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Smooth orientation-dependent scoring function for coarse-grained protein quality assessment
TLDR
A novel single-model QA method called SBROD (Smooth Backbone-Reliant Orientation-Dependent) method, which uses only the backbone protein conformation, and hence it can be applied to scoring coarse-grained protein models, which is potentially applicable to continuous gradient-based optimization of protein conformations.
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A global metagenomic map of urban microbiomes and antimicrobial resistance
View on Elsevier
Sparse Binary Relation Representations for Genome Graph Annotation
TLDR
This work presents a systematic analysis of five different state-of-the-art annotation compression schemes that evaluates key metrics on both artificial and real-world data and discusses how different data characteristics influence the compression performance.
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Blind prediction of homo‐ and hetero‐protein complexes: The CASP13‐CAPRI experiment
TLDR
CAPRI Round 46 indicates that residues in binding interfaces were less well predicted in this set of targets than in previous Rounds, providing useful insights for directions of future improvements.
View on Wiley
Dynamic compression schemes for graph coloring
TLDR
Two new approaches for a compressed representation of a graph coloring are presented: a lossless compression scheme based on a novel application of wavelet tries as well as a highly accurate lossy compressionbased on a set of Bloom filters.
View on Wolters Kluwer
Cartography of opportunistic pathogens and antibiotic resistance genes in a tertiary hospital environment
TLDR
Spatiotemporal characterization of microbial diversity and antibiotic resistance in a tertiary-care hospital reveals broad distribution and persistence of antibiotic-resistant organisms that could cause opportunistic infections in a healthcare setting.
View on Springer
Assessment of chemical‐crosslink‐assisted protein structure modeling in CASP13
TLDR
This largest‐to‐date blind assessment reveals benefits of using data assistance in difficult to model protein structure prediction cases, but suggests that with the unprecedented advance in accuracy to predict contacts in recent years, experimental crosslinks will be useful only if their specificity and accuracy further improved and they are better integrated into computational workflows.
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Communication-Efficient Jaccard similarity for High-Performance Distributed Genome Comparisons
TLDR
The design and implementation of SimilarityAtScale is designed and implemented, the first communication-efficient distributed algorithm for computing the Jaccard similarity among pairs of large datasets, and the resulting scheme is the first to enable accurateJaccard distance derivations for massive datasets, using large-scale distributed-memory systems.
View on IEEE
Global Genetic Cartography of Urban Metagenomes and Anti-Microbial Resistance
TLDR
A global metagenomic and antimicrobial resistance atlas of urban mass transit systems from 58 cities, spanning 3,741 samples and 4,424 taxonomically-defined microorganisms collected for from 2015-2017, provides an essential first draft of the global AMR burden of the world’s cities.
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MetaGraph: Indexing and Analysing Nucleotide Archives at Petabase-scale
TLDR
This work presents MetaGraph, a versatile framework for the scalable analysis of extensive sequence repositories, and introduces the concept of differential assembly, which allows for the extraction of sequences present in a foreground set of samples but absent in a given background set.
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