|
|
GEO help: Mouse over screen elements for information. |
|
Status |
Public on Apr 22, 2021 |
Title |
P1_2_C08 |
Sample type |
SRA |
|
|
Source name |
Sciatic nerve
|
Organism |
Mus musculus |
Characteristics |
technical run: 2
|
Extracted molecule |
total RNA |
Extraction protocol |
SmartSeq2-Picell
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 4000 |
|
|
Data processing |
Basecalls performed using illumina's bcl2fastq Sequenced reads were trimmed for adaptor sequence, low complexity and low quality sequences. Then reads were aligned to Ensembl GRCm38.p5 genome assembly using STAR 2.6.1c with following parameters: '--outFilterType BySJout --outFilterMatchNmin 30 --outFilterMismatchNmax 10 --outFilterMismatchNoverLmax 0.05 --alignSJDBoverhangMin 1 --alignSJoverhangMin 8 --alignIntronMax 1000000 --alignMatesGapMax 1000000 --outFilterMultimapNmax 50 --chimSegmentMin 15 --chimJunctionOverhangMin 15 --chimScoreMin 15 --chimScoreSeparation 10 --outSAMstrandField intronMotif' Counts were generated by Rsubread 1.32.4 Genome_build: GRCm38.p5 Supplementary_files_format_and_content: count file was generated by 'featureCounts' from Rsubread package. The numbers are raw counts.
|
|
|
Submission date |
Sep 26, 2019 |
Last update date |
Apr 22, 2021 |
Contact name |
Ge Tan |
E-mail(s) |
ge_tan@outlook.com
|
Organization name |
University of Zurich
|
Department |
Functional Genomics Center Zurich
|
Street address |
Winterthurerstrasse 190
|
City |
Zurich |
ZIP/Postal code |
8057 |
Country |
Switzerland |
|
|
Platform ID |
GPL21103 |
Series (2) |
GSE137870 |
The transcriptome of sciatic nerves with single cell resolution |
GSE138073 |
SNAT - Single cell RNA sequencing of mouse sorted Schwann cells at postnatal day 1 (P1) |
|
Relations |
BioSample |
SAMN12857732 |
SRA |
SRX6912107 |
Supplementary data files not provided |
SRA Run Selector |
Raw data are available in SRA |
Processed data are available on Series record |
|
|
|
|
|