3 papers
cs.LG2025
On learning functions over biological sequence space: relating Gaussian process priors, regularization, and gauge fixing
Samantha Petti, Carlos Martí-Gómez, Justin B. Kinney +2
Mappings from biological sequences (DNA, RNA, protein) to quantitative measures of sequence functionality play an important role in contemporary biology. We are interested in the r…
physics.bio-ph2024
Density estimation for ordinal biological sequences and its applications
Wei-Chia Chen, Juannan Zhou, David M. McCandlish
Biological sequences do not come at random. Instead, they appear with particular frequencies that reflect properties of the associated system or phenomenon. Knowing how biological…
q-bio.OT2024
Guidelines for releasing a variant effect predictor
Benjamin J. Livesey, Mihaly Badonyi, Mafalda Dias +15
Computational methods for assessing the likely impacts of mutations, known as variant effect predictors (VEPs), are widely used in the assessment and interpretation of human geneti…