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Long range segmentation of prokaryotic genomes by gene age and functionality.
- Published in:
- Nucleic Acids Research, 2024, v. 52, n. 18, p. 11045, doi. 10.1093/nar/gkae745
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- Publication type:
- Article
Molecular adaptations during viral epidemics.
- Published in:
- EMBO Reports, 2022, v. 23, n. 8, p. 1, doi. 10.15252/embr.202255393
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- Publication type:
- Article
Deep phylogeny of cancer drivers and compensatory mutations.
- Published in:
- Communications Biology, 2020, v. 3, n. 1, p. N.PAG, doi. 10.1038/s42003-020-01276-7
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- Publication type:
- Article
Mapping CRISPR spaceromes reveals vast host-specific viromes of prokaryotes.
- Published in:
- Communications Biology, 2020, v. 3, n. 1, p. 1, doi. 10.1038/s42003-020-1014-1
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- Publication type:
- Article
Archaeal Clusters of Orthologous Genes (arCOGs): An Update and Application for Analysis of Shared Features between Thermococcales, Methanococcales, and Methanobacteriales.
- Published in:
- Life (2075-1729), 2015, v. 5, n. 1, p. 818, doi. 10.3390/life5010818
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- Publication type:
- Article
Evolution of microbes and viruses: a paradigm shift in evolutionary biology?
- Published in:
- Frontiers in Cellular & Infection Microbiology, 2012, v. 2, p. 1, doi. 10.3389/fcimb.2012.00119
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- Publication type:
- Article
Evolution of microbes and viruses: A paradigm shift in evolutionary biology?
- Published in:
- Frontiers in Cellular & Infection Microbiology, 2012, v. 2, p. 1, doi. 10.3389/fcimb.2012.00119
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- Publication type:
- Article
Net Evolutionary Loss of Residue Polarity in Drosophilid Protein Cores Indicates Ongoing Optimization of Amino Acid Composition.
- Published in:
- Genome Biology & Evolution, 2017, v. 9, n. 10, p. 2879, doi. 10.1093/gbe/evx191
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- Publication type:
- Article
Extreme Deviations from Expected Evolutionary Rates in Archaeal Protein Families.
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- Genome Biology & Evolution, 2017, v. 9, n. 10, p. 2791, doi. 10.1093/gbe/evx189
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- Publication type:
- Article
Inevitability of Genetic Parasites.
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- Genome Biology & Evolution, 2016, v. 8, n. 9, p. 2867, doi. 10.1093/gbe/evw193
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- Publication type:
- Article
Evolvability of an Optimal Recombination Rate.
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- Genome Biology & Evolution, 2016, v. 8, n. 1, p. 70, doi. 10.1093/gbe/evv249
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- Publication type:
- Article
Universal Pacemaker of Genome Evolution in Animals and Fungi and Variation of Evolutionary Rates in Diverse Organisms.
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- Genome Biology & Evolution, 2014, v. 6, n. 6, p. 1268, doi. 10.1093/gbe/evu091
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- Publication type:
- Article
Stability along with Extreme Variability in Core Genome Evolution.
- Published in:
- Genome Biology & Evolution, 2013, v. 5, n. 7, p. 1393, doi. 10.1093/gbe/evt098
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- Publication type:
- Article
A Tight Link between Orthologs and Bidirectional Best Hits in Bacterial and Archaeal Genomes.
- Published in:
- Genome Biology & Evolution, 2012, v. 4, n. 12, p. 1286, doi. 10.1093/gbe/evs100
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- Publication type:
- Article
Gene Frequency Distributions Reject a Neutral Model of Genome Evolution.
- Published in:
- Genome Biology & Evolution, 2013, v. 5, n. 1, p. 233, doi. 10.1093/gbe/evt002
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- Publication type:
- Article
A Tight Link between Orthologs and Bidirectional Best Hits in Bacterial and Archaeal Genomes.
- Published in:
- Genome Biology & Evolution, 2012, v. 4, n. 9, p. 1286, doi. 10.1093/gbe/evs100
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- Publication type:
- Article
DNA polymerase swapping in Caudoviricetes bacteriophages.
- Published in:
- Virology Journal, 2024, v. 21, n. 1, p. 1, doi. 10.1186/s12985-024-02482-z
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- Publication type:
- Article
Estimation of prokaryotic supergenome size and composition from gene frequency distributions.
- Published in:
- BMC Genomics, 2014, v. 15, p. 1, doi. 10.1186/1471-2164-15-S6-S14
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- Publication type:
- Article
Constraints and plasticity in genome and molecular-phenome evolution.
- Published in:
- 2010
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- Publication type:
- journal article
Diverse functions of homologous actin isoforms are defined by their nucleotide, rather than their amino acid sequence.
- Published in:
- eLife, 2017, p. 1, doi. 10.7554/eLife.31661
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- Publication type:
- Article
Widespread CRISPR-derived RNA regulatory elements in CRISPR-Cas systems.
- Published in:
- Nucleic Acids Research, 2023, v. 51, n. 15, p. 8150, doi. 10.1093/nar/gkad495
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- Publication type:
- Article
tRNA discriminator base defines the mutual orthogonality of two distinct pyrrolysyl-tRNA synthetase/tRNAPyl pairs in the same organism.
- Published in:
- Nucleic Acids Research, 2022, v. 50, n. 8, p. 4601, doi. 10.1093/nar/gkac271
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- Publication type:
- Article
COG database update: focus on microbial diversity, model organisms, and widespread pathogens.
- Published in:
- Nucleic Acids Research, 2021, v. 49, n. D1, p. D274, doi. 10.1093/nar/gkaa1018
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- Publication type:
- Article
Seeker: alignment-free identification of bacteriophage genomes by deep learning.
- Published in:
- Nucleic Acids Research, 2020, v. 48, n. 21, p. e121, doi. 10.1093/nar/gkaa856
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- Publication type:
- Article
Evolutionary and functional classification of the CARF domain superfamily, key sensors in prokaryotic antivirus defense.
- Published in:
- Nucleic Acids Research, 2020, v. 48, n. 16, p. 8828, doi. 10.1093/nar/gkaa635
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- Publication type:
- Article
Escherichia coli ItaT is a type II toxin that inhibits translation by acetylating isoleucyl-tRNAIle.
- Published in:
- Nucleic Acids Research, 2018, v. 46, n. 15, p. 7873, doi. 10.1093/nar/gky560
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- Publication type:
- Article
ATGC database and ATGC-COGs: an updated resource for micro- and macro-evolutionary studies of prokaryotic genomes and protein family annotation.
- Published in:
- Nucleic Acids Research, 2017, v. 45, n. D1, p. D210, doi. 10.1093/nar/gkw934
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- Publication type:
- Article
Expanded microbial genome coverage and improved protein family annotation in the COG database.
- Published in:
- Nucleic Acids Research, 2015, v. 43, n. D1, p. D261, doi. 10.1093/nar/gku1223
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- Publication type:
- Article
Comparative genomics of defense systems in archaea and bacteria.
- Published in:
- Nucleic Acids Research, 2013, v. 41, n. 8, p. 4360, doi. 10.1093/nar/gkt157
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- Publication type:
- Article
Machine-learning approach expands the repertoire of anti-CRISPR protein families.
- Published in:
- Nature Communications, 2020, v. 11, n. 1, p. 1, doi. 10.1038/s41467-020-17652-0
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- Publication type:
- Article
Interplay between DNA damage repair and apoptosis shapes cancer evolution through aneuploidy and microsatellite instability.
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- Nature Communications, 2020, v. 11, n. 1, p. 1, doi. 10.1038/s41467-020-15094-2
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- Publication type:
- Article
Gene gain and loss push prokaryotes beyond the homologous recombination barrier and accelerate genome sequence divergence.
- Published in:
- Nature Communications, 2019, v. 10, n. 1, p. 1, doi. 10.1038/s41467-019-13429-2
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- Publication type:
- Article
Genomes in turmoil: Quantification of genome dynamics in prokaryote supergenomes.
- Published in:
- BMC Biology, 2014, v. 12, n. 1, p. 1, doi. 10.1186/s12915-014-0066-4
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- Publication type:
- Article
Seeing the Tree of Life behind the phylogenetic forest.
- Published in:
- 2013
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- Publication type:
- Letter
Global Analysis of Posttranslational Protein Arginylation.
- Published in:
- PLoS Biology, 2007, v. 5, n. 10, p. e258, doi. 10.1371/journal.pbio.0050258
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- Publication type:
- Article
A Unique Gene Module in Thermococcales Archaea Centered on a Hypervariable Protein Containing Immunoglobulin Domains.
- Published in:
- Frontiers in Microbiology, 2021, v. 12, p. 1, doi. 10.3389/fmicb.2021.721392
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- Publication type:
- Article
Genomic determinants of sporulation in Bacilli and Clostridia: towards the minimal set of sporulation-specific genes.
- Published in:
- Environmental Microbiology, 2012, v. 14, n. 11, p. 2870, doi. 10.1111/j.1462-2920.2012.02841.x
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- Publication type:
- Article
Varidnaviruses in the Human Gut: A Major Expansion of the Order Vinavirales.
- Published in:
- Viruses (1999-4915), 2022, v. 14, n. 9, p. 1842, doi. 10.3390/v14091842
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- Publication type:
- Article
A Novel Flavi-like Virus in Alfalfa (Medicago sativa L.) Crops along the Snake River Valley.
- Published in:
- Viruses (1999-4915), 2022, v. 14, n. 6, p. N.PAG, doi. 10.3390/v14061320
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- Publication type:
- Article
Phylogenomics of Cas4 family nucleases.
- Published in:
- BMC Evolutionary Biology, 2017, v. 17, p. 1, doi. 10.1186/s12862-017-1081-1
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- Publication type:
- Article
The Vast, Conserved Mammalian lincRNome.
- Published in:
- PLoS Computational Biology, 2013, v. 9, n. 2, p. 1, doi. 10.1371/journal.pcbi.1002917
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- Publication type:
- Article
Universal Pacemaker of Genome Evolution.
- Published in:
- PLoS Computational Biology, 2012, v. 8, n. 11, p. 1, doi. 10.1371/journal.pcbi.1002785
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- Publication type:
- Article
Predictability of Evolutionary Trajectories in Fitness Landscapes.
- Published in:
- PLoS Computational Biology, 2011, v. 7, n. 12, p. 1, doi. 10.1371/journal.pcbi.1002302
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- Publication type:
- Article
An updated evolutionary classification of CRISPR-Cas systems.
- Published in:
- Nature Reviews Microbiology, 2015, v. 13, n. 11, p. 722, doi. 10.1038/nrmicro3569
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- Publication type:
- Article
EREM: Parameter Estimation and Ancestral Reconstruction by Expectation-Maximization Algorithm for a Probabilistic Model of Genomic Binary Characters Evolution.
- Published in:
- Advances in Bioinformatics, 2010, p. 1, doi. 10.1155/2010/167408
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- Publication type:
- Article
Photosystem I gene cassettes are present in marine virus genomes.
- Published in:
- Nature, 2009, v. 461, n. 7261, p. 258, doi. 10.1038/nature08284
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- Publication type:
- Article
A low-polynomial algorithm for assembling clusters of orthologous groups from intergenomic symmetric best matches.
- Published in:
- Bioinformatics, 2010, v. 26, n. 12, p. 1481, doi. 10.1093/bioinformatics/btq229
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- Publication type:
- Article
Computational approaches for the analysis of gene neighbourhoods in prokaryotic genomes.
- Published in:
- Briefings in Bioinformatics, 2004, v. 5, n. 2, p. 131, doi. 10.1093/bib/5.2.131
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- Publication type:
- Article
Analysis of metagenome-assembled viral genomes from the human gut reveals diverse putative CrAss-like phages with unique genomic features.
- Published in:
- Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-21350-w
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- Publication type:
- Article
Evolutionary plasticity of protein families: Coupling between sequence and structure variation.
- Published in:
- Proteins, 2005, v. 61, n. 3, p. 535, doi. 10.1002/prot.20644
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- Publication type:
- Article