Cytomegalovirus infection
Ontology highlight
ABSTRACT:
ORGANISM(S): Homo sapiens
PROVIDER: GSE501 | GEO | 2003/07/16
SECONDARY ACCESSION(S): PRJNA85213
REPOSITORIES: GEO
Similar Datasets
Project description:We performed paired-end PRO-Seq and/or PRO-Cap on human foreskin fibroblasts (HFF) infected with human cytomegalovirus (HCMV) for 4 h (strain TB40/E) or 96 h (strain Towne varS). Each sample has matched uninfected controls. Towne experiments were also performed with adapters containing 4 nt of random sequence flanking both sides (8 total bases of randomness) to enable deduplication. Reads were first mapped to the human genome (hg38) (files available on GEO). Unmapped reads were then mapped to HCMV (Genbank FJ616285.1) (track hub available at https://github.com/P-TEFb/trackHub_HCMV).
2019-01-16 | GSE113394 | GEO
Project description:The in vitro effect of infection with different strains of Toxoplasma gondii was tested 24 hours after infection of Human Foreskin Fibroblasts (HFF) The strains tested include RH, VEG, and transgenic strains of RH overexpressing ROP38 or ROP21
2010-08-01 | GSE22402 | GEO
Project description:To characterize transcription throughout the HCMV infection, paired-end PRO-Seq was performed on human foreskin fibroblasts (HFF) infected with human cytomegalovirus (HCMV) for 4 h, 12 h, 24 h, 48 h, and 72 h using the TB40/e strain. Cells were treated with 1µM flavopiridol 1 hour prior to isolation. Additionally, PRO-Cap was performed on untreated HFFs after 72 h of infection. Each experiment was performed with adapters containing 8 nt of random sequence flanking both ends (16 total bases of randomness) to enable deduplication.
2022-02-17 | GSE185762 | GEO
Project description:The in vitro effect of infection with different strains of Toxoplasma gondii was tested 24 hours after infection of Human Foreskin Fibroblasts (HFF) The strains tested include RH, VEG, and transgenic strains of RH overexpressing ROP38 or ROP21 Total RNA of Toxoplasma gondii infected HFF cell was compared to uninfected cells
2010-07-31 | E-GEOD-22402 | biostudies-arrayexpress
Project description:Cytomegalovirus (CMV) strains with different in vivo and in vitro characteristics may induce different patterns of cellular gene expression. CMV strain fhCMV-H, which spreads rapidly through cell culture, was isolated from a hematopoetic stem cell transplant patient who died of CMV-mediated marrow failure. In contrast fhCMV-T was isolated from a patient who survived CMV complications and does not spread rapidly in vitro. Fibroblasts were infected with both strains, which had been engineered to express GFP upon cellular infection, and the cellular gene expression profile was compared to that of noninfected controls at 24h. The gene expression profile of HFF exposed to UV-inactivated virus from the 2 strains was also tested, to differentiate the effects of the initial engagement with virus coat proteins such as glycoprotein B and gene modulation by active virus. Keywords = cytomegalovirus, glycoprotein B Keywords: repeat sample
2003-09-09 | GSE453 | GEO
Project description:Human cytomegalovirus (HCMV) is a common cause of morbidity and mortality in immunocompromised and immunosuppressed individuals. During infection, HCMV is known to employ host transcription factors to facilitate viral gene expression. To further understand the previously observed delayed viral replication and protein expression in p53 knockout cells, we conducted microarray analyses on p53+/+ and p53-/- immortalized fibroblast cell lines. At 12 hpi, applying the significance criteria defined above, no genes showed a significant difference in any of the comparisons. At 24 hpi, we found 19 genes to be significantly different in the THF versus p53-/- comparison and 14 genes to be significantly different in the HFF versus p53-/- comparison. Eleven genes were shared between HFF and THF cells when compared to p53-/- cells (UL30, UL54, UL63, UL65, UL69, UL75, UL110, UL122, IRL4, IRS1, TRS1, shown in bold in Table 1). Eight genes were unique in the THF versus p53-/- comparison (UL48, UL68, UL84, UL100, UL106, UL109, UL111, RL5A), and three genes in the HFF versus p53-/- cell comparison (UL14, UL16, US2). When comparing HFF and THF cells, only US2 showed a significant difference. The ratio (HFF versus p53-/- divided by THF versus p53-/-) of the expression levels of the eleven shared genes from the HFF versus p53-/- and THF versus p53-/- comparisons was an averaged 1.2, indicating that, with the exception of US2, these two cell lines behaved similarly with respect to p53-driven viral gene expression. Keywords: time course, virus, cytomegalo, hhv5, infection, p53
2008-12-01 | GSE13437 | GEO
Project description:Human cytomegalovirus (HCMV) is a common cause of morbidity and mortality in immunocompromised and immunosuppressed individuals. During infection, HCMV is known to employ host transcription factors to facilitate viral gene expression. To further understand the previously observed delayed viral replication and protein expression in p53 knockout cells, we conducted microarray analyses on p53+/+ and p53-/- immortalized fibroblast cell lines. At 12 hpi, applying the significance criteria defined above, no genes showed a significant difference in any of the comparisons. At 24 hpi, we found 19 genes to be significantly different in the THF versus p53-/- comparison and 14 genes to be significantly different in the HFF versus p53-/- comparison. Eleven genes were shared between HFF and THF cells when compared to p53-/- cells (UL30, UL54, UL63, UL65, UL69, UL75, UL110, UL122, IRL4, IRS1, TRS1, shown in bold in Table 1). Eight genes were unique in the THF versus p53-/- comparison (UL48, UL68, UL84, UL100, UL106, UL109, UL111, RL5A), and three genes in the HFF versus p53-/- cell comparison (UL14, UL16, US2). When comparing HFF and THF cells, only US2 showed a significant difference. The ratio (HFF versus p53-/- divided by THF versus p53-/-) of the expression levels of the eleven shared genes from the HFF versus p53-/- and THF versus p53-/- comparisons was an averaged 1.2, indicating that, with the exception of US2, these two cell lines behaved similarly with respect to p53-driven viral gene expression. Keywords: time course, virus, cytomegalo, hhv5, infection, p53 Each slide consisted of 4 arrays. Each array consisted of 305 control features, 1265 cellular gene features and 670 viral gene features. The study was performed on 6 slides (HFF-THF, HFF-p53-/-, THF-p53-/- at 12 and 24 hpi). 3 arrays per slide were hybridized with 3 biological replicates of labelled RNA, the 4th array was hybridized with an equimolar mixture of the 3 biological replicate samples. This array was used for control purposes only, and the results were not used for downstream calculations. Each slide was stripped and reprobed two times to provide 3 technical replicates of each sample. As our experiments concentrated on viral genes and their expression, cellular genes were not further analyzed in this study.
2010-05-15 | E-GEOD-13437 | biostudies-arrayexpress
Project description:In order to study the molecular response of human foreskin fibroblast (HFF) cells to E. cuniculi parasite infection, kinetics microarray experiments targeting human genes expression have been performed during the parasite whole infection cycle. Infected HFF cells (IHFF; t=4h, 16h, 48h, 72h and 120h ) were systematically compared with control uninfected HFF cells (UHFF; t=0h).
2010-12-07 | GSE25880 | GEO
Project description:Primary human foreskin fibroblasts (HFF) were infected with the indicated HSV-1 strains and mutants thereof 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.
2020-06-08 | GSE151912 | GEO
Project description:In order to study the molecular response of human foreskin fibroblast (HFF) cells to E. cuniculi parasite infection, kinetics microarray experiments targeting human genes expression have been performed during the parasite whole infection cycle. Infected HFF cells (IHFF; t=4h, 16h, 48h, 72h and 120h ) were systematically compared with control uninfected HFF cells (UHFF; t=0h). Time-dependent experiment comparing two conditions, IHFF vs. UHFF cells (data points: t=4h/0h, t=16h/0h, t=48h/0h, t=72h/0h, t=120h/0h).
2010-12-07 | E-GEOD-25880 | biostudies-arrayexpress