3 papers
q-bio.MN2020
Biophysical models of cis-regulation as interpretable neural networks
Ammar Tareen, Justin B. Kinney
The adoption of deep learning techniques in genomics has been hindered by the difficulty of mechanistically interpreting the models that these techniques produce. In recent years,…
q-bio.GN2020
Deciphering the regulatory genome of , one hundred promoters at a time
William T. Ireland, Suzannah M. Beeler, Emanuel Flores-Bautista +5
Advances in DNA sequencing have revolutionized our ability to read genomes. However, even in the most well-studied of organisms, the bacterium , for $\appro…
q-bio.QM2016
Modeling multi-particle complexes in stochastic chemical systems
Muir J. Morrison, Justin B. Kinney
Large complexes of classical particles play central roles in biology, in polymer physics, and in other disciplines. However, physics currently lacks mathematical methods for descri…