Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Quantifying post-transcriptional regulation in the development of Drosophila melanogaster

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

OTHER RELATED OMICS DATASETS IN: PXD011238

ORGANISM(S): Drosophila melanogaster

PROVIDER: GSE121167 | GEO | 2018/10/13

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Quantifying post-transcriptional regulation in the development of Drosophila melanogaster.

Project description:Even though proteins are produced from mRNA, the correlation between mRNA levels and protein abundances is moderate in most studies, occasionally attributed to complex post-transcriptional regulation. To address this, we generate a paired transcriptome/proteome time course dataset with 14 time points during Drosophila embryogenesis. Despite a limited mRNA-protein correlation (ρ = 0.54), mathematical models describing protein translation and degradation explain 84% of protein time-courses based on the measured mRNA dynamics without assuming complex post transcriptional regulation, and allow for classification of most proteins into four distinct regulatory scenarios. By performing an in-depth characterization of the putatively post-transcriptionally regulated genes, we postulate that the RNA-binding protein Hrb98DE is involved in post-transcriptional control of sugar metabolism in early embryogenesis and partially validate this hypothesis using Hrb98DE knockdown. In summary, we present a systems biology framework for the identification of post-transcriptional gene regulation from large-scale, time-resolved transcriptome and proteome data.

| S-EPMC6255845 | biostudies-literature

Quantifying post-transcriptional regulation in the development of Drosophila melanogaster

Project description:Even though proteins are produced from mRNA, the correlation between mRNA levels and protein abundances is moderate in most studies, occasionally attributed to complex post-transcriptional regulation. To address this, we generated a paired transcriptome/proteome time course dataset with 14 time points during Drosophila embryogenesis. Despite a limited mRNA-protein correlation (ρ = 0.54), mathematical models describing protein translation and degradation explain 84% of protein time-courses based on the measured mRNA dynamics without assuming complex post-transcriptional regulation, and allow for classification of most proteins into four distinct regulatory scenarios. By performing an in-depth characterization of the putatively post-transcriptionally regulated genes, we postulated that the RNA-binding protein Hrb98DE is involved in post-transcriptional control of sugar metabolism in early embryogenesis and partially validated this hypothesis using Hrb98DE knockdown. In summary, we present a systems biology framework for the identification of post-transcriptional gene regulation for large-scale time-resolved transcriptome and proteome data.

2018-10-26 | PXD011238 | Pride

Quantifying post-transcriptional regulation in the development of Drosophila melanogaster [s2r]

Project description:Proteome and transcriptome often show poor correlation, hindering the system-wide analysis of post-transcriptional regulation. Here, the authors study proteome and transcriptome dynamics during Drosophila embryogenesis and present basic mathematical models describing the temporal regulation of most protein-RNA pairs.

2018-10-13 | GSE121161 | GEO

Quantifying post-transcriptional regulation in the development of Drosophila melanogaster [devel]

2018-10-13 | GSE121160 | GEO

Quantifying post-transcriptional regulation in the development of Drosophila melanogaster

Project description:Quantifying post-transcriptional regulation in the development of Drosophila melanogaster

| PRJNA495916 | ENA

The role of Dichaete in transcriptional regulation during Drosophila embryonic development

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-07-22 | E-GEOD-49095 | biostudies-arrayexpress

Quantifying post-transcriptional regulation in the development of Drosophila melanogaster [s2r]

Project description:Quantifying post-transcriptional regulation in the development of Drosophila melanogaster [s2r]

| PRJNA495911 | ENA

Quantifying post-transcriptional regulation in the development of Drosophila melanogaster [devel]

Project description:Quantifying post-transcriptional regulation in the development of Drosophila melanogaster [devel]

| PRJNA495910 | ENA

Reverse-engineering post-transcriptional regulation of gap genes in Drosophila melanogaster.

Project description:Systems biology proceeds through repeated cycles of experiment and modeling. One way to implement this is reverse engineering, where models are fit to data to infer and analyse regulatory mechanisms. This requires rigorous methods to determine whether model parameters can be properly identified. Applying such methods in a complex biological context remains challenging. We use reverse engineering to study post-transcriptional regulation in pattern formation. As a case study, we analyse expression of the gap genes Krüppel, knirps, and giant in Drosophila melanogaster. We use detailed, quantitative datasets of gap gene mRNA and protein expression to solve and fit a model of post-transcriptional regulation, and establish its structural and practical identifiability. Our results demonstrate that post-transcriptional regulation is not required for patterning in this system, but is necessary for proper control of protein levels. Our work demonstrates that the uniqueness and specificity of a fitted model can be rigorously determined in the context of spatio-temporal pattern formation. This greatly increases the potential of reverse engineering for the study of development and other, similarly complex, biological processes.

| S-EPMC3814631 | biostudies-literature

Transcriptional profiles of experimentally evolved monogamous and polygamous Drosophila melanogaster

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2014-03-17 | E-GEOD-50918 | biostudies-arrayexpress