Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Comparative Analysis of microRNA Expression in Serum and Plasma in Patients Screened for BRCA1 or BRCA2 Mutations - dataset 2

ABSTRACT: This dataset contains serum miRNA expression of 94 healthy women, among which 56 harbored germline BRCA1 or BRCA2 mutations. MicroRNA abundance was quantified with sequencing and qPCR, the latter being the subject of separate GEO submission. Data was analyzed with the aim of assessing concordance between two miRNA assays and the possibility of translating miRNA biomarkers from sequencing to qPCR panel. Generation of this dataset was supported by The Gray Foundation grant “Circulating microRNAs for assessment of risk beyond the BRCA genes and early detection of breast cancer in high-risk families” awarded to Dipanjan Chowdhury and Polish National Research Center grant OPUS “Predictive Potential of Circulating MicroRNA Biomarkers in Patients with High Familial or Genetic Risk of Cancer” (2023/49/B/NZ5/03835) awarded to Wojciech Fendler.

ORGANISM(S): Homo sapiens

PROVIDER: GSE299787 | GEO | 2025/12/16

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Comparative Analysis of microRNA Expression in Serum and Plasma in Patients Screened for BRCA1 or BRCA2 Mutations - dataset 1

Project description:This dataset was created in order to evaluate the concordance of miRNA expression between serum and plasma in humans. miRNA expression was quantified in both biological materials using sequencing. Differential expression and correlations analysis were used to evaluate similarities and differences between miRNAs abundance in plasma and serum. Concurrently, miRNA quantification in the subset of these samples was performed by qPCR, the results of which belong to the separate submission to GEO. Generation of this dataset was supported by The Gray Foundation grant “Circulating microRNAs for assessment of risk beyond the BRCA genes and early detection of breast cancer in high-risk families” awarded to Dipanjan Chowdhury and Polish National Research Center grant OPUS “Predictive Potential of Circulating MicroRNA Biomarkers in Patients with High Familial or Genetic Risk of Cancer” (2023/49/B/NZ5/03835) awarded to Wojciech Fendler.

2025-12-16 | GSE299150 | GEO

Comparative Analysis of microRNA Expression in Serum and Plasma in Patients Screened for BRCA1 or BRCA2 Mutations - dataset 3 part 2

Project description:This dataset consists of miRNA expression in serum of 69 women. This data is the result of remapping raw sequencing FASTQ files being a part of the GSE226445 dataset and the SRA Bioproject PRJNA898621. MicroRNA abundance was quantified by sequencing. Data was analyzed together with plasma samples of those same patients with the aim of assessing the impact of blood processing steps on quantified miRNA abundance. Plasma data belongs to a separate submission (accession will be added when issued). Generation of this dataset was supported by The Gray Foundation grant “Circulating microRNAs for assessment of risk beyond the BRCA genes and early detection of breast cancer in high-risk families” awarded to Dipanjan Chowdhury and Polish National Research Center grant OPUS “Predictive Potential of Circulating MicroRNA Biomarkers in Patients with High Familial or Genetic Risk of Cancer” (2023/49/B/NZ5/03835) awarded to Wojciech Fendler.

2025-12-16 | GSE299846 | GEO

Comparative Analysis of microRNA Expression in Serum and Plasma in Patients Screened for BRCA1 or BRCA2 Mutations - dataset 3 part 1

Project description:This dataset consists of miRNA expression in plasma of 78 women with germline BRCA1/2 mutations and expression in serum of 11 of them. Serum samples of remaining 67 women have been already submitted to GEO in GSE226445 dataset and to SRA as Bioproject PRJNA898621, while counts generated in re-mapping for this project are deposited as GSE299846 data set. MicroRNA abundance was quantified with sequencing in both biological materials. Data was analyzed with the aim of assessing the impact of blood processing steps on quantified miRNA abundance. Generation of this dataset was supported by The Gray Foundation grant “Circulating microRNAs for assessment of risk beyond the BRCA genes and early detection of breast cancer in high-risk families” awarded to Dipanjan Chowdhury and Polish National Research Center grant OPUS “Predictive Potential of Circulating MicroRNA Biomarkers in Patients with High Familial or Genetic Risk of Cancer” (2023/49/B/NZ5/03835) awarded to Wojciech Fendler.

2025-12-16 | GSE300882 | GEO

Comparative Analysis of microRNA Expression in Serum and Plasma in Patients Screened for BRCA1/2 Mutations, dataset 2

Project description:Serum samples from 94 healthy women were analyzed using a custom qPCR panel comprising 182 miRNAs. Since this experiment is part of a broader study on miRnome alterations associated with BRCA mutations or BRCA-related cancers (particularly ovarian and breast cancer), 37 of the analyzed samples came from patients with BRCA1 mutations and 19 from BRCA2 mutation carriers. This analysis was preceded by sequencing-based quantification on the same set of the samples, the results of which are submitted separately to GEO under accession number GSE299787. The generation of this dataset was supported by The Gray Foundation grant “Circulating microRNAs for assessment of risk beyond the BRCA genes and early detection of breast cancer in high-risk families” awarded to Dipanjan Chowdhury, and by the National Science Centre (Poland) OPUS grant “Predictive Potential of Circulating MicroRNA Biomarkers in Patients with High Familial or Genetic Risk of Cancer” (2023/49/B/NZ5/03835) awarded to Wojciech Fendler.

2025-12-16 | GSE301416 | GEO

Comparative Analysis of microRNA Expression in Serum and Plasma in Patients Screened for BRCA1/2 Mutations, dataset 1

Project description:Paired serum and plasma samples from 23 patients were analyzed using a custom qPCR panel comprising 182 miRNAs. Since this experiment is part of a broader study on miRnome alterations associated with BRCA mutations or BRCA-related cancers (particularly ovarian and breast cancer), 17 of the analyzed samples came from patients with BRCA1/2 mutations. This analysis was preceded by sequencing-based quantification on a larger set subset of the samples, the results of which are submitted separately to GEO under accession number GSE299150. The generation of this dataset was supported by The Gray Foundation grant “Circulating microRNAs for assessment of risk beyond the BRCA genes and early detection of breast cancer in high-risk families” awarded to Dipanjan Chowdhury, and by the National Science Centre (Poland) OPUS grant “Predictive Potential of Circulating MicroRNA Biomarkers in Patients with High Familial or Genetic Risk of Cancer” (2023/49/B/NZ5/03835) awarded to Wojciech Fendler.

2025-12-16 | GSE301072 | GEO

MicroRNA expression profiling in the adult offspring of rats with periodontal disease

Project description:The present study investigated whether maternal periodontal disease modifies the microRNA expression profile in adult offspring. *************************************************************** This study was supported by the São Paulo Research Foundation (FAPESP) [grant #2019/04183-9; #2022/08872-6; #2023/03786-7; #2023/12488-0; #2023/01400-4] and CNPq [grant 151151/2023-7], São Paulo, SP, Brazil. The grants #2019/04183-9; #2023/12488-0; #2023/01400-4 and 151151/2023-7 were awarded to the author Maria Sara de Lima Coutinho Mattera. The grant #2022/08872-6 was awarded to Heloisa Macedo Sampaio. The grant #2023/03786-7 was awarded to Gabriele Fernandes Baliero. ***************************************************************

2024-12-28 | GSE281235 | GEO

Effect of high-fat diet on hepatic DNA methylation in SM/J mice

Project description:We identified differentially methylated regions across the genome in the liver associated with a high-fat diet. Grant: Funding source: American Heart Association Grant number: 16PRE26420105 Title: The effect of maternal over-nutrition on obesity, epigenetics, and gene expression Awarded to Madeline Keleher

2018-11-26 | GSE122016 | GEO

Effect of high-fat diet on hepatic gene expression in SM/J mice

Project description:We identified 4,356 genes with expression differences associated with a high-fat diet, with 184 genes exhibiting a sex-by-diet interaction. Dietary fat dysregulated several pathways, such as cytokine-cytokine receptor interaction, chemokine signaling, and oxidative phosphorylation. Grant: Funding source: American Heart Association Grant number: 16PRE26420105 Title: The effect of maternal over-nutrition on obesity, epigenetics, and gene expression Awarded to Madeline Keleher

2018-11-26 | GSE121525 | GEO

iOmics_miRNA_data

Project description:iOmics miRNA data via qPCR quantification

| EGAD00010001308 | EGA

Cholesin Receptor Signalling is Active in Cardiovascular System-Associated Adipose Tissue and Correlates with SGLT2i Treatment in Patients with Diabetes

Project description:Objective: To identify the cholesin receptor-associated genes and clinical factors linked with their expression in cardiovascular system and associated adipose tissues. Research Design and Methods: Right cardiac auricle, aortic wall, saphenous vein and adipose tissue (periaortic-PAT, epicardial-EAT, thymic-TAT) samples were collected during coronary-artery bypass grafting. Results: We included 46 participants [37 male, 23 with type 2 diabetes, median age 68.50 (Q1-Q3: 63.00-72.00) years, BMI 28.39 (26.06-31.49) kg/m2]. GPR146 expression in adipose tissues significantly correlated with BMI, c-peptide, total cholesterol and LDL concentrations. Selected metabolic pathways were significantly and positively enriched in GPR146-dependent manner. GPR146-coexpressed genes contained key regulators of lipid metabolism, and correlated positively with LDL, HDL and total cholesterol concentrations. SGLT2i treatment mirrored GPR146-associated signature in EAT, suggesting potential impact of SGLTi on cholesin-GPR146 network. Conclusions: GPR146 expression is associated with serum lipids and metabolically-relevant transcriptomic changes in adipose tissue, in EAT similar to iSGLT2-associated ones. Funding: The scientific work was funded by the National Science Center Grant Number 2022/45/N/NZ4/01206 awarded to AR, and a grant of Diabetes Poland awarded to AR and co-financed from the state budget funds as part of the Minister of Education and Science program named “Perły Nauki” Project Number PN/01/0025/2022.

2024-06-20 | GSE263644 | GEO

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