742 citations · 743 across the 4 of their papers we have counts for
4 papers
Digital Modeling of Spatial Pathway Activity from Histology Reveals Tumor Microenvironment Heterogeneity
Ling Liao, Changhuei Yang, Maxim Artyomov +5
Spatial transcriptomics (ST) enables simultaneous mapping of tissue morphology and spatially resolved gene expression, offering unique opportunities to study tumor microenvironment…
Ranking vertices for active module recovery problem
Javlon E. Isomurodov, Alexander A. Loboda, Alexey A. Sergushichev
Selecting a connected subnetwork enriched in individually important vertices is an approach commonly used in many areas of bioinformatics, including analysis of gene expression dat…
Solving generalized maximum-weight connected subgraph problem for network enrichment analysis
Alexander A. Loboda, Maxim N. Artyomov, Alexey A. Sergushichev
Network enrichment analysis methods allow to identify active modules without being biased towards a priori defined pathways. One of mathematical formulations of such analysis is a…
Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species
Keith R. Bradnam, Joseph N. Fass, Anton Alexandrov +88
Background - The process of generating raw genome sequence data continues to become cheaper, faster, and more accurate. However, assembly of such data into high-quality, finished g…