Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Genotyping-in-Thousands by sequencing reveals marked population structure in Western Rattlesnakes to inform conservation status

PROVIDER: PRJNA631230 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR11742400.fastq.gz	Fastqsanger.gz
	SRR11742500.fastq.gz	Fastqsanger.gz
	SRR11742600.fastq.gz	Fastqsanger.gz
	SRR11742700.fastq.gz	Fastqsanger.gz
	SRR11742800.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 488

Similar Datasets

Population structure and ancestry of Qinchuan cattle by GeneSeek HD Bovine 77k Genotyping BeadChip

Project description:GeneSeek HD Bovine 77k Genotyping array is used to estimate population structure and ancestry of bovine and evaluate loci responsible for complex traits. Further, copy number variation of bovine can be estimated by GeneSeek HD Bovine 77k Genotyping array. Here, we estimate population structure and ancestry of Qinchuan cattle.

2017-06-15 | GSE100038 | GEO

Burbano2023 - HGFsignaling_in_FattyLiverDisease

Project description:Chronic liver diseases are worldwide on the rise. Due to the rapidly increasing incidence, in particular in Western countries, non-alcoholic fatty liver disease (NAFLD) is gaining importance. As the disease progresses it can develop into hepatocellular carcinoma. Lipid accumulation in hepatocytes has been identified as the characteristic structural change in NAFLD development, but the molecular mechanisms responsible for disease development remained unresolved. Here, we uncover a strong downregulation of the PI3K-AKT pathway and an upregulation of the MAPK pathway in primary hepatocytes from a preclinical model fed with a Western diet (WD). Dynamic pathway modeling of hepatocyte growth factor (HGF) signal transduction combined with global proteomics identifies that an elevated basal MET phosphorylation rate is the main driver of altered signaling leading to increased proliferation of WD-hepatocytes. Model-adaptation to patient-derived hepatocytes reveals a patient-specific variability in basal MET phosphorylation, which correlates with the outcome of patients after liver surgery. Thus, dysregulated basal MET phosphorylation could be an indicator for the health status of the liver and thereby inform on the risk of a patient to suffer from liver failure after surgery.

2025-03-24 | BIOMD0000001102 | BioModels

Shared and unique components of human population structure and genome-wide signals of positive selection in South Asia

Project description:To study the population genetic structure and genome-wide signals of positive selection we carried out Illumina genotyping for 142 individuals of Sout Asian origin

2011-12-12 | GSE33489 | GEO

Project description:A Genotyping-in-Thousands by sequencing panel to inform invasive deer management using non-invasive fecal and hair samples

| PRJNA831890 | ENA

Oncorhynchus nerka

Project description:Genotyping-in-Thousands by sequencing panel development and application to inform kokanee salmon (Oncorhynchus nerka) fisheries management at multiple scales

| PRJNA745512 | ENA

Mammalian AMP-activated protein kinase has only a partial functional redundancy with Snf1 in Saccharomyces cerevisiae

Project description:Snf1/AMPK functions as a heterotrimeric complex, consisting of a regulatory subunit that is senses the energy status, a catalytic subunit with the canonical kinase domain and a scaffolding subunit to secure the complex together. The high degree of conservation in the sequence, structure and function of yeast Snf1 and mammalian AMPK, it is only logical to investigate the extent of conservation in the downstream effects that are controlled by these kinases.

2020-12-18 | GSE29358 | GEO

The Genetic Legacy of the Expansion of Turkic-Speaking Nomads Across Eurasia

Project description:We genotyped 322 new samples from 38 Eurasian populations and combined it with previously published data to characterize the population structure of Turkic-speaking populations in the context of their geographic neighbors across Eurasia 322 samples were analysed with the Illumina Human610-Quad, Human660W-Quad, and HumanOmni1-Quad Genotyping BeadChips and are described herein.

2015-02-21 | E-GEOD-66157 | biostudies-arrayexpress

Conserved chromatin and repetitive patterns reveal slow genome evolution in frogs

Project description:Frogs are an ecologically diverse and phylogenetically ancient group of anuran amphibians that include important vertebrate cell and developmental model systems, notably the genus Xenopus. Here we report a high-quality reference genome sequence for the western clawed frog, Xenopus tropicalis, along with draft chromosome-scale sequences of three distantly related emerging model frog species, Eleutherodactylus coqui, Engystomops pustulosus and Hymenochirus boettgeri. Frog chromosomes have remained remarkably stable since the Mesozoic Era, with limited Robertsonian (i.e., centric) translocations and end-to-end fusions found among the smaller chromosomes. Conservation of synteny includes conservation of centromere locations, marked by centromeric tandem repeats associated with Cenp-a binding, surrounded by pericentromeric LINE/L1 elements. We explored chromosome structure across frogs, using a dense meiotic linkage map for X. tropicalis and chromatin conformation capture (Hi-C) data for all species. Abundant satellite repeats occupy the unusually long (~20 megabase) terminal regions of each chromosome that coincide with high rates of recombination. Both embryonic and differentiated cells show reproducible association of centromeric chromatin, and of telomeres, reflecting a Rabl-like configuration. Our comparative analyses reveal 13 conserved ancestral anuran chromosomes from which contemporary frog genomes were constructed.

2022-03-30 | GSE199671 | GEO

Citrus polytrifolia

Project description:Study on population genetic structure and conservation strategies of Poncirus polyandra

| PRJNA940198 | ENA

Shared and unique components of human population structure and genome-wide signals of positive selection in South Asia

Project description:To study the population genetic structure and genome-wide signals of positive selection we carried out Illumina genotyping for 142 individuals of Sout Asian origin 142 samples are analysed on thwo different Illumina platforms. 48 of them with Human610-Quad v 1.0 are described herein. 142 samples are analysed on thwo different Illumina platforms. 94 of them with HumanHap650Yv3_A are described herein.

2011-12-12 | E-GEOD-33489 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data