GEO DataSets

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25145

8 Samples

Download data

(Submitter supplied) During development C. elegans GABAergic dorsal D-class (DD) motor neurons reverse polarity such that the axonal and dendritic compartments are switched. We found that the gene DVE-1 is important for this process. To elucidate potential targets of dve-1 transcriptional regulation we conducted bulk RNA sequencing of total RNA from L4 stage wild type and dve-1 mutant animals

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25145

4 Samples

Download data: TXT

(Submitter supplied) During development C. elegans GABAergic dorsal D-class (DD) motor neurons reverse polarity such that the axonal and dendritic compartments are switched. We found that the gene DVE-1 is important for this process. To elucidate potential targets of dve-1 transcriptional regulation we conducted bulk RNA sequencing of total RNA from early L1 stage wild type and dve-1 mutant animals

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25145

4 Samples

Download data: TXT

(Submitter supplied) Genome-scale metabolic network models (MNMs) can be used with a mathematical modeling tool called flux balance analysis to gain insights into metabolism at a systems level. Such models represent metabolism of an organism as a whole and do not automatically reveal how the flux overall is wired, i.e., which reactions carry flux, and which do not, and measuring flux at a large scale is challenging. Enzyme levels, as proxied by mRNA levels, can be used to predict reaction fluxes. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL25145 GPL27998

10 Samples

Download data: CSV

(Submitter supplied) The regulation of metabolism is vital to any organism. One mechanism of this regulation is by transcriptionally activating or repressing genes encoding metabolic enzymes and transporters. This is used to wire tissue-relevant metabolic networks during development, but also to rewire metabolism upon nutritional or genetic perturbations. While many individual examples of transcriptional regulation of metabolism have been reported, a systems-level study of how metabolic gene expression responds to such perturbations is lacking in any animal. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25145

73 Samples

Download data: CSV

(Submitter supplied) DNA topoisomerases are essential molecular machines that manage DNA topology in the cell and play important roles in DNA replication and transcription. We find that knocking down the enzyme Topoisomerase IIβ (Top2b) increases the lifespan of S. cerevisiae, C. elegans, and mice. TOP2B reduction also extends the health span of mice and alleviates the characteristics and pathologies of aging in multiple tissues. more...

Organism:

Caenorhabditis elegans; Mus musculus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL25145 GPL23479

32 Samples

Download data: XLSX

(Submitter supplied) Innate immunity in bacteria, plants and animals requires the specialized subset of TIR-domain proteins that are NAD+ hydrolases. Aggregation of these TIR proteins engages their enzymatic activity, but it is not known how this protein multimerization is regulated. Here, we discovered that TIR oligomerization is exquisitely controlled to prevent immune toxicity. We found that p38 propagates its own activation by promoting the feedforward expression and aggregation of the lone enzymatic TIR protein in the nematode C. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25145

12 Samples

Download data: TSV

(Submitter supplied) The muscleblind family of mRNA splicing regulators is conserved across species and regulate the development of muscles and the nervous system. However, how Muscleblind proteins regulate neuronal fate specification and neurite morphogenesis at the single-neuron level is not well understood. In this study, we found that the C. elegans Muscleblind/MBL-1 promotes axonal growth in the touch receptor neurons (TRNs) by regulating microtubule stability and polarity. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25145

8 Samples

Download data: TAB

(Submitter supplied) Background and Aims: Lifespan is influenced by complex interactions between genetic and environmental factors. Limitations in studying those factors in model organisms of a single genetic background hinder translational value. Here, we mapped genetic determinants of lifespans in 85 C. elegans recombinant intercross advanced inbred lines (RIAILs). We assessed molecular profiles – transcriptome, proteome, and lipidome – and life-history traits (lifespan), development, growth dynamics, and reproduction.

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25145

96 Samples

Download data: TAB

(Submitter supplied) A major goal of healthy aging is to prevent declining resilience and increasing frailty, which are associated with many chronic diseases and deterioration of stress response. We have successfully used loss-or-gain model of stress survival to quantify organismal resilience. As a proof of concept, this is demonstrated in C. elegans exposed to increasing oxidative stress induced by exogenous paraquat and with proteotoxic stress caused by endogenous polyQ and Aβ aggregation, respectively. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25145

2 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL26672 GPL25145

12 Samples

Download data

(Submitter supplied) Sphingolipids are required for diverse biological functions and are degraded by specific catabolic enzymes. However, the mechanisms that regulate sphingolipid catabolism are not known. Here we characterize a transcriptional axis that regulates sphingolipid breakdown to control resistance against bacterial infection. From an RNAi screen for transcriptional regulators of pathogen resistance in the nematode C. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25145

6 Samples

Download data: XLSX

(Submitter supplied) We used RNA-seq to identify gene expression changes in C. elegans old-1(ok1273) and flor-1(icb93) mutants along with old-1 overexpression transgenic strains

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL25145 GPL26672

30 Samples

Download data: H5

(Submitter supplied) Vitamin B12 depletion or propionate supplementation can reverse the transcriptomic aberration in the C. elegans model of PD with neuronal overexpression of alpha-synuclein A53T

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25145

14 Samples

Download data: TAB

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Caenorhabditis elegans

Type:

Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platforms:

GPL13657 GPL19757 GPL25145

36 Samples

Download data

(Submitter supplied) We find that two SAM synthases in C. elegans, SAMS-1 and SAMS-3/4, contribute differently to modification of H3K4me3, gene expression and survival in the heat stress response. Our data showing differential SAM provisioning to distinct groups of methylated targets based on SAM synthase source suggests that determining how methyl donors are provided will broaden insight into 1CC functions in aging and stress.

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25145

12 Samples

Download data: TXT

(Submitter supplied) Pattern recognition of bacterial products by host receptors is essential for pathogen sensing in many metazoans. Caenorhabditis elegans, however, do not utilize canonical pattern recognition receptors to activate innate immunity toward bacterial pathogens. Whether other mechanisms evolved in nematodes to directly sense pathogens is not known. Here, we characterize the first bacterial pattern recognition receptor and its natural ligand in C. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25145

30 Samples

Download data: TSV

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25145

24 Samples

Download data

(Submitter supplied) Lysosomes are cytoplasmic organelles that are central for the degradation of macromolecules to maintain cellular homeostasis and health. Here, we discovered an adaptive lysosomal transcriptional response that we termed the lysosomal stress response (LySR). Typified by the induction of a large group of transcripts involved in lysosomal function and proteolysis, the LySR can be triggered by silencing of specific vacuolar H+-ATPase subunits in Caenorhabditis elegans. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25145

12 Samples

Download data: XLSX

(Submitter supplied) Lysosomes are cytoplasmic organelles that are central for the degradation of macromolecules to maintain cellular homeostasis and health. Here, we discovered an adaptive lysosomal transcriptional response that we termed the lysosomal stress response (LySR). Typified by the induction of a large group of transcripts involved in lysosomal function and proteolysis, the LySR can be triggered by silencing of specific vacuolar H+-ATPase subunits in Caenorhabditis elegans. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25145

12 Samples

Download data: XLSX