Correct annotation metadata is critical for reproducible and accurate RNA-seq analysis.
When files are shared publicly or among collaborators with incorrect or missing annotation …

Background The accuracy of transcript quantification using RNA-seq data depends on many
factors, such as the choice of alignment or mapping method and the quantification model …

The biomedical research community is investing heavily in biomedical cloud platforms.
Cloud computing holds great promise for addressing challenges with big data and ensuring …

As chromatin accessibility data from ATAC-seq experiments continues to expand, there is
continuing need for standardized analysis pipelines. Here, we present PEPATAC, an ATAC …

We implicated the X-chromosome THOC2 gene, which encodes the largest subunit of the
highly-conserved TREX (Tr anscription-Ex port) complex, in a clinically complex …

Genome-scale data have revealed daily rhythms in various species and tissues. However,
current methods to assess rhythmicity largely restrict their focus to quantifying statistical …

Clustering is a critical step in the analysis of single-cell data, as it enables the discovery and
characterization of putative cell types and states. However, most popular clustering tools do …

Nascent RNA profiling is growing in popularity; however, there is no standard analysis
pipeline to uniformly process the data and assess quality. Here, we introduce PEPPRO, a …

Abstract N-Glycanase 1 (NGLY1) deficiency is a rare and complex genetic disorder.
Although recent studies have shed light on the molecular underpinnings of NGLY1 …

Background Stunting is a global health problem affecting hundreds of millions of children
worldwide and contributing to 45% of deaths in children under the age of five. Current …