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52 Publikationen

2019 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2934798
H. Pankoke, et al., “F5Evaluation of commercially available DNA extraction kits for the analysis of the broiler chicken cecal microbiota.”, FEMS microbiology letters, 2019.
PUB | DOI | PubMed | Europe PMC
 
2019 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2935923
J. Nelkner, et al., “Effect of Long-Term Farming Practices on Agricultural Soil Microbiome Members Represented by Metagenomically Assembled Genomes (MAGs) and Their Predicted Plant-Beneficial Genes”, Genes, vol. 10, 2019, : 424.
PUB | PDF | DOI | Download (ext.) | WoS | PubMed | Europe PMC
 
2019 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2933767
A. Fritz, et al., “CAMISIM: simulating metagenomes and microbial communities”, Microbiome, vol. 7, 2019, : 17.
PUB | DOI | WoS | PubMed | Europe PMC
 
2018 | Bielefelder E-Dissertation | PUB-ID: 2918990
M. Rumming, Metadata-driven computational (meta)genomics. A practical machine learning approach, Bielefeld: Universität Bielefeld, 2018.
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2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2916929
Y. Stolze, et al., “Targeted in situ metatranscriptomics for selected taxa from mesophilic and thermophilic biogas plants”, Microbial Biotechnology, vol. 11, 2018, pp. 667-679.
PUB | DOI | WoS | PubMed | Europe PMC
 
2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2920777
J.S. Celis, et al., “Binning Enables Efficient Host Genome Reconstruction in Cnidarian Holobionts”, GigaScience, vol. 7, 2018, : giy075.
PUB | DOI | WoS | PubMed | Europe PMC
 
2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2920723
F. Meyer, et al., “AMBER: Assessment of Metagenome BinnERs”, GigaScience, 2018, : giy069.
PUB | DOI | WoS | PubMed | Europe PMC
 
2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2930593
M. Linden, et al., “Common ELIXIR Service for Researcher Authentication and Authorisation”, F1000Research, vol. 7, 2018, : 1199.
PUB | DOI | Download (ext.) | PubMed | Europe PMC
 
2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2915890
L. Huang, J. Krüger, and A. Sczyrba, “Analyzing large scale genomic data on the cloud with Sparkhit”, Bioinformatics, vol. 34, 2018, pp. 1457-1465.
PUB | DOI | WoS | PubMed | Europe PMC
 
2018 | Bielefelder Masterarbeit | PUB-ID: 2919932
M. Wiens, Concept, design and initial implementation of the de.NBI Cloud Portal, Bielefeld: Universität Bielefeld, 2018.
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2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2920750
I. Maus, et al., “Characterization of Bathyarchaeota genomes assembled from metagenomes of biofilms residing in mesophilic and thermophilic biogas reactors”, Biotechnology for Biofuels, vol. 11, 2018, : 167.
PUB | DOI | WoS | PubMed | Europe PMC
 
2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2918275
E.J. Fleming, et al., “Insights into the fundamental physiology of the uncultured Fe-oxidizing bacterium Leptothrix ochracea”, Applied and Environmental Microbiology, vol. 84, 2018, : e02239-17.
PUB | DOI | WoS | PubMed | Europe PMC
 
2017 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2909153
J. Yu, et al., “Rapid protein alignment in the cloud: HAMOND combines fast DIAMOND alignments with Hadoop parallelism”, Journal of Biotechnology, vol. 257, 2017, pp. 58-60.
PUB | DOI | WoS | PubMed | Europe PMC
 
2017 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2913556
S. Jünemann, et al., “Bioinformatics for NGS-based metagenomics and the application to biogas research”, Journal of Biotechnology, vol. 261, 2017, pp. 10-23.
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2017 | Datenpublikation | PUB-ID: 2914921
L. Huang, J. Krüger, and A. Sczyrba, Sparkhit evaluation data set. Bielefeld University, 2017. doi:10.4119/unibi/2914921.
PUB | Dateien verfügbar | DOI
 
2017 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2914367
A. Sczyrba, et al., “Critical Assessment of Metagenome Interpretation—a benchmark of metagenomics software”, Nature Methods, vol. 14, 2017, pp. 1063-1071.
PUB | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2904815
Y. Stolze, et al., “Identification and genome reconstruction of abundant distinct taxa in microbiomes from one thermophilic and three mesophilic production-scale biogas plants”, Biotechnology for Biofuels, vol. 9, 2016, : 156.
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2016 | Bielefelder E-Dissertation | PUB-ID: 2906743
A. Bremges, Assembling the microbial dark matter, Bielefeld: Universität Bielefeld, 2016.
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2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2907633
M. Lux, et al., “acdc – Automated Contamination Detection and Confidence estimation for single-cell genome data”, BMC Bioinformatics, vol. 17, 2016, : 543.
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2904836
R. Heyer, et al., “Proteotyping of biogas plant microbiomes separates biogas plants according to process temperature and reactor type”, Biotechnology for Biofuels, vol. 9, 2016, : 155.
PUB | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2903489
I. Maus, et al., “Genomic characterization of Defluviitoga tunisiensis L3, a key hydrolytic bacterium in a thermophilic biogas plant and its abundance as determined by metagenome fragment recruitment”, Journal of Biotechnology, vol. 232, 2016, pp. 50-60.
PUB | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2903302
D. Wibberg, et al., “Finished genome sequence and methylome of the cyanide-degrading Pseudomonas pseudoalcaligenes strain CECT5344 as resolved by single-molecule real-time sequencing”, Journal of Biotechnology, vol. 232, 2016, pp. 61-68.
PUB | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2902190
F. Stiefel, et al., “miRNA profiling of high, low and non-producing CHO cells during biphasic fed-batch cultivation reveals process relevant targets for host cell engineering”, Journal of Biotechnology, vol. 225, 2016, pp. 31-43.
PUB | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2901418
S.B. Campos, et al., “Soil suppressiveness and its relations with the microbial community in a Brazilian subtropical agroecosystem under different management systems”, Soil Biology and Biochemistry, vol. 96, 2016, pp. 191-197.
PUB | DOI | WoS
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2901729
A. Bremges, et al., “MeCorS: Metagenome-enabled error correction of single cell sequencing reads”, Bioinformatics, vol. 32, 2016, pp. 2199-2201.
PUB | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2900928
J. Nesme, et al., “Back to the future of soil metagenomics”, Frontiers in Microbiology, vol. 7, 2016, : 73.
PUB | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2901675
T. Krahn, et al., “Intraspecies transfer of the chromosomally encoded Acinetobacter baumannii blaNDM-1 carbapenemase gene.”, Antimicrobial Agents and Chemotherapy, vol. 60, 2016, pp. 3032-3040.
PUB | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2905260
I. Maus, et al., “Unraveling the microbiome of a thermophilic biogas plant by metagenome and metatranscriptome analysis complemented by characterization of bacterial and archaeal isolates”, Biotechnology for Biofuels, vol. 9, 2016, : 171.
PUB | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2904234
V. Ortseifen, et al., “An integrated metagenome and -proteome analysis of the microbial community residing in a biogas production plant”, Journal of Biotechnology, vol. 231, 2016, pp. 268-279.
PUB | DOI | WoS | PubMed | Europe PMC
 
2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2764906
A. Bremges, et al., “Deeply sequenced metagenome and metatranscriptome of a biogas-producing microbial community from an agricultural production-scale biogas plant”, GigaScience, vol. 4, 2015, : 33.
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2762833
F. Kohrs, et al., “Fractionation of biogas plant sludge material improves metaproteomic characterization to investigate metabolic activity of microbial communities”, Proteomics, vol. 15, 2015, pp. 3585-3589.
PUB | DOI | WoS | PubMed | Europe PMC
 
2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2726183
E.K. Field, et al., “Genomic insights into the uncultivated marine Zetaproteobacteria at Loihi Seamount”, The ISME journal, vol. 9, 2015, pp. 857-870.
PUB | DOI | WoS | PubMed | Europe PMC
 
2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2782501
P. Belmann, et al., “Bioboxes: standardised containers for interchangeable bioinformatics software”, GigaScience, vol. 4, 2015, : 47.
PUB | DOI | WoS | PubMed | Europe PMC
 
2015 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2901612
M. Lux, A. Sczyrba, and B. Hammer, “Automatic discovery of metagenomic structure”, 2015 International Joint Conference on Neural Networks (IJCNN), Institute of Electrical & Electronics Engineers (IEEE), 2015.
PUB | DOI
 
2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2726156
B.G. Paul, et al., “Targeted diversity generation by intraterrestrial archaea and archaeal viruses”, Nature Communications, vol. 6, 2015, pp. 6585.
PUB | DOI | WoS | PubMed | Europe PMC
 
2015 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 2901462
M. Rumming, P. Krusche, and P.M. Tedder, “Developing gold standard variant calls for whole-genome somatic variant calling using supervised learning”, Presented at the Cancer Genomics - EMBL Conference, EMBL Heidelberg, 2015.
PUB
 
2015 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 2901466
B. Osterholz, et al., “A Bioinformatics Pipeline for the Detection of β-lactamase Genes in Metagenome Sequence Data and its Application to Production-Scale Biogas Plants”, Presented at the 3rd International Symposium on the environmental Dimension of Antibiotic Resistance, Wernigerode, 2015.
PUB
 
2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2685992
H. Piao, et al., “Temporal dynamics of fibrolytic and methanogenic rumen microorganisms during in situ incubation of switchgrass determined by 16S rRNA gene profiling”, Frontiers in Microbiology, vol. 5, 2014.
PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC
 
2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2654433
J. Kamke, et al., “The Candidate Phylum Poribacteria by Single-Cell Genomics: New Insights into Phylogeny, Cell-Compartmentation, Eukaryote-Like Repeat Proteins, and Other Genomic Features”, PLoS ONE, vol. 9, 2014, : e87353.
PUB | DOI | WoS | PubMed | Europe PMC
 
2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2689051
T.W. Ghylin, et al., “Comparative single-cell genomics reveals potential ecological niches for the freshwater acI Actinobacteria lineage”, The ISME Journal, vol. 8, 2014, pp. 2503-2516.
PUB | DOI | WoS | PubMed | Europe PMC
 
2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2672695
B.K. Swan, et al., “Genomic and metabolic diversity of marine group I thaumarchaeota in the mesopelagic of two subtropical gyres”, PloS one, vol. 9, 2014, pp. 95380.
PUB | DOI | WoS | PubMed | Europe PMC
 
2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2665333
B. Henrich, et al., “Mycoplasma salivarium as a Dominant Coloniser of Fanconi Anaemia Associated Oral Carcinoma”, PLoS ONE, vol. 9, 2014, pp. e92297.
PUB | DOI | WoS | PubMed | Europe PMC
 
2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2662055
D. Wibberg, et al., “Complete genome sequence of the cyanide-degrading bacterium Pseudomonas pseudoalcaligenes CECT5344”, Journal of biotechnology, vol. 175, 2014, pp. 67-68.
PUB | DOI | WoS | PubMed | Europe PMC
 
2013 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2623500
A. Gisbrecht, et al., “Nonlinear dimensionality reduction for cluster identification in metagenomic samples”, 17th International Conference on Information Visualisation IV 2013, E. Banissi, ed., 2013, pp.174-179.
PUB
 
2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2613567
C. Rinke, et al., “Insights into the phylogeny and coding potential of microbial dark matter”, Nature, vol. 499, 2013, pp. 431-437.
PUB | DOI | WoS | PubMed | Europe PMC
 
2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2563424
J.H. Campbell, et al., “UGA is an additional glycine codon in uncultured SR1 bacteria from the human microbiota”, Proceedings of the National Academy of Sciences of the United States of America, vol. 110, 2013, pp. 5540-5545.
PUB | DOI | WoS | PubMed | Europe PMC
 
2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2638234
K. Zaremba-Niedzwiedzka, et al., “Single-cell genomics reveal low recombination frequencies in freshwater bacteria of the SAR11 clade”, Genome biology, vol. 14, 2013, pp. R130.
PUB | DOI | WoS | PubMed | Europe PMC
 
2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2641352
J. Kamke, et al., “Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges”, The ISME journal, vol. 7, 2013, pp. 2287-2300.
PUB | DOI | WoS | PubMed | Europe PMC
 
2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2563543
A.G. Campbell, et al., “Multiple Single-Cell Genomes Provide Insight into Functions of Uncultured Deltaproteobacteria in the Human Oral Cavity”, PLoS ONE, vol. 8, 2013, : e59361.
PUB | DOI | WoS | PubMed | Europe PMC
 
2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2613623
B.K. Swan, et al., “Prevalent genome streamlining and latitudinal divergence of planktonic bacteria in the surface ocean”, Proceedings of the National Academy of Sciences of the United States of America, vol. 110, 2013, pp. 11463-11468.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1784020
A.-L. Lamprecht, et al., “GeneFisher-P: variations of GeneFisher as processes in Bio-jETI”, BMC Bioinformatics, vol. 9, 2008, pp. S13.
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1588303
A. Sczyrba, S. Konermann, and R. Giegerich, “Two interactive bioinformatics courses at the bielefeld university bioinformatics server”, BRIEFINGS IN BIOINFORMATICS, vol. 9, 2008, pp. 243-249.
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