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Series GSE135363 Query DataSets for GSE135363
Status Public on Aug 13, 2019
Title Comprehensive Annotations of Human Herpesvirus 6A and 6B Genomes Reveals Novel and Conserved Genomic Features
Organisms Homo sapiens; Human herpesvirus 6 (strain GS); Human herpesvirus 6 strain Z29
Experiment type Expression profiling by high throughput sequencing
Other
Summary Human herpesvirus 6 (HHV-6) A and B are highly ubiquitous betaherpesviruses, infecting the majority of the human population. Like other herpesviruses, our understanding of their protein coding potential is far from complete. Here we use ribosome profiling and RNA-seq to experimentally define the HHV-6 translation products and to follow their temporal expression. We identified hundreds of new open reading frames (ORF)s, including many upstream ORFs (uORF)s and internal ORFs (iORF)s, generating a complete atlas of HHV-6 translation products. Integrating data from human cytomegalovirus we uncover numerous uORFs and iORFs that are conserved between beta herpesviruses and we show uORFs are specifically enriched in late viral genes. We also identified three highly abundant viral long non coding RNAs (lncRNA)s and we show one of these lncRNAs generate a non-polyadenylated stable intron that is conserved between all sequenced beta herpesviruses. Overall, this work uncovers the full complexity of the HHV-6 family genomes and highlights novel features that are conserved between beta herpesviruses, providing a resource for future functional studies.
 
Overall design Ribosme profiling and RNA-seq along HHV-6A and HHV-6B infection
 
Contributor(s) Finkel Y, Schmiedle D, Tai-Schmiedle J, Nachshon A, Schwartz M, Stern-Ginossar N
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Submission date Aug 04, 2019
Last update date Aug 15, 2019
Contact name Noam Stern-Ginossar
E-mail(s) noam.stern-ginossar@weizmann.ac.il
Organization name Weizmann Institute
Department Molecular Genetics
Lab Noam Stern-Ginossar
Street address 234 herzel
City Rehovot
ZIP/Postal code 7610001
Country Israel
 
Platforms (2)
GPL27004 Illumina NextSeq 500 (Homo sapiens; Human herpesvirus 6 (strain GS))
GPL27005 Illumina NextSeq 500 (Homo sapiens; Human herpesvirus 6 strain Z29)
Samples (14)
GSM4006924 HHV-6A_CHX
GSM4006925 HHV-6A_LTM
GSM4006926 HHV-6A_Harr
Relations
BioProject PRJNA558563
SRA SRP217339

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
GSE135363_RAW.tar 3.2 Mb (http)(custom) TAR (of WIG)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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