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PBMCs from patients with LS-OCMB characterization

ABSTRACT: PBMCs from patients with LS-OCMB characterization

PROVIDER: PRJNA667458 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR12774644_1.fastq.gz	Fastqsanger.gz
	SRR12774644_2.fastq.gz	Fastqsanger.gz
	SRR12774645_1.fastq.gz	Fastqsanger.gz
	SRR12774645_2.fastq.gz	Fastqsanger.gz
	SRR12774646_1.fastq.gz	Fastqsanger.gz

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Whole-transcriptome in PBMCs from patients with LS-OCMB characterization reveals 4 RNAs as biomarkers of highly active disease

Project description:Background: The presence of anti-myelin lipid specific oligoclonal IgM bands (LS-OCMBs) has been defined as an accurate predictor of an aggressive evolution of multiple sclerosis. However, the detection of this biomarker is performed in cerebrospinal fluid, a quite invasive liquid biopsy. In the present study we aimed at studying the expression profile of miRNA, snoRNA, circRNA and linearRNA in PBMCs from patients with lipid-specific oligoclonal IgM band characterization. Methods: We included a total of 89 MS patients, 47 with negative LS-OCMB status and 42 with positive status. Microarray (miRNA and snoRNA) and RNA-seq (circular and linear RNAs) were used to perform the profiling study in the discovery cohort and candidates were validated by RT-qPCR in the whole cohort. The biomarker potential of the candidates was evaluated by ROC curve analysis. Results: RNA-seq and RT-qPCR validation revealed that two circular (hsa_circ_0000478 and hsa_circ_0116639) and two linear RNAs (IRF5 and MTRNR2L8) are downregulated in PBMCs from patients with positive LS-OCMBs. Finally, those RNAs show a performance of a 70% accuracy in some of the combinations. Conclusion: The expression of hsa_circ_0000478, hsa_circ_0116639, IRF5 and MTRNR2L8 might serve as minimally invasive biomarkers of highly active disease.

2020-12-21 | GSE159033 | GEO

Whole-transcriptome in PBMCs from patients with LS-OCMB characterization reveals 4 RNAs as biomarkers of highly active disease

Project description:Whole-transcriptome in PBMCs from patients with LS-OCMB characterization reveals 4 RNAs as biomarkers of highly active disease

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PBMCs from patients with LS-OCMB characterization

Project description:This SuperSeries is composed of the SubSeries listed below.

2020-12-21 | GSE159036 | GEO

Whole-transcriptome analysis in peripheral blood mononuclear cells from patients with lipid-specific oligoclonal IgM band characterization reveals two circular RNAs and two linear RNAs as biomarkers of highly active disease

2020-12-21 | GSE159035 | GEO

Clostridium sp. LS strain:LS

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PBMCs from metastatic breast cancer patients

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Human PBMCs: Patients with HSPN vs. Patients with HSP

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PBMCs from healthy volunteers or septic patients

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Comprehensive RNA-Seq profiling in PBMCs of ALS patients and healthy controls

Project description:Coding and long non-coding RNA metabolism is now revealing its crucial role in Amyotrophic Lateral Sclerosis (ALS) pathogenesis. In this work, we performed Illumina RNA-seq analysis on Peripheral Blood Mononuclear Cells (PBMCs) from Sporadic and mutated ALS patients (mutations in FUS, TARDBP, SOD1, C9Orf72 and VCP genes) and healthy controls. Our aim is the whole-transcriptome characterization of PBMCs content, both in terms of coding and non coding RNAs, in order to compare the disease state to the healthy controls, both for sporadic patients and for mutated patients. Out dataset is a starting point for the omni-comprehensive analysis of coding and long non coding RNAs, from an easy to withdraw, manage and store tissue that shows to be a suitable model for RNA profiling in ALS.

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Glycoproteomics and proteomics analysis of PBMCs from Colorectal Cancer patients

Project description:Non-invasive prognostic markers are needed to improve survival of colorectal cancer (CRC) patients. Towards this goal, we here apply integrative systems glycobiology approaches to tumour tissues and PBMCs from CRC patients and matching controls as well as a CRC patient-derived cell line. The untargeted -omics-driven approaches revealed that non-canonical paucimannosidic proteins from monocytic and cancer cell origins are prominent signatures in CRC tumour tissues, and that their expression associates with CRC progression. Guided by these novel relationships, we then show in vitro that N-acetyl-β-D-hexosaminidase (Hex) drives paucimannosidic protein biosynthesis in CRC cells, and is intimately involved in processes underpinning CRC metastasis (adhesion, migration, invasion). Importantly, Hex activity was elevated in PBMCs and plasma from patients with advanced CRC relative to those with early-stage disease. Notably, we show that plasma Hex activity accurately informs on CRC patient survival. Our study opens new avenues for effective prognostication and therapeutic intervention in CRC.

2025-05-06 | PXD051907 | Pride

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