Relevant publications authored by Genexa team members

Algorithms, computational
2021
[2] Phospho-RNA sequencing with circAID-p-seq (; ; ; ; ; ; ; ; ; ; ; ; and ), In Nucleic Acids Research, . [pdf] [doi]
2016
[1] Infectio: a Generic Framework for Computational Simulation of Virus Transmission between Cells (; ; ; ; and ), In mSphere (Imperiale, Michael J., ed.), American Society for Microbiology Journals, volume 1, . [pdf] [doi]
De novo assembly of individual genomes
2018
[4] Pushing the limits of de novo genome assembly for complex prokaryotic genomes harboring very long, near identical repeats (; ; ; ; ; and ), In Nucleic Acids Research, . [pdf] [doi]
[3] Pseudomonas orientalis F9: A Potent Antagonist against Phytopathogens with Phytotoxic Effect in the Apple Flower (; ; ; ; ; and ), In Frontiers in Microbiology, volume 9, . [pdf] [doi]
2017
[2] Competition assays and physiological experiments of soil and phyllosphere yeasts identify Candida subhashii as a novel antagonist of filamentous fungi (; ; and ), In BMC microbiology, BioMed Central, volume 17, . [pdf] [doi]
[1] Biofilm Formation Potential of Heat-Resistant Escherichia coli Dairy Isolates and the Complete Genome of Multidrug-Resistant, Heat-Resistant Strain FAM21845 (; ; ; ; ; ; and ), In Applied and Environmental Microbiology (Björkroth, Johanna, ed.), American Society for Microbiology Journals, volume 83, . [pdf] [doi]
Microbiomes, assembly of metagenomes
2018
[1] Long read-based de novo assembly of low complex metagenome samples results in finished genomes and reveals insights into strain diversity and an active phage system (; ; ; ; ; ; and ), In bioRxiv, Cold Spring Harbor Laboratory, . [pdf] [doi]
Comparative genomics & Transcriptomis
2021
[5] Evaluation of Oxford Nanopore MinION RNA-Seq Performance for Human Primary Cells (; ; ; ; ; ; ; ; ; ; and ), In International Journal of Molecular Sciences, MDPI AG, volume 22, . [pdf] [doi]
2020
[4] Pseudomonas orientalis F9 Pyoverdine, Safracin, and Phenazine Mutants Remain Effective Antagonists against Erwinia amylovora in Apple Flowers (; ; ; ; ; ; ; and ), In Applied and Environmental Microbiology (Druzhinina, Irina S., ed.), American Society for Microbiology Journals, volume 86, . [pdf] [doi]
[3] The neonicotinoid thiacloprid causes transcriptional alteration of genes associated with mitochondria at environmental concentrations in honey bees (; ; and ), In Environmental Pollution, volume 266, . [pdf] [doi]
2019
[2] Global transcriptome analysis reveals relevant effects of environmentally relevant concentrations of cypermethrin in honey bees (Apis mellifera) (; and ), In Environmental Pollution, . [pdf] [doi]
2018
[1] Comparative Genomics of Completely Sequenced Lactobacillus helveticus Genomes Provides Insights into Strain-Specific Genes and Resolves Metagenomics Data Down to the Strain Level (; ; ; ; ; ; ; ; ; ; ; and ), In Frontiers in Microbiology, volume 9, . [pdf] [doi]