Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Effect of Interferon Gamma and Hydroxyproline on Gene Expression in THP-1 Cells

ABSTRACT: Hydroxyproline (trans-4-Hydroxy-L-proline) is an abundant amino acid in mammalian tissue, yet little is known about how its prescence effects gene expression. This study aimed to analyze the effects of hydroxyproline on gene expression in THP-1 cells stimulated with IFN-γ, using RNA-seq.

ORGANISM(S): Homo sapiens

PROVIDER: GSE229710 | GEO | 2023/05/15

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Expression analysis of genes in the legume endosymbiont Sinorhizobium meliloti with reference to Hydroxyproline Catabolism

Project description:Hydroxyproline in decaying organic matter and root exudates and is a source of carbon and nitrogen to soil-dwelling microorganisms. A bacterial pathway for hydroxyproline catabolism was elucidated over 30 years ago however genes and gene function relationships were not established. In that pathway, trans-4-hydroxy-L-proline (4-L-Hyp) is epimerized to cis-4-hydroxy-D-proline (4-D-Hyp), and then, in three enzymatic reactions, the D-diastereomer is converted via 1-pyrroline-4-hydroxy-2-carboxylate and alpha-ketoglutaric semialdehyde to alpha-ketoglutaric acid. Here we report on the regulation and functions of several genes from a hydroxyproline catabolism locus on the pSymB megaplasmid of the legume endosymbiont Sinorhizobium meliloti. The hydroxyproline catabolism genes (hyp) are negatively regulated by hypR and are organized as four single transcripts (hypR, hypD, hypS and hypH) and a 9 gene transcript (hypMNPQ(RE)XYZ). Transcription of these genes was induced in the presence of either 4-L-Hyp and 4-D-Hyp, and was not subject to nitrogen source regulation. The hypRE gene is shown to encode 4-hydroxyproline 2-epimerase (HypRE) responsible for the reversible isomerization of 4-L-Hyp and 4-D-Hyp, whereas a hypRE mutant grew with 4-D-Hyp but not of 4-L-Hyp as carbon source. hypO, hypD and hypH are predicted to encode the 4-D-Hyp oxidase, the 1-pyrroline-4-hydroxy-2-carboxylate deaminase and alpha-ketoglutaric semialdehyde dehydrogenase respectively. No epimerase activity was detected for the HypY (Smb20270), a predicted racemase, and activities from four other genes (designated hypS, hypX and hypZ) remain to be determined. In summary, the 4-hydroxyproline (4-Hyp) catabolic pathway for S. meliloti is similar to that previously elucidated for Pseudomonas however the presence of additional genes at the hyp locus suggests that additional metabolic steps still remain to be elucidated.

2012-07-17 | GSE38087 | GEO

Gene expression of LY6E-silent THP-1 cells and control THP-1 cells

Project description:Expression profiling of LY6E-silent THP-1 cells (THP-1-shLY6E) and control cells (THP-1-shCtrl). Results provide evidence that LY6E is effectively knocked down in THP-1shLY6E, compared to THP-1-shCtrl, and show the different expressed genes following LY6E silence in THP-1 cells.

2014-09-06 | GSE44794 | GEO

Expression data from effects of Ganoderma lucidum polysaccharides F3 on human monocytic leukemia cell line THP-1

Project description:In order to identify patterns of gene expression associated with biological effects in THP-1 cells induced by F3, we performed a transcriptomic analysis on the THP-1 control and F3-treated THP-1 cells by oligonucleotide microarray

2009-05-08 | GSE16014 | GEO

Gene expression of LY6E-silent THP-1 cells and control THP-1 cells

2014-09-06 | E-GEOD-44794 | biostudies-arrayexpress

THP-1 cell lines: reference data for classification of THP-1 cells (expression)

Project description:THP-1 is a representative leukemia cell line, and has been widely used all around the world since its establishment in Japan in 1980. Differences in THP-1 cells have been reported; however, the THP-1 cell lines have not been accurately classified.

2021-08-31 | GSE178444 | GEO

THP-1 cell lines: reference data for classification of THP-1 cells [genome]

2021-08-31 | GSE178731 | GEO

hydroxyproline-containing proteins of rice

Project description:Identification of hydroxyproline-containing proteins and hydroxylation of proline in rice

2020-06-09 | PXD017798 | iProX

Methylation array of shNC, shUHRF1, shDNMT1, shDNMT3B THP-1 cells before and after PMA treatment

Project description:This methylation array was conducted to find out changes in genome-wide methylation pattern in THP-1 cells upon differentiation. Also, we tried to figure out the effects of knockdown of UHRF1, DNMT1 and DNMT3B in THP-1 cells in regulating genome-wide DNA methylation.

2022-06-24 | GSE206620 | GEO

Transcription and chromatin profiling in differentiating THP-1 monocytes and THP-1 derived macrophages

Project description:Here we profile nascent transcription, RNA polymerase III occupancy, chromatin accessibility, and H3K27ac levels in THP-1 monocytes and THP-1 derived macrophages after 72 hr exposure to phorbol myristate acetate (PMA).

2017-03-29 | GSE96800 | GEO

Expresson from human THP-1 stimulated with IFN-g and/or infected with TB

Project description:Investigation of interacting effects of TB and IFN-g on gene expression regulation within human macrophage-like THP-1 cells

2010-02-28 | GSE17477 | GEO