GEO DataSets

(Submitter supplied) Examination of modified bases on the genome of Ralstonia solanacearum UY031

Organism:

Ralstonia solanacearum

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL22867

1 Sample

Download data: CSV, GFF

(Submitter supplied) Here we provided the first single-base resolution DNA methylatome in chicken lungs by whole-genome bisulfite sequencing (MethylC-seq). In addition, two genetically distinct highly inbred chicken lines, Leghorn and Fayoumi, were used to examine how DNA methylation regulates mRNA gene expression between two lines. The methylation profile demonstrated that methylcytosines in the chicken were more likely to occur in CG dinucleotides than in non-CG sites. more...

Organism:

Gallus gallus

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL9385

2 Samples

Download data: TXT

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

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL17639 GPL19580

83 Samples

Download data: BEDGRAPH, TXT

(Submitter supplied) Plant can perceive and respond natural sound vibration (SV). Artificial SV also served as a novel trigger of induced resistance, although approaches for activating such plant innate immunity intensively studied on the use of biological and chemical agents (BCA). Artificial SV pre-treatment protected Arabidopsis thaliana seedlings against insect pests and fungal pathogens. However, SV-mediated epigenetic modulation remains unexplored while CBA-mediated induced resistance is known as a complicated process involving epigenetic regulation. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17639

29 Samples

Download data: TXT

(Submitter supplied) Plant can perceive and respond natural sound vibration (SV). Artificial SV also served as a novel trigger of induced resistance, although approaches for activating such plant innate immunity intensively studied on the use of biological and chemical agents (BCA). Artificial SV pre-treatment protected Arabidopsis thaliana seedlings against insect pests and fungal pathogens. However, SV-mediated epigenetic modulation remains unexplored while CBA-mediated induced resistance is known as a complicated process involving epigenetic regulation. more...

Organism:

Arabidopsis thaliana

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL19580

18 Samples

Download data: TXT

(Submitter supplied) Plant can perceive and respond natural sound vibration (SV). Artificial SV also served as a novel trigger of induced resistance, although approaches for activating such plant innate immunity intensively studied on the use of biological and chemical agents (BCA). Artificial SV pre-treatment protected Arabidopsis thaliana seedlings against insect pests and fungal pathogens. However, SV-mediated epigenetic modulation remains unexplored while CBA-mediated induced resistance is known as a complicated process involving epigenetic regulation. more...

Organism:

Arabidopsis thaliana

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL17639

36 Samples

Download data: BEDGRAPH

(Submitter supplied) To reveal the correlation between epigenomic diversity and genomic SNVs, we first identified SNPs between T4 with other eleven Trichinella species. In total, we obtained 5,395,250 common SNVs across the twelve Trichinella species.

Organism:

Trichinella britovi; Trichinella papuae; Trichinella zimbabwensis; Trichinella patagoniensis; Trichinella sp. T8; Trichinella sp. T9; Trichinella nelsoni; Trichinella pseudospiralis; Trichinella murrelli; Trichinella spiralis; Trichinella nativa; Trichinella sp. T6

Type:

Other

12 related Platforms

12 Samples

Download data: TXT

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

Organism:

Trichinella nelsoni; Trichinella pseudospiralis; Trichinella sp. T6; Trichinella murrelli; Trichinella patagoniensis; Trichinella papuae; Trichinella zimbabwensis; Trichinella spiralis; Trichinella nativa; Trichinella sp. T8; Trichinella britovi; Trichinella sp. T9

Type:

Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing; Other

24 related Platforms

84 Samples

Download data: TXT

(Submitter supplied) As DNA methylation can modulate gene expression, we then focused our analysis on changes of methylation at the host taxonomic level, that is between encapsulated and non-encapsulated clade, and within non-encapsulated clade, to reveal epigenetic regulation on transcriptomes from Ad and ML stages. By comparing DNA methylation patterns between different host classes of species, we found a fraction of parasitism-related genes under epigenetic regulation, such as G-protein-coupled receptor, DNaseII and ligand-gated chloride channel.

Organism:

Trichinella spiralis; Trichinella nativa; Trichinella nelsoni; Trichinella pseudospiralis; Trichinella britovi; Trichinella murrelli; Trichinella papuae; Trichinella zimbabwensis; Trichinella patagoniensis; Trichinella sp. T6; Trichinella sp. T8; Trichinella sp. T9

Type:

Expression profiling by high throughput sequencing

12 related Platforms

36 Samples

Download data: TXT

(Submitter supplied) As the most studied type of epigenetic modifications found in many taxa, DNA methylation has been confirmed to play a crucial role in transposon silencing, transcriptional regulation and thus phenotypic variation, as well as rapid adaption to changing environments. To fully understand the methylome variation in Trichinella, here, we report 12 single-base resolution methylomes of three life stages using WGBS. more...

Organism:

Trichinella sp. T8; Trichinella sp. T9; Trichinella papuae; Trichinella sp. T6; Trichinella nelsoni; Trichinella pseudospiralis; Trichinella britovi; Trichinella murrelli; Trichinella patagoniensis; Trichinella spiralis; Trichinella nativa; Trichinella zimbabwensis

Type:

Methylation profiling by high throughput sequencing

12 related Platforms

36 Samples

Download data: TXT