Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Replenishing co-downregulated miR-100-5p and miR-125b-5p in malignant germ cell tumors causes growth inhibition through cell cycle disruption.

ABSTRACT: Illumina bead array data from TCam2, 1411H, and 2102Ep cell lines for mRNA expression. Cell lines were treated with either mismatch negative control (MNC) or combination miRNA replenishment with equimolar concentration of miR-100-5p and miR-125b-5p. Five comparisons are provided; namely TCam2 cell line on day 2 (d2 )and d7; 1411H cell line on d2 and d7; and 2102Ep cell line on d7. From the Materials and Methods section of the formal publication: We undertook global mRNA microarray profiling of TCam2, 1411H, and 2102Ep cells, comparing cells treated with combination miR-100-5p and miR-125b-5p mimics (total concentration 16.7 nm) with controls. At d7 after treatment, 24 triplicate samples were profiled, comprising TCam2, 1411H, and 2102Ep cell lines receiving combination treatment (n = 9 samples) and MNC treatment (n = 9), plus untreated cells for TCam2 and 1411H (n = 6). Importantly, no substantial differences in mRNA gene expression were observed when comparing the d7 MNC and respective untreated cells, highlighting the suitability of MNC-treated cells to act as the control comparison for mimic-treated cell conditions (data available at EBI Array Express, see below). At d2 after treatment, 12 triplicate samples were profiled, comprising TCam2 and 1411H cells receiving combination treatment (n = 6) and MNC treatment (n = 6). 2102Ep cells were excluded from d2 global mRNA profiling due to the absence of phenotypic effects at d7 post-replenishment.

ORGANISM(S): Homo sapiens

SUBMITTER: Anton Enright

PROVIDER: E-MTAB-13464 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Replenishing co-downregulated miR-100-5p and miR-125b-5p in malignant germ cell tumors causes growth inhibition through cell cycle disruption.

Ferraresso Marta M Bailey Shivani S Alonso-Crisostomo Luz L Ward Dawn D Panayi Christos C Scurlock Zachary G L ZGL Saini Harpreet K HK Smith Stephen P SP Nicholson James C JC Enright Anton J AJ Scarpini Cinzia G CG Coleman Nicholas N Murray Matthew J MJ

Molecular oncology 20241110 4

MicroRNAs (miRNAs) are short, nonprotein-coding RNAs, and their expression is dysregulated in malignant germ cell tumors (GCTs). Here, we investigated the causes and consequences of downregulated miR-99a-5p/miR-100-5p (functionally identical) and miR-125b-5p levels in malignant GCTs regardless of age, site, or subtype. Quantitative RT-PCR was used to assess miR-99a-5p/miR-100-5p, miR-125b-5p, and associated gene expression in malignant GCT tissues/cell lines [seminoma (Sem), yolk sac tumor (YST) ...[more]

PMID: 39522951

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Project description:Rationale: Currently, there are no blood-based biomarkers with clinical utility for acute ischemic stroke (IS). microRNAs (miRNAs) show promise as disease markers due to their cell-type specific expression patterns and stability in peripheral blood. Objective: To identify circulating miRNAs associated with acute IS, determine their temporal course up to 90 days post-stroke, and explore their utility as an early diagnostic marker. Methods and Results: We used RNA sequencing to study expression changes of circulating miRNAs in a discovery sample of 20 IS patients and 20 matched healthy control subjects (HCs). We further applied qRT-PCR in independent samples for validation (40 IS patients and 40 matched controls), replication (200 IS patients, 100 HCs), and in 72 patients with transient ischemic attacks (TIA). Sampling of patient plasma was done immediately upon hospital arrival. We identified, validated, and replicated three differentially expressed miRNAs, which were upregulated in IS patients compared to both HCs (miR-125a-5p [1.8-fold; P=1.5x10-6], miR-125b-5p [2.5-fold; P=5.6x10-6], and miR-143-3p [4.8-fold; P=7.8x10-9]) and TIA patients (miR-125a-5p: P=0.003, miR-125b-5p: P=0.003, miR-143-3p: P=0.005). Longitudinal analysis of expression levels up to 90 days after stroke revealed a normalization to control levels for miR-125b-5p and miR-143-3p starting at day two, while miR-125a-5p remained elevated. Levels of all three miRNAs depended on platelet numbers in a platelet spike-in experiment, but were unaffected by chemical hypoxia in N2a cells and in experimental stroke models. In a random forest classification, miR-125a-5p, miR-125b-5p and miR-143-3p differentiated between HCs and IS patients with an area under the curve (AUC) of 0.90 (sensitivity: 85.6%; specificity: 76.3%), which was superior to multimodal cranial computed tomography obtained for routine diagnostics (sensitivity: 72.5%) and previously reported biomarkers of acute IS (neuron specific enolase: AUC=0.69, interleukin 6: AUC=0.82). Conclusions: A set of circulating miRNAs (miR-125a-5p, miR-125b-5p, miR-143-3p) associates with acute IS and might have clinical utility as an early diagnostic marker.

Dataset Information

Replenishing co-downregulated miR-100-5p and miR-125b-5p in malignant germ cell tumors causes growth inhibition through cell cycle disruption.

Publications

Replenishing co-downregulated miR-100-5p and miR-125b-5p in malignant germ cell tumors causes growth inhibition through cell cycle disruption.

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