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1. Full Text Computational methods for transcriptome annotation and quantification using RNA-seq
by Garber, Manuel and Grabherr, Manfred G and Guttman, Mitchell and Trapnell, Cole
Nature Methods, ISSN 1548-7091, 06/2011, Volume 8, Issue 6, pp. 469 - 477
Biochemistry & Molecular Biology | Life Sciences & Biomedicine | Biochemical Research Methods | Science & Technology | Genomics - statistics & numerical data | Computational Biology - methods | Animals | Gene Expression Profiling - statistics & numerical data | Humans | Sequence Alignment - statistics & numerical data | High-Throughput Nucleotide Sequencing - statistics & numerical data | Sequence Analysis, RNA - statistics & numerical data | Physiological aspects | Usage | Databases | Research | Nucleotide sequencing | RNA | Cellular biology | Ribonucleic acid--RNA | Bioinformatics | Genomics | Index Medicus
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2. Full Text Evolution of Darwin's finches and their beaks revealed by genome sequencing
by Lamichhaney, Sangeet and Berglund, Jonas and Almén, Markus Sällman and Maqbool, Khurram and Grabherr, Manfred and Martinez-Barrio, Alvaro and Promerová, Marta and Rubin, Carl-Johan and Wang, Chao and Zamani, Neda and Grant, B. Rosemary and Grant, Peter R and Webster, Matthew T and Andersson, Leif
Nature (London), ISSN 0028-0836, 02/2015, Volume 518, Issue 7539, pp. 371 - 375
Science & Technology - Other Topics | Multidisciplinary Sciences | Science & Technology | Finches - anatomy & histology | Beak - anatomy & histology | Ecuador | Avian Proteins - metabolism | Finches - classification | Gene Flow | Genome - genetics | Molecular Sequence Data | Finches - genetics | Male | Phylogeny | Transcription Factors - genetics | Finches - embryology | Transcription Factors - metabolism | Haplotypes - genetics | Animals | Hybridization, Genetic | Indian Ocean Islands | Female | Avian Proteins - genetics | Evolution, Molecular | Genetic research | Research | Nucleotide sequencing | DNA sequencing | Haplotypes | Taxonomy | Genes | Morphology | Phylogenetics | Evolution | Birds | Mitochondrial DNA | Genomes | Genetic diversity | Hybridization | Islands | Index Medicus
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3. Full Text Special issue introduction: The wonders and mysteries next generation sequencing technologies help reveal
by Grabherr, Manfred G and Kaminska, Bozena and Komorowski, Jan
Genes, ISSN 2073-4425, 10/2018, Volume 9, Issue 10, p. 505
Life Sciences & Biomedicine | Genetics & Heredity | Science & Technology | Hypothesis testing | Haplotypes | Disease | Genomics | Encyclopedias | Big Data | Genomes | Biology | Artificial chromosomes | Gene expression | Consortia | Next-generation sequencing | Precision medicine | DNA methylation | Epigenetics | Life sciences | Mutation | Experimental research | Bioinformatics | Artificial intelligence | Binding sites | Deoxyribonucleic acid--DNA | n/a
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4. Full Text De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis
by Haas, Brian J and Papanicolaou, Alexie and Yassour, Moran and Grabherr, Manfred and Blood, Philip D and Bowden, Joshua and Couger, Matthew Brian and Eccles, David and Li, Bo and Lieber, Matthias and Macmanes, Matthew D and Ott, Michael and Orvis, Joshua and Pochet, Nathalie and Strozzi, Francesco and Weeks, Nathan and Westerman, Rick and William, Thomas and Dewey, Colin N and Henschel, Robert and Leduc, Richard D and Friedman, Nir and Regev, Aviv
Nature protocols, ISSN 1754-2189, 08/2013, Volume 8, Issue 8, pp. 1494 - 1512
Biochemistry & Molecular Biology | Life Sciences & Biomedicine | Biochemical Research Methods | Science & Technology | Schizosaccharomyces - genetics | Sequence Analysis, RNA - methods | Schizosaccharomyces pombe Proteins - chemistry | Schizosaccharomyces pombe Proteins - genetics | Base Sequence | Transcriptome | Gene Expression Profiling - methods | Software | RNA - chemistry | RNA | Genomics | Research | Nucleotide sequencing | Genetic transcription | Methods | DNA sequencing | Index Medicus
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5. Full Text Full-length transcriptome assembly from RNA-Seq data without a reference genome
by Fan, Lin and Nusbaum, Chad and Haas, Brian J and Chen, Zehua and Lindblad-Toh, Kerstin and Raychowdhury, Raktima and Birren, Bruce W and Adiconis, Xian and Gnirke, Andreas and Amit, Ido and Yassour, Moran and Friedman, Nir and Zeng, Qiandong and Hacohen, Nir and Grabherr, Manfred G and Regev, Aviv and Mauceli, Evan and Rhind, Nicholas and Thompson, Dawn A and di Palma, Federica and Levin, Joshua Z
Nature biotechnology, ISSN 1087-0156, 07/2011, Volume 29, Issue 7, pp. 644 - 652
Life Sciences & Biomedicine | Biotechnology & Applied Microbiology | Science & Technology | Fundamental and applied biological sciences. Psychology | Biological and medical sciences | Diverse techniques | Molecular and cellular biology | Sequence Analysis, RNA - methods | Algorithms | Base Sequence | Transcriptome | Molecular Sequence Data | Gene Expression Profiling - methods | Reference Values | Sequence Analysis, RNA - standards | RNA - chemistry | RNA - genetics | Physiological aspects | Genomes | Aleyrodidae | Genetic aspects | Research | Multiprocessing | Yeast | Insects | Ribonucleic acid--RNA | Gene expression | Genomics | Rodents | Index Medicus
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6. Full Text The genomic basis of adaptive evolution in threespine sticklebacks
by Jones, Felicity C and Grabherr, Manfred G and Chan, Yingguang Frank and Russell, Pamela and Mauceli, Evan and Johnson, Jeremy and Swofford, Ross and Pirun, Mono and Zody, Michael C and White, Simon and Birney, Ewan and Searle, Stephen and Schmutz, Jeremy and Grimwood, Jane and Dickson, Mark C and Myers, Richard M and Miller, Craig T and Summers, Brian R and Knecht, Anne K and Brady, Shannon D and Zhang, Haili and Pollen, Alex A and Howes, Timothy and Amemiya, Chris and Baldwin, Jen and Bloom, Toby and Jaffe, David B and Nicol, Robert and Wilkinson, Jane and Lander, Eric S and Di Palma, Federica and Lindblad-Toh, Kerstin and Kingsley, David M and Broad Inst Genome Sequencing Platf and Whole Genome Assembly Team and Broad Institute Genome Sequencing Platform & Whole Genome Assembly Team
Nature (London), ISSN 0028-0836, 04/2012, Volume 484, Issue 7392, pp. 55 - 61
Science & Technology - Other Topics | Multidisciplinary Sciences | Science & Technology | Fundamental and applied biological sciences. Psychology | Biological and medical sciences | Genetics of eukaryotes. Biological and molecular evolution | Biological evolution | Aquatic Organisms - genetics | Conserved Sequence - genetics | Genomics | Genome - genetics | Molecular Sequence Data | Sequence Analysis, DNA | Biological Evolution | Animals | Adaptation, Physiological - genetics | Chromosomes - genetics | Alaska | Female | Fresh Water | Genetic Variation - genetics | Smegmamorpha - genetics | Ecotype | Chromosome Inversion - genetics | Seawater | Physiological aspects | Three-spined stickleback | Genetic aspects | Adaptation (Biology) | Research | Genetics | Evolution | Fish | Genes | Index Medicus
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7. Full Text ACES: a machine learning toolbox for clustering analysis and visualization
by Gao, Jiangning and Sundström, Görel and Sundström, Görel and Moghadam, Behrooz Torabi and Moghadam, Behrooz Torabi and Zamani, Neda and Zamani, Neda and Grabherr, Manfred G and Grabherr, Manfred G
BMC genomics, ISSN 1471-2164, 12/2018, Volume 19, Issue 1, pp. 964 - 964
Discriminative power prediction | Clustering | Centroid detection | Data visualization | Genetics & Heredity | Life Sciences & Biomedicine | Biotechnology & Applied Microbiology | Science & Technology | RNA sequencing | Cluster analysis | Epigenetic inheritance | Usage | Research | Machine learning | Visualization | Genomes | Statistical methods | Gene sequencing | User interface | DNA methylation | Deoxyribonucleic acid--DNA | Java | Phenotypes | Data points | Statistical analysis | Browsing | Inspection | Principal components analysis | Source code | Ribonucleic acid--RNA | Learning algorithms | Population (statistical) | Algorithms | Outliers (statistics) | Software | Diabetes | Methylation | Artificial intelligence | Power | DNA sequencing | Index Medicus
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