United States National Library of Medicine

Primer: Functions and evolution of viral proteins

ABSTRACT Viruses encode an enormous variety of proteins that jointly comprise the largest pool of protein diversity on Earth. At coarse grain, the viral pan-proteome can be partitioned into four classes of proteins that differ in their evolutionary conservation, spread across the...

Deep Learning Survival Analysis with Time-Varying Covariates: Extending PyCox to Assess COVID-19 Antiviral Treatments and Long-COVID Associations

Abstract Objective To extend the PyCox to accommodate time-varying covariates using counting process data, addressing immortal time bias in survival analysis. Materials and Methods We modified PyCox to support counting process data structures for time-varying covariates and appli...

MARLOWE: taxonomic characterization of unknown samples for forensics using de novo peptide identification

Abstract We present a computational tool, MARLOWE, for source organism characterization of unknown, forensic biological samples. The intent of MARLOWE is to address a gap in applying proteomics data analysis to forensic applications. MARLOWE produces a list of potential source or...