Rapid progress in the development of next-generation sequencing (NGS) technologies in
recent years has provided many valuable insights into complex biological systems, ranging …

Datasets collected by high-throughput sequencing (HTS) of 16S rRNA gene amplimers,
metagenomes or metatranscriptomes are commonplace and being used to study human …

The Genotype-Tissue Expression (GTEx) project was established to characterize genetic
effects on the transcriptome across human tissues and to link these regulatory mechanisms …

Cancer hallmark genes are responsible for the most essential phenotypic characteristics of
malignant transformation and progression. In this study, our aim was to estimate the …

Single-cell RNA-seq (scRNA-seq) data exhibits significant cell-to-cell variation due to
technical factors, including the number of molecules detected in each cell, which can …

Single-cell trajectories can unveil how gene regulation governs cell fate decisions. However,
learning the structure of complex trajectories with multiple branches remains a challenging …

Pathway enrichment analysis helps researchers gain mechanistic insight into gene lists
generated from genome-scale (omics) experiments. This method identifies biological …

Macrophage infiltration is a hallmark of solid cancers, and overall macrophage infiltration
correlates with lower patient survival and resistance to therapy. Tumor-associated …

It is challenging to associate features such as human health outcomes, diet, environmental
conditions, or other metadata to microbial community measurements, due in part to their …

Complex microbial communities shape the dynamics of various environments, ranging from
the mammalian gastrointestinal tract to the soil. Advances in DNA sequencing technologies …