Profiling DICER1-mutant Thyroid Tumors

The DESeq2 data normalization, analyses, and statistical comparisons between benign thyroid tissue and DICER1-mutant thyroid tumors were performed using the HTG EdgeSeq Reveal software version: 4.0.1. DESeq2 normalized data were logarithmically scaled for data visualization. Plots were created using GraphPad prism 9 (GraphPad software Inc., La Jolla, CA). TCGA RNA-Seq expression data for adult PTCs and non-neoplastic thyroid tissues were obtained from http://tcga-data.nci.nih.gov and http://gdac.broadinstitute.org/in September 2022. Functional enrichment analysis was performed using g:Profiler to search for genes significantly over-represented in the list of DEG, as compared to all background genes included in the HTG OBP panel (26 (link)). Predicted targets for different miRNAs were obtained from TargetScan Human release 8.0 (https://www.targetscan.org/vert_80/). Only predicted targets with a total context score <−0.2 were included in the analysis.

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Ricarte-Filho J.C., Casado-Medrano V., Reichenberger E., Spangler Z., Scheerer M., Isaza A., Baran J., Patel T., MacFarland S.P., Brodeur G.M., Stewart D.R., Baloch Z., Bauer A.J., Wasserman J.D, & Franco A.T. (2023). DICER1 RNase IIIb domain mutations trigger widespread miRNA dysregulation and MAPK activation in pediatric thyroid cancer. Frontiers in Endocrinology, 14, 1083382.

Publication 2023

GraphPad prism 9

Adult Dicer1 Genes Genes background Human Mirnas Neoplastic Prism Ptcs Rna expression Thyroid Thyroid tumors Tissues Vert

Corresponding Organization : Philadelphia University

Other organizations : National Cancer Institute, Hospital for Sick Children

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Variable analysis

independent variables

DICER1-mutant thyroid tumors

dependent variables

Gene expression levels

control variables

Benign thyroid tissue

controls

Positive control: Not specified
Negative control: Not specified

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