MarkerMap: nonlinear marker selection for single-cell studies.

Single-cell RNA-seq data allow the quantification of cell type differences across a growing set of biological contexts. However, pinpointing a small subset of genomic features explaining this variability can be ill-defined and computationally intractable. Here we introduce MarkerMap, a generative model for selecting minimal gene sets which are maximally informative of cell type origin and enable whole transcriptome reconstruction.

Optimal marker gene selection for cell type discrimination in single cell analyses.

Single-cell technologies characterize complex cell populations across multiple data modalities at unprecedented scale and resolution. Multi-omic data for single cell gene expression, in situ hybridization, or single cell chromatin states are increasingly available across diverse tissue types. When isolating specific cell types from a sample of disassociated cells or performing in situ sequencing in collections of heterogeneous cells, one challenging task is to select a small set of informative markers that robustly enable the identification and discrimination of specific cell types or cell states as precisely as possible.

Seabed classification using physics-based modeling and machine learning.

In this work, model-based methods are employed, along with machine learning techniques, to classify sediments in oceanic environments based on the geoacoustic properties of a two-layer seabed. Two different scenarios are investigated. First, a simple low-frequency case is set up, in which the acoustic field is modeled with normal modes.