Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Biopsy of pulmonary nodules

PROVIDER: PRJNA978942 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR25005600_1.fastq.gz	Fastqsanger.gz
	SRR25005600_2.fastq.gz	Fastqsanger.gz
	SRR25005601_1.fastq.gz	Fastqsanger.gz
	SRR25005601_2.fastq.gz	Fastqsanger.gz
	SRR25005602_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 158

Similar Datasets

Project description:Liquid biopsy of pulmonary nodules with extracellular vesicle DNA

| PRJNA1006451 | ENA

Serum microRNA panel to differentiate malignant pulmonary nodules from benign pulmonary nodules

Project description:A serum miRNA combination could be a favourable classifier to differentiate malignant pulmonary nodules from benign pulmonary nodules.

2023-08-27 | GSE157074 | GEO

Serum microRNA panel to differentiate malignant pulmonary nodules from benign pulmonary nodules

Project description:Serum microRNA panel to differentiate malignant pulmonary nodules from benign pulmonary nodules

| PRJNA660019 | ENA

The differential diagnosis value of radiomics signatures between single nodules pulmonary metastases and second primary lung cancer in colorectal cancer patients

Project description:Interventions: Gold Standard:Pathological diagnosis;Index test:chest CT Primary outcome(s): Pulmonary nodules Study Design: Sequential

| 42108 | ecrin-mdr-crc

Non-targeted metabolomics reveals diagnostic biomarker in the plasma of patients with lung cancer

Project description:<p>Lung cancer are malignant tumors with high incidence and mortality rates, and a 5-year survival rate that depends on the stage at the time of diagnosis. Screening methods for lung cancer are becoming increasingly diverse, but existing approaches lack sensitivity or specificity for early lesions, posing significant challenges for the early diagnosis of lung cancer. Therefore, it is essential to explore potential biomarkers with high sensitivity and specificity to achieve early diagnosis. The present study employed liquid chromatography-mass spectrometry to analyze plasma metabolic changes lung cancer, pulmonary nodules, and healthy individuals. By combining quantitative and qualitative methods, differential metabolites were identified, and the performance of these metabolites was evaluated using receiver operating characteristic curve to screen for potential biomarkers. A total of 50 differential metabolites, six of which had an area under the curve of >0.9, were identified among the three groups, and regarded as potential biomarkers for distinguishing between lung cancer, pulmonary nodules and healthy individuals, as well as between lung cancer and pulmonary nodules. In addition, metabolic pathways were screened using the Kyoto Encyclopedia of Genes and Genomes databases. The results showed that significant changes were observed in the metabolism of linoleic acid, alpha-linolenic acid, arginine and proline, as well as others, suggesting that the development of lung cancer may be associated with alterations in amino acid and lipid metabolism. In conclusion, the present findings provided potential biomarkers to differentiate between lung cancer, pulmonary nodules and healthy individuals, offering insights into the pathological mechanisms of lung cancer.</p>

2025-09-13 | MTBLS12985 | MetaboLights

A comprehensive mass spectral library for human thyroid tissues

Project description:Thyroid nodules occur in about 60% of the population. Current diagnostic strategies, however, often fail at distinguishing malignant nodules before surgery, thus leading to unnecessary, invasive treatments. As proteins are involved in all physio/pathological processes, a proteome investigation of biopsied nodules may help correctly classify and identify malignant nodules and discover therapeutic targets. Quantitative mass spectrometry data-independent acquisition (DIA) enables highly reproducible and rapid throughput investigation of proteomes. An exhaustive spectral library of thyroid nodules is essential for DIA yet still unavailable. This study presents a comprehensive thyroid spectral library covering five types of thyroid tissue: multinodular goiter, follicular adenoma, follicular and papillary thyroid carcinoma, and normal thyroid tissue. Our library includes 925,330 transition groups, 157,548 peptide precursors, 121,960 peptides, 9941 protein groups, and 9826 proteins from proteotypic peptides. This library resource was evaluated using three papillary thyroid carcinoma samples and their corresponding adjacent normal thyroid tissue, leading to effective quantification of up to 7863 proteins from biopsy-level thyroid tissues.

2022-05-20 | PXD026395 | Pride

Screening and Modeling of LUAD-Associated Predictive and Prognostic Genes Based on Multi-Omics Data

Project description:LUAD is widespread worldwide with onset mainly in the low-grade stage due to early screen. However, the ambiguity surrounding small-sized nodules often leads to hesitation in deciding between surgery and surveillance. Liquid biopsy which leverages the cell-free RNA (cfRNA) shows excellent classification performance among disease groups in addition to the non-invasive feature. This research utilizes liquid biopsy to construct an effective screening system to aid with the further differentiation of benign diseases from lung cancers.

2025-12-04 | GSE278695 | GEO

Circulating Tumor DNA Guided Therapeutic Strategies for CRC Patients With Small Pulmonary Nodules

Project description:The clinical diagnosis and treatment of small pulmonary nodules (suspected to be lung metastases) in advanced colorectal cancer patients remain controversy. Previous studies have shown that tumor-informed circulating tumor DNA (ctDNA) blood testing can sensitively detect residual cancer. Postoperative ctDNA in colorectal cancer patients is a valuable biomarker to identify minimal residual disease (MRD) after radical resection, which is possibly useful in redefining the risk group of patients and guiding postoperative treatment. This study aimed to explore the clinical value of therapeutic strategies based on tumor-informed ctDNA test in advanved colorectal cancer patients with small pulmonary nodules.

| 2744776 | ecrin-mdr-crc

Next generation sequencing identifies a highly accurate microRNA panel that distinguishes well-differentiated thyroid cancer from benign thyroid nodules

Project description:Background: Fine needle aspiration biopsy (FNAB) is the gold-standard procedure for diagnosing malignant thyroid nodules. Indeterminate cytology is identified in 10-40% of cases and molecular testing may guide management in this setting. Current commercial options are expensive, and are either sensitive or specific. The aim of this study was to utilize next generation sequencing (NGS) technology to identify informative diversities in the microRNA (miRNA) expression profile of benign versus malignant thyroid nodules. Methods: Ex-vivo FNAB samples were obtained from thyroid specimens of patients that underwent thyroidectomy at a referral center. miRNA levels were determined using NGS and multiplexing technologies. Statistical analyses identified differences between normal and malignant samples and miRNA expression profiles that associate with malignancy were established. The accuracy of the miRNA signature in predicting histological malignancy was validated using a group of patient specimens with indeterminate cytology results. Results: 274 samples were obtained from 102 patients undergoing thyroidectomy. Of these samples, 71% were benign and 29% were malignant. Nineteen miRNAs were identified as statistically different between benign and malignant samples and were used to classify 35 additional nodules with indeterminate cytology (validation). The miRNA panel’s sensitivity, specificity, negative and positive predictive values and overall accuracy were 91%, 100%, 87%, 100% and 94%, respectively. Conclusion: Using NGS technology we identified a panel of 19 miRNAs that may be utilized to distinguish benign from malignant thyroid nodules with indeterminate cytology. Impact: Our panel may classify indeterminate thyroid nodules at higher accuracy than commercially available molecular tests.

2018-12-21 | GSE116196 | GEO

Utilizing Liquid Biopsy-Derived Extracellular Vesicle Protein Biomarkers for Diagnosis and Prognostic Assessment in Lung Squamous Cell Carcinoma

Project description:In the context of pulmonary nodules detected in imaging, there is currently a lack of highly effective and non-invasive methods for both diagnosing and prognosticating lung squamous cell carcinoma (LUSC). Therefore, in this study, we explored the potential of plasma-derived extracellular vesicles (EVs) with a new nanomaterial as a source of candidate biomarkers to distinguish between benign and malignant pulmonary nodules and predict the prognosis of LUSC patients.

2023-12-18 | PXD047893 |

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