Tag Archives: University of Pennsylvania

A key component in many RNA-Seq based studies is the production of multiple replicates for varying experimental conditions. Such replicates allow to capture underlying biological variability and control for experimental ones. However, during data production researchers often lack clear definitions ...

Alignment is the first step in most RNA-seq analysis pipelines, and the accuracy of downstream analyses depends heavily on it. Unlike most steps in the pipeline, alignment is particularly amenable to benchmarking with simulated data. Researchers from the University of ...

The goal is to make it easier for science teachers to incorporate the latest advances in science into their curricula. The initiative, Discovering the Genome, was spearheaded by Kristin Field, director of programs at Penn’s Nano/Bio Interface Center, and Junhyong ...

Support-limb laminitis was the type of laminitis 2006 Kentucky Derby winner Barbaro (seen here at the University of Pennsylvania’s New Bolton Center) succumbed to while healing from a severe fracture in a hind limb. The American Association of Equine Practitioners ...

Since it launched in 2013, the Center for Personalized Diagnostics at the University of Pennsylvania Health System has sequenced more than 4,000 clinical tumor samples to help provide actionable genomic data for the treatment of a variety of cancers. In ...

Highlights    Defined open chromatin regions in sorted human α- and β-cells using ATAC-seq.    Detected type 2 diabetes-associated risk loci in human α- and β-cell open chromatin.    Classified human α- and β-cell-specific transcripts using mRNA-seq.    Discovered novel ...

Small non-coding RNAs (sncRNAs) are highly abundant RNAs, typically <100 nucleotides long, that act as key regulators of diverse cellular processes. Although thousands of sncRNA genes are known to exist in the human genome, no single database provides searchable, unified ...

Because of the advantages of RNA sequencing (RNA-Seq) over microarrays, it is gaining widespread popularity for highly parallel gene expression analysis. For example, RNA-Seq is expected to be able to provide accurate identification and quantification of full-length splice forms. A ...

The sequencing of the full transcriptome (RNA-seq) has become the preferred choice for the measurement of genome-wide gene expression. Despite its widespread use, challenges remain in RNA-seq data analysis. One often-overlooked aspect is normalization. Despite the fact that a variety ...

One of the major mechanisms of generating mRNA diversity is alternative splicing, a regulated process that allows for the flexibility of producing functionally different proteins from the same genomic sequences. This process is often altered in cancer cells to produce ...