping done with STARlong
ONT long read mapping done with minimap2
Long read output processed with scisorseqr
Genome_build: hg38
Supplementary_files_format_and_content: cellranger output for single-cell expression data
Supplementary_files_format_and_content: scisorseqr output for long read gene counts by cell type
|
| |
|
| Submission date |
Jun 14, 2021 |
| Last update date |
Jan 16, 2022 |
| Contact name |
Anoushka Joglekar |
| E-mail(s) |
anj2026@med.cornell.edu
|
| Organization name |
Weill Cornell Medicine
|
| Department |
Dept. of Neurogenetics
|
| Lab |
Tilgner Lab
|
| Street address |
413 E 69th St
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10021 |
| Country |
USA |
| |
|
| Platform ID |
GPL26167 |
| Series (1) |
| GSE178175 |
Single-nuclei isoform RNA sequencing reveals combination patterns of transcript elements across human brain cell types |
|
| Relations |
| BioSample |
SAMN19697585 |
| SRA |
SRX11141678 |
