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science & technology (29) 29
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archaea - genetics (3) 3
assembly (3) 3
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1. Full Text Repetitive DNA and next-generation sequencing: Computational challenges and solutions
by Treangen, Todd J and Salzberg, Steven L
Nature reviews. Genetics, ISSN 1471-0056, 01/2012, Volume 13, Issue 1, pp. 36 - 46
Life Sciences & Biomedicine | Genetics & Heredity | Science & Technology | Repetitive Sequences, Nucleic Acid - genetics | Computational Biology - methods | Reproducibility of Results | Sequence Analysis, RNA - trends | Humans | Genome - genetics | Molecular Sequence Data | Plants | RNA - genetics | DNA - genetics | Sequence Analysis, RNA - methods | Sequence Alignment - methods | Algorithms | Animals | Software | Sequence Analysis, DNA - methods | Sequence Analysis, DNA - trends | Research | Nucleotide sequencing | DNA sequencing | Computational biology | Index Medicus
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2. Full Text The Harvest suite for rapid core-genome alignment and visualization of thousands of intraspecific microbial genomes
by Treangen, Todd J and Treangen, Todd J and Ondov, Brian D and Ondov, Brian D and Koren, Sergey and Koren, Sergey and Phillippy, Adam M and Phillippy, Adam M
Genome biology, ISSN 1474-7596, 2014, Volume 15, Issue 11, pp. 524 - 524
Genetics & Heredity | Life Sciences & Biomedicine | Biotechnology & Applied Microbiology | Science & Technology
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3. Full Text RefSeq database growth influences the accuracy of k-mer-based lowest common ancestor species identification
by Nasko, Daniel J and Koren, Sergey and Phillippy, Adam M and Treangen, Todd J
Genome Biology, ISSN 1474-7596, 10/2018, Volume 19, Issue 1, pp. 165 - 165
k-mer | Metagenomics | Taxonomic classification | Reference database | LCA | Comparative analysis | Microbiome | Genetics & Heredity | Life Sciences & Biomedicine | Biotechnology & Applied Microbiology | Science & Technology | Performance evaluation | Taxonomy | Identification | Genomes | Genera | Datasets | Databases | Classification | Influence | New species | Bayesian analysis | Bioinformatics | New genera | Methods | Index Medicus
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4. Full Text To Petabytes and beyond: recent advances in probabilistic and signal processing algorithms and their application to metagenomics
by Elworth, R. A. Leo and Wang, Qi and Kota, Pavan K and Barberan, C. J and Coleman, Benjamin and Balaji, Advait and Gupta, Gaurav and Baraniuk, Richard G and Shrivastava, Anshumali and Treangen, Todd J
Nucleic acids research, ISSN 0305-1048, 06/2020, Volume 48, Issue 10, pp. 5217 - 5234
Life Sciences & Biomedicine | Biochemistry & Molecular Biology | Science & Technology | Index Medicus | AcademicSubjects | SCI00010 | Survey and Summary
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5. Full Text Mash: Fast genome and metagenome distance estimation using MinHash
by Ondov, Brian D and Treangen, Todd J and Melsted, Páll and Mallonee, Adam B and Bergman, Nicholas H and Koren, Sergey and Phillippy, Adam M
Genome Biology, ISSN 1474-7596, 06/2016, Volume 17, Issue 1, pp. 132 - 132
Comparative genomics | Metagenomics | Alignment | Nanopore | Genomic distance | Sequencing | Genetics & Heredity | Life Sciences & Biomedicine | Biotechnology & Applied Microbiology | Science & Technology | Metagenomics - methods | Software | Phylogeny | Genome | Genomics - methods | Databases, Nucleic Acid | Metagenome | Cluster Analysis | Evolution, Molecular | Library collections | Privacy | Automation | Databases | Genomics | Data collection | Genomes | Mutation | Bioinformatics | Estimates | Index Medicus
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6. Full Text You can't always sequence your way out of a tight spot
by Treangen, Todd J and Pop, Mihai
EMBO reports, ISSN 1469-221X, 12/2018, Volume 19, Issue 12, p. n/a
Nucleotide sequence | Diagnostic software | Diagnostic systems | Deoxyribonucleic acid--DNA | DNA sequencing | Critical components | Gene sequencing
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7. Full Text You can't always sequence your way out of a tight spot: Next-generation sequencing holds great promise for pathogen detection, but the devil is in the details
by Treangen, Todd J and Pop, Mihai
EMBO reports, ISSN 1469-221X, 12/2018, Volume 19, Issue 12
Biochemistry & Molecular Biology | Life Sciences & Biomedicine | Science & Technology | Cell Biology | Viruses - isolation & purification | Bacteria - isolation & purification | Molecular Diagnostic Techniques | Viruses - genetics | Disease Outbreaks | Humans | Fungi - isolation & purification | High-Throughput Nucleotide Sequencing - methods | Bacteria - genetics | Fungi - genetics | Databases as Topic | Index Medicus | S&S: Health & Disease | S&S: Technology | Microbiology, Virology & Host Pathogen Interaction | Science & Society
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8. Full Text Bambus 2: scaffolding metagenomes
by Koren, Sergey and Treangen, Todd J and Pop, Mihai
Bioinformatics, ISSN 1367-4803, 11/2011, Volume 27, Issue 21, pp. 2964 - 2971
Statistics & Probability | Biochemistry & Molecular Biology | Physical Sciences | Computer Science, Interdisciplinary Applications | Life Sciences & Biomedicine | Technology | Biochemical Research Methods | Computer Science | Mathematics | Biotechnology & Applied Microbiology | Science & Technology | Mathematical & Computational Biology | Fundamental and applied biological sciences. Psychology | Biological and medical sciences | General aspects | Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects) | Software | Algorithms | Metagenome | Sequence Analysis, DNA | Metagenomics - methods | Index Medicus | Original Papers
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9. Full Text Automated ensemble assembly and validation of microbial genomes
by Koren, Sergey and Treangen, Todd J and Hill, Christopher M and Pop, Mihai and Phillippy, Adam M
BMC bioinformatics, ISSN 1471-2105, 05/2014, Volume 15, Issue 1, pp. 126 - 126
Biochemistry & Molecular Biology | Life Sciences & Biomedicine | Biotechnology & Applied Microbiology | Biochemical Research Methods | Science & Technology | Mathematical & Computational Biology | Benchmarks | Nucleotide sequencing | DNA sequencing | Index Medicus
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10. Full Text Traumatic brain injury in mice induces acute bacterial dysbiosis within the fecal microbiome
by Treangen, Todd J and Wagner, Justin and Burns, Mark P and Villapol, Sonia
Frontiers in immunology, ISSN 1664-3224, 11/2018, Volume 9, pp. 2757 - 2757
Controlled cortical impact injury | Traumatic brain injury | Gut-brain axis | Brain damage | Gut microbes | Bacterial dysbiosis | Lactobacillus | Microbiome | Life Sciences & Biomedicine | Immunology | Science & Technology | traumatic brain injury | gut microbes | brain damage | microbiome | gut-brain axis
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