We present recount3, a resource consisting of over 750,000 publicly available human and
mouse RNA sequencing (RNA-seq) samples uniformly processed by our new Monorail …

The amount of sequence information in public repositories is growing at a rapid rate.
Although these data are likely to contain clinically important information that has not yet been …

Most sequencing data analyses start by aligning sequencing reads to a linear reference
genome, but failure to account for genetic variation leads to reference bias and confounding of …

Enormous databases of short-read RNA-seq experiments such as the NIH Sequencing Read
Archive are now available. These databases could answer many questions about condition…

Large-scale genomics demands computational methods that scale sublinearly with the growth
of data. We review several data structures and sketching techniques that have been used …

Most sequencing data analyses start by aligning sequencing reads to a linear reference
genome. But failure to account for genetic variation causes reference bias and confounding of …

This paper describes an ongoing effort to develop auto-graded scaffolding exercises to
support an upper-division theoretical computer science class at a large Midwestern public …

Pancreaticoduodenectomy, or Whipple procedure, is a high-risk surgical procedure commonly
performed for tumors of the pancreatic head. The pancreatico-enteric anastomosis is an …

Enormous databases of short-read RNA-seq sequencing experiments such as the NIH
Sequence Read Archive (SRA) are now available. However, these collections remain difficult to …

Symbiotic microorganisms exert multifaceted impacts on the physiology of their animal hosts.
Recent discoveries have shown the gut microbiota influence host brain function and …