107 Publikationen
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2024 | Preprint | Veröffentlicht | PUB-ID: 2993878Belmann, Peter, Osterholz, Benedikt, Kleinboelting, Nils, Pühler, Alfred, Schlüter, Andreas, and Sczyrba, Alexander. “Metagenomics-Toolkit: The Flexible and Efficient Cloud-Based Metagenomics Workflow featuring Machine Learning-Enabled Resource Allocation”. bioRxiv (2024).PUB | DOI
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2024 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2985402Heyer, Robert, Hellwig, Patrick, Maus, Irena, Walke, Daniel, Schlüter, Andreas, Hassa, Julia, Sczyrba, Alexander, Tubbesing, Tom Jonas, Klocke, Michael, Mächtig, Torsten, Schallert, Kay, Seick, Ingolf, Reichl, Udo, and Benndorf, Dirk. “Breakdown of hardly degradable carbohydrates (lignocellulose) in a two-stage anaerobic digestion plant is favored in the main fermenter”. Water Research 250 (2024): 121020.PUB | DOI
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2023 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2977923
Nelkner, Johanna, Huang, Liren, Lin, Timo W., Schulz, Alexander, Osterholz, Benedikt, Henke, Christian, Blom, Jochen, Pühler, Alfred, Sczyrba, Alexander, and Schlüter, Andreas. “Abundance, classification and genetic potential of Thaumarchaeota in metagenomes of European agricultural soils: a meta-analysis”. Environmental Microbiome 18.1 (2023): 26.PUB | PDF | DOI | WoS | PubMed | Europe PMC -
2023 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2983209
Hassa, Julia, Tubbesing, Tom Jonas, Maus, Irena, Heyer, Robert, Benndorf, Dirk, Effenberger, Mathias, Henke, Christian, Osterholz, Benedikt, Beckstette, Michael, Pühler, Alfred, Sczyrba, Alexander, and Schlüter, Andreas. “Uncovering Microbiome Adaptations in a Full-Scale Biogas Plant: Insights from MAG-Centric Metagenomics and Metaproteomics”. Microorganisms 11.10 (2023): 2412.PUB | PDF | DOI | Download (ext.) | WoS | PubMed | Europe PMC
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2023 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2984553Schimmler, Sonja, Altenhöner, Reinhard, Bernard, Lars, Fluck, Juliane, Klinger, Axel, Lorenz, Soeren, Mathiak, Brigitte, Miller, Bernhard, Ritz, Raphael, Schörner-Sadenius, Thomas, Sczyrba, Alexander, and Stein, Regine. “Base4NFDI - Basic Services for NFDI”. Proceedings of the Conference on Research Data Infrastructure 1 (2023).PUB | DOI
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2023 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2984552Hoffmann, Nils, Maus, Irena, Beier, Sebastian, Belmann, Peter, Krüger, Jan, Tauch, Andreas, Goesmann, Alexander, Eils, Roland, Bork, Peer, Kohlbacher, Oliver, Kummer, Ursula, Backofen, Rolf, Buchhalter, Ivo, and Sczyrba, Alexander. “Embedding the de.NBI Cloud in the National Research Data Infrastructure Activities”. Proceedings of the Conference on Research Data Infrastructure 1 (2023).PUB | DOI
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2023 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2984551Förstner, Konrad U., Becker, Anke, Blom, Jochen, Bork, Peer, Clavel, Thomas, Dieckmann, Marius, Goesmann, Alexander, Götz, Barbara, Gübitz, Thomas, Hufsky, Franziska, Jünemann, Sebastian, Körner, Marie-Louise, Marz, Manja, Da Rocha, Ulisses Nunes, Overmann, Jörg, Pühler, Alfred, Rebholz-Schuhmann, Dietrich, Sczyrba, Alexander, Stoye, Jens, Vandendorpe, Justine, Van Rossum, Thea, and McHardy, Alice. “NFDI4Microbiota – national research data infrastructure for microbiota research”. Research Ideas and Outcomes 9 (2023).PUB | DOI
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2023 | Zeitschriftenaufsatz | E-Veröff. vor dem Druck | PUB-ID: 2979860Wolf, Maximilian, Schallert, Kay, Knipper, Luca, Sickmann, Albert, Sczyrba, Alexander, Benndorf, Dirk, and Heyer, Robert. “Advances in the clinical use of metaproteomics”. Expert review of proteomics (2023).PUB | DOI | WoS | PubMed | Europe PMC
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2023 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2968667Olo Ndela, Eric, Roux, Simon, Henke, Christian, Sczyrba, Alexander, Sime Ngando, Telesphore, Varsani, Arvind, and Enault, Francois. “Reekeekee- and roodoodooviruses, two different Microviridae clades constituted by the smallest DNA phages”. Virus Evolution 9.1 (2023): veac123.PUB | DOI | WoS | PubMed | Europe PMC
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2022 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2969509Neri, Uri, Wolf, Yuri I., Roux, Simon, Camargo, Antonio Pedro, Lee, Benjamin, Kazlauskas, Darius, Chen, I. Min, Ivanova, Natalia, Zeigler Allen, Lisa, Paez-Espino, David, Bryant, Donald A., Bhaya, Devaki, Krupovic, Mart, Dolja, Valerian V., Kyrpides, Nikos C., Koonin, Eugene V., Gophna, Uri, Narrowe, Adrienne B., Probst, Alexander J., Sczyrba, Alexander, Kohler, Annegret, Séguin, Armand, Shade, Ashley, Campbell, Barbara J., Lindahl, Björn D., Reese, Brandi Kiel, Roque, Breanna M., DeRito, Chris, Averill, Colin, Cullen, Daniel, Beck, David A.C., Walsh, David A., Ward, David M., Wu, Dongying, Eloe-Fadrosh, Emiley, Brodie, Eoin L., Young, Erica B., Lilleskov, Erik A., Castillo, Federico J., Martin, Francis M., LeCleir, Gary R., Attwood, Graeme T., Cadillo-Quiroz, Hinsby, Simon, Holly M., Hewson, Ian, Grigoriev, Igor V., Tiedje, James M., Jansson, Janet K., Lee, Janey, VanderGheynst, Jean S., Dangl, Jeff, Bowman, Jeff S., Blanchard, Jeffrey L., Bowen, Jennifer L., Xu, Jiangbing, Banfield, Jillian F., Deming, Jody W., Kostka, Joel E., Gladden, John M., Rapp, Josephine Z., Sharpe, Joshua, McMahon, Katherine D., Treseder, Kathleen K., Bidle, Kay D., Wrighton, Kelly C., Thamatrakoln, Kimberlee, Nusslein, Klaus, Meredith, Laura K., Ramirez, Lucia, Buee, Marc, Huntemann, Marcel, Kalyuzhnaya, Marina G., Waldrop, Mark P., Sullivan, Matthew B., Schrenk, Matthew O., Hess, Matthias, Vega, Michael A., O’Malley, Michelle A., Medina, Monica, Gilbert, Naomi E., Delherbe, Nathalie, Mason, Olivia U., Dijkstra, Paul, Chuckran, Peter F., Baldrian, Petr, Constant, Philippe, Stepanauskas, Ramunas, Daly, Rebecca A., Lamendella, Regina, Gruninger, Robert J., McKay, Robert M., Hylander, Samuel, Lebeis, Sarah L., Esser, Sarah P., Acinas, Silvia G., Wilhelm, Steven S., Singer, Steven W., Tringe, Susannah S., Woyke, Tanja, Reddy, T.B.K., Bell, Terrence H., Mock, Thomas, McAllister, Tim, Thiel, Vera, Denef, Vincent J., Liu, Wen-Tso, Martens-Habbena, Willm, Allen Liu, Xiao-Jun, Cooper, Zachary S., and Wang, Zhong. “Expansion of the global RNA virome reveals diverse clades of bacteriophages”. Cell 185.21 (2022): 4023-4037.e18.PUB | DOI | WoS | PubMed | Europe PMC
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2022 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2969511Fremin, Brayon J., Bhatt, Ami S., Kyrpides, Nikos C., Sengupta, Aditi, Sczyrba, Alexander, Maria da Silva, Aline, Buchan, Alison, Gaudin, Amelie, Brune, Andreas, Hirsch, Ann M., Neumann, Anthony, Shade, Ashley, Visel, Axel, Campbell, Barbara, Baker, Brett, Hedlund, Brian P., Crump, Byron C., Currie, Cameron, Kelly, Charlene, Craft, Chris, Hazard, Christina, Francis, Christopher, Schadt, Christopher W., Averill, Colin, Mobilian, Courtney, Buckley, Dan, Hunt, Dana, Noguera, Daniel, Beck, David, Valentine, David L., Walsh, David, Sumner, Dawn, Lymperopoulou, Despoina, Bhaya, Devaki, Bryant, Donald A., Morrison, Elise, Brodie, Eoin, Young, Erica, Lilleskov, Erik, Högfors-Rönnholm, Eva, Chen, Feng, Stewart, Frank, Nicol, Graeme W., Teeling, Hanno, Beller, Harry R., Dionisi, Hebe, Liao, Hui-Ling, Beman, J. Michael, Stegen, James, Tiedje, James, Jansson, Janet, VanderGheynst, Jean, Norton, Jeanette, Dangl, Jeff, Blanchard, Jeffrey, Bowen, Jennifer, Macalady, Jennifer, Pett-Ridge, Jennifer, Rich, Jeremy, Payet, Jérôme P., Gladden, John D., Raff, Jonathan D., Klassen, Jonathan L., Tarn, Jonathan, Neufeld, Josh, Gravuer, Kelly, Hofmockel, Kirsten, Chen, Ko-Hsuan, Konstantinidis, Konstantinos, DeAngelis, Kristen M., Partida-Martinez, Laila P., Meredith, Laura, Chistoserdova, Ludmila, Moran, Mary Ann, Scarborough, Matthew, Schrenk, Matthew, Sullivan, Matthew, David, Maude, O'Malley, Michelle A., Medina, Monica, Habteselassie, Mussie, Ward, Nicholas D., Pietrasiak, Nicole, Mason, Olivia U., Sorensen, Patrick O., Estrada de los Santos, Paulina, Baldrian, Petr, McKay, R. Michael, Simister, Rachel, Stepanauskas, Ramunas, Neumann, Rebecca, Malmstrom, Rex, Cavicchioli, Ricardo, Kelly, Robert, Hatzenpichler, Roland, Stocker, Roman, Cattolico, Rose Ann, Ziels, Ryan, Vilgalys, Rytas, Blumer-Schuette, Sara, Crowe, Sean, Roux, Simon, Hallam, Steven, Lindow, Steven, Brawley, Susan H., Tringe, Susannah, Woyke, Tanja, Whitman, Thea, Bianchi, Thomas, Mock, Thomas, Donohue, Timothy, James, Timothy Y., Kalluri, Udaya C., Karaoz, Ulas, Denef, Vincent, Liu, Wen-Tso, Whitman, William, and Ouyang, Yang. “Thousands of small, novel genes predicted in global phage genomes”. Cell Reports 39.12 (2022): 110984.PUB | DOI | WoS | PubMed | Europe PMC
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2022 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2967098Khesali Aghtaei, Hoda, Püttker, Sebastian, Maus, Irena, Heyer, Robert, Huang, Liren, Sczyrba, Alexander, Reichl, Udo, and Benndorf, Dirk. “Adaptation of a microbial community to demand-oriented biological methanation”. Biotechnology for Biofuels and Bioproducts 15.1 (2022): 125.PUB | DOI | WoS | PubMed | Europe PMC
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2022 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2966901
Maus, Irena, Wibberg, Daniel, Belmann, Peter, Hahnke, Sarah, Huang, Liren, Spröer, Cathrin, Bunk, Boyke, Blom, Jochen, Sczyrba, Alexander, Pühler, Alfred, Klocke, Michael, and Schlüter, Andreas. “The novel oligopeptide utilizing species Anaeropeptidivorans aminofermentans M3/9T, its role in anaerobic digestion and occurrence as deduced from large-scale fragment recruitment analyses”. Frontiers in Microbiology 13 (2022): 1032515.PUB | PDF | DOI | Download (ext.) | WoS | PubMed | Europe PMC
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2022 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2966286
Joshi, Akshay, Young, Diana, Huang, Liren, Mosberger, Lona, Munk, Bernhard, Vinzelj, Julia, Flad, Veronika, Sczyrba, Alexander, Griffith, Gareth W., Podmirseg, Sabine Marie, Warthmann, Rolf, Lebuhn, Michael, and Insam, Heribert. “Effect of Growth Media on the Diversity of Neocallimastigomycetes from Non-Rumen Habitats”. Microorganisms 10.10 (2022): 1972.PUB | PDF | DOI | Download (ext.) | WoS | PubMed | Europe PMC
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2022 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2965465
Young, Diana, Joshi, Akshay, Huang, Liren, Munk, Bernhard, Wurzbacher, Christian, Youssef, Noha H., Elshahed, Mostafa S., Moon, Christina D., Ochsenreither, Katrin, Griffith, Gareth W., Callaghan, Tony M., Sczyrba, Alexander, Lebuhn, Michael, and Flad, Veronika. “Simultaneous Metabarcoding and Quantification of Neocallimastigomycetes from Environmental Samples: Insights into Community Composition and Novel Lineages”. Microorganisms 10.9 (2022): 1749.PUB | PDF | DOI | Download (ext.) | WoS | PubMed | Europe PMC
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2022 | Herausgeber*in Sammelwerk | Veröffentlicht | PUB-ID: 2963745
Alexander Sczyrba and German Network for Bioinformatics Infrastructure (de.NBI), eds. Development and Operation of the Federated de.NBI Cloud: Contributions of the German Network for Bioinformatics Infrastructure. Bielefeld: Center for Biotechnology, de.NBI Administration Office, 2022.PUB | PDF | DOI
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2022 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2962388Meyer, Fernando, Fritz, Adrian, Deng, Zhi-Luo, Koslicki, David, Lesker, Till Robin, Gurevich, Alexey, Robertson, Gary, Alser, Mohammed, Antipov, Dmitry, Beghini, Francesco, Bertrand, Denis, Brito, Jaqueline J., Brown, C. Titus, Buchmann, Jan, Buluç, Aydin, Chen, Bo, Chikhi, Rayan, Clausen, Philip T. L. C., Cristian, Alexandru, Dabrowski, Piotr Wojciech, Darling, Aaron E., Egan, Rob, Eskin, Eleazar, Georganas, Evangelos, Goltsman, Eugene, Gray, Melissa A., Hansen, Lars Hestbjerg, Hofmeyr, Steven, Huang, Pingqin, Irber, Luiz, Jia, Huijue, Jørgensen, Tue Sparholt, Kieser, Silas D., Klemetsen, Terje, Kola, Axel, Kolmogorov, Mikhail, Korobeynikov, Anton, Kwan, Jason, LaPierre, Nathan, Lemaitre, Claire, Li, Chenhao, Limasset, Antoine, Malcher-Miranda, Fabio, Mangul, Serghei, Marcelino, Vanessa R., Marchet, Camille, Marijon, Pierre, Meleshko, Dmitry, Mende, Daniel R., Milanese, Alessio, Nagarajan, Niranjan, Nissen, Jakob, Nurk, Sergey, Oliker, Leonid, Paoli, Lucas, Peterlongo, Pierre, Piro, Vitor C., Porter, Jacob S., Rasmussen, Simon, Rees, Evan R., Reinert, Knut, Renard, Bernhard, Robertsen, Espen Mikal, Rosen, Gail L., Ruscheweyh, Hans-Joachim, Sarwal, Varuni, Segata, Nicola, Seiler, Enrico, Shi, Lizhen, Sun, Fengzhu, Sunagawa, Shinichi, Sørensen, Søren Johannes, Thomas, Ashleigh, Tong, Chengxuan, Trajkovski, Mirko, Tremblay, Julien, Uritskiy, Gherman, Vicedomini, Riccardo, Wang, Zhengyang, Wang, Ziye, Wang, Zhong, Warren, Andrew, Willassen, Nils Peder, Yelick, Katherine, You, Ronghui, Zeller, Georg, Zhao, Zhengqiao, Zhu, Shanfeng, Zhu, Jie, Garrido-Oter, Ruben, Gastmeier, Petra, Hacquard, Stephane, Häußler, Susanne, Khaledi, Ariane, Maechler, Friederike, Mesny, Fantin, Radutoiu, Simona, Schulze-Lefert, Paul, Smit, Nathiana, Strowig, Till, Bremges, Andreas, Sczyrba, Alexander, and McHardy, Alice Carolyn. “Critical Assessment of Metagenome Interpretation: the second round of challenges”. Nature Methods 19 (2022): 429-440.PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC | Preprint
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2021 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2950292
Blifernez-Klassen, Olga, Klassen, Viktor, Wibberg, Daniel, Cebeci, Enis, Henke, Christian, Rückert, Christian, Chaudhari, Swapnil, Rupp, Oliver, Blom, Jochen, Winkler, Anika, Al-Dilaimi, Arwa, Goesmann, Alexander, Sczyrba, Alexander, Kalinowski, Jörn, Bräutigam, Andrea, and Kruse, Olaf. “Phytoplankton consortia as a blueprint for mutually beneficial eukaryote-bacteria ecosystems based on the biocoenosis of Botryococcus consortia”. Scientific Reports 11.1 (2021): 1726.PUB | PDF | DOI | WoS | PubMed | Europe PMC | Preprint
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2021 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2957501
Brandt, David, Simunovic, Marina, Busche, Tobias, Haak, Markus, Belmann, Peter, Jünemann, Sebastian, Schulz, Tizian, Klages, Levin Joe, Vinke, Svenja, Beckstette, Michael, Pohl, Ehmke, Scherer, Christiane, Sczyrba, Alexander, and Kalinowski, Jörn. “Multiple Occurrences of a 168-Nucleotide Deletion in SARS-CoV-2 ORF8, Unnoticed by Standard Amplicon Sequencing and Variant Calling Pipelines”. Viruses 13.9 (2021): 1870.PUB | PDF | DOI | WoS | PubMed | Europe PMC
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2021 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2956369Fritz, Adrian, Bremges, Andreas, Deng, Zhi-Luo, Lesker, Till Robin, Götting, Jasper, Ganzenmueller, Tina, Sczyrba, Alexander, Dilthey, Alexander, Klawonn, Frank, and McHardy, Alice Carolyn. “Haploflow: strain-resolved de novo assembly of viral genomes”. Genome Biology 22.1 (2021): 212.PUB | DOI | WoS | PubMed | Europe PMC | Preprint
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2021 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2960171Van Den Bossche, Tim, Kunath, Benoit J., Schallert, Kay, Schäpe, Stephanie S., Abraham, Paul E., Armengaud, Jean, Arntzen, Magnus Ø., Bassignani, Ariane, Benndorf, Dirk, Fuchs, Stephan, Giannone, Richard J., Griffin, Timothy J., Hagen, Live H., Halder, Rashi, Henry, Céline, Hettich, Robert L., Heyer, Robert, Jagtap, Pratik, Jehmlich, Nico, Jensen, Marlene, Juste, Catherine, Kleiner, Manuel, Langella, Olivier, Lehmann, Theresa, Leith, Emma, May, Patrick, Mesuere, Bart, Miotello, Guylaine, Peters, Samantha L., Pible, Olivier, Queiros, Pedro T., Reichl, Udo, Renard, Bernhard Y., Schiebenhoefer, Henning, Sczyrba, Alexander, Tanca, Alessandro, Trappe, Kathrin, Trezzi, Jean-Pierre, Uzzau, Sergio, Verschaffelt, Pieter, von Bergen, Martin, Wilmes, Paul, Wolf, Maximilian, Martens, Lennart, and Muth, Thilo. “Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows”. Nature Communications 12.1 (2021): 7305.PUB | DOI | WoS | PubMed | Europe PMC
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2021 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 2960900Leitner, Frauke, Carazo, Jose Maria, Bischof, Johanna, Haley, Natalie, Audergon, Pauline, Sorzano, Carlos Oscar, del Cano, Laura, Conesa, Pablo, Cox, Cymon J., De Moro, Gianluca, Erwan, Corre, Exter, Katrina, Le Corguillé, Gildas, Dallet, Romain, Gueguen, Lorraine, Heriche, Jean-Karim, Serrano, Beatriz, Sun, Yi, Burel, Jean-Marie, Zullino, Sara, Longo, Dario Livio, Pommier, Cyril, Hallab, Asis, Eiteneuer, Constantin, David, Romain, Usadel, Bjorn, Owen, Stuart, Gruden, Kristina, Pieruschka, Roland, Sczyrba, Alexander, Pühler, Alfred, Beracochea, Martin, Finn, Robert, Gribbon, Philip, Zaliani, Andrea, Skyner, Rachael, von Delft, Frank, Skuta, Ctibor, Leach, Andrew, Tang, Jing, Capella, Salvador, Fernández, José M., Rambla, Jordi, and Beltran, Sergi. “EOSC-Life Report on the work of the initial demonstrators”., 2021.PUB | DOI
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2021 | Zeitschriftenaufsatz | E-Veröff. vor dem Druck | PUB-ID: 2955512Aevarsson, Arnthor, Kaczorowska, Anna-Karina, Adalsteinsson, Bjorn Thor, Ahlqvist, Josefin, Al-Karadaghi, Salam, Altenbuchner, Joseph, Arsin, Hasan, Atlasson, Ulfur August, Brandt, David, Cichowicz-Cieslak, Magdalena, Cornish, Katy A S, Courtin, Jeremy, Dabrowski, Slawomir, Dahle, Hakon, Djeffane, Samia, Dorawa, Sebastian, Dusaucy, Julia, Enault, Francois, Fedoy, Anita-Elin, Freitag-Pohl, Stefanie, Fridjonsson, Olafur H, Galiez, Clovis, Glomsaker, Eirin, Guerin, Mickael, Gundeso, Sigurd E, Gudmundsdottir, Elisabet E, Gudmundsson, Hordur, Hakansson, Maria, Henke, Christian, Helleux, Alexandra, Henriksen, Jorn Remi, Hjorleifdottir, Sigridur, Hreggvidsson, Gudmundur O, Jasilionis, Andrius, Jochheim, Annika, Jonsdottir, Ilmur, Jonsdottir, Lilja Bjork, Jurczak-Kurek, Agata, Kaczorowski, Tadeusz, Kalinowski, Jörn, Kozlowski, Lukasz P, Krupovic, Mart, Kwiatkowska-Semrau, Karolina, Lanes, Olav, Lange, Joanna, Lebrat, Julien, Linares-Pasten, Javier, Liu, Ying, Lorentsen, Steffen A, Luttermann, Tobias, Mas, Thibaud, Merre, William, Mirdita, Milot, Morzywolek, Agnieszka, Ndela, Eric Olo, Karlsson, Eva Nordberg, Olgudottir, Edda, Pedersen, Cathrine, Perler, Francine, Petursdottir, Solveig K, Plotka, Magdalena, Pohl, Ehmke, Prangishvili, David, Ray, Jessica L, Reynisson, Birkir, Robertsdottir, Tara, Sandaa, Ruth-Anne, Sczyrba, Alexander, Skirnisdottir, Sigurlaug, Soding, Johannes, Solstad, Terese, Steen, Ida H, Stefansson, Sigmar Karl, Steinegger, Martin, Overa, Katrine Stange, Striberny, Bernd, Svensson, Anders, Szadkowska, Monika, Tarrant, Emma J, Terzian, Paul, Tourigny, Mathilde, van den Bergh, Tom, Vanhalst, Justine, Vincent, Jonathan, Vroling, Bas, Walse, Bjorn, Wang, Lei, Watzlawick, Hildegard, Welin, Martin, Werbowy, Olesia, Wons, Ewa, and Zhang, Ruoshi. “Going to extremes - a metagenomic journey into the dark matter of life”. FEMS microbiology letters (2021): fnab067.PUB | DOI | WoS | PubMed | Europe PMC
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2021 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2952275Meyer, Fernando, Lesker, Till-Robin, Koslicki, David, Fritz, Adrian, Gurevich, Alexey, Darling, Aaron E., Sczyrba, Alexander, Bremges, Andreas, and McHardy, Alice C. “Tutorial: assessing metagenomics software with the CAMI benchmarking toolkit”. Nature Protocols 16.4 (2021): 1785–1801.PUB | DOI | WoS | PubMed | Europe PMC
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2021 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2951537
Tabacchioni, Silvia, Passato, Stefania, Ambrosino, Patrizia, Huang, Liren, Caldara, Marina, Cantale, Cristina, Hett, Jonas, Del Fiore, Antonella, Fiore, Alessia, Schlüter, Andreas, Sczyrba, Alexander, Maestri, Elena, Marmiroli, Nelson, Neuhoff, Daniel, Nesme, Joseph, Sørensen, Søren Johannes, Aprea, Giuseppe, Nobili, Chiara, Presenti, Ombretta, Giovannetti, Giusto, Giovannetti, Caterina, Pihlanto, Anne, Brunori, Andrea, and Bevivino, Annamaria. “Identification of Beneficial Microbial Consortia and Bioactive Compounds with Potential as Plant Biostimulants for a Sustainable Agriculture”. Microorganisms 9.2 (2021): 426.PUB | PDF | DOI | WoS | PubMed | Europe PMC
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2020 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941645
Maus, Irena, Klocke, Michael, Derenkó, Jaqueline, Stolze, Yvonne, Beckstette, Michael, Jost, Carsten, Wibberg, Daniel, Blom, Jochen, Henke, Christian, Willenbücher, Katharina, Rumming, Madis, Rademacher, Antje, Pühler, Alfred, Sczyrba, Alexander, and Schlüter, Andreas. “Impact of process temperature and organic loading rate on cellulolytic / hydrolytic biofilm microbiomes during biomethanation of ryegrass silage revealed by genome-centered metagenomics and metatranscriptomics”. Environmental Microbiome 15.1 (2020): 7.PUB | PDF | DOI | Download (ext.) | WoS | PubMed | Europe PMC
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2020 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2953267Schulte-Schrepping, Jonas, Reusch, Nico, Paclik, Daniela, Baßler, Kevin, Schlickeiser, Stephan, Zhang, Bowen, Krämer, Benjamin, Krammer, Tobias, Brumhard, Sophia, Bonaguro, Lorenzo, De Domenico, Elena, Wendisch, Daniel, Grasshoff, Martin, Kapellos, Theodore S., Beckstette, Michael, Pecht, Tal, Saglam, Adem, Dietrich, Oliver, Mei, Henrik E., Schulz, Axel R., Conrad, Claudia, Kunkel, Désirée, Vafadarnejad, Ehsan, Xu, Cheng-Jian, Horne, Arik, Herbert, Miriam, Drews, Anna, Thibeault, Charlotte, Pfeiffer, Moritz, Hippenstiel, Stefan, Hocke, Andreas, Müller-Redetzky, Holger, Heim, Katrin-Moira, Machleidt, Felix, Uhrig, Alexander, Bosquillon de Jarcy, Laure, Jürgens, Linda, Stegemann, Miriam, Glösenkamp, Christoph R., Volk, Hans-Dieter, Goffinet, Christine, Landthaler, Markus, Wyler, Emanuel, Georg, Philipp, Schneider, Maria, Dang-Heine, Chantip, Neuwinger, Nick, Kappert, Kai, Tauber, Rudolf, Corman, Victor, Raabe, Jan, Kaiser, Kim Melanie, Vinh, Michael To, Rieke, Gereon, Meisel, Christian, Ulas, Thomas, Becker, Matthias, Geffers, Robert, Witzenrath, Martin, Drosten, Christian, Suttorp, Norbert, von Kalle, Christof, Kurth, Florian, Händler, Kristian, Schultze, Joachim L., Aschenbrenner, Anna C., Li, Yang, Nattermann, Jacob, Sawitzki, Birgit, Saliba, Antoine-Emmanuel, Sander, Leif Erik, Angelov, Angel, Bals, Robert, Bartholomäus, Alexander, Becker, Anke, Bezdan, Daniela, Bonifacio, Ezio, Bork, Peer, Clavel, Thomas, Colome-Tatche, Maria, Diefenbach, Andreas, Dilthey, Alexander, Fischer, Nicole, Förstner, Konrad, Frick, Julia-Stefanie, Gagneur, Julien, Goesmann, Alexander, Hain, Torsten, Hummel, Michael, Janssen, Stefan, Kalinowski, Jörn, Kallies, René, Kehr, Birte, Keller, Andreas, Kim-Hellmuth, Sarah, Klein, Christoph, Kohlbacher, Oliver, Korbel, Jan O., Kurth, Ingo, Landthaler, Markus, Li, Yang, Ludwig, Kerstin, Makarewicz, Oliwia, Marz, Manja, McHardy, Alice, Mertes, Christian, Nöthen, Markus, Nürnberg, Peter, Ohler, Uwe, Ossowski, Stephan, Overmann, Jörg, Peter, Silke, Pfeffer, Klaus, Poetsch, Anna R., Pühler, Alfred, Rajewsky, Nikolaus, Ralser, Markus, Rieß, Olaf, Ripke, Stephan, Nunes da Rocha, Ulisses, Rosenstiel, Philip, Saliba, Antoine-Emmanuel, Sander, Leif Erik, Sawitzki, Birgit, Schiffer, Philipp, Schulte, Eva-Christina, Schultze, Joachim L., Sczyrba, Alexander, Stegle, Oliver, Stoye, Jens, Theis, Fabian, Vehreschild, Janne, Vogel, Jörg, von Kleist, Max, Walker, Andreas, Walter, Jörn, Wieczorek, Dagmar, and Ziebuhr, John. “Severe COVID-19 Is Marked by a Dysregulated Myeloid Cell Compartment”. Cell 182.6 (2020): 1419-1440.e23.PUB | DOI | WoS | PubMed | Europe PMC
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2020 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2944226
Rettenmaier, Regina, Schneider, Martina, Munk, Bernhard, Lebuhn, Michael, Jünemann, Sebastian, Sczyrba, Alexander, Maus, Irena, Zverlov, Vladimir, and Liebl, Wolfgang. “Importance of Defluviitalea raffinosedens for Hydrolytic Biomass Degradation in Co-Culture with Hungateiclostridium thermocellum”. Microorganisms 8.6 (2020): 915.PUB | PDF | DOI | WoS | PubMed | Europe PMC
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2020 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2949597
Maus, Irena, Tubbesing, Tom Jonas, Wibberg, Daniel, Heyer, Robert, Hassa, Julia, Tomazetto, Geizecler, Huang, Liren, Bunk, Boyke, Spröer, Cathrin, Benndorf, Dirk, Zverlov, Vladimir, Pühler, Alfred, Klocke, Michael, Sczyrba, Alexander, and Schlüter, Andreas. “The Role of Petrimonas mucosa ING2-E5AT in Mesophilic Biogas Reactor Systems as Deduced from Multiomics Analyses”. Microorganisms 8.12 (2020): 2024.PUB | PDF | DOI | WoS | PubMed | Europe PMC
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2020 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2948401
Moore, Marten, Wesemann, Corinna, Gossmann, Nikolaj, Sahm, Arne, Krüger, Jan, Sczyrba, Alexander, and Dietz, Karl-Josef. “ConCysFind: a pipeline tool to predict conserved amino acids of protein sequences across the plant kingdom”. BMC Bioinformatics 21.1 (2020): 490.PUB | PDF | DOI | WoS | PubMed | Europe PMC
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2020 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941704Lesker, Till R, Durairaj, Abilash C, Galvez, Eric J C, Lagkouvardos, Ilias, Baines, John F, Clavel, Thomas, Sczyrba, Alexander, McHardy, Alice C, and Strowig, Till. “An Integrated Metagenome Catalog Reveals New Insights into the Murine Gut Microbiome.”. Cell reports 30.9 (2020): 2909-2922.e6.PUB | DOI | WoS | PubMed | Europe PMC
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2019 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2935923
Nelkner, Johanna, Henke, Christian, Lin, Timo Wentong, Pätzold, Wiebke, Hassa, Julia, Jaenicke, Sebastian, Grosch, Rita, Pühler, Alfred, Sczyrba, Alexander, and Schlüter, Andreas. “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 (2019): 424.PUB | PDF | DOI | Download (ext.) | WoS | PubMed | Europe PMC
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2019 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2933767Fritz, Adrian, Hofmann, Peter, Majda, Stephan, Dahms, Eik, Dröge, Johannes, Fiedler, Jessika, Lesker, Till R., Belmann, Peter, DeMaere, Matthew Z., Darling, Aaron E., Sczyrba, Alexander, Bremges, Andreas, and McHardy, Alice C. “CAMISIM: simulating metagenomes and microbial communities”. Microbiome 7.1 (2019): 17.PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC
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2019 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2934798Pankoke, Helga, Maus, Irena, Loh, Gunnar, Huser, Andrea, Seifert, Jana, Tilker, Alexandra, Hark, Sarah, Sczyrba, Alexander, Pelzer, Stefan, and Kleinbolting, Jessica. “Evaluation of commercially available DNA extraction kits for the analysis of the broiler chicken cecal microbiota.”. FEMS microbiology letters (2019).PUB | DOI | WoS | PubMed | Europe PMC
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2019 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2936223
Belmann, Peter, Fischer, Björn, Krüger, Jan, Procházka, Michal, Rasche, Helena, Prinz, Manuel, Hanussek, Maximilian, Lang, Martin, Bartusch, Felix, Gläßle, Benjamin, Krüger, Jens, Pühler, Alfred, and Sczyrba, Alexander. “de.NBI Cloud federation through ELIXIR AAI”. F1000Research 8 (2019): 842.PUB | PDF | DOI | Download (ext.) | PubMed | Europe PMC
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2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2930593Linden, Mikael, Prochazka, Michal, Lappalainen, Ilkka, Bucik, Dominik, Vyskocil, Pavel, Kuba, Martin, Silén, Sami, Belmann, Peter, Sczyrba, Alexander, Newhouse, Steven, Matyska, Ludek, and Nyrönen, Tommi. “Common ELIXIR Service for Researcher Authentication and Authorisation”. F1000Research 7 (2018): 1199.PUB | DOI | Download (ext.) | PubMed | Europe PMC
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2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2920723Meyer, Fernando, Hofmann, Peter, Belmann, Peter, Garrido-Oter, Ruben, Fritz, Adrian, Sczyrba, Alexander, and McHardy, Alice C. “AMBER: Assessment of Metagenome BinnERs”. GigaScience 7.6 (2018): giy069.PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC
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2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2920777Celis, Juan Sebastián, Wibberg, Daniel, Ramírez-Portilla, Catalina, Rupp, Oliver, Sczyrba, Alexander, Winkler, Anika, Kalinowski, Jörn, and Wilke, Thomas. “Binning Enables Efficient Host Genome Reconstruction in Cnidarian Holobionts”. GigaScience 7.7 (2018): giy075.PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC
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2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2920750Maus, Irena, Rumming, Madis, Bergmann, Ingo, Heeg, Kathrin, Pohl, Marcel, Nettmann, Edith, Jaenicke, Sebastian, Blom, Jochen, Pühler, Alfred, Schlüter, Andreas, Sczyrba, Alexander, and Klocke, Michael. “Characterization of Bathyarchaeota genomes assembled from metagenomes of biofilms residing in mesophilic and thermophilic biogas reactors”. Biotechnology for Biofuels 11.1 (2018): 167.PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC
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2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2915890Huang, Liren, Krüger, Jan, and Sczyrba, Alexander. “Analyzing large scale genomic data on the cloud with Sparkhit”. Bioinformatics 34.9 (2018): 1457-1465.PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC
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2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2916929Stolze, Yvonne, Bremges, Andreas, Maus, Irena, Pühler, Alfred, Sczyrba, Alexander, and Schlüter, Andreas. “Targeted in situ metatranscriptomics for selected taxa from mesophilic and thermophilic biogas plants”. Microbial Biotechnology 11.4 (2018): 667-679.PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC
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2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2914959da Schoren Costa, Pedro, Bolzan de Campos, Samanta, Albersmeier, Andreas, Dirksen, Paul, Pereira Dresseno, André Luis, Andrade Pais dos Santos, Odair José, Lima Milani, Karina Maria, Etto, Rafael Mazer, Battistus, André Gustavo, Peres Rodrigues da Costa, Andréia Cristina, Martinez de Oliveira, André Luiz, Weigert Galvão, Carolina, Guimarães, Vandeir Francisco, Sczyrba, Alexander, Wendisch, Volker F., and Passaglia, Luciane. “Invasion ecology applied to inoculation of plant growth promoting bacteria through a novel SIMPER-PCA approach”. Plant and Soil 422.1-2 (2018): 467-478.PUB | DOI | WoS
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2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2918275Fleming, E. J., Woyke, T., Donatello, A. R., Kuypers, M. M. M., Sczyrba, Alexander, Littmann, S., and Emerson, D. “Insights into the fundamental physiology of the uncultured Fe-oxidizing bacterium Leptothrix ochracea”. Applied and Environmental Microbiology 84.9 (2018): e02239-17.PUB | DOI | WoS | PubMed | Europe PMC
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2017 | Zeitschriftenaufsatz | PUB-ID: 2913876Sczyrba, Alexander, Hofman, Peter, Belmann, Peter, Koslicki, David, Janssen, Stefan, Dröge, Johannes, Gregor, Ivan, Majda, Stephan, Fiedler, Jessika, Dahms, Eik, Bremges, Andreas, Fritz, Adrian, Garrido-Oter, Ruben, Jørgensen, Tue Sparholt, Shapiro, Nicole, Blood, Philip D., Gurevich, Alexey, Bai, Yang, Turaev, Dmitrij, DeMaere, Matthew Z., Chikhi, Rayan, Nagarajan, Niranjan, Quince, Christopher, Meyer, Fern, Balvočiūtė, Monika, Hestbjerg Hansen, Lars, Sørensen, Søren J., Chia, Burton K. H., Denis, Bertr, Froula, Jeff L., Wang, Zhong, Egan, Robert, Don Kang, Dongwan, Cook, Jeffrey J., Deltel, Charles, Beckstette, Michael, Lemaitre, Claire, Peterlongo, Pierre, Rizk, Guillaume, Lavenier, Dominique, Wu, Yu-Wei, Singer, Steven W., Jain, Chirag, Strous, Marc, Klingenberg, Heiner, Meinicke, Peter, Barton, Michael, Lingner, Thomas, Lin, Hsin-Hung, Liao, Yu-Chieh, Gueiros Z. Silva, Genivaldo, Cuevas, Daniel A., Edwards, Robert A., Saha, Surya, Piro, Vitor C., Renard, Bernhard Y., Pop, Mihai, Klenk, Hans-Peter, Göker, Markus, Kyrpides, Nikos C., Woyke, Tanja, Vorholt, Julia A., Schulze-Lefert, Paul, Rubin, Edward M., Darling, Aaron E., Rattei, Thomas, and McHardy, Alice C. “Benchmark data sets, software results and reference data for the first CAMI challenge”. GigaScience Database (2017).PUB | DOI
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2017 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2914367Sczyrba, Alexander, Hofmann, Peter, Belmann, Peter, Koslicki, David, Janssen, Stefan, Dröge, Johannes, Gregor, Ivan, Majda, Stephan, Fiedler, Jessika, Dahms, Eik, Bremges, Andreas, Fritz, Adrian, Garrido-Oter, Ruben, Jørgensen, Tue Sparholt, Shapiro, Nicole, Blood, Philip D, Gurevich, Alexey, Bai, Yang, Turaev, Dmitrij, DeMaere, Matthew Z, Chikhi, Rayan, Nagarajan, Niranjan, Quince, Christopher, Meyer, Fernando, Balvočiūtė, Monika, Hansen, Lars Hestbjerg, Sørensen, Søren J, Chia, Burton K H, Denis, Bertrand, Froula, Jeff L, Wang, Zhong, Egan, Robert, Don Kang, Dongwan, Cook, Jeffrey J, Deltel, Charles, Beckstette, Michael, Lemaitre, Claire, Peterlongo, Pierre, Rizk, Guillaume, Lavenier, Dominique, Wu, Yu-Wei, Singer, Steven W, Jain, Chirag, Strous, Marc, Klingenberg, Heiner, Meinicke, Peter, Barton, Michael D, Lingner, Thomas, Lin, Hsin-Hung, Liao, Yu-Chieh, Silva, Genivaldo Gueiros Z, Cuevas, Daniel A, Edwards, Robert A, Saha, Surya, Piro, Vitor C, Renard, Bernhard Y, Pop, Mihai, Klenk, Hans-Peter, Göker, Markus, Kyrpides, Nikos C, Woyke, Tanja, Vorholt, Julia A, Schulze-Lefert, Paul, Rubin, Edward M, Darling, Aaron E, Rattei, Thomas, and McHardy, Alice C. “Critical Assessment of Metagenome Interpretation—a benchmark of metagenomics software”. Nature Methods 14.11 (2017): 1063-1071.PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC
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2017 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2909153
Yu, Jia, Blom, Jochen, Sczyrba, Alexander, and Goesmann, Alexander. “Rapid protein alignment in the cloud: HAMOND combines fast DIAMOND alignments with Hadoop parallelism”. Journal of Biotechnology 257 (2017): 58-60.PUB | PDF | DOI | WoS | PubMed | Europe PMC
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2017 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2915516
Maus, Irena, Bremges, Andreas, Stolze, Yvonne, Hahnke, Sarah, Cibis, Katharina G., Koeck, Daniela E., Kim, Yong S., Kreubel, Jana, Hassa, Julia, Wibberg, Daniel, Weimann, Aaron, Off, Sandra, Stantscheff, Robbin, Zverlov, Vladimir V., Schwarz, Wolfgang H., König, Helmut, Liebl, Wolfgang, Scherer, Paul, McHardy, Alice C., Sczyrba, Alexander, Klocke, Michael, Pühler, Alfred, and Schlüter, Andreas. “Genomics and prevalence of bacterial and archaeal isolates from biogas-producing microbiomes”. Biotechnology for Biofuels 10.1 (2017): 264.PUB | PDF | DOI | Download (ext.) | WoS | PubMed | Europe PMC
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2017 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2913556Jünemann, Sebastian, Kleinbölting, Nils, Jaenicke, Sebastian, Henke, Christian, Hassa, Julia, Nelkner, Johanna, Stolze, Yvonne, Albaum, Stefan, Schlüter, Andreas, Goesmann, Alexander, Sczyrba, Alexander, and Stoye, Jens. “Bioinformatics for NGS-based metagenomics and the application to biogas research”. Journal of Biotechnology 261.SI (2017): 10-23.PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC
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2017 | Datenpublikation | PUB-ID: 2914921
Huang, Liren, Krüger, Jan, and Sczyrba, Alexander. Sparkhit evaluation data set. Bielefeld University, 2017.PUB | Dateien verfügbar | DOI
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2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2904836Heyer, R., Benndorf, D., Kohrs, F., De Vrieze, J., Boon, N., Hoffmann, M., Rapp, E., Schlüter, Andreas, Sczyrba, Alexander, and Reichl, U. “Proteotyping of biogas plant microbiomes separates biogas plants according to process temperature and reactor type”. Biotechnology for Biofuels 9.1 (2016): 155.PUB | DOI | WoS | PubMed | Europe PMC
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2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2905260Maus, Irena, Koeck, Daniela E., Cibis, Katharina G., Hahnke, Sarah, Kim, Yong S., Langer, Thomas, Kreubel, Jana, Erhard, Marcel, Bremges, Andreas, Off, Sandra, Stolze, Yvonne, Jaenicke, Sebastian, Goesmann, Alexander, Sczyrba, Alexander, Scherer, Paul, König, Helmut, Schwarz, Wolfgang H., Zverlov, Vladimir V., Liebl, Wolfgang, Pühler, Alfred, Schlüter, Andreas, and Klocke, Michael. “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 (2016): 171.PUB | DOI | WoS | PubMed | Europe PMC
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2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2901729Bremges, Andreas, Singer, Esther, Woyke, Tanja, and Sczyrba, Alexander. “MeCorS: Metagenome-enabled error correction of single cell sequencing reads”. Bioinformatics 32.14 (2016): 2199-2201.PUB | DOI | WoS | PubMed | Europe PMC
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2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2900928Nesme, Joseph, Achouak, Wafa, Agathos, Spiros, Bailey, Mark, Baldrian, Petr, Brunel, Dominique, Frostegard, Asa, Heulin, Thierry, Jansson, Janet K., Jurkevitch, Edouard, Kowalchuk, George A., Kruus, Kristiina Leena, Lagares, Antonio, Lapin-Scott, Hilary M., Le Paslier, Denis, ic-Mulec, Ines, Murrell, Colin, Myrold, David D., Nalin, Renaud, Nannipieri, Paolo, Neufeld, Josh David, O'Gara, Fergal, Parnell, John Jacob, Pühler, Alfred, Pylro, Victor, Ramos, Juan Luis, Roesch, Luiz, Schleper, Christa, Schloter, Michael, Sczyrba, Alexander, Sessitsch, Angela, Sjöling, Sara, Sørensen, Jan, Sørensen, Søren J, Tebbe, Christoph C., Topp, Ed, Tsiamis, George, Van Elsas, Jan Dirk, Van Keulen, Geertje, Wagner, Michael, Widmer, Franco, Zhang, Tong, Zhang, Xiaojun, Zhao, Liping, Zhu, Yong-Guan, Vogel, Timothy M., and Simonet, Pascal. “Back to the future of soil metagenomics”. Frontiers in Microbiology 7 (2016): 73.PUB | DOI | WoS | PubMed | Europe PMC
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2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2904815
Stolze, Yvonne, Bremges, Andreas, Rumming, Madis, Henke, Christian, Maus, Irena, Pühler, Alfred, Sczyrba, Alexander, and Schlüter, Andreas. “Identification and genome reconstruction of abundant distinct taxa in microbiomes from one thermophilic and three mesophilic production-scale biogas plants”. Biotechnology for Biofuels 9.1 (2016): 156.PUB | PDF | DOI | WoS | PubMed | Europe PMC
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2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2907633
Lux, Markus, Krüger, Jan, Rinke, Christian, Maus, Irena, Schlüter, Andreas, Woyke, Tanja, Sczyrba, Alexander, and Hammer, Barbara. “acdc – Automated Contamination Detection and Confidence estimation for single-cell genome data”. BMC Bioinformatics 17.1 (2016): 543.PUB | PDF | DOI | WoS | PubMed | Europe PMC
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2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2903489Maus, Irena, Cibis, Katharina Gabriela, Bremges, Andreas, Stolze, Yvonne, Wibberg, Daniel, Tomazetto, Geizecler, Blom, Jochen, Sczyrba, Alexander, König, Helmut, Pühler, Alfred, and Schlüter, Andreas. “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 (2016): 50-60.PUB | DOI | WoS | PubMed | Europe PMC
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2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2903302Wibberg, Daniel, Bremges, Andreas, Dammann-Kalinowski, Tanja, Maus, Irena, Igeño, Maria Isabel, Vogelsang, Ralph, König, Christoph, Luque-Almagro, Víctor M., Roldán, Maria Dolores, Sczyrba, Alexander, Moreno-Vivián, Conrado, Blasco, Rafael, Pühler, Alfred, and Schlüter, Andreas. “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 (2016): 61-68.PUB | DOI | WoS | PubMed | Europe PMC
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2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2901418Campos, Samanta B., Lisboa, Bruno B., Camargo, Flavio A.O., Bayer, Cimelio, Sczyrba, Alexander, Dirksen, Paul, Albersmeier, Andreas, Kalinowski, Jörn, Beneduzi, Anelise, Costa, Pedro B., Passaglia, Luciane Maria P., Vargas, Luciano K., and Wendisch, Volker F. “Soil suppressiveness and its relations with the microbial community in a Brazilian subtropical agroecosystem under different management systems”. Soil Biology and Biochemistry 96 (2016): 191-197.PUB | DOI | WoS
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2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2902190Stiefel, Fabian, Fischer, Simon, Sczyrba, Alexander, Otte, Kerstin, and Hesse, Friedemann. “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 (2016): 31-43.PUB | DOI | WoS | PubMed | Europe PMC
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2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2901675Krahn, Thomas, Wibberg, Daniel, Maus, Irena, Winkler, Anika, Bontron, Séverine, Sczyrba, Alexander, Nordmann, Patrice, Pühler, Alfred, Poirel, Laurent, and Schlüter, Andreas. “Intraspecies transfer of the chromosomally encoded Acinetobacter baumannii blaNDM-1 carbapenemase gene.”. Antimicrobial Agents and Chemotherapy 60.5 (2016): 3032-3040.PUB | DOI | WoS | PubMed | Europe PMC
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2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2904234Ortseifen, Vera, Stolze, Yvonne, Maus, Irena, Sczyrba, Alexander, Bremges, Andreas, Albaum, Stefan, Jaenicke, Sebastian, Fracowiak, Jochen, Pühler, Alfred, and Schlüter, Andreas. “An integrated metagenome and -proteome analysis of the microbial community residing in a biogas production plant”. Journal of Biotechnology 231 (2016): 268-279.PUB | DOI | WoS | PubMed | Europe PMC
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2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2764906
Bremges, Andreas, Maus, Irena, Belmann, Peter, Eikmeyer, Felix Gregor, Winkler, Anika, Albersmeier, Andreas, Pühler, Alfred, Schlüter, Andreas, and Sczyrba, Alexander. “Deeply sequenced metagenome and metatranscriptome of a biogas-producing microbial community from an agricultural production-scale biogas plant”. GigaScience 4.1 (2015): 33.PUB | PDF | DOI | WoS | PubMed | Europe PMC
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2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2782501Belmann, Peter, Dröge, Johannes, Bremges, Andreas, McHardy, Alice C., Sczyrba, Alexander, and Barton, Michael D. “Bioboxes: standardised containers for interchangeable bioinformatics software”. GigaScience 4.1 (2015): 47.PUB | DOI | WoS | PubMed | Europe PMC
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2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2726156Paul, Blair G., Bagby, Sarah C., Czornyj, Elizabeth, Arambula, Diego, Handa, Sumit, Sczyrba, Alexander, Ghosh, Partho, Miller, Jeff F., and Valentine, David L. “Targeted diversity generation by intraterrestrial archaea and archaeal viruses”. Nature Communications 6.1 (2015): 6585.PUB | DOI | WoS | PubMed | Europe PMC
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2015 | Preprint | Veröffentlicht | PUB-ID: 2901613Lux, Markus, Hammer, Barbara, and Sczyrba, Alexander. “Automated Contamination Detection in Single-Cell Sequencing”. bioRxiv (2015).PUB
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2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2762833Kohrs, Fabian, Wolter, Sophie, Benndorf, Dirk, Heyer, Robert, Hoffmann, Marcus, Rapp, Erdmann, Bremges, Andreas, Sczyrba, Alexander, Schlüter, Andreas, and Reichl, Udo. “Fractionation of biogas plant sludge material improves metaproteomic characterization to investigate metabolic activity of microbial communities”. Proteomics 15.20 (2015): 3585-3589.PUB | DOI | WoS | PubMed | Europe PMC
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2015 | Kurzbeitrag Konferenz / Poster | Veröffentlicht | PUB-ID: 2901466Osterholz, Benedikt, Wiebke, Pätzold, Fust, Annika, Rumming, Madis, Schlüter, Andreas, and Sczyrba, Alexander. “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
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2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2726183Field, Erin K., Sczyrba, Alexander, Lyman, Audrey E., Harris, Christopher C., Woyke, Tanja, Stepanauskas, Ramunas, and Emerson, David. “Genomic insights into the uncultivated marine Zetaproteobacteria at Loihi Seamount”. The ISME journal 9.4 (2015): 857-870.PUB | DOI | WoS | PubMed | Europe PMC
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2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2685992Piao, Hailan, Lachman, Medora, Malfatti, Stephanie, Sczyrba, Alexander, Knierim, Bernhard, Auer, Manfred, Tringe, Susannah Green, Mackie, Roderick Ian, Yeoman, Carl James, and Hess, Matthias. “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 (2014): 307.PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC
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2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2698163Heins, Richard A, Cheng, Xiaoliang, Nath, Sangeeta, Deng, Kai, Bowen, Benjamin P, Chivian, Dylan C, Datta, Supratim, Friedland, Gregory D, D'Haeseleer, Patrik, Wu, Dongying, Tran-Gyamfi, Mary, Scullin, Chessa S, Singh, Seema, Shi, Weibing, Hamilton, Matthew G, Bendall, Matthew L, Sczyrba, Alexander, Thompson, John, Feldman, Taya, Guenther, Joel M, Gladden, John M, Cheng, Jan-Fang, Adams, Paul D, Rubin, Edward M, Simmons, Blake A, Sale, Kenneth L, Northen, Trent R, and Deutsch, Samuel. “Phylogenomically Guided Identification of Industrially Relevant GH1 β-Glucosidases through DNA Synthesis and Nanostructure-Initiator Mass Spectrometry”. ACS chemical biology 9.9 (2014): 2082-2091.PUB | DOI | WoS | PubMed | Europe PMC
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2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2654433Kamke, Janine, Rinke, Christian, Schwientek, Patrick, Mavromatis, Kostas, Ivanova, Natalia, Sczyrba, Alexander, Woyke, Tanja, and Hentschel, Ute. “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 (2014): e87353.PUB | DOI | WoS | PubMed | Europe PMC
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2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2689051Ghylin, Trevor W., Garcia, Sarahi L., Moya, Francisco, Oyserman, Ben O., Schwientek, Patrick, Forest, Katrina T., Mutschler, James, Dwulit-Smith, Jeffrey, Chan, Leong-Keat, Martinez-Garcia, Manuel, Sczyrba, Alexander, Stepanauskas, Ramunas, Grossart, Hans-Peter, Woyke, Tanja, Warnecke, Falk, Malmstrom, Rex, Bertilsson, Stefan, and McMahon, Katherine D. “Comparative single-cell genomics reveals potential ecological niches for the freshwater acI Actinobacteria lineage”. The ISME Journal 8.12 (2014): 2503-2516.PUB | DOI | WoS | PubMed | Europe PMC
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2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2672695Swan, Brandon K., Chaffin, Mark D., Martinez-Garcia, Manuel, Morrison, Hilary G., Field, Erin K., Poulton, Nicole J., Masland, E. Dashiell P., Harris, Christopher C., Sczyrba, Alexander, Chain, Patrick S. G., Koren, Sergey, Woyke, Tanja, and Stepanauskas, Ramunas. “Genomic and metabolic diversity of marine group I thaumarchaeota in the mesopelagic of two subtropical gyres”. PloS one 9.4 (2014): e95380.PUB | DOI | WoS | PubMed | Europe PMC
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2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2665333Henrich, Birgit, Rumming, Madis, Sczyrba, Alexander, Velleuer, Eunike, Dietrich, Ralf, Gerlach, Wolfgang, Gombert, Michael, Rahn, Sebastian, Stoye, Jens, Borkhardt, Arndt, and Fischer, Ute. “Mycoplasma salivarium as a Dominant Coloniser of Fanconi Anaemia Associated Oral Carcinoma”. PLoS ONE 9.3 (2014): e92297.PUB | DOI | WoS | PubMed | Europe PMC
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2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2662055Wibberg, Daniel, Luque-Almagro, Víctor M., Igeño, M. Isabel, Bremges, Andreas, Roldán, M. Dolores, Merchán, Faustino, Sáez, Lara P., Guijo, M. Isabel, Manso, M. Isabel, Macías, Daniel, Cabello, Purificación, Becerra, Gracia, Ibáñez, M. Isabel, Carmona, M. Isabel, Escribano, M. Paz, Castillo, Francisco, Sczyrba, Alexander, Moreno-Vivián, Conrado, Blasco, Rafael, Pühler, Alfred, and Schlüter, Andreas. “Complete genome sequence of the cyanide-degrading bacterium Pseudomonas pseudoalcaligenes CECT5344”. Journal of biotechnology 175 (2014): 67-68.PUB | DOI | WoS | PubMed | Europe PMC
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2638234Zaremba-Niedzwiedzka, Katarzyna, Viklund, Johan, Zhao, Weizhou, Ast, Jennifer, Sczyrba, Alexander, Woyke, Tanja, McMahon, Katherina, Bertilsson, Stefan, Stepanauskas, Ramunas, and Andersson, Siv Ge. “Single-cell genomics reveal low recombination frequencies in freshwater bacteria of the SAR11 clade”. Genome biology 14.11 (2013): R130.PUB | DOI | WoS | PubMed | Europe PMC
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2613567Rinke, Christian, Schwientek, Patrick, Sczyrba, Alexander, Ivanova, Natalia N, Anderson, Iain J, Cheng, Jan-Fang, Darling, Aaron, Malfatti, Stephanie, Swan, Brandon K, Gies, Esther A, Dodsworth, Jeremy A, Hedlund, Brian P, Tsiamis, George, Sievert, Stefan M, Liu, Wen-Tso, Eisen, Jonathan A, Hallam, Steven J, Kyrpides, Nikos C, Stepanauskas, Ramunas, Rubin, Edward M, Hugenholtz, Philip, and Woyke, Tanja. “Insights into the phylogeny and coding potential of microbial dark matter”. Nature 499.7459 (2013): 431-437.PUB | DOI | WoS | PubMed | Europe PMC
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2013 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2623500Gisbrecht, Andrej, Hammer, Barbara, Mokbel, Bassam, and Sczyrba, Alexander. “Nonlinear dimensionality reduction for cluster identification in metagenomic samples”. 17th International Conference on Information Visualisation IV 2013. Ed. Ebad Banissi. Piscataway, NJ: IEEE, 2013. 174-179.PUB | DOI
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2563543Campbell, Alisha G., Campbell, James H., Schwientek, Patrick, Woyke, Tanja, Sczyrba, Alexander, Allman, Steve, Beall, Clifford J., Griffen, Ann, Leys, Eugene, and Podar, Mircea. “Multiple Single-Cell Genomes Provide Insight into Functions of Uncultured Deltaproteobacteria in the Human Oral Cavity”. PLoS ONE 8.3 (2013): e59361.PUB | DOI | WoS | PubMed | Europe PMC
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2563424Campbell, James H., O'Donoghue, Patrick, Campbell, Alisha G., Schwientek, Patrick, Sczyrba, Alexander, Woyke, Tanja, Söll, Dieter, and Podar, Mircea. “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 (2013): 5540-5545.PUB | DOI | WoS | PubMed | Europe PMC
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2641352Kamke, Janine, Sczyrba, Alexander, Ivanova, Natalia, Schwientek, Patrick, Rinke, Christian, Mavromatis, Kostas, Woyke, Tanja, and Hentschel, Ute. “Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges”. The ISME journal 7.12 (2013): 2287-2300.PUB | DOI | WoS | PubMed | Europe PMC
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2613623Swan, Brandon K., Tupper, Ben, Sczyrba, Alexander, Lauro, Federico M., Martinez-Garcia, Manuel, González, José M., Luo, Haiwei, Wright, Jody J., Landry, Zachary C., Hanson, Niels W., Thompson, Brian P., Poulton, Nicole J., Schwientek, Patrick, Acinas, Silvia G., Giovannoni, Stephen J., Moran, Mary Ann, Hallam, Steven J., Cavicchioli, Ricardo, Woyke, Tanja, and Stepanauskas, Ramunas. “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 (2013): 11463-11468.PUB | DOI | WoS | PubMed | Europe PMC
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2518330Garcia, Sarahi L, McMahon, Katherine D, Martinez-Garcia, Manuel, Srivastava, Abhishek, Sczyrba, Alexander, Stepanauskas, Ramunas, Grossart, Hans-Peter, Woyke, Tanja, and Warnecke, Falk. “Metabolic potential of a single cell belonging to one of the most abundant lineages in freshwater bacterioplankton”. The ISME journal 7.1 (2012): 137-147.PUB | DOI | WoS | PubMed | Europe PMC
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2547307El-Kalioby, Mohamed, Abouelhoda, Mohamed, Krüger, Jan, Giegerich, Robert, Sczyrba, Alexander, Wall, Dennis P, and Tonellato, Peter. “Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package”. BMC Bioinformatics 13.Suppl 17 (2012): S22.PUB | DOI | WoS | PubMed | Europe PMC
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2410148Woyke, Tanja, Sczyrba, Alexander, Lee, Janey, Rinke, Christian, Tighe, Damon, Clingenpeel, Scott, Malmstrom, Rex, Stepanauskas, Ramunas, and Cheng, Jan-Fang. “Decontamination of MDA Reagents for Single Cell Whole Genome Amplification”. PLoS ONE 6.10 (2011): e26161.PUB | DOI | WoS | PubMed | Europe PMC
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2351462Kim, Tae-Wan, Chokhawala, Harshal A., Hess, Matthias, Dana, Craig M., Baer, Zachary, Sczyrba, Alexander, Rubin, Edward M., Blanch, Harvey W., and Clark, Douglas S. “High-Throughput In Vitro Glycoside Hydrolase (HIGH) Screening for Enzyme Discovery”. Angewandte Chemie 123.47 (2011): 11411-11414.PUB | DOI | PubMed | Europe PMC
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2329885Swan, Brandon K., Martinez-Garcia, Manuel, Preston, Christina M., Sczyrba, Alexander, Woyke, Tanja, Lamy, Dominique, Reinthaler, Thomas, Poulton, Nicole J., Masland, E. Dashiell P., Gomez, Monica Lluesma, Sieracki, Michael E., DeLong, Edward F., Herndl, Gerhard J., and Stepanauskas, Ramunas. “Potential for Chemolithoautotrophy Among Ubiquitous Bacteria Lineages in the Dark Ocean”. Science 333.6047 (2011): 1296-1300.PUB | DOI | WoS | PubMed | Europe PMC
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2789582Sales, Christopher M., Mahendra, Shaily, Grostern, Ariel, Parales, Rebecca E, Goodwin, Lynne A, Woyke, Tanja, Nolan, Matt, Lapidus, Alla, Chertkov, Olga, Ovchinnikova, Galina, Sczyrba, Alexander, and Alvarez-Cohen, Lisa. “Genome sequence of the 1,4-dioxane-degrading Pseudonocardia dioxanivorans strain CB1190”. Journal of Bacteriology 193.17 (2011): 4549-4550.PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC | GenBank
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1991643Hess, M., Sczyrba, Alexander, Egan, R., Kim, T. W., Chokhawala, H., Schroth, G., Luo, S., Clark, D. S., Chen, F., Zhang, T., Mackie, R. I., Pennacchio, L. A., Tringe, S. G., Visel, A., Woyke, T., Wang, Z., and Rubin, E. M. “Metagenomic discovery of biomass-degrading genes and genomes from cow rumen”. Science 331.6016 (2011): 463-467.PUB | DOI | WoS | PubMed | Europe PMC
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2010 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1991615Gilbert, J. A., Meyer, F., Antonopoulos, D., Balaji, P., Brown, C. T., Desai, N., Eisen, J. A., 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, Alexander, Shade, A., and Stevens, R. “Meeting report: the terabase metagenomics workshop and the vision of an Earth microbiome project”. Stand Genomic Sci 3.3 (2010): 243-248.PUB | DOI | PubMed | Europe PMC
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1784020
Lamprecht, Anna-Lena, Margaria, Tiziana, Steffen, Bernhard, Sczyrba, Alexander, Hartmeier, Sven, and Giegerich, Robert. “GeneFisher-P: variations of GeneFisher as processes in Bio-jETI”. BMC Bioinformatics 9.Suppl 4 (2008): S13.PUB | PDF | DOI | WoS | PubMed | Europe PMC
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2008 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1588303Sczyrba, Alexander, Konermann, Susanne, and Giegerich, Robert. “Two interactive bioinformatics courses at the bielefeld university bioinformatics server”. BRIEFINGS IN BIOINFORMATICS 9.3 (2008): 243-249.PUB | DOI | WoS | PubMed | Europe PMC
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2005 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773613
Sczyrba, Alexander, Beckstette, Michael, Brivanlou, Ali H., Giegerich, Robert, and Altmann, Curtis R. “XenDB: Full length cDNA prediction and cross species mapping in Xenopus laevis”. BMC Genomics 6.1 (2005): 123.PUB | PDF | DOI | WoS | PubMed | Europe PMC
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2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2383529
Beckstette, Michael, Mailänder, Jens T., Marhöfer, Richard J., Sczyrba, Alexander, Ohlebusch, Enno, Giegerich, Robert, and Selzer, Paul M. “Genlight: Interactive high-throughput sequence analysis and comparative genomics”. Journal of Integrative Bioinformatics 1.1 (2004): 90-107.PUB | PDF | DOI
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2004 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383536Beckstette, Michael, Sczyrba, Alexander, and Selzer, Paul M. “Genlight: Interactive high-throughput sequence analysis and comparative genomics”. German Conference on Bioinformatics. GCB 2004 ; October 4 - 6, 2004, Bielefeld, Germany . Ed. Robert Giegerich. Bonn: Gesellschaft für Informatik, 2004.Vol. 53. GI-Edition / Proceedings. 179-186.PUB
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2004 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2383561Sczyrba, Alexander, Beckstette, Michael, Giegerich, Robert, and Altman, Curtis. “Identification of 10,500 Xenopus laevis Full Length Clones through EST Clustering and Sequence Analysis”. German Conference on Bioinformatics 2004 : GCB 2004, October 4 - 6, 2004, Bielefeld, Germany . Ed. Robert Giegerich and Jens Stoye. Bonn: Gesellschaft für Informatik, 2004.Vol. 53. GI-Edition / Proceedings. 6-7.PUB
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2004 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1607394
Krüger, Jan, Sczyrba, Alexander, Kurtz, Stefan, and Giegerich, Robert. “e2g: an interactive web-based server for efficiently mapping large EST and cDNA sets to genomic sequences”. NUCLEIC ACIDS RESEARCH 32.Web Server (2004): W301-W304.PUB | PDF | DOI | WoS | PubMed | Europe PMC
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2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1610494Taher, L, Rinner, O, Garg, S, Sczyrba, Alexander, Brudno, M, Batzoglou, S, and Morgenstern, B. “AGenDA: homology-based gene prediction”. BIOINFORMATICS 19.12 (2003): 1575-1577.PUB | DOI | WoS | PubMed | Europe PMC
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2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1773844
Sczyrba, Alexander, Krüger, Jan, Mersch, Henning, Kurtz, Stefan, and Giegerich, Robert. “RNA-related tools on the Bielefeld Bioinformatics Server”. Nucleic Acids Research 31.13 (2003): 3767-3770.PUB | Dateien verfügbar | DOI | WoS | PubMed | Europe PMC
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2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1612470Morgenstern, B, Goel, S, Sczyrba, Alexander, and Dress, Andreas. “AltAVisT: Comparing alternative multiple sequence alignments”. BIOINFORMATICS 19.3 (2003): 425-426.PUB | DOI | WoS | PubMed | Europe PMC
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2003 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1609260Dondrup, M., Goesmann, Alexander, Bartels, D., Kalinowski, Jörn, Krause, L., Linke, Burkhard, Rupp, O., Sczyrba, Alexander, Pühler, Alfred, and Meyer, F. “EMMA: a platform for consistent storage and efficient analysis of microarray data”. JOURNAL OF BIOTECHNOLOGY 106.2-3 (2003): 135-146.PUB | DOI | WoS | PubMed | Europe PMC
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2001 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1897716Gopal, S., Schroeder, M., Pieper, U., Sczyrba, Alexander, Aytekin-Kurban, G., Bekiranov, S., Fajardo, J.E., Eswar, N., Sanchez, R., Sali, A., and Gaasterland, T. “Homology-based annotation yields 1,042 new candidate genes in the Drosophila melanogaster genome”. Nat Genet 27.3 (2001): 337-340.PUB
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2001 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1616752Altmann, CR, Bell, E, Sczyrba, Alexander, Pun, J, Bekiranov, S, Gaasterland, T, and Brivanlou, AH. “Microarray-based analysis of early development in Xenopus laevis”. DEVELOPMENTAL BIOLOGY 236.1 (2001): 64-75.PUB | DOI | WoS | PubMed | Europe PMC
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2000 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1897767Gaasterland, T., Sczyrba, Alexander, Thomas, E., and Kurban, G. “MAGPIE/EGRET annotation of the 2.9-Mb Drosophila melanogaster Adh region”. Genome Res 10.4 (2000): 502-510.PUB