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1. Full Text The Sequence Alignment Map format and SAMtools
by Li, Heng and Handsaker, Bob and Wysoker, Alec and Fennell, Tim and Ruan, Jue and Homer, Nils and Marth, Gabor and Abecasis, Goncalo and Durbin, Richard and 1000 Genome Project Data Proc and 1000 Genome Project Data Processing Subgroup
Bioinformatics, ISSN 1367-4803, 8/2009, Volume 25, Issue 16, pp. 2078 - 2079
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) | Sequence Alignment - methods | Computational Biology - methods | Algorithms | Base Sequence | Genomics | Molecular Sequence Data | Software | Genome | Sequence Analysis, DNA - methods | Index Medicus | Applications Note
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2. Full Text A survey of sequence alignment algorithms for next-generation sequencing
by Li, Heng and Homer, Nils
Briefings in bioinformatics, ISSN 1467-5463, 05/2010, Volume 11, Issue 5, pp. 473 - 483
Alignment algorithm | Sequence analysis | New sequencing technologies | Biochemistry & Molecular Biology | Life Sciences & Biomedicine | Biochemical Research Methods | Science & Technology | Mathematical & Computational Biology | Sequence Alignment - methods | Algorithms | Base Sequence | Humans | Software | Genome, Human | Sequence Analysis, DNA - methods | Cloud computing | Systematic review | Data analysis | Bioinformatics | Alignment | Data processing | Sequencing | Computer programs | Index Medicus | Papers | alignment algorithm | sequence analysis | new sequencing technologies
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3. Full Text Sinogram-Affirmed iterative reconstruction of low-dose chest CT: Effect on image quality and radiation dose
by Kalra, Mannudeep K and Woisetschlager, Mischa and Dahlstrom, Nils and Singh, Sarabjeet and Digumarthy, Subbarao and Do, Synho and Pien, Homer and Quick, Petter and Schmidt, Bernhard and Sedlmair, Martin and Shepard, Jo-Anne O and Persson, Anders
American journal of roentgenology (1976), ISSN 0361-803X, 08/2013, Volume 201, Issue 2, pp. W235 - W244
Radiation dose reduction | Iterative reconstruction | Low-dose chest CT | Life Sciences & Biomedicine | Radiology, Nuclear Medicine & Medical Imaging | Science & Technology | Prospective Studies | Humans | Middle Aged | Tomography, X-Ray Computed - methods | Male | Radiation Dosage | Thoracic Diseases - diagnostic imaging | Radiographic Image Interpretation, Computer-Assisted - methods | Analysis of Variance | Statistics, Nonparametric | Female | Radiography, Thoracic - methods | Aged | Index Medicus | Abridged Index Medicus
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4. Full Text Improved variant discovery through local re-alignment of short-read next-generation sequencing data using SRMA
by Homer, Nils and Nelson, Stanley F
Genome Biology, ISSN 1474-7596, 10/2010, Volume 11, Issue 10, pp. R99 - R99
Genetics & Heredity | Life Sciences & Biomedicine | Biotechnology & Applied Microbiology | Science & Technology | Sequence Alignment - methods | Computational Biology - methods | Algorithms | Oligonucleotide Array Sequence Analysis | Base Sequence | Gene Frequency | Humans | Cell Line, Tumor | Polymorphism, Single Nucleotide | Genome, Human | Sequence Analysis, DNA - methods | Index Medicus | Method
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5. Full Text Identification of genetic variants using bar-coded multiplexed sequencing
by Nunn, Gary and Corneveaux, Jason J and Sekar, Aswin and Huentelman, Matthew J and Pearson, John V and Redman, Margot and Stephan, Dietrich A and Craig, David W and Szelinger, Szabolcs and Laub, Trisha and Pawlowski, Traci L and Homer, Nils
Nature methods, ISSN 1548-7091, 10/2008, Volume 5, Issue 10, pp. 887 - 893
Biochemistry & Molecular Biology | Life Sciences & Biomedicine | Biochemical Research Methods | Science & Technology | Genetic Variation | Sequence Alignment | Polymorphism, Single Nucleotide | Genome, Human | Humans | Automatic Data Processing | Usage | DNA microarrays | Research | Nucleotide sequencing | Genetic variation | Genotype & phenotype | Research methodology | Genomics | Bar codes | Deoxyribonucleic acid--DNA | Index Medicus
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6. Full Text BFAST: An alignment tool for large scale genome resequencing
by Homer, Nils and Merriman, Barry and Nelson, Stanley F
PloS one, ISSN 1932-6203, 11/2009, Volume 4, Issue 11, pp. A95 - A106
Science & Technology - Other Topics | Multidisciplinary Sciences | Science & Technology | Genetic Variation | Sequence Alignment - methods | Computational Biology - methods | Reproducibility of Results | Algorithms | Computer Simulation | Humans | Software | Genetic Techniques | Genome, Human | Sequence Analysis, DNA | Genomes | Nucleotide sequencing | Multiprocessing | Genomics | DNA sequencing | Sensitivity | Accuracy | Alignment | Error correction & detection | Seeds | Nucleotide sequence | Computer simulation | Clusters | Bioinformatics | Deoxyribonucleic acid--DNA | Index Medicus | Deoxyribonucleic acid | DNA
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7. Full Text Local alignment of two-base encoded DNA sequence
by Homer, Nils and Merriman, Barry and Nelson, Stanley F
BMC bioinformatics, ISSN 1471-2105, 06/2009, Volume 10, Issue 1, pp. 175 - 175
Biochemistry & Molecular Biology | Life Sciences & Biomedicine | Biotechnology & Applied Microbiology | Biochemical Research Methods | Science & Technology | Mathematical & Computational Biology | Sequence Alignment - methods | DNA - chemistry | Algorithms | Sequence Analysis, DNA - methods | Base Sequence | Usage | DNA | Physiological aspects | Research | Nucleotide sequencing | Methods | Genetic algorithms | Index Medicus
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