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GEO accession:
Sample GSM7446683
Query DataSets for GSM7446683
Status
Public on Jul 27, 2023
Title
qPRO_72h_Bioreplicate 1
Sample type
SRA
Source name
8 hour hatching blastula embryos
Organism
Strongylocentrotus purpuratus
Characteristics
tissue: 8 hour hatching blastula embryos
genotype: Wild
Growth protocol
15 degrees Celsius
Extracted molecule
total RNA
Extraction protocol
Density gradient nuclear prep (Arenas-Mena et. al, 2021)
https://doi.org/10.1186/s12864-021-07936-0
PRO-seq (Arenas-Mena et. al, 2021)
https://doi.org/10.1186/s12864-021-07936-0.
Quick PRO-seq (Judd et. al, 2020)
https://www.protocols.io/view/a-rapid-sensitive-scalable-method-for-precision-ru-57dg9i6.pdf
Library strategy
OTHER
Library source
transcriptomic
Library selection
other
Instrument model
Illumina NextSeq 500
Description
Quick PRO-seq
P_72h_22_minus3.rpm.bw
P_72h_22_plus3.rpm.bw
Data processing
Read map and data processing as in (Arenas-Mena et. al, 2021)
Assembly: Sp5.0
https://www.ncbi.nlm.nih.gov/assembly/GCF_000002235.5/
Library strategy: PRO-seq and Quick-PRO-seq
Submission date
Jun 05, 2023
Last update date
Jul 27, 2023
Contact name
Cesar Arenas-Mena
E-mail(s)
cesar.arenasmena@csi.cuny.edu
Organization name
CSI CUNY
Department
Biology
Street address
2800 Victory Boulevard
City
Staten Island
State/province
New York
ZIP/Postal code
10314
Country
USA
Platform ID
GPL23218
Series (2)
GSE234140
Accessibility and activity of transcriptional regulatory elements during sea urchin embryogenesis and differentiation [PRO-seq]
GSE234143
Widespread priming of transcriptional regulatory elements by incipient accessibility or Pol II pause in early embryos of the sea urchin Strongylocentrotus purpuratus
Relations
BioSample
SAMN35622286
SRA
SRX20593408
Supplementary file
Size
Download
File type/resource
GSM7446683_P_72h_22_1_CKDL220029438-1A_HJ2TLBBXX_L2_dedup_QC_end_minus.bw
2.8 Mb
(ftp)
(http)
BW
GSM7446683_P_72h_22_1_CKDL220029438-1A_HJ2TLBBXX_L2_dedup_QC_end_plus.bw
2.8 Mb
(ftp)
(http)
BW
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record
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