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Links from GEO DataSets

Items: 11

1.

Translation and transcription start site profiling of HSV-1 infected cells

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens; Human alphaherpesvirus 1 strain 17
Type:
Other
4 related Platforms
28 Samples
Download data
Series
Accession:
GSE128324
ID:
200128324
2.

Subcellular RNA fractions of primary human fibroblasts infected with the HSV-1 delta-ICP27 mutant

(Submitter supplied) Primary human foreskin fibroblasts (HFF) were infected with the ICP27 null mutant of herpes simplex virus 1 (HSV-1) strain 17 at a multiplicity of infection (MOI) of 10. Subcellular RNA fractions including total RNA, cytoplasmic RNA, nucleoplasmic RNA and chromatin-associated RNA were prepared and subjected to RNA-seq
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
24 Samples
Download data: TXT
3.

Transcription start site profiling of HSV-1 infected cells using cRNA-seq and dRNA-seq

(Submitter supplied) 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. Sequencing libraries were prepared using the cRNA-seq and dRNA-seq protocol from the indicated time points of infection.
Organism:
Human alphaherpesvirus 1 strain 17; Homo sapiens
Type:
Other
4 related Platforms
18 Samples
Download data: TSV
Series
Accession:
GSE128323
ID:
200128323
4.

Ribosome profiling of HSV-1 infected cells

(Submitter supplied) 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. Ribosome profiling was performed at various times during infection with minor modification to the protocol described in Stern-Ginossar N et al., Science 2012. Translation start site profiling was performed by culturing cells in presence of Harringtonin or Lactimidomycin for 30 min prior to cell harvest.
Organism:
Homo sapiens; Human alphaherpesvirus 1 strain 17
Type:
Other
Platforms:
GPL26303 GPL11154
10 Samples
Download data: TSV
Series
Accession:
GSE128322
ID:
200128322
5.

RNAseq comparison of HSV-1 KOS vs n199 infected cells

(Submitter supplied) The abundance of HSV mRNAs was determines over 16h of infection in wt (KOS) and n199 (ICP22 mutant) infected cells. ICP22 is an immediate early gene of HSV that affects gene expression
Organism:
Human alphaherpesvirus 1; Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL23890
12 Samples
Download data: XLSX
Series
Accession:
GSE109420
ID:
200109420
6.

Wide-spread disruption of transcription termination in HSV-1 infection: Next-generation sequencing of translational activityd by ribosome profiling

(Submitter supplied) 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. Ribosome profiling was performed at various times during infection with minor modification to the protocol described in Stern-Ginossar N et al., Science 2012
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL11154
12 Samples
Download data: RPKM
Series
Accession:
GSE60040
ID:
200060040
7.

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

(Submitter supplied) 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.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL16791
28 Samples
Download data: RPKM
8.

Chromatin-associated RNA of HSV-1 infected primary human fibroblasts including infection with vhs mutants

(Submitter supplied) Primary human foreskin fibroblasts (HFF) were infected with wild-type herpes simplex virus 1 (HSV-1) strain 17 or its vhs null mutant, or with BAC-derived viruses expressing either a wild-type or catalytically inactive vhs with the D195N mutation at a multiplicity of infection (MOI) of 10. Chromatin-associated RNA was prepared and subjected to RNA-seq.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
10 Samples
Download data: TSV
9.

H3K4me3 ChIPmentation on HSV-1 infected primary human fibroblasts

(Submitter supplied) Primary human fetal foreskin fibroblasts (HFFFs) were infected with wild-type simplex virus 1 (HSV-1) strain 17 at a multiplicity of infection (MOI) of 10. ChIPmentation libraries were prepared starting with 500,000 cells per condition following the protocol described by Christian Schmidl et al, Nature Methods 2015
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL18573
4 Samples
Download data: BED
Series
Accession:
GSE132920
ID:
200132920
10.

Total and newly transcribed (4sU-RNA) RNA of primary human fibroblasts infected with the vhs-null mutant of HSV-1

(Submitter supplied) Primary human foreskin fibroblasts (HFF) were infected with vhs-null mutant of 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.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
28 Samples
Download data: TSV
11.

Subcellular RNA fractions of HSV-1 infected primary human fibroblasts including infection with delta-Vhs mutant

(Submitter supplied) Primary human foreskin fibroblasts (HFF) were infected with wild-type simplex virus 1 (HSV-1) strain 17 or its vhs null mutant at a multiplicity of infection (MOI) of 10. Subcellular RNA fractions including total RNA, cytoplasmic RNA, nucleoplasmic RNA and chromatin-associated RNA were prepared and subjected to RNA-seq.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
24 Samples
Download data: TSV
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