GEO DataSets

(Submitter supplied) Partially methylated domains (PMDs) are a hallmark of epigenomes in reproducible and specific biological contexts, including cancer cells, the placenta, and cultured cell lines. Existing methods for deciding whether PMDs exist in a sample, as well as their identification, are few, often tailored to specific biological questions, and require high coverage samples for accurate identification. In this study, we outline a set of axioms that take a step towards a functional definition for PMDs, describe an improved method for comparable PMD detection across samples with substantially different sequencing depths, and refine the decision criteria for whether a sample contains PMDs using a data-driven approach. more...

Organism:

Homo sapiens; Mus musculus musculus

Type:

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

Platforms:

GPL11154 GPL22153

23 Samples

Download data: TXT

(Submitter supplied) The placental epigenome plays a vital role in regulating mammalian growth and development. Aberrations in placental DNA methylation are linked to several disease states, including intrauterine growth restriction and preeclampsia. Studying the evolution and development of the placental epigenome is critical to understanding the origin and progression of such diseases. Although high resolution studies have found substantial variation between placental methylomes of different species, the nature of methylome variation has yet to be characterized within any individual species. more...

Organism:

Mus musculus domesticus; Mus spretus; Mus musculus musculus

Type:

Methylation profiling by high throughput sequencing

Platforms:

GPL17106 GPL17637 GPL22153

35 Samples

Download data: BW

(Submitter supplied) We studied the evolution of alternative splicing in the early stages of species divergence in the house mouse.

Organism:

Mus musculus castaneus; Mus spretus; Mus musculus domesticus; Mus musculus musculus

Type:

Expression profiling by high throughput sequencing

4 related Platforms

7 Samples

Download data: SAM

(Submitter supplied) We have studied different subspecies of the house mouse (M. m. musculus, M. m. domesticus and M. m. castaneus) and their reciprocal F1 hybrids to estimate the within-locus mode of inheritance for subspecies differences in gene expression in three tissues (brain, liver, testis) of male mice. This study investigates mode of inheritance in crosses at a larger taxonomic distance than have been previously systematically investigated. more...

Organism:

Mus musculus; Mus musculus musculus x M. m. domesticus; Mus musculus musculus x Mus musculus castaneus; Mus musculus castaneus; Mus musculus domesticus; Mus musculus musculus

Type:

Expression profiling by array

Platform:

GPL1261

42 Samples

Download data: CEL