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76 Publikationen

2019 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2936223
Belmann P, Fischer B, Krüger J, Procházka M, Rasche H, Prinz M, Hanussek M, Lang M, Bartusch F, Gläßle B, Krüger J, Pühler A, Sczyrba A (2019)
de.NBI Cloud federation through ELIXIR AAI.
F1000Research 8: 842.
PUB | PDF | DOI | PubMed | Europe PMC
 
2019 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2934798
Pankoke H, Maus I, Loh G, Huser A, Seifert J, Tilker A, Hark S, Sczyrba A, Pelzer S, Kleinbolting J (2019)
F5Evaluation of commercially available DNA extraction kits for the analysis of the broiler chicken cecal microbiota.
FEMS microbiology letters.
PUB | DOI | PubMed | Europe PMC
 
2019 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2935923
Nelkner J, Henke C, Lin TW, Pätzold W, Hassa J, Jaenicke S, Grosch R, Pühler A, Sczyrba A, Schlüter A (2019)
Effect of Long-Term Farming Practices on Agricultural Soil Microbiome Members Represented by Metagenomically Assembled Genomes (MAGs) and Their Predicted Plant-Beneficial Genes.
Genes 10(6): 424.
PUB | PDF | DOI | Download (ext.) | WoS | PubMed | Europe PMC
 
2019 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2933767
Fritz A, Hofmann P, Majda S, Dahms E, Dröge J, Fiedler J, Lesker TR, Belmann P, DeMaere MZ, Darling AE, Sczyrba A, Bremges A, McHardy AC (2019)
CAMISIM: simulating metagenomes and microbial communities.
Microbiome 7: 17.
PUB | DOI | WoS | PubMed | Europe PMC
 
2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2916929
Stolze Y, Bremges A, Maus I, Pühler A, Sczyrba A, Schlüter A (2018)
Targeted in situ metatranscriptomics for selected taxa from mesophilic and thermophilic biogas plants.
Microbial Biotechnology 11(4): 667-679.
PUB | DOI | WoS | PubMed | Europe PMC
 
2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2920777
Celis JS, Wibberg D, Ramírez-Portilla C, Rupp O, Sczyrba A, Winkler A, Kalinowski J, Wilke T (2018)
Binning Enables Efficient Host Genome Reconstruction in Cnidarian Holobionts.
GigaScience 7(7): giy075.
PUB | DOI | WoS | PubMed | Europe PMC
 
2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2930593
Linden M, Prochazka M, Lappalainen I, Bucik D, Vyskocil P, Kuba M, Silén S, Belmann P, Sczyrba A, Newhouse S, Matyska L, Nyrönen T (2018)
Common ELIXIR Service for Researcher Authentication and Authorisation.
F1000Research 7: 1199.
PUB | DOI | Download (ext.) | PubMed | Europe PMC
 
2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2920723
Meyer F, Hofmann P, Belmann P, Garrido-Oter R, Fritz A, Sczyrba A, McHardy AC (2018)
AMBER: Assessment of Metagenome BinnERs.
GigaScience: giy069.
PUB | DOI | WoS | PubMed | Europe PMC
 
2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2915890
Huang L, Krüger J, Sczyrba A (2018)
Analyzing large scale genomic data on the cloud with Sparkhit.
Bioinformatics 34(9): 1457-1465.
PUB | DOI | WoS | PubMed | Europe PMC
 
2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2920750
Maus I, Rumming M, Bergmann I, Heeg K, Pohl M, Nettmann E, Jaenicke S, Blom J, Pühler A, Schlüter A, Sczyrba A, Klocke M (2018)
Characterization of Bathyarchaeota genomes assembled from metagenomes of biofilms residing in mesophilic and thermophilic biogas reactors.
Biotechnology for Biofuels 11: 167.
PUB | DOI | WoS | PubMed | Europe PMC
 
2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2918275
Fleming EJ, Woyke T, Donatello AR, Kuypers MMM, Sczyrba A, Littmann S, Emerson D (2018)
Insights into the fundamental physiology of the uncultured Fe-oxidizing bacterium Leptothrix ochracea.
Applied and Environmental Microbiology 84(9): e02239-17.
PUB | DOI | WoS | PubMed | Europe PMC
 
2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2914959
da Schoren Costa P, Bolzan de Campos S, Albersmeier A, Dirksen P, Pereira Dresseno AL, Andrade Pais dos Santos OJ, Lima Milani KM, Etto RM, Battistus AG, Peres Rodrigues da Costa AC, Martinez de Oliveira AL, Weigert Galvão C, Guimarães VF, Sczyrba A, Wendisch VF, Passaglia L (2018)
Invasion ecology applied to inoculation of plant growth promoting bacteria through a novel SIMPER-PCA approach.
Plant and Soil 422(1-2): 467-478.
PUB | DOI | WoS
 
2017 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2909153
Yu J, Blom J, Sczyrba A, Goesmann A (2017)
Rapid protein alignment in the cloud: HAMOND combines fast DIAMOND alignments with Hadoop parallelism.
Journal of Biotechnology 257: 58-60.
PUB | DOI | WoS | PubMed | Europe PMC
 
2017 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2913556
Jünemann S, Kleinbölting N, Jaenicke S, Henke C, Hassa J, Nelkner J, Stolze Y, Albaum S, Schlüter A, Goesmann A, Sczyrba A, Stoye J (2017)
Bioinformatics for NGS-based metagenomics and the application to biogas research.
Journal of Biotechnology 261(SI): 10-23.
PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC
 
2017 | Datenpublikation | PUB-ID: 2914921
Huang L, Krüger J, Sczyrba A (2017)
Sparkhit evaluation data set.
Bielefeld University.
PUB | Dateien verfügbar | DOI
 
2017 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2915516
Maus I, Bremges A, Stolze Y, Hahnke S, Cibis KG, Koeck DE, Kim YS, Kreubel J, Hassa J, Wibberg D, Weimann A, Off S, Stantscheff R, Zverlov VV, Schwarz WH, König H, Liebl W, Scherer P, McHardy AC, Sczyrba A, Klocke M, Pühler A, Schlüter A (2017)
Genomics and prevalence of bacterial and archaeal isolates from biogas-producing microbiomes.
Biotechnology for Biofuels 10(1): 264.
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2017 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2914367
Sczyrba A, Hofmann P, Belmann P, Koslicki D, Janssen S, Dröge J, Gregor I, Majda S, Fiedler J, Dahms E, Bremges A, Fritz A, Garrido-Oter R, Jørgensen TS, Shapiro N, Blood PD, Gurevich A, Bai Y, Turaev D, DeMaere MZ, Chikhi R, Nagarajan N, Quince C, Meyer F, Balvočiūtė M, Hansen LH, Sørensen SJ, Chia BKH, Denis B, Froula JL, Wang Z, Egan R, Don Kang D, Cook JJ, Deltel C, Beckstette M, Lemaitre C, Peterlongo P, Rizk G, Lavenier D, Wu Y-W, Singer SW, Jain C, Strous M, Klingenberg H, Meinicke P, Barton MD, Lingner T, Lin H-H, Liao Y-C, Silva GGZ, Cuevas DA, Edwards RA, Saha S, Piro VC, Renard BY, Pop M, Klenk H-P, Göker M, Kyrpides NC, Woyke T, Vorholt JA, Schulze-Lefert P, Rubin EM, Darling AE, Rattei T, McHardy AC (2017)
Critical Assessment of Metagenome Interpretation—a benchmark of metagenomics software.
Nature Methods 14(11): 1063-1071.
PUB | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2904815
Stolze Y, Bremges A, Rumming M, Henke C, Maus I, Pühler A, Sczyrba A, Schlüter A (2016)
Identification and genome reconstruction of abundant distinct taxa in microbiomes from one thermophilic and three mesophilic production-scale biogas plants.
Biotechnology for Biofuels 9: 156.
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2907633
Lux M, Krüger J, Rinke C, Maus I, Schlüter A, Woyke T, Sczyrba A, Hammer B (2016)
acdc – Automated Contamination Detection and Confidence estimation for single-cell genome data.
BMC Bioinformatics 17: 543.
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2904836
Heyer R, Benndorf D, Kohrs F, De Vrieze J, Boon N, Hoffmann M, Rapp E, Schlüter A, Sczyrba A, Reichl U (2016)
Proteotyping of biogas plant microbiomes separates biogas plants according to process temperature and reactor type.
Biotechnology for Biofuels 9(1): 155.
PUB | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2903489
Maus I, Cibis KG, Bremges A, Stolze Y, Wibberg D, Tomazetto G, Blom J, Sczyrba A, König H, Pühler A, Schlüter A (2016)
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 232: 50-60.
PUB | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2903302
Wibberg D, Bremges A, Dammann-Kalinowski T, Maus I, Igeño MI, Vogelsang R, König C, Luque-Almagro VM, Roldán MD, Sczyrba A, Moreno-Vivián C, Blasco R, Pühler A, Schlüter A (2016)
Finished genome sequence and methylome of the cyanide-degrading Pseudomonas pseudoalcaligenes strain CECT5344 as resolved by single-molecule real-time sequencing.
Journal of Biotechnology 232: 61-68.
PUB | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2901418
Campos SB, Lisboa BB, Camargo FAO, Bayer C, Sczyrba A, Dirksen P, Albersmeier A, Kalinowski J, Beneduzi A, Costa PB, Passaglia LMP, Vargas LK, Wendisch VF (2016)
Soil suppressiveness and its relations with the microbial community in a Brazilian subtropical agroecosystem under different management systems.
Soil Biology and Biochemistry 96: 191-197.
PUB | DOI | WoS
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2902190
Stiefel F, Fischer S, Sczyrba A, Otte K, Hesse F (2016)
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 225: 31-43.
PUB | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2901729
Bremges A, Singer E, Woyke T, Sczyrba A (2016)
MeCorS: Metagenome-enabled error correction of single cell sequencing reads.
Bioinformatics 32(14): 2199-2201.
PUB | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2900928
Nesme J, Achouak W, Agathos S, Bailey M, Baldrian P, Brunel D, Frostegard A, Heulin T, Jansson JK, Jurkevitch E, Kowalchuk GA, Kruus KL, Lagares A, Lapin-Scott HM, Le Paslier D, ic-Mulec I, Murrell C, Myrold DD, Nalin R, Nannipieri P, Neufeld JD, O'Gara F, Parnell JJ, Pühler A, Pylro V, Ramos JL, Roesch L, Schleper C, Schloter M, Sczyrba A, Sessitsch A, Sjöling S, Sørensen J, Sørensen SJ, Tebbe CC, Topp E, Tsiamis G, Van Elsas JD, Van Keulen G, Wagner M, Widmer F, Zhang T, Zhang X, Zhao L, Zhu Y-G, Vogel TM, Simonet P (2016)
Back to the future of soil metagenomics.
Frontiers in Microbiology 7: 73.
PUB | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2901675
Krahn T, Wibberg D, Maus I, Winkler A, Bontron S, Sczyrba A, Nordmann P, Pühler A, Poirel L, Schlüter A (2016)
Intraspecies transfer of the chromosomally encoded Acinetobacter baumannii blaNDM-1 carbapenemase gene.
Antimicrobial Agents and Chemotherapy 60(5): 3032-3040.
PUB | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2905260
Maus I, Koeck DE, Cibis KG, Hahnke S, Kim YS, Langer T, Kreubel J, Erhard M, Bremges A, Off S, Stolze Y, Jaenicke S, Goesmann A, Sczyrba A, Scherer P, König H, Schwarz WH, Zverlov VV, Liebl W, Pühler A, Schlüter A, Klocke M (2016)
Unraveling the microbiome of a thermophilic biogas plant by metagenome and metatranscriptome analysis complemented by characterization of bacterial and archaeal isolates.
Biotechnology for Biofuels 9(1): 171.
PUB | DOI | WoS | PubMed | Europe PMC
 
2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2904234
Ortseifen V, Stolze Y, Maus I, Sczyrba A, Bremges A, Albaum S, Jaenicke S, Fracowiak J, Pühler A, Schlüter A (2016)
An integrated metagenome and -proteome analysis of the microbial community residing in a biogas production plant.
Journal of Biotechnology 231: 268-279.
PUB | DOI | WoS | PubMed | Europe PMC
 
2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2764906
Bremges A, Maus I, Belmann P, Eikmeyer FG, Winkler A, Albersmeier A, Pühler A, Schlüter A, Sczyrba A (2015)
Deeply sequenced metagenome and metatranscriptome of a biogas-producing microbial community from an agricultural production-scale biogas plant.
GigaScience 4(1): 33.
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2762833
Kohrs F, Wolter S, Benndorf D, Heyer R, Hoffmann M, Rapp E, Bremges A, Sczyrba A, Schlüter A, Reichl U (2015)
Fractionation of biogas plant sludge material improves metaproteomic characterization to investigate metabolic activity of microbial communities.
Proteomics 15(20): 3585-3589.
PUB | DOI | WoS | PubMed | Europe PMC
 
2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2726183
Field EK, Sczyrba A, Lyman AE, Harris CC, Woyke T, Stepanauskas R, Emerson D (2015)
Genomic insights into the uncultivated marine Zetaproteobacteria at Loihi Seamount.
The ISME journal 9: 857-870.
PUB | DOI | WoS | PubMed | Europe PMC
 
2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2782501
Belmann P, Dröge J, Bremges A, McHardy AC, Sczyrba A, Barton MD (2015)
Bioboxes: standardised containers for interchangeable bioinformatics software.
GigaScience 4: 47.
PUB | DOI | WoS | PubMed | Europe PMC
 
2015 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2901612
Lux M, Sczyrba A, Hammer B (2015)
Automatic discovery of metagenomic structure.
In: 2015 International Joint Conference on Neural Networks (IJCNN). Institute of Electrical & Electronics Engineers (IEEE).
PUB | DOI
 
2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2726156
Paul BG, Bagby SC, Czornyj E, Arambula D, Handa S, Sczyrba A, Ghosh P, Miller JF, Valentine DL (2015)
Targeted diversity generation by intraterrestrial archaea and archaeal viruses.
Nature Communications 6: 6585.
PUB | DOI | WoS | PubMed | Europe PMC
 
2015 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 2901466
Osterholz B, Wiebke P, Fust A, Rumming M, Schlüter A, Sczyrba A (2015)
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.
PUB
 
2015 | Report | Veröffentlicht | PUB-ID: 2901613
Lux M, Hammer B, Sczyrba A (2015)
Automated Contamination Detection in Single-Cell Sequencing.
Cold Spring Harbor Laboratory Press.
PUB | DOI
 
2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2685992
Piao H, Lachman M, Malfatti S, Sczyrba A, Knierim B, Auer M, Tringe SG, Mackie RI, Yeoman CJ, Hess M (2014)
Temporal dynamics of fibrolytic and methanogenic rumen microorganisms during in situ incubation of switchgrass determined by 16S rRNA gene profiling.
Frontiers in Microbiology 5(307).
PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC
 
2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2654433
Kamke J, Rinke C, Schwientek P, Mavromatis K, Ivanova N, Sczyrba A, Woyke T, Hentschel U (2014)
The Candidate Phylum Poribacteria by Single-Cell Genomics: New Insights into Phylogeny, Cell-Compartmentation, Eukaryote-Like Repeat Proteins, and Other Genomic Features.
PLoS ONE 9(1): e87353.
PUB | DOI | WoS | PubMed | Europe PMC
 
2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2689051
Ghylin TW, Garcia SL, Moya F, Oyserman BO, Schwientek P, Forest KT, Mutschler J, Dwulit-Smith J, Chan L-K, Martinez-Garcia M, Sczyrba A, Stepanauskas R, Grossart H-P, Woyke T, Warnecke F, Malmstrom R, Bertilsson S, McMahon KD (2014)
Comparative single-cell genomics reveals potential ecological niches for the freshwater acI Actinobacteria lineage.
The ISME Journal 8(12): 2503-2516.
PUB | DOI | WoS | PubMed | Europe PMC
 
2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2698163
Heins RA, Cheng X, Nath S, Deng K, Bowen BP, Chivian DC, Datta S, Friedland GD, D'Haeseleer P, Wu D, Tran-Gyamfi M, Scullin CS, Singh S, Shi W, Hamilton MG, Bendall ML, Sczyrba A, Thompson J, Feldman T, Guenther JM, Gladden JM, Cheng J-F, Adams PD, Rubin EM, Simmons BA, Sale KL, Northen TR, Deutsch S (2014)
Phylogenomically Guided Identification of Industrially Relevant GH1 β-Glucosidases through DNA Synthesis and Nanostructure-Initiator Mass Spectrometry.
ACS chemical biology 9(9): 2082-2091.
PUB | DOI | WoS | PubMed | Europe PMC
 
2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2672695
Swan BK, Chaffin MD, Martinez-Garcia M, Morrison HG, Field EK, Poulton NJ, Masland EDP, Harris CC, Sczyrba A, Chain PSG, Koren S, Woyke T, Stepanauskas R (2014)
Genomic and metabolic diversity of marine group I thaumarchaeota in the mesopelagic of two subtropical gyres.
PloS one 9(4): 95380.
PUB | DOI | WoS | PubMed | Europe PMC
 
2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2665333
Henrich B, Rumming M, Sczyrba A, Velleuer E, Dietrich R, Gerlach W, Gombert M, Rahn S, Stoye J, Borkhardt A, Fischer U (2014)
Mycoplasma salivarium as a Dominant Coloniser of Fanconi Anaemia Associated Oral Carcinoma.
PLoS ONE 9(3): e92297.
PUB | DOI | WoS | PubMed | Europe PMC
 
2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2662055
Wibberg D, Luque-Almagro VM, Igeño MI, Bremges A, Roldán MD, Merchán F, Sáez LP, Guijo MI, Manso MI, Macías D, Cabello P, Becerra G, Ibáñez MI, Carmona MI, Escribano MP, Castillo F, Sczyrba A, Moreno-Vivián C, Blasco R, Pühler A, Schlüter A (2014)
Complete genome sequence of the cyanide-degrading bacterium Pseudomonas pseudoalcaligenes CECT5344.
Journal of biotechnology 175: 67-68.
PUB | DOI | WoS | PubMed | Europe PMC
 
2013 | Konferenzbeitrag | PUB-ID: 2909357
Gisbrecht A, Hammer B, Mokbel B, Sczyrba A (2013)
Nonlinear dimensionality reduction for cluster identification in metagenomic samples.
In: IV. 174-179.
PUB
 
2013 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2623500
Gisbrecht A, Hammer B, Mokbel B, Sczyrba A (2013)
Nonlinear dimensionality reduction for cluster identification in metagenomic samples.
In: 17th International Conference on Information Visualisation IV 2013. Banissi E (Ed); 174-179.
PUB
 
2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2613567
Rinke C, Schwientek P, Sczyrba A, Ivanova NN, Anderson IJ, Cheng J-F, Darling A, Malfatti S, Swan BK, Gies EA, Dodsworth JA, Hedlund BP, Tsiamis G, Sievert SM, Liu W-T, Eisen JA, Hallam SJ, Kyrpides NC, Stepanauskas R, Rubin EM, Hugenholtz P, Woyke T (2013)
Insights into the phylogeny and coding potential of microbial dark matter.
Nature 499(7459): 431-437.
PUB | DOI | WoS | PubMed | Europe PMC
 
2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2563424
Campbell JH, O'Donoghue P, Campbell AG, Schwientek P, Sczyrba A, Woyke T, Söll D, Podar M (2013)
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 110(14): 5540-5545.
PUB | DOI | WoS | PubMed | Europe PMC
 
2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2638234
Zaremba-Niedzwiedzka K, Viklund J, Zhao W, Ast J, Sczyrba A, Woyke T, McMahon K, Bertilsson S, Stepanauskas R, Andersson SG (2013)
Single-cell genomics reveal low recombination frequencies in freshwater bacteria of the SAR11 clade.
Genome biology 14(11): R130.
PUB | DOI | WoS | PubMed | Europe PMC
 
2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2641352
Kamke J, Sczyrba A, Ivanova N, Schwientek P, Rinke C, Mavromatis K, Woyke T, Hentschel U (2013)
Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges.
The ISME journal 7(12): 2287-2300.
PUB | DOI | WoS | PubMed | Europe PMC
 
2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2563543
Campbell AG, Campbell JH, Schwientek P, Woyke T, Sczyrba A, Allman S, Beall CJ, Griffen A, Leys E, Podar M (2013)
Multiple Single-Cell Genomes Provide Insight into Functions of Uncultured Deltaproteobacteria in the Human Oral Cavity.
PLoS ONE 8(3): e59361.
PUB | DOI | WoS | PubMed | Europe PMC
 
2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2613623
Swan BK, Tupper B, Sczyrba A, Lauro FM, Martinez-Garcia M, González JM, Luo H, Wright JJ, Landry ZC, Hanson NW, Thompson BP, Poulton NJ, Schwientek P, Acinas SG, Giovannoni SJ, Moran MA, Hallam SJ, Cavicchioli R, Woyke T, Stepanauskas R (2013)
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 110(28): 11463-11468.
PUB | DOI | WoS | PubMed | Europe PMC
 
2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2518330
Garcia SL, McMahon KD, Martinez-Garcia M, Srivastava A, Sczyrba A, Stepanauskas R, Grossart H-P, Woyke T, Warnecke F (2012)
Metabolic potential of a single cell belonging to one of the most abundant lineages in freshwater bacterioplankton.
The ISME journal 7(1): 137-147.
PUB | DOI | WoS | PubMed | Europe PMC
 
2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2547307
El-Kalioby M, Abouelhoda M, Krüger J, Giegerich R, Sczyrba A, Wall DP, Tonellato P (2012)
Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package.
BMC Bioinformatics 13(Suppl 17): S22.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2329885
Swan BK, Martinez-Garcia M, Preston CM, Sczyrba A, Woyke T, Lamy D, Reinthaler T, Poulton NJ, Masland EDP, Gomez ML, Sieracki ME, DeLong EF, Herndl GJ, Stepanauskas R (2011)
Potential for Chemolithoautotrophy Among Ubiquitous Bacteria Lineages in the Dark Ocean.
Science 333(6047): 1296-1300.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2351462
Kim T-W, Chokhawala HA, Hess M, Dana CM, Baer Z, Sczyrba A, Rubin EM, Blanch HW, Clark DS (2011)
High-Throughput In Vitro Glycoside Hydrolase (HIGH) Screening for Enzyme Discovery.
Angewandte Chemie 123(47): 11411-11414.
PUB | DOI | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2789582
Sales CM, Mahendra S, Grostern A, Parales RE, Goodwin LA, Woyke T, Nolan M, Lapidus A, Chertkov O, Ovchinnikova G, Sczyrba A, Alvarez-Cohen L (2011)
Genome sequence of the 1,4-dioxane-degrading Pseudonocardia dioxanivorans strain CB1190.
Journal of Bacteriology 193(17): 4549-4550.
PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC | GenBank
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2410148
Woyke T, Sczyrba A, Lee J, Rinke C, Tighe D, Clingenpeel S, Malmstrom R, Stepanauskas R, Cheng J-F (2011)
Decontamination of MDA Reagents for Single Cell Whole Genome Amplification.
PLoS ONE 6(10): e26161.
PUB | DOI | WoS | PubMed | Europe PMC
 
2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1991643
Hess M, Sczyrba A, Egan R, Kim TW, Chokhawala H, Schroth G, Luo S, Clark DS, Chen F, Zhang T, Mackie RI, Pennacchio LA, Tringe SG, Visel A, Woyke T, Wang Z, Rubin EM (2011)
Metagenomic discovery of biomass-degrading genes and genomes from cow rumen.
Science 331(6016): 463-467.
PUB | DOI | WoS | PubMed | Europe PMC
 
2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1991615
Gilbert JA, Meyer F, Antonopoulos D, Balaji P, Brown CT, Desai N, Eisen JA, Evers D, Field D, Feng W, Huson D, Jansson J, Knight R, Knight J, Kolker E, Konstantindis K, Kostka J, Kyrpides N, Mackelprang R, McHardy A, Quince C, Raes J, Sczyrba A, Shade A, Stevens R (2010)
Meeting report: the terabase metagenomics workshop and the vision of an Earth microbiome project.
Stand Genomic Sci 3(3): 243-248.
PUB | DOI | PubMed | Europe PMC
 
2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1784020
Lamprecht A-L, Margaria T, Steffen B, Sczyrba A, Hartmeier S, Giegerich R (2008)
GeneFisher-P: variations of GeneFisher as processes in Bio-jETI.
BMC Bioinformatics 9(Suppl 4): S13.
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1588303
Sczyrba A, Konermann S, Giegerich R (2008)
Two interactive bioinformatics courses at the bielefeld university bioinformatics server.
BRIEFINGS IN BIOINFORMATICS 9(3): 243-249.
PUB | DOI | WoS | PubMed | Europe PMC
 
2006 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1599756
Spitzer M, Lorkowski S, Cullen P, Sczyrba A, Fuellen G (2006)
IsoSVM - Distinguishing isoforms and paralogs on the protein level.
BMC Bioinformatics 7(1): 110.
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773613
Sczyrba A, Beckstette M, Brivanlou AH, Giegerich R, Altmann CR (2005)
XenDB: Full length cDNA prediction and cross species mapping in Xenopus laevis.
BMC Genomics 6(1): 123.
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2383529
Beckstette M, Mailänder JT, Marhöfer RJ, Sczyrba A, Ohlebusch E, Giegerich R, Selzer PM (2004)
Genlight: Interactive high-throughput sequence analysis and comparative genomics.
Journal of Integrative Bioinformatics 1(1): 0008.
PUB | DOI
 
2004 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383536
Beckstette M, Sczyrba A, Selzer PM (2004)
Genlight: Interactive high-throughput sequence analysis and comparative genomics.
In: Proceedings of the German Conference on Bioinformatics. Lecture Notes in Informatics: GI: 179-186.
PUB
 
2004 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383561
Sczyrba A, Beckstette M, Giegerich R, Altman C (2004)
Identification of 10,500 Xenopus laevis Full Length Clones through EST Clustering and Sequence Analysis.
In: Proceedings of the German Conference on Bioinformatics. Lecture Notes in Informatics: GI.
PUB
 
2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1607400
Taher L, Rinner O, Garg S, Sczyrba A, Morgenstern B (2004)
AGenDA: gene prediction by cross-species sequence comparison.
Nucleic Acids Research 32(Web Server): W305-W308.
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1607394
Krüger J, Sczyrba A, Kurtz S, Giegerich R (2004)
e2g: an interactive web-based server for efficiently mapping large EST and cDNA sets to genomic sequences.
NUCLEIC ACIDS RESEARCH 32(Web Server): W301-W304.
PUB | PDF | DOI | WoS | PubMed | Europe PMC
 
2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1609260
Dondrup M, Goesmann A, Bartels D, Kalinowski J, Krause L, Linke B, Rupp O, Sczyrba A, Pühler A, Meyer F (2003)
EMMA: a platform for consistent storage and efficient analysis of microarray data.
JOURNAL OF BIOTECHNOLOGY 106(2-3): 135-146.
PUB | DOI | WoS | PubMed | Europe PMC
 
2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1612470
Morgenstern B, Goel S, Sczyrba A, Dress A (2003)
AltAVisT: Comparing alternative multiple sequence alignments.
BIOINFORMATICS 19(3): 425-426.
PUB | DOI | WoS | PubMed | Europe PMC
 
2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773844
Sczyrba A, Krüger J, Mersch H, Kurtz S, Giegerich R (2003)
RNA-related tools on the Bielefeld Bioinformatics Server.
Nucleic Acids Research 31(13): 3767-3770.
PUB | Dateien verfügbar | DOI | WoS | PubMed | Europe PMC
 
2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1610494
Taher L, Rinner O, Garg S, Sczyrba A, Brudno M, Batzoglou S, Morgenstern B (2003)
AGenDA: homology-based gene prediction.
BIOINFORMATICS 19(12): 1575-1577.
PUB | DOI | WoS | PubMed | Europe PMC
 
2001 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1897716
Gopal S, Schroeder M, Pieper U, Sczyrba A, Aytekin-Kurban G, Bekiranov S, Fajardo JE, Eswar N, Sanchez R, Sali A, Gaasterland T (2001)
Homology-based annotation yields 1,042 new candidate genes in the Drosophila melanogaster genome.
Nat Genet 27(3): 337-340.
PUB
 
2001 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1616752
Altmann CR, Bell E, Sczyrba A, Pun J, Bekiranov S, Gaasterland T, Brivanlou AH (2001)
Microarray-based analysis of early development in Xenopus laevis.
DEVELOPMENTAL BIOLOGY 236(1): 64-75.
PUB | DOI | WoS | PubMed | Europe PMC
 
2000 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1897767
Gaasterland T, Sczyrba A, Thomas E, Kurban G (2000)
MAGPIE/EGRET annotation of the 2.9-Mb Drosophila melanogaster Adh region.
Genome Res 10(4): 502-510.
PUB
 

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