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Links from GEO DataSets

Items: 12

1.

Expression analysis of ethanol treatment on SK-N-BE(2)

(Submitter supplied) To evaluate the impact of ethanol treatment on neuronal cells, we examined the expression of SK-N-BE(2) neuronal cell line 24 h and 42 h after treating with 10 mM and 20 mM ethanol by RNA sequencing.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
24 Samples
Download data: TXT
Series
Accession:
GSE131470
ID:
200131470

PubMed Full text in PMC Similar studies Analyze with GEO2RSRA Run Selector

2.

Identification of Breast Cancer Associated Variants That Modulate Transcription Factor Binding

(Submitter supplied) GWAS have discovered thousands of genomic loci that are associated with disease risk and quantitative traits, but most of the variants responsible for risk remain uncharacterized. The vast majority of GWAS-identified loci contain non-coding SNPs and defining molecular mechanism of risk is challenging. Many non-coding causal SNPs are hypothesized to alter Transcription Factor (TF) binding sites as the mechanism by which they affect organismal phenotypes. more...
Organism:
Homo sapiens
Type:
Other
Platform:
GPL18573
5 Samples
Download data: BED, BEDGRAPH, BIGWIG
Series
Accession:
GSE89013
ID:
200089013

PubMed Full text in PMC Similar studies SRA Run Selector

3.

Integrative analysis of liver-specific noncoding regulatory variants associated with the risk of coronary artery disease

(Submitter supplied) We performed promoter Capture Hi-C in HepG2 to investigate interactions between gene promoters and distal elements as a transcription-regulating mechanism contributing to these phenotypes. We also performed ChIP-Seq at 2h, 8h and 23h timepoints in HepG2 for Il1B treatment.
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL20301 GPL11154
10 Samples
Download data: BIGWIG, TXT
Series
Accession:
GSE157306
ID:
200157306

PubMed Full text in PMC Similar studies SRA Run Selector

4.

Deciphering the genetic regulation of peripheral blood transcriptome in pigs through allele-specific expression analysis and expression genome-wide association study

(Submitter supplied) Efforts to improve resilience in livestock production systems have focused on two objectives: investigating the genetic control of immune function as it pertains to robustness and disease resistance, and finding predictive markers for use in breeding programs. In this context, the peripheral blood transcriptome represents an important source of biological information about an individual's health and immunological status, and has been proposed for use as an intermediate phenotype to measure immune capacity. more...
Organism:
Sus scrofa
Type:
Expression profiling by array
Platform:
GPL19893
243 Samples
Download data: TXT
Series
Accession:
GSE97374
ID:
200097374

PubMed Full text in PMC Similar studies Analyze with GEO2R

5.

Variant-to-function analysis of the childhood obesity chr12q13 locus implicates rs7132908 as a causal variant within the 3’ UTR of FAIM2

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Other
Platform:
GPL24676
59 Samples
Download data
Series
Accession:
GSE241691
ID:
200241691

PubMed Full text in PMC Similar studies

6.

Variant-to-function analysis of the childhood obesity chr12q13 locus implicates rs7132908 as a causal variant within the 3’ UTR of FAIM2 (snRNA-Seq)

(Submitter supplied) The ch12q13 obesity locus is among the most significant childhood obesity loci identified in genome-wide association studies. This locus resides in a non-coding region within FAIM2; thus, the underlying causal variant(s) presumably influence disease susceptibility via an influence on cis-regulation within the genomic region. We implicated rs7132908 as a putative causal variant at this locus leveraging a combination of our inhouse 3D genomic data, public domain datasets, and several computational approaches. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
8 Samples
Download data: MTX, TSV
Series
Accession:
GSE241594
ID:
200241594

PubMed Full text in PMC Similar studies

7.

Variant-to-function analysis of the childhood obesity chr12q13 locus implicates rs7132908 as a causal variant within the 3’ UTR of FAIM2 (snATAC-Seq)

(Submitter supplied) The ch12q13 obesity locus is among the most significant childhood obesity loci identified in genome-wide association studies. This locus resides in a non-coding region within FAIM2; thus, the underlying causal variant(s) presumably influence disease susceptibility via an influence on cis-regulation within the genomic region. We implicated rs7132908 as a putative causal variant at this locus leveraging a combination of our inhouse 3D genomic data, public domain datasets, and several computational approaches. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL24676
8 Samples
Download data: MTX, TSV
Series
Accession:
GSE241593
ID:
200241593

PubMed Full text in PMC Similar studies

8.

Variant-to-function analysis of the childhood obesity chr12q13 locus implicates rs7132908 as a causal variant within the 3’ UTR of FAIM2 (HiC)

(Submitter supplied) The ch12q13 obesity locus is among the most significant childhood obesity loci identified in genome-wide association studies. This locus resides in a non-coding region within FAIM2; thus, the underlying causal variant(s) presumably influence disease susceptibility via an influence on cis-regulation within the genomic region. We implicated rs7132908 as a putative causal variant at this locus leveraging a combination of our inhouse 3D genomic data, public domain datasets, and several computational approaches. more...
Organism:
Homo sapiens
Type:
Other
Platform:
GPL24676
2 Samples
Download data: BB
Series
Accession:
GSE241592
ID:
200241592

PubMed Full text in PMC Similar studies

9.

Variant-to-function analysis of the childhood obesity chr12q13 locus implicates rs7132908 as a causal variant within the 3’ UTR of FAIM2 (ATAC-Seq)

(Submitter supplied) The ch12q13 obesity locus is among the most significant childhood obesity loci identified in genome-wide association studies. This locus resides in a non-coding region within FAIM2; thus, the underlying causal variant(s) presumably influence disease susceptibility via an influence on cis-regulation within the genomic region. We implicated rs7132908 as a putative causal variant at this locus leveraging a combination of our inhouse 3D genomic data, public domain datasets, and several computational approaches. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL24676
9 Samples
Download data: BIGWIG, BW
Series
Accession:
GSE241591
ID:
200241591

PubMed Full text in PMC Similar studies

10.

Variant-to-function analysis of the childhood obesity chr12q13 locus implicates rs7132908 as a causal variant within the 3’ UTR of FAIM2 (RNA-Seq)

(Submitter supplied) The ch12q13 obesity locus is among the most significant childhood obesity loci identified in genome-wide association studies. This locus resides in a non-coding region within FAIM2; thus, the underlying causal variant(s) presumably influence disease susceptibility via an influence on cis-regulation within the genomic region. We implicated rs7132908 as a putative causal variant at this locus leveraging a combination of our inhouse 3D genomic data, public domain datasets, and several computational approaches. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
32 Samples
Download data: CSV, TXT
Series
Accession:
GSE241050
ID:
200241050

PubMed Full text in PMC Similar studies Analyze with GEO2R

11.

Allele-Specific Expression 2

(Submitter supplied) Physiologic allele-specific expression (ASE) in germline tissues occurs during random X-chromosome inactivation and in genomic imprinting, wherein the two alleles of a gene in a heterozygous individual are not expressed equally. Recent studies have confirmed the existence of ASE in apparently non-imprinted autosomal genes; however, the extent of ASE in the human genome is unknown. We explored ASE in lymphoblastoid cell lines of 145 individuals using an oligonucleotide array based assay. more...
Organism:
Homo sapiens
Type:
Expression profiling by SNP array; Genome variation profiling by SNP array; SNP genotyping by SNP array
Platform:
GPL5359
516 Samples
Download data: PDF
Series
Accession:
GSE8055
ID:
200008055

PubMed Full text in PMC Similar studies

12.

Allele-Specific Expression 1

(Submitter supplied) Physiologic allele-specific expression (ASE) in germline tissues occurs during random X-chromosome inactivation and in genomic imprinting, wherein the two alleles of a gene in a heterozygous individual are not expressed equally. Recent studies have confirmed the existence of ASE in apparently non-imprinted autosomal genes; however, the extent of ASE in the human genome is unknown. We explored ASE in lymphoblastoid cell lines of 145 individuals using an oligonucleotide array based assay. more...
Organism:
Homo sapiens
Type:
Expression profiling by SNP array; Genome variation profiling by SNP array; SNP genotyping by SNP array
Platform:
GPL5358
492 Samples
Download data: PDF
Series
Accession:
GSE8054
ID:
200008054

PubMed Full text in PMC Similar studies

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