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Series GSE212354 Query DataSets for GSE212354
Status Public on Apr 27, 2023
Title RNA uridylation percentages for virus of the Secoviridae family
Organisms Nicotiana benthamiana; Vitis vinifera; Chenopodium quinoa
Experiment type Expression profiling by high throughput sequencing
Summary Using 3' RACE-seq method, we analyzed global 3’ terminal RNA uridylation profiles of Secovirus RNAs.
 
Overall design 3’ RACE-seq method was used to measure poly(A) tail sizes and analyze uridylation levels. This protocol is based on the ligation of a primer at the 3’ end of RNA, and the subsequent targeted amplification by PCR of amplicons suitable for Illumina sequencing.
 
Contributor(s) Joly A, Garcia S, Zuber H, Gagliardi D
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Submission date Aug 30, 2022
Last update date Apr 27, 2023
Contact name Dominique Gagliardi
E-mail(s) dominique.gagliardi@ibmp-cnrs.unistra.fr
Organization name CNRS
Department IBMP
Street address 12, rue du General Zimmer
City Strasbourg
ZIP/Postal code 67084
Country France
 
Platforms (5)
GPL22072 Illumina MiSeq (Nicotiana benthamiana)
GPL29591 Illumina MiSeq (Vitis vinifera)
GPL32616 Illumina MiSeq (Chenopodium quinoa)
Samples (33)
GSM6528529 CPMV_RNA1_Plant1
GSM6528530 CPMV_RNA1_Plant2
GSM6528531 CPMV_RNA1_Plant3
This SubSeries is part of SuperSeries:
GSE212358 A global survey of phytoviral RNA 3' uridylation identifies extreme variations and virus-specific patterns
Relations
BioProject PRJNA875114

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
GSE212354_Processed_Data_SECO_B2.txt.gz 71.5 Mb (ftp)(http) TXT
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Processed data are available on Series record
Raw data are available in SRA
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