Publications by authors named "Tine Goovaerts"
Genomic imprinting refers to the epigenetic silencing of one of both alleles in a parent-of-origin-specific manner, particularly in genes regulating growth and development. Impaired genomic imprinting leading to the activation of the silenced allele, also called canonical loss-of-imprinting (LOI), is considered an early factor in oncogenesis. As LOI studies in clear cell renal cell carcinoma (ccRCC) are limited to , we performed a genome-wide analysis in 128 kidney normal solid tissue and 240 stage 1 ccRCC samples (TCGA RNA-seq data) to screen for canonical LOI in early oncogenesis.
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- Existing databases of non-coding RNA (ncRNA) are limited because they only include small and polyadenylated RNAs; a new comprehensive atlas includes a wider range from 300 human tissues and cell lines.
- This study identifies thousands of new ncRNAs, increasing the known catalog by about 8%, and explores their roles in gene regulation using RNA sequencing data.
- All findings and data are available on the R2 web portal for further research into RNA biology and function.
Genomic imprinting plays an important role in growth and development. Loss of imprinting (LOI) has been found in cancer, yet systematic studies are impeded by data-analytical challenges. We developed a methodology to detect monoallelically expressed loci without requiring genotyping data, and applied it on The Cancer Genome Atlas (TCGA, discovery) and Genotype-Tissue expression project (GTEx, validation) breast tissue RNA-seq data.
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