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1. Full Text Updating benchtop sequencing performance comparison
by Jünemann, Sebastian and Sedlazeck, Fritz Joachim and Prior, Karola and Albersmeier, Andreas and John, Uwe and Kalinowski, Jörn and Mellmann, Alexander and Goesmann, Alexander and Von Haeseler, Arndt and Stoye, Jens and Harmsen, Dag
Nature Biotechnology, ISSN 1087-0156, 04/2013, Volume 31, Issue 4, pp. 294 - 296
BIOTECHNOLOGY & APPLIED MICROBIOLOGY | COLI | PLATFORMS | Sequence Analysis, DNA - instrumentation | Sequence Analysis, DNA - methods | Humans | DNA sequencers | Research | Nucleotide sequencing | DNA sequencing | Testing
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2. Full Text Evidence for indigenous nitrogen in sedimentary and aeolian deposits from the Curiosity rover investigations at Gale crater, Mars
by Jennifer C. Stern and Brad Sutter and Caroline Freissinet and Rafael Navarro-González and Christopher P. McKay and P. Douglas Archer Jr and Arnaud Buch and Anna E. Brunner and Patrice Coll and Jennifer L. Eigenbrode and Alberto G. Fairen and Heather B. Franz and Daniel P. Glavin and Srishti Kashyap and Amy C. McAdam and Douglas W. Ming and Andrew Steele and Cyril Szopa and James J. Wray and F. Javier Martín-Torres and Maria-Paz Zorzano and Pamela G. Conrad and Paul R. Mahaffy and the MSL Science Team and Osku Kemppinen and Nathan Bridges and Jeffrey R. Johnson and Michelle Minitti and David Cremers and James F. Bell III and Lauren Edgar and Jack Farmer and Austin Godber and Meenakshi Wadhwa and Danika Wellington and Ian McEwan and Claire Newman and Mark Richardson and Antoine Charpentier and Laurent Peret and Penelope King and Jennifer Blank and Gerald Weigle and Mariek Schmidt and Shuai Li and Ralph Milliken and Kevin Robertson and Vivian Sun and Michael Baker and Christopher Edwards and Bethany Ehlmann and Kenneth Farley and Jennifer Griffes and John Grotzinger and Hayden Miller and Megan Newcombe and Cedric Pilorget and Melissa Rice and Kirsten Siebach and Katie Stack and Edward Stolper and Claude Brunet and Victoria Hipkin and Richard Léveillé and Geneviève Marchand and Pablo Sobrón Sánchez and Laurent Favot and George Cody and Lorenzo Flückiger and David Lees and Ara Nefian and Mildred Martin and Marc Gailhanou and Frances Westall and Guy Israël and Christophe Agard and Julien Baroukh and Christophe Donny and Alain Gaboriaud and Philippe Guillemot and Vivian Lafaille and Eric Lorigny and Alexis Paillet and René Pérez and Muriel Saccoccio and Charles Yana and Carlos Armiens-Aparicio and Javier Caride Rodríguez and Isaías Carrasco Blázquez and Felipe Gómez Gómez and Javier Gómez-Elvira and Sebastian Hettrich and Alain Lepinette Malvitte and Mercedes Marín Jiménez and Jesús Martínez-Frías and Javier Martín-Soler and F. Javier Martín - Torres and Antonio Molina Jurado and Luis Mora-Sotomayor and Guillermo Muñoz Caro and ... and MSL Sci Team and MSL Science Team and Luleå tekniska universitet and Institutionen för system- och rymdteknik and Rymdteknik
Proceedings of the National Academy of Sciences, ISSN 0027-8424, 04/2015, Volume 112, Issue 14, pp. 4245 - 4250
The Sample Analysis at Mars (SAM) investigation on the Mars Science Laboratory (MSL) Curiosity rover has detected oxidized nitrogen-bearing compounds during... 
Mars | Nitrates | Nitrogen | Astrobiology | Curiosity | VOLATILE | NITRATE | SEARCH | nitrogen | MULTIDISCIPLINARY SCIENCES | ENVIRONMENT | nitrates | THERMAL-DECOMPOSITION | MASS-SPECTROMETRY | ATMOSPHERE | astrobiology | SURFACE | ROCKNEST | FIXATION | Wind | Nitrates - chemistry | Temperature | Nitric Oxide - chemistry | Nitrogen - chemistry | Geologic Sediments - analysis | Nitrogen - analysis | Water - chemistry | Extraterrestrial Environment - chemistry | Mars probes | Sedimentation and deposition | Eolian processes | Mars (Planet) | Observations | Natural history | Earth and Planetary Astrophysics | Sciences of the Universe | Astrophysics | Physical Sciences | Atmospheric science | Engineering and Technology | Rymd- och flygteknik | Teknik och teknologier | Aerospace Engineering | Mechanical Engineering | Maskinteknik | Atmosfärsvetenskap
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3. Full Text Reassessment of the Listeria monocytogenes pan-genome reveals dynamic integration hotspots and mobile genetic elements as major components of the accessory genome
by Kuenne, Carsten and Billion, André and Mraheil, Mobarak Abu and Strittmatter, Axel and Daniel, Rolf and Goesmann, Alexander and Barbuddhe, Sukhadeo and Hain, Torsten and Chakraborty, Trinad
BMC Genomics, ISSN 1471-2164, 01/2013, Volume 14, Issue 1, pp. 47 - 47
Background: Listeria monocytogenes is an important food-borne pathogen and model organism for host-pathogen interaction, thus representing an invaluable target... 
STATIONARY-PHASE | PHYLOGENETIC LINEAGES | SMALL NONCODING RNA | POSITIVE SELECTION | BACILLUS-SUBTILIS | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | GENETICS & HEREDITY | SURFACE-PROTEINS | PATHOGENICITY ISLAND | VIRULENCE GENES | SEROVAR 4A | SEROTYPE 4B | Inverted Repeat Sequences - genetics | Rabbits | Genomic Islands - genetics | Species Specificity | Genomics | Humans | Listeria monocytogenes - virology | Phylogeny | Genome, Bacterial - genetics | Interspersed Repetitive Sequences - genetics | Listeria monocytogenes - pathogenicity | Animals | Adaptation, Physiological - genetics | Genetic Markers - genetics | DNA Transposable Elements - genetics | Conserved Sequence | Listeria monocytogenes - genetics | RNA, Small Untranslated - genetics | Models, Genetic | Internet | Listeria monocytogenes - physiology | Evolution, Molecular | Prophages - physiology | Microbial genetics | Usage | Listeria monocytogenes | Physiological aspects | Genetic aspects | Nucleotide sequencing | Research | DNA sequencing | Proteins | Oxidative stress | Microbiology | Listeria | Mortality | Bacteria | Regulation | Genomes | Gene expression | Experiments | Adaptations | Pathogens | Integration | RNA | Phages | Virulence | Listeriosis | Data processing | Evolutionary genetics | Single-nucleotide polymorphism | Host-pathogen interactions | Cores | Pathogenicity | Serotypes | Evolution | genomics | Models | Mutation | Prophages | transposon Tn916 | Islands | Niches | Food
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4. Full Text Rapid protein alignment in the cloud: HAMOND combines fast DIAMOND alignments with Hadoop parallelism
by Yu, Jia and Blom, Jochen and Sczyrba, Alexander and Goesmann, Alexander
Journal of Biotechnology, ISSN 0168-1656, 09/2017, Volume 257, pp. 58 - 60
The introduction of next generation sequencing has caused a steady increase in the amounts of data that have to be processed in modern life science. Sequence... 
Cloud computing | Parallel computing | Sequence alignment | SEARCH TOOL | SIMILARITY | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | Computational Biology | Molecular Sequence Data | Sequence Alignment - instrumentation | Whole Genome Sequencing | Sequence Alignment - methods | Sequence Analysis, DNA - instrumentation | Cloud Computing | Comparative Genomic Hybridization | Software | High-Throughput Nucleotide Sequencing - instrumentation | Internet | Genomics - methods | High-Throughput Nucleotide Sequencing - methods | Metagenome | Sequence Analysis, DNA - methods | Nucleotide sequencing | Analysis | Genomics | DNA sequencing
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5. Full Text Metabolic and evolutionary patterns in the extremely acidophilic archaeon Ferroplasma acidiphilum YT
by Golyshina, Olga V and Tran, Hai and Reva, Oleg N and Lemak, Sofia and Yakunin, Alexander F and Goesmann, Alexander and Nechitaylo, Taras Y and Lacono, Violetta and Smedile, Francesco and Slesarev, Alexei and Rojo, David and Barbas, Coral and Ferrer, Manuel and Yakimov, Michail M and Golyshin, Peter N
Scientific Reports, ISSN 2045-2322, 12/2017, Volume 7, Issue 1, pp. 1 - 12
Ferroplasmaceae represent ubiquitous iron-oxidising extreme acidophiles with a number of unique physiological traits. In a genome-based study of Ferroplasma... 
Glycolysis | Pyruvic acid | Genomes | Mutation | Ferredoxin | Sugar | Fructose | a-Ketoglutaric acid | Gluconeogenesis
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6. Full Text Visualization of omics data for systems biology
by Kitano, Hiroaki and Gavin, Anne-Claude and Gehlenborg, Nils and O'Donoghue, Seán I and Tenenbaum, Dan and Kohlbacher, Oliver and Baliga, Nitin S and Hibbs, Matthew A and Neuweger, Heiko and Schneider, Reinhard and Goesmann, Alexander
Nature Methods, ISSN 1548-7091, 03/2010, Volume 7, Issue 3s, pp. S56 - S68
High-throughput studies of biological systems are rapidly accumulating a wealth of 'omics'-scale data. Visualization is a key aspect of both the analysis and... 
GENE-EXPRESSION DATA | NETWORK VISUALIZATION | BIOCONDUCTOR PACKAGE | CYTOSCAPE PLUGIN | MICROARRAY DATA-ANALYSIS | BIOCHEMICAL RESEARCH METHODS | METABOLIC PATHWAYS | QUALITY ASSESSMENT | MASS-SPECTROMETRY | CLUSTER-ANALYSIS | ANALYSIS TOOL | Metabolomics | Image Processing, Computer-Assisted | Genomics | Mass Spectrometry | Proteomics | Nuclear Magnetic Resonance, Biomolecular | Protein Binding | Systems Biology | Research | Visualization (Mental images) | Gene expression | Analysis | Proteins | Biology | Scientific imaging | Research methodology
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7. Full Text The genome of the recently domesticated crop plant sugar beet (Beta vulgaris)
by Dohm, Juliane C and Minoche, André E and Holtgräwe, Daniela and Capella-Gutiérrez, Salvador and Zakrzewski, Falk and Tafer, Hakim and Rupp, Oliver and Sörensen, Thomas Rosleff and Stracke, Ralf and Reinhardt, Richard and Goesmann, Alexander and Kraft, Thomas and Schulz, Britta and Stadler, Peter F and Schmidt, Thomas and Gabaldón, Toni and Lehrach, Hans and Weisshaar, Bernd and Himmelbauer, Heinz
Nature, ISSN 0028-0836, 2014, Volume 505, Issue 7484, pp. 546 - 549
Sugar beet (Beta vulgaris ssp. vulgaris) is an important crop of temperate climates which provides nearly 30% of the world's annual sugar production and is a... 
RNA GENES | DATABASE | INTEGRATION | FAMILIES | DNA | MULTIDISCIPLINARY SCIENCES | SEQUENCE | RESISTANCE GENE ANALOGS | DE-NOVO IDENTIFICATION | PROGRAM | Ethanol - metabolism | Genome, Plant - genetics | Genomics | Carbohydrate Metabolism | Molecular Sequence Data | In Situ Hybridization, Fluorescence | Phylogeny | Sequence Analysis, DNA | Beta vulgaris - genetics | Spinacia oleracea - genetics | Crops, Agricultural - genetics | Biofuels - supply & distribution | Chromosomes, Plant - genetics | Botanical research | Plant breeding | Plant physiology | Plant genetics | Physiological aspects | Sugar beet | Genetic aspects | Research | Proteins | Vegetables | Genes | Phylogenetics | Genomes | Artificial chromosomes | Genètica | Conreu | Remolatxes
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8. Full Text EDGAR: A software framework for the comparative analysis of prokaryotic genomes
by Blom, Jochen and Albaum, Stefan P and Doppmeier, Daniel and Pühler, Alfred and Vorhölter, Frank-Jörg and Zakrzewski, Martha and Goesmann, Alexander
BMC Bioinformatics, ISSN 1471-2105, 05/2009, Volume 10, Issue 1, pp. 154 - 154
Background: The introduction of next generation sequencing approaches has caused a rapid increase in the number of completely sequenced genomes. As one result... 
STRAINS | XANTHAN GUM | ORTHOLOGS | BIOCHEMICAL RESEARCH METHODS | IDENTIFICATION | PATHOGENICITY | EVOLUTION | ALIGNMENT | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | ANNOTATION | SEQUENCE | MATHEMATICAL & COMPUTATIONAL BIOLOGY | INSIGHTS | User-Computer Interface | Genome, Bacterial | Databases, Genetic | Models, Genetic | Software | Phylogeny | Genomics - methods | Sequence Analysis, DNA - methods | Cluster Analysis | Xanthomonas - genetics | Microbial genetics | Usage | Prokaryotes | Genetic aspects | Nucleotide sequencing | Research | Comparative analysis | Applications software | Methods
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9. Full Text WebCARMA: A web application for the functional and taxonomic classification of unassembled metagenomic reads
by Gerlach, Wolfgang and Jünemann, Sebastian and Tille, Felix and Goesmann, Alexander and Stoye, Jens
BMC Bioinformatics, ISSN 1471-2105, 12/2009, Volume 10, Issue 1, pp. 430 - 430
Background: Metagenomics is a new field of research on natural microbial communities. High-throughput sequencing techniques like 454 or Solexa-Illumina promise... 
BIASES | GENOMES | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | BIOCHEMICAL RESEARCH METHODS | MATHEMATICAL & COMPUTATIONAL BIOLOGY | PHYLOGENETIC CLASSIFICATION | MICROBIAL COMMUNITY | IDENTIFICATION | Computational Biology - methods | Software | Internet | Genome | Genomics - methods | Metagenomics - methods | Usage | Research | Nucleotide sequencing | Gene expression | Applications software | Microbiology | Ontology | Taxonomy | Classification | Phylogenetics | Bacteria | Genomes | Programming languages | Data bases | Manuscripts | Methods
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10. Full Text An RNAi-Based Control of Fusarium graminearum Infections Through Spraying of Long dsRNAs Involves a Plant Passage and Is Controlled by the Fungal Silencing Machinery
by Koch, Aline and Biedenkopf, Dagmar and Furch, Alexandra and Weber, Lennart and Rossbach, Oliver and Abdellatef, Eltayb and Linicus, Lukas and Johannsmeier, Jan and Jelonek, Lukas and Goesmann, Alexander and Cardoza, Vinitha and McMillan, John and Mentzel, Tobias and Kogel, Karl-Heinz
PLoS Pathogens, ISSN 1553-7366, 10/2016, Volume 12, Issue 10, p. e1005901
Meeting the increasing food and energy demands of a growing population will require the development of ground-breaking strategies that promote sustainable... 
SYSTEM | TRANSFORMATION | IMMUNITY | DOUBLE-STRANDED-RNA | SYNTHASE GENE | HOST | MICROBIOLOGY | VIROLOGY | BARLEY | RESISTANCE | INTERFERENCE | EXPRESSION | PARASITOLOGY | Microscopy, Confocal | Blotting, Northern | RNA, Double-Stranded - administration & dosage | RNA Interference | Biological Control Agents - administration & dosage | Pest Control, Biological - methods | Plants, Genetically Modified | Fusariosis - prevention & control | Hordeum - parasitology | Hordeum - genetics | Plant Diseases - prevention & control | RNA, Small Interfering - administration & dosage | Fusarium | Genetic aspects | Research | RNA | Gene expression | Barley | Nutrition | Funding | Genes | Biology | Biosynthesis | Fungal infections | Machinery | Disease control | Land use | Plant diseases | Microscopy | Crop diseases | Plant sciences | Bioinformatics
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