We then carried out colocalization analysis using cell-type-level eQTLs from a brain single-nucleus RNA-seq dataset54, to check the possibility that the bulk-eQTL-missing may arise from lower power to capture cell-type-specific effect. In total, 10 out of 13 brain bulk-eQTL-missing loci ...
Top-ranked expressed gene transcripts of human protein-coding genes investigated with GTEx dataset Article Open access 01 October 2020 Systematic assessment of long-read RNA-seq methods for transcript identification and quantification Article Open access 07 June 2024 Transcriptomics in the era of ...
Carcinomas from different tissues have similar matrisome genes changes. We then explored the usefulness of GTEx-based matrisome as a control dataset for cancer stroma studies. To do this, we acquired and compared GTEx and TCGA RNA-seq data for lung adenocarcinoma, breast invasive carcinoma, ...
We utilized the GTEx dataset in this study owing to diverse normal tissue types. This would be beneficial in the future NGS data analysis to choose reference transcripts for human protein-coding genes. However, the typical depth of RNA-Seq would be restricted due to large numbers of tissue sam...
We then explored the usefulness of GTEx-based matrisome as a control dataset for cancer stroma studies. To do this, we acquired and compared GTEx and TCGA RNA-seq data for lung adenocarcinoma, breast invasive carcinoma, colon adenocarcinoma, thyroid carcinoma, and prostate adenocarcinoma normal tissu...
single cell approaches (e.g. single cell RNA-seq; scRNA-seq); however, non-trivial technical challenges, such as hard to dissociate tissues and low capture efficiencies, make the generation of a GTEx-scale single-cell expression dataset a substantial undertaking, which would take years to ...
This set of aging-associated genes was screened out by using a regression model on large-sample RNA-Seq data, collected from >40 tissues from hundreds of healthy individuals; whereas sex, race, and tissue were controlled as a covariate to avoid biases24. However, characteristics of these genes...