Virus Expression Database

GSE59717

Wide-spread disruption of transcription termination in HSV-1 infection: Next generation sequencing of total and newly transcribed (4sU-RNA) RNA

Submitted by Caroline Friedel (Ludwig-Maximilians-Universität München, Germany) on Jul 23 2014

Platform: ngs – Illumina HiSeq 2500 (Homo sapiens)

Pubmed: 25989971, 29579120, 28135292

Summary Primary human foreskin fibroblasts (HFF) were infected with wild-type simplex virus 1 (HSV-1) strain 17 at a multiplicity of infection (MOI) of 10. Newly transcribed RNA was labelled by adding 500µM 4-thiouridine (4sU) to the cell culture media for 1h. Total cellular RNA was isolated using Trizol. Newly transcribed RNA was purified following the protocol described in Raedle et al. JoVE 2013.

28 Samples

ID Title Cell Type Timepoint Reported Virus Virus Species Exclusion Reason
GSM1444166 Total RNA - mock Rep 1 dermal fibroblast  mock Uninfected
GSM1444167 Total RNA - 2hpi Rep 1 dermal fibroblast  2 hrs HSV-1 strain 17 Human alphaherpesvirus 1
GSM1444168 Total RNA - 4hpi Rep 1 dermal fibroblast  4 hrs HSV-1 strain 17 Human alphaherpesvirus 1
GSM1444169 Total RNA - 6hpi Rep 1 dermal fibroblast  6 hrs HSV-1 strain 17 Human alphaherpesvirus 1
GSM1444170 Total RNA - 8hpi Rep 1 dermal fibroblast  8 hrs HSV-1 strain 17 Human alphaherpesvirus 1
GSM1444171 4sU-RNA - mock Rep 1 dermal fibroblast  mock Uninfected Extra interventions
4sU-RNA (only newly transcribed)
GSM1444172 4sU-RNA - 0-1 hpi Rep 1 dermal fibroblast  1 hr HSV-1 strain 17 Human alphaherpesvirus 1 Extra interventions
4sU-RNA (only newly transcribed)
GSM1444173 4sU-RNA - 1-2 hpi Rep 1 dermal fibroblast  2 hrs HSV-1 strain 17 Human alphaherpesvirus 1 Extra interventions
4sU-RNA (only newly transcribed)
GSM1444174 4sU-RNA - 2-3 hpi Rep 1 dermal fibroblast  3 hrs HSV-1 strain 17 Human alphaherpesvirus 1 Extra interventions
4sU-RNA (only newly transcribed)
GSM1444175 4sU-RNA - 3-4 hpi Rep 1 dermal fibroblast  4 hrs HSV-1 strain 17 Human alphaherpesvirus 1 Extra interventions
4sU-RNA (only newly transcribed)
GSM1444176 4sU-RNA - 4-5 hpi Rep 1 dermal fibroblast  5 hrs HSV-1 strain 17 Human alphaherpesvirus 1 Extra interventions
4sU-RNA (only newly transcribed)
GSM1444177 4sU-RNA - 5-6 hpi Rep 1 dermal fibroblast  6 hrs HSV-1 strain 17 Human alphaherpesvirus 1 Extra interventions
4sU-RNA (only newly transcribed)
GSM1444178 4sU-RNA - 6-7 hpi Rep 1 dermal fibroblast  7 hrs HSV-1 strain 17 Human alphaherpesvirus 1 Extra interventions
4sU-RNA (only newly transcribed)
GSM1444179 4sU-RNA - 7-8 hpi Rep 1 dermal fibroblast  8 hrs HSV-1 strain 17 Human alphaherpesvirus 1 Extra interventions
4sU-RNA (only newly transcribed)
GSM1444180 Total RNA - mock Rep 2 dermal fibroblast  mock Uninfected
GSM1444181 Total RNA - 2hpi Rep 2 dermal fibroblast  2 hrs HSV-1 strain 17 Human alphaherpesvirus 1
GSM1444182 Total RNA - 4hpi Rep 2 dermal fibroblast  4 hrs HSV-1 strain 17 Human alphaherpesvirus 1
GSM1444183 Total RNA - 6hpi Rep 2 dermal fibroblast  6 hrs HSV-1 strain 17 Human alphaherpesvirus 1
GSM1444184 Total RNA - 8hpi Rep 2 dermal fibroblast  8 hrs HSV-1 strain 17 Human alphaherpesvirus 1
GSM1444185 4sU-RNA - mock Rep 2 dermal fibroblast  mock Uninfected Extra interventions
4sU-RNA (only newly transcribed)
GSM1444186 4sU-RNA - 0-1 hpi Rep 2 dermal fibroblast  1 hr HSV-1 strain 17 Human alphaherpesvirus 1 Extra interventions
4sU-RNA (only newly transcribed)
GSM1444187 4sU-RNA - 1-2 hpi Rep 2 dermal fibroblast  2 hrs HSV-1 strain 17 Human alphaherpesvirus 1 Extra interventions
4sU-RNA (only newly transcribed)
GSM1444188 4sU-RNA - 2-3 hpi Rep 2 dermal fibroblast  3 hrs HSV-1 strain 17 Human alphaherpesvirus 1 Extra interventions
4sU-RNA (only newly transcribed)
GSM1444189 4sU-RNA - 3-4 hpi Rep 2 dermal fibroblast  4 hrs HSV-1 strain 17 Human alphaherpesvirus 1 Extra interventions
4sU-RNA (only newly transcribed)
GSM1444190 4sU-RNA - 4-5 hpi Rep 2 dermal fibroblast  5 hrs HSV-1 strain 17 Human alphaherpesvirus 1 Extra interventions
4sU-RNA (only newly transcribed)
GSM1444191 4sU-RNA - 5-6 hpi Rep 2 dermal fibroblast  6 hrs HSV-1 strain 17 Human alphaherpesvirus 1 Extra interventions
4sU-RNA (only newly transcribed)
GSM1444192 4sU-RNA - 6-7 hpi Rep 2 dermal fibroblast  7 hrs HSV-1 strain 17 Human alphaherpesvirus 1 Extra interventions
4sU-RNA (only newly transcribed)
GSM1444193 4sU-RNA - 7-8 hpi Rep 2 dermal fibroblast  8 hrs HSV-1 strain 17 Human alphaherpesvirus 1 Extra interventions
4sU-RNA (only newly transcribed)