GEO DataSets

(Submitter supplied) Analyses of ancient DNA typically involve sequencing the surviving short oligonucleotides, and aligning to genome assemblies from related, modern species. Here, we report that skin from a female woolly mammoth (†Mammuthus primigenius) which died 52,000 years ago retained its ancient genome architecture. We use PaleoHi-C to map chromatin contacts and assemble its genome, yielding twenty-eight chromosome-length scaffolds. more...

Organism:

Homo sapiens; Elephas maximus indicus; Bos taurus; Equus asinus; Mammuthus primigenius

Type:

Other; Third-party reanalysis

10 related Platforms

136 Samples

Download data: BED, BEDGRAPH, BEDPE, FASTA, HIC, SW, TXT, XLSX

(Submitter supplied) We study the genomic and developmental basis of the mammalian gliding membrane, or patagium, an adaptative trait that has repeatedly evolved in different lineages, including in closely related marsupial species. Through comparative genomic analysis of fifteen new marsupial genomes, both from gliding and non-gliding species, we find that the Emx2 locus experienced lineage-specific patterns of accelerated cis-regulatory evolution in gliding species. more...

Organism:

Distoechurus pennatus; Dactylopsila trivirgata; Pseudochirops archeri; Phalanger gymnotis; Petauroides volans; Pseudocheirus occidentalis; Vombatus ursinus; Petaurus breviceps; Tarsipes rostratus; Macropus fuliginosus; Pseudochirops cupreus; Pseudochirops corinnae; Acrobates pygmaeus; Macropus giganteus; Pseudocheirus peregrinus

Type:

Other

15 related Platforms

15 Samples

Download data: FASTA

(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:

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; Saccharomyces cerevisiae; Drosophila melanogaster; Gallus gallus; Hypsibius dujardini; Lethenteron camtschaticum; Strongylocentrotus purpuratus; Ciona intestinalis; Pleurobrachia bachei; Acropora millepora; Python bivittatus

Type:

Other

30 related Platforms

32 Samples

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