Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

MiRNAs signature as potential biomarkers for cervical precancerous lesions in Human Papillomavirus Positive women

ABSTRACT: miRNAs signature as potential biomarkers for cervical precancerous lesions in Human Papillomavirus Positive women

PROVIDER: PRJNA705230 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR13799100.fastq.gz	Fastqsanger.gz
	SRR13799101.fastq.gz	Fastqsanger.gz
	SRR13799102.fastq.gz	Fastqsanger.gz
	SRR13799103.fastq.gz	Fastqsanger.gz
	SRR13799104.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 20

Similar Datasets

miRNAs signature as potential biomarkers for cervical precancerous lesions in Human Papillomavirus Positive women

Project description:Cervical cancer ranks as the first in cancer mortality among women of low-middle income countries, where 80% of the 570,000 cases and 311,000 worldwide deaths estimated for 2018 occurred (Ferlay et al. 2018 ). Persistent infections with high-risk HPV (hrHPV) genotypes can lead to high-grade cervical intraepithelial (CIN) grade 2 (CIN2) or higher, (CIN2+), if untreated, a high percentage of these lesions may progress to cancer. Despite its high sensitivity, the hrHPV test has low specificity to detect CIN2+ lesions given that a high percentage of women (80 %) infected with hrHPV genotypes will resolve the infection spontaneously. microRNAs (miRNAs) are small non-coding RNAs and their differential expression patterns seen to be associated with cervical intraepithelial lesions. Our work aimed to identify miRNAs differentially expressed in CIN2+ respect with <CIN1 and to evaluate their potential use as biomarkers to distinguish low- from high-grade lesions within hrHPV positive women. For our discovery set we used small RNA sequencing (miRNA-seq) to compare the miRNA expression patterns in 20 Formalin-Fixed Paraffin-Embedded (FFPE) tissues from hrHPV-positive women from Medellin, Colombia presenting low- (n=10) and high-grade lesions (n=10). Top five miRNAs presenting high fold change and low coefficient of variation were used validated by RT-PCR in our validation set composed 210 age-matched independent hrHPV-positive FFPE tissues, and an in-silico approach was used to understand the function of the differentially expressed miRNAs in the context of HPV infection.

2023-05-07 | GSE167858 | GEO

MicroRNA profile of tissue and discharge samples from cervical precancerous lesions

Project description:MicroRNA profile of tissue and discharge samples from cervical precancerous lesions

| PRJNA930333 | ENA

miRNAs signature as potential biomarkers for cervical precancerous lesions in human papillomavirus positive women.

Project description:Biomarkers to identify women at risk of cervical cancer among those with high-risk HPV infection (hrHPV+) are needed. Deregulated expression of microRNAs (miRNAs) contributes to hrHPV-induced cervical carcinogenesis. We aimed at identifying miRNAs with the capacity to distinguish high (CIN2+) and low (≤ CIN1) grade cervical lesions. We sequenced miRNA libraries from Formalin-Fixed Paraffin-Embedded (FFPE) tissues from women with CIN2+ (n = 10) and age-matched women with ≤ CIN1 (n = 10), randomly and retrospectively selected from a trial that followed women for 24 months after a hrHPV+ test at the screening visit. Five miRNAs differentially expressed were validated by RT-qPCR in an independent set of FFPE tissues with a reviewed diagnosis of CIN2+ (n = 105) and ≤ CIN1 (n = 105). The Ingenuity Pathway Analysis (IPA) was conducted to identify mRNAs inversely correlated with the top 25 differentially expressed miRNAs. Inverse correlations with 401 unique mRNA targets were identified for fourteen of the top 25 differentially expressed miRNAs. Eleven of these miRNAs targeted 26 proteins of pathways deregulated by HPV E6 and E7 oncoproteins and two of them, miR-143-5p and miR-29a-3p, predicted CIN2+ and CIN3+ in the independent validation by RT-qPCR of FFPE tissues from hrHPV-positive women.

| S-EPMC10276834 | biostudies-literature

Microscopic Characteristics of Wind-damp Syndrome in Gastric Precancerous Lesions

Project description:Base on the classification of damp syndrome, we classified gastric precancerous lesions patients into distinct subtypes. In this cross-sectional investigation, we aim figure out the clinical feature difference between different subtypes. Furthermore, we conduct multi-omics analyses on blood samples to explore the microscopic biological feature of WD syndrome of gastric precancerous lesions. Our study aimed to illuminate the macroscopic and microscopic characteristics of WD syndrome in gastric precancerous lesions, which will provide a evidence for therapeutic strategies aimed at addressing WD syndrome of gastric precancerous lesions.

2025-04-03 | PXD062653 |

Expression difference between stem cell Krt6a+ and differentiated cell WAP+ in mammary precancerous early lesions

Project description:The stem cell hierarchy of normal tissues has been studied extensively for cancer origin, but the stem cell hierarchy of precancerous lesions and its contribution to tumorigenesis remain elusive. Here, we report that in MMTV-Wnt1 transgenic mice, mammary precancerous lesions harbor both keratin 6a+ precancerous stem cells (pcSC) and more differentiated whey acidic protein (WAP)+ cells. The goal of these data was to understand expression differences between different subsets of cells in mammary precancerous early lesions. There are two cell lines Krt6a+ cells (stem cells) and WAP+ cell (more differentiated cells) from hyperplastic mammary glands in MMTV-Wnt1 mice.

2025-03-04 | GSE107608 | GEO

Proteomic alterations in early stage cervical cancer

Project description:Cervical cancer is characterized by a well-defined pre-malignant phase, cervical intraepithelial neoplasia (CIN). Identification of high grade CIN lesions by population-based screening programs and their subsequent treatment has led to a significant reduction of the incidence and mortality of cervical cancer. Cytology-based testing of cervical smears is the most widely used cervical cancer screening method, but is not ideal, as the sensitivity for detection of CIN2 and higher (CIN2+) is only ~55%. Therefore, more sensitive and specific biomarkers for cervical cancer and its precancerous stages are needed.

2018-05-03 | PXD008723 | Pride

Validation of differentially methylated DNA regions in colorectal precancerous lesions.

Project description:In this study, we validated 992 previously identified differentially methylated regions (DMRs) in colorectal precancerous lesions compared to adjacent normal mucosa in a new series of 59 prospectively collected lesions and matched normal tissue using targeted bisulfite sequencing. Strong differences in methylation level were observed across the full set of validated DMRs. Based on the mean methylation levels of a panel of 30 selected DMRs tumors could be accurately classified. We thus provide a large list of validated DNA markers to be exploited in the development of noninvasive, colorectal tumor screening assays.

2023-03-30 | E-MTAB-12612 | biostudies-arrayexpress

Differentially expressed gene profiles according to physical status of human papillomavirus integration in cervical cancer

2013-07-28 | GSE49288 | GEO

Chromosomal signatures of a subset of high-grade premalignant cervical lesions closely resemble invasive carcinomas

Project description:Cervical cancer develops from pre-cancerous high-grade cervical intraepithelial neoplasia (CIN) lesions harbouring a transforming infection with high-risk human papillomavirus (hrHPV), which is characterised by p16INK4a overexpression. Since it takes one or more decades for these pre-cancerous lesions to progress to invasive squamous cell carcinomas (SCCs), it is obvious that they are heterogeneous in terms of duration of existence and progression risk. We performed array-based comparative genomic hybridisation (array CGH) of 46 p16INK4a immuno-positive CIN2/3 lesions to determine whether this heterogeneity is reflected in their chromosomal profiles. Chromosomal profiles of CIN2/3 lesions were related to those of invasive cervical squamous cell carcinomas (SCCs) and promoter methylation of the CADM1 gene, a tumour suppressor gene known to be functionally involved in the tumorigenic phenotype of cervical cancer cells. Frequent alterations found in CIN2/3 lesions included gains located at chromosome 1, 3, 7 and 20 and losses located at 4, 11, 16, 17 and 19. Unsupervised hierarchical clustering identified two subsets of CIN2/3 lesions, chromosomal profiles of one of which closely resembled invasive SCCs. Gains of 1, 3q and 20 were characteristic for CIN2/3 lesions with chromosomal signatures resembling carcinomas. In addition, dense promoter methylation of the CADM1 gene was significantly more frequent in these CIN2/3 lesions (p=0.004). No chromosomal alterations were detected in one p16INK4a positive and five p16INK4a negative CIN1 lesions. These findings suggest that biomarkers associated with gains at chromosomes 1, 3q and 20 are potential hallmarks of advanced p16INK4a positive CIN2/3 lesions with a high short-term risk of progression.

2009-02-20 | GSE11573 | GEO

Differentially expressed gene profiles according to physical status of human papillomavirus integration in cervical cancer

Project description:Integration of human papillomavirus (HPV) DNA into the host genome is a critical aetiological event in the progression from normal cervix to intraepithelial neoplasm, and finally to invasive cervical cancer. In this study, we want to know how HPV DNA physical status relates to treatment outcome for cervical carcinomas. Cervical cancer samples were compared with normal sample. And also, we divided 39 cervical cancer patients into four groups according to HPV DNA physical status and investigated differentially expressed gene profiles in these groups using Agilent two-color experiment.

2013-07-28 | E-GEOD-49288 | 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