Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

An atlas of genetic influences on osteoporosis in humans and mice

ABSTRACT: An atlas of genetic influences on osteoporosis in humans and mice

PROVIDER: PRJNA494401 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR7955981_1.fastq.gz	Fastqsanger.gz
	SRR7955981_2.fastq.gz	Fastqsanger.gz
	SRR7955982_1.fastq.gz	Fastqsanger.gz
	SRR7955982_2.fastq.gz	Fastqsanger.gz
	SRR7955983_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 10

Similar Datasets

An atlas of genetic influences on osteoporosis in humans and mice.

Project description:Osteoporosis is a common aging-related disease diagnosed primarily using bone mineral density (BMD). We assessed genetic determinants of BMD as estimated by heel quantitative ultrasound in 426,824 individuals, identifying 518 genome-wide significant loci (301 novel), explaining 20% of its variance. We identified 13 bone fracture loci, all associated with estimated BMD (eBMD), in ~1.2 million individuals. We then identified target genes enriched for genes known to influence bone density and strength (maximum odds ratio (OR) = 58, P = 1 × 10-75) from cell-specific features, including chromatin conformation and accessible chromatin sites. We next performed rapid-throughput skeletal phenotyping of 126 knockout mice with disruptions in predicted target genes and found an increased abnormal skeletal phenotype frequency compared to 526 unselected lines (P < 0.0001). In-depth analysis of one gene, DAAM2, showed a disproportionate decrease in bone strength relative to mineralization. This genetic atlas provides evidence linking associated SNPs to causal genes, offers new insight into osteoporosis pathophysiology, and highlights opportunities for drug development.

| S-EPMC6358485 | biostudies-literature

An atlas of genetic influences on osteoporosis in humans and mice

Project description:In our study, we leveraged RNA-seq data from four different human osteoblast cell lines and ATAC-seq data from one human osteoblast cell line to identify target genes for plausibly causal SNPs influencing bone density. We also re-called ENCODE generated osteoblast DNase hypersensitive sites, and have uploaded them here for sharing.

2018-12-31 | GSE120755 | GEO

A genetic atlas of human admixture history

Project description:Modern genetic data combined with appropriate statistical methods have the potential to contribute substantially to our understanding of human history. We have developed an approach that exploits the genomic structure of admixed populations to date and characterize historical mixture events at fine scales. We used this to produce an atlas of worldwide human admixture history, constructed using genetic data alone and encompassing over 100 events occurring over the past 4,000 years. We identify events whose dates and participants suggest they describe genetic impacts of the Mongol Empire, Arab slave trade, Bantu expansion, first millennium CE migrations in eastern Europe, and European colonialism, as well as unrecorded events, revealing admixture to be an almost universal force shaping human populations. 158 indviduals of Eurasian descent included as part of a global analysis of admixture

2014-02-14 | E-GEOD-53626 | biostudies-arrayexpress

Multiple causal variants underlie genetic associations in humans

Project description:Multiple causal variants underlie genetic associations in humans

| PRJNA730497 | ENA

Hypothermic oxygenated machine perfusion influences the immunogenicity of donor livers in humans

Project description:Hypothermic oxygenated machine perfusion influences the immunogenicity of donor livers in humans

| PRJNA1157785 | ENA

A genomic atlas of systemic interindividual epigenetic variation in humans (GTEx)

Project description:A genomic atlas of systemic interindividual epigenetic variation in humans (GTEx)

| PRJNA506497 | ENA

A genomic atlas of systemic interindividual epigenetic variation in humans (GTEx)

Project description:A genomic atlas of systemic interindividual epigenetic variation in humans (GTEx)

| PRJNA506498 | ENA

Detection of potential microRNA biomarker for postmenopausal osteoporosis

Project description:Recent studies have shown that microRNAs (miRNAs) are implicated in the development of postmenopausal osteoporosis, implying potential biomarkers. We performed a microarray-based expression scanning to search for potential circulating miRNA biomarkers for postmenopausal osteoporosis as whole blood obtianed from patients was used. MiRNA expression in the whole blood of 23 Chinese postmenopausal women with osteopenia and that of 25 Chinese postmenopausal women with osteoporosis. After total RNA was extracted, all of the RNA extraction samples were seperately pooled into six subgroups according to the T-score measurement.

2014-12-23 | E-GEOD-64433 | biostudies-arrayexpress

A genetic atlas of human admixture history

2014-02-14 | GSE53626 | GEO

Effects of Primary Osteoporosis on Human Mesenchymal Stem Cells

Project description:In the present study we analyzed the effect of primary osteoporosis on the transcriptome of human mesenchymal stem cells (hMSC; alternatively named mesenchymal stromal cells) from human bone marrow. Human MSC of elderly patients suffering from osteoporosis were isolated from femoral heads after low-energy fracture of the femoral neck. Bone marrow of age-matched, non-osteoporotic donors was obtained of femoral heads after total hip arthroplasty. Cells were isolated from human bone marrow according to the previously described protocol (Noth et al., 2002, J Orthop Res, 20/5, 1060-1069) under agreement of the local Ethics Committee of the University of Würzburg. Human MSC of elderly patients suffering from osteoporosis were isolated from femoral heads after low-energy fracture of the femoral neck. Additional criteria for confirming primary osteoporosis in these donors were vertebrae fractures and advanced age. Bone marrow of age-matched, non-osteoporotic donors was obtained of femoral heads after total hip arthroplasty due to osteoarthritis and/or hip dysplasia. RNA samples were taken from passage 1 or passage 2.

2012-02-22 | E-GEOD-35958 | 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