GEO DataSets

(Submitter supplied) We investigated genome folding across the eukaryotic tree of life. We find four general manifestations of genome organization at chromosome-scale that each emerge and disappear repeatedly over the course of evolution. The submission represents chromosome-length Hi-C contact maps, architecture type and homolog separation analyses for 26 species across the tree of life, representing all subphyla of chordates, all 7 extant vertebrate classes, and 7 out of 9 major animal phyla, as well as plants and fungi.

Organism:

Saccharomyces cerevisiae; Drosophila melanogaster; Gallus gallus; Hypsibius dujardini; Lethenteron camtschaticum; Arachis hypogaea; Agaricus bisporus; Branchiostoma lanceolatum; Xenopus laevis; Notamacropus eugenii; Pygocentrus nattereri; Cristatella mucedo; Clonorchis sinensis; Chiloscyllium punctatum; Triticum aestivum; Caenorhabditis elegans; Aplysia californica; Aedes aegypti; Culex quinquefasciatus; Homo sapiens; Muntiacus reevesi; Muntiacus muntjak; Strongylocentrotus purpuratus; Ciona intestinalis; Pleurobrachia bachei; Acropora millepora; Python bivittatus

Type:

Other

30 related Platforms

32 Samples

Download data: BEDPE, FASTA, HIC, VCF, WIG

(Submitter supplied) Limno-terrestrial tardigrades enter a state called anhydrobiosis when exposed to desiccation, and acquire tolerance against various extreme environments. The anhydrobiotic tardigrade Hypsibius dujardini, is a non-pigmented tardigrade easy to culture and RNAi method have been established, therefore making it a model tardigrade for tardigrade molecular research. Previous genome assemblies of this tardigrade had increased size due to heterozygosity. more...

Organism:

Hypsibius dujardini; Ramazzottius varieornatus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL23008 GPL23009 GPL19649

78 Samples

Download data: FA, TXT

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

Organism:

Platynereis dumerilii; Drosophila melanogaster; Amphimedon queenslandica; Strongylocentrotus purpuratus; Caenorhabditis elegans; Danio rerio; Mnemiopsis leidyi; Nematostella vectensis; Schmidtea polychroa; Hypsibius dujardini

Type:

Expression profiling by high throughput sequencing

10 related Platforms

1143 Samples

Download data: PDF, XLSX

(Submitter supplied) Classical embryological studies revealed that during mid-embryogenesis vertebrates show similar morphologies. This “phylotypic stage” has recently received support from transcriptome analyses, which have also detected similar stages in nematodes and arthropods. A conserved stage in these three phyla has led us to ask if all animals pass through a universal definitive stage as a consequence of ancestral constraints on animal development. more...

Organism:

Hypsibius dujardini

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19649

126 Samples

Download data: TAB

(Submitter supplied) Comparison of small RNA profiles across nematode evolution

Organism:

Brugia malayi; Globodera pallida; Pristionchus pacificus; Enoplus brevis; Paragordius varius; Caenorhabditis elegans; Trichinella spiralis; Odontophora rectangula; Romanomermis culicivorax; Nippostrongylus brasiliensis; Hypsibius dujardini

Type:

Non-coding RNA profiling by high throughput sequencing

11 related Platforms

22 Samples

Download data: FA, FASTA