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Series GSE160387 Query DataSets for GSE160387
Status Public on Jun 06, 2021
Title STAG proteins mediate heterochromatin organization to support translation and cell identity [Iso-Seq]
Organism Mus musculus
Experiment type Other
Summary Abstract to add later
 
Overall design Determination of the sequence of full-length transcripts from mouse embryonic stem cells (ESC) cultured in naïve 2i conditions. PolyA-enriched mRNAs were selected by hybridization to a custom oligo probe set and post-capture, mRNAs were amplified using the Clontech SMARTer PCR cDNA Synthesis Kit with 9 cycles and used in the SMRTbell library prep. The library was sequenced on the SMRTseq 2000 platform. PacBio reads were processed through the SMRTLINK v8.0.0 IsoSeq3 pipeline and the PacBio Isoseq transcripts were mapped using minimap2.
 
Contributor(s) Hadjur S, Pezic D, Varsally W, Weeks SL
Citation missing Has this study been published? Please login to update or notify GEO.
Submission date Oct 29, 2020
Last update date Jun 06, 2021
Contact name Suzana Hadjur
E-mail(s) s.hadjur@ucl.ac.uk
Phone +44 7798957199
Organization name Ucl
Department Cancer biology
Lab Genome organization
Street address 72 Huntley street
City London
ZIP/Postal code Wc1e6bt
Country United Kingdom
 
Platforms (1)
GPL24198 Sequel (Mus musculus)
Samples (1)
GSM4872530 ESC_2i_PacBio_subreads
This SubSeries is part of SuperSeries:
GSE160390 PEZIC_STAG1_Pluripotency
Relations
BioProject PRJNA673168
SRA SRP290283

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE160387_RAW.tar 133.9 Mb (http)(custom) TAR (of BAI, BAM)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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