NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM4098001 Query DataSets for GSM4098001
Status Public on Apr 22, 2021
Title P1_1_A16
Sample type SRA
 
Source name Sciatic nerve
Organism Mus musculus
Characteristics technical run: 1
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 SAMN12857676
SRA SRX6911699

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

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap