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Sample GSM7360826 Query DataSets for GSM7360826
Status Public on Nov 02, 2023
Title Xenopus laevis egg extract, low pressure, time 1, rep1
Sample type SRA
 
Source name egg extract
Organism Xenopus laevis
Characteristics cell type: egg extract
treatment: low pressure - time 1
time: time 1
Extracted molecule total RNA
Extraction protocol TRIzol-based RNA extraction followed by isopropanol precipitation and RNA Clean & Concentrator kit (Zymo)
The RiboCop rRNA depletion Kit was used to deplete ribosomal RNA, followed by the PrepX RNA-Seq protocol (stranded - firststrand) to prepare the libraries according to the manufacturer's instructions.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Description time1_rep1
Data processing Sequence reads were trimmed for adaptor sequence/low-quality sequence using TrimGalore
Trimmed sequence reads were mapped to X. laevis v10.1 using STAR
Count normalization and differential expression analysis was performed with DESeq2
Assembly: X. laevis v10.1
Supplementary files format and content: rawCounts_allsamples.txt tab-delimited text file with raw counts for each sample
Supplementary files format and content: DESeq2.counts_normalized.txt tab-delimited text file with normalised DESeq2 counts for each sample
 
Submission date May 16, 2023
Last update date Nov 02, 2023
Contact name Martin H Wühr
Phone 609-258-7653
Organization name Princeton Univeristy
Department Lewis-Sigler Institute for Integrative Genomics
Lab Wühr lab
Street address 246 Carl Icahn Laboratory
City Princeton
State/province NJ
ZIP/Postal code 08544
Country USA
 
Platform ID GPL28901
Series (1)
GSE232651 Eukaryotic cytoplasm is widely structured via mesoscale condensates
Relations
BioSample SAMN35120064
SRA SRX20378636

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

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