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359 results on '"Bunk B"'

1. The locality problem for two tastes of staggered fermions

Author

Bunk, B., Della Morte, M., Jansen, K., and Knechtli, F.

Subjects
High Energy Physics - Lattice
Abstract

We address the locality problem arising in simulations, which take the square root of the staggered fermion determinant as a Boltzmann weight to reduce the number of dynamical quark tastes from four to two. We study analytically and numerically the square root of the staggered fermion operator as a candidate to define a two taste theory from first principles. Although it has the correct weight, this operator is non-local in the continuum limit. Our work serves as a warning that fundamental properties of field theories might be violated when employing blindly the square root trick. The question, whether a local operator reproducing the square root of the staggered fermion determinant exists, is left open., Comment: Talk presented at Lattice2004(theory), Fermilab, June 21-26, 2004

Published
2004
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2. Locality with staggered fermions

Author

Bunk, B., Della Morte, M., Jansen, K., and Knechtli, F.

Subjects
High Energy Physics - Lattice
Abstract

We address the locality problem arising in simulations, which take the square root of the staggered fermion determinant as a Boltzmann weight to reduce the number of dynamical quark tastes. A definition of such a theory necessitates an underlying local fermion operator with the same determinant and the corresponding Green's functions to establish causality and unitarity. We illustrate this point by studying analytically and numerically the square root of the staggered fermion operator. Although it has the correct weight, this operator is non-local in the continuum limit. Our work serves as a warning that fundamental properties of field theories might be violated when employing blindly the square root trick. The question, whether a local operator reproducing the square root of the staggered fermion determinant exists, is left open., Comment: 24 pages, 7 figures, few remarks added for clarity, accepted for publication in Nucl. Phys. B

Published
2004
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3. Compact QED under scrutiny: it's first order

Author

Arnold, G., Bunk, B., Lippert, Th., and Schilling, K.

Subjects
High Energy Physics - Lattice
Abstract

We report new results from our finite size scaling analysis of 4d compact pure U(1) gauge theory with Wilson action. Investigating several cumulants of the plaquette energy within the Borgs-Kotecky finite size scaling scheme we find strong evidence for a first-order phase transition and present a high precision value for the critical coupling in the thermodynamic limit., Comment: Lattice2002(Spin)

Published
2002
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5. Fractional Inversion in Krylov Space

Author

Bunk, B.

Subjects
High Energy Physics - Lattice
Abstract

The fractional inverse $M^{-\gamma}$ (real $\gamma >0$) of a matrix $M$ is expanded in a series of Gegenbauer polynomials. If the spectrum of $M$ is confined to an ellipse not including the origin, convergence is exponential, with the same rate as for Chebyshev inversion. The approximants can be improved recursively and lead to an iterative solver for $M^\gamma x = b$ in Krylov space. In case of $\gamma = 1/2$, the expansion is in terms of Legendre polynomials, and rigorous bounds for the truncation error are derived., Comment: Contribution to LAT97 proceedings, 3 pages

Published
1998
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6. Ordering monomial factors of polynomials in the product representation

Author

Bunk, B., Elser, S., Frezzotti, R., and Jansen, K.

Subjects
High Energy Physics - Lattice
Abstract

The numerical construction of polynomials in the product representation (as used for instance in variants of the multiboson technique) can become problematic if rounding errors induce an imprecise or even unstable evaluation of the polynomial. We give criteria to quantify the effects of these rounding errors on the computation of polynomials approximating the function $1/s$. We consider polynomials both in a real variable $s$ and in a Hermitian matrix. By investigating several ordering schemes for the monomials of these polynomials, we finally demonstrate that there exist orderings of the monomials that keep rounding errors at a tolerable level., Comment: Latex2e file, 7 figures, 32 pages

Published
1998
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7. Computing the lowest eigenvalues of the Fermion matrix by subspace iterations

Author

Bunk, B.

Subjects
High Energy Physics - Lattice
Abstract

Subspace iterations are used to minimise a generalised Ritz functional of a large, sparse Hermitean matrix. In this way, the lowest $m$ eigenvalues are determined. Tests with $1 \leq m \leq 32$ demonstrate that the computational cost (no. of matrix multiplies) does not increase substantially with $m$. This implies that, as compared to the case of a $m=1$, the additional eigenvalues are obtained for free., Comment: Talk presented at LATTICE96(algorithms), 3 pages, 2 Postscript figures, uses epsf.sty, espcrc2.sty

Published
1996
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8. A new simulation algorithm for lattice QCD with dynamical quarks

Author

Bunk, B., Jansen, K., Jegerlehner, B., Lüscher, M., Simma, H., and Sommer, R.

Subjects
High Energy Physics - Lattice
Abstract

A previously introduced multi-boson technique for the simulation of QCD with dynamical quarks is described and some results of first test runs on a $6^3\times12$ lattice with Wilson quarks and gauge group SU(2) are reported., Comment: 7 pages, postscript file (166 KB)

Published
1994
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9. The importance of biofilm formation for cultivation of a Micrarchaeon and its interactions with its Thermoplasmatales host

Author

Krause, S., Gfrerer, S., von Kügelgen, A., Reuse, C., Dombrowski, N., Villanueva, L., Bunk, B., Spröer, C., Neu, T.R., Kuhlicke, U., Schmidt-Hohagen, K., Hiller, K., Bharat, T.A.M., Rachel, R., Spang, A., Gescher, J., Krause, S., Gfrerer, S., von Kügelgen, A., Reuse, C., Dombrowski, N., Villanueva, L., Bunk, B., Spröer, C., Neu, T.R., Kuhlicke, U., Schmidt-Hohagen, K., Hiller, K., Bharat, T.A.M., Rachel, R., Spang, A., and Gescher, J.

Abstract

Micrarchaeota is a distinctive lineage assigned to the DPANN archaea, which includes poorly characterised microorganisms with reduced genomes that likely depend on interactions with hosts for growth and survival. Here, we report the enrichment of a stable co-culture of a member of the Micrarchaeota (Ca. Micrarchaeum harzensis) together with its Thermoplasmatales host (Ca. Scheffleriplasma hospitalis), as well as the isolation of the latter. We show that symbiont-host interactions depend on biofilm formation as evidenced by growth experiments, comparative transcriptomic analyses and electron microscopy. In addition, genomic, metabolomic, extracellular polymeric substances and lipid content analyses indicate that the Micrarchaeon symbiont relies on the acquisition of metabolites from its host. Our study of the cell biology and physiology of a Micrarchaeon and its host adds to our limited knowledge of archaeal symbioses.

Published
2022

10. The importance of biofilm formation for cultivation of a Micrarchaeon and its interactions with its Thermoplasmatales host (metabolome data)

Author

Krause, S., Gfrerer, S., von Kügelgen, A., Reuse, C., Dombrowski, N., Villanueva, L., Bunk, B., Spröer, C., Neu, Thomas, Kuhlicke, Ute, Schmidt-Hohagen, K., Hiller, K., Bharat, T.A.M., Rachel, R., Spang, A., Gescher, J., Krause, S., Gfrerer, S., von Kügelgen, A., Reuse, C., Dombrowski, N., Villanueva, L., Bunk, B., Spröer, C., Neu, Thomas, Kuhlicke, Ute, Schmidt-Hohagen, K., Hiller, K., Bharat, T.A.M., Rachel, R., Spang, A., and Gescher, J.

Published
2022

11. The importance of biofilm formation for cultivation of a Micrarchaeon and its interactions with its Thermoplasmatales host

Author

non-UU output of UU-AW members, Krause, S., Gfrerer, S., von Kügelgen, A., Reuse, C., Dombrowski, N., Villanueva, L., Bunk, B., Spröer, C., Neu, T.R., Kuhlicke, U., Schmidt-Hohagen, K., Hiller, K., Bharat, T.A.M., Rachel, R., Spang, A., Gescher, J., non-UU output of UU-AW members, Krause, S., Gfrerer, S., von Kügelgen, A., Reuse, C., Dombrowski, N., Villanueva, L., Bunk, B., Spröer, C., Neu, T.R., Kuhlicke, U., Schmidt-Hohagen, K., Hiller, K., Bharat, T.A.M., Rachel, R., Spang, A., and Gescher, J.

Published
2022

16. Wound infection caused by Photobacterium damselae in a 32-year-old woman: case report and review of the literature

Author

Schröttner, P, Tille, E, Lück, C, Bunk, B, Schröttner, P, Tille, E, Lück, C, and Bunk, B

Abstract

The case of a 32-year-old woman is reported, who was affected by a persisting wound infection caused by Photobacterium damselae after an accident in the Mediterranean Sea. Besides the clinical case, microbiological characteristics based on the phenotypic and genotypic description of the isolate (including whole genome data) are presented and discussed., Wir berichten über den Fall einer 32-jährigen Frau, die nach einem Badeunfall im Mittelmeer von einer persistierenden Wundinfektion, welche durch Photobacterium damselae verursacht wurde, betroffen war. Neben der Beschreibung des klinischen Falls werden mikrobiologische Charakteristika des Isolats vorgestellt und diskutiert. Diese beinhalten phänotypische und genotypische Beschreibungen (auch unter Bezugnahme des gesamten bakteriellen Genoms).

Published
2020

17. Candidatus Sulfurimonas marisnigri sp. nov. and Candidatus Sulfurimonas baltica sp. nov., thiotrophic manganese oxide reducing chemolithoautotrophs of the class Campylobacteria isolated from the pelagic redoxclines of the Black Sea and the Baltic Sea

Author

Henkel, J.V., Vogts, A., Werner, J., Neu, Thomas, Spröer, C., Bunk, B., Schulz-Vogt, H.N., Henkel, J.V., Vogts, A., Werner, J., Neu, Thomas, Spröer, C., Bunk, B., and Schulz-Vogt, H.N.

Abstract

Species of the genus Sulfurimonas are reported and isolated from terrestrial habitats and marine sediments and water columns with steep redox gradients. Here we report on the isolation of strains SoZ1 and GD2 from the pelagic redoxcline of the Black Sea and the Baltic Sea, respectively. Both strains are gram-stain-negative and appear as short and slightly curved motile rods. The autecological preferences for growth of strain SoZ1 were 0-25 °C (optimum 20 °C), pH 6.5-9.0 (optimum pH 7.5-8.0) and salinity 10-40 g L−1 (optimum 25 g L−1). Preferences for growth of strain GD2 were 0-20 °C (optimum 15 °C), pH 7.0-8.0 (optimum pH 7.0-7.5) and salinity 5–40 g L−1 (optimum 21 g L−1). Strain SoZ1 grew chemolithoautotrophically, while strain GD2 also showed heterotrophic growth with short chained fatty acids as carbon source. Both species utilized hydrogen (H2), sulfide (H2S here taken as the sum of H2S, HS− and S2−), elemental sulfur (S0) and thiosulfate (S2O32−) as electron donors and nitrate (NO3−), oxygen (O2) and particulate manganese oxide (MnO2) as electron acceptors. Based on 16S rRNA gene sequence similarity, both strains cluster within the genus Sulfurimonas with Sulfurimonas gotlandica GD1T as the closest cultured relative species with a sequence similarity of 96.74% and 96.41% for strain SoZ1 and strain GD2, respectively. Strains SoZ1 and GD2 share a ribosomal 16S sequence similarity of 99.27% and were demarcated based on average nucleotide identity and average amino acid identity of the whole genome sequence. These calculations have been applied to the whole genus. We propose the names Candidatus Sulfurimonas marisnigri sp. nov. and Candidatus Sulfurimonas baltica sp. nov. for the thiotrophic manganese reducing culture isolates from the Black Sea and Baltic Sea, respectively.

Published
2020

21. Divergent evolution in the genomes of closely related lacertids, Lacerta viridis and L. bilineata, and implications for speciation

Author

Kolora, S.R.R., Weigert, A., Saffari, A., Kehr, S., Costa, M.B.W., Spröer, C., Indrischek, H., Chintalapati, M., Lohse, K., Doose, G., Overmann, J., Bunk, B., Bleidorn, C., Grimm-Seyfarth, Annegret, Henle, Klaus, Nowick, K., Faria, R., Stadler, P.F., Schlegel, M., Kolora, S.R.R., Weigert, A., Saffari, A., Kehr, S., Costa, M.B.W., Spröer, C., Indrischek, H., Chintalapati, M., Lohse, K., Doose, G., Overmann, J., Bunk, B., Bleidorn, C., Grimm-Seyfarth, Annegret, Henle, Klaus, Nowick, K., Faria, R., Stadler, P.F., and Schlegel, M.

Abstract

BackgroundLacerta viridis and Lacerta bilineata are sister species of European green lizards (eastern and western clades, respectively) that, until recently, were grouped together as the L. viridis complex. Genetic incompatibilities were observed between lacertid populations through crossing experiments, which led to the delineation of two separate species within the L. viridis complex. The population history of these sister species and processes driving divergence are unknown. We constructed the first high-quality de novo genome assemblies for both L. viridis and L. bilineata through Illumina and PacBio sequencing, with annotation support provided from transcriptome sequencing of several tissues. To estimate gene flow between the two species and identify factors involved in reproductive isolation, we studied their evolutionary history, identified genomic rearrangements, detected signatures of selection on non-coding RNA, and on protein-coding genes.FindingsHere we show that gene flow was primarily unidirectional from L. bilineata to L. viridis after their split at least 1.15 million years ago. We detected positive selection of the non-coding repertoire; mutations in transcription factors; accumulation of divergence through inversions; selection on genes involved in neural development, reproduction, and behavior, as well as in ultraviolet-response, possibly driven by sexual selection, whose contribution to reproductive isolation between these lacertid species needs to be further evaluated.ConclusionThe combination of short and long sequence reads resulted in one of the most complete lizard genome assemblies. The characterization of a diverse array of genomic features provided valuable insights into the demographic history of divergence among European green lizards, as well as key species differences, some of which are candidates that could have played a role in speciation. In addition, our study generated valuable genomic resources that can be used to address conser

Published
2018

22. Global outbreak of severe Mycobacterium chimaera disease after cardiac surgery: a molecular epidemiological study

Author

Ingen, J. van, Kohl, T.A., Kranzer, K., Hasse, B., Keller, P.M., Szafranska, A.K., Hillemann, D., Chand, M., Schreiber, P.W., Sommerstein, R., Berger, C., Genoni, M., Ruegg, C., Troillet, N., Widmer, A.F., Becker, S.L., Herrmann, M., Eckmanns, T., Haller, S., Holler, C., Debast, S.B., Wolfhagen, M.J., Hopman, J., Kluytmans, J., Langelaar, M., Notermans, D.W., Oever, J. ten, Barselaar, P. van den, Vonk, A.B., Vos, M.C., Ahmed, N., Brown, T., Crook, D., Lamagni, T., Phin, N., Smith, E.G., Zambon, M., Serr, A., Gotting, T., Ebner, W., Thurmer, A., Utpatel, C., Sproer, C., Bunk, B., Nubel, U., Bloemberg, G.V., Bottger, E.C., Niemann, S., Wagner, D., Sax, H., Ingen, J. van, Kohl, T.A., Kranzer, K., Hasse, B., Keller, P.M., Szafranska, A.K., Hillemann, D., Chand, M., Schreiber, P.W., Sommerstein, R., Berger, C., Genoni, M., Ruegg, C., Troillet, N., Widmer, A.F., Becker, S.L., Herrmann, M., Eckmanns, T., Haller, S., Holler, C., Debast, S.B., Wolfhagen, M.J., Hopman, J., Kluytmans, J., Langelaar, M., Notermans, D.W., Oever, J. ten, Barselaar, P. van den, Vonk, A.B., Vos, M.C., Ahmed, N., Brown, T., Crook, D., Lamagni, T., Phin, N., Smith, E.G., Zambon, M., Serr, A., Gotting, T., Ebner, W., Thurmer, A., Utpatel, C., Sproer, C., Bunk, B., Nubel, U., Bloemberg, G.V., Bottger, E.C., Niemann, S., Wagner, D., and Sax, H.

Abstract

Item does not contain fulltext, BACKGROUND: Since 2013, over 100 cases of Mycobacterium chimaera prosthetic valve endocarditis and disseminated disease were notified in Europe and the USA, linked to contaminated heater-cooler units (HCUs) used during cardiac surgery. We did a molecular epidemiological investigation to establish the source of these patients' disease. METHODS: We included 24 M chimaera isolates from 21 cardiac surgery-related patients in Switzerland, Germany, the Netherlands, and the UK, 218 M chimaera isolates from various types of HCUs in hospitals, from LivaNova (formerly Sorin; London, UK) and Maquet (Rastatt, Germany) brand HCU production sites, and unrelated environmental sources and patients, as well as eight Mycobacterium intracellulare isolates. Isolates were analysed by next-generation whole-genome sequencing using Illumina and Pacific Biosciences technologies, and compared with published M chimaera genomes. FINDINGS: Phylogenetic analysis based on whole-genome sequencing of 250 isolates revealed two major M chimaera groups. Cardiac surgery-related patient isolates were all classified into group 1, in which all, except one, formed a distinct subgroup. This subgroup also comprised isolates from 11 cardiac surgery-related patients reported from the USA, most isolates from LivaNova HCUs, and one from their production site. Isolates from other HCUs and unrelated patients were more widely distributed in the phylogenetic tree. INTERPRETATION: HCU contamination with M chimaera at the LivaNova factory seems a likely source for cardiothoracic surgery-related severe M chimaera infections diagnosed in Switzerland, Germany, the Netherlands, the UK, the USA, and Australia. Protective measures and heightened clinician awareness are essential to guarantee patient safety. FUNDING: Partly funded by the EU Horizon 2020 programme, its FP7 programme, the German Center for Infection Research (DZIF), the Swiss National Science Foundation, the Swiss Federal Office of Public Health, and National

Published
2017

23. The Global Genome Biodiversity Network (GGBN) Data Standard specification

Author

Dröge, G., Barker, K., Seberg, O., Coddington, J., Butler, C., Benson, E., Berendsohn, W. G., Bunk, B., Cawsey, E. M., Deck, J., Döring, M., Flemons, P., Gemeinholzer, B., Güntsch, A., Hollowell, T., Kelbert, P., Kostadinov, I., Kottmann, R., Lawlor, R. T., Lyal, C., Mackenzie-Dodds, J., Meyer, C., Mulcahy, D., Nussbeck, S. Y., O’Tuama, E., Orrell, T., Petersen, G., Robertson, T., Söhngen, C., Whitacre, J., Wieczorek, J., Yilmaz, P., Zetzsche, H., Zhang, Y., and Zhou, X.

Abstract

Genomic samples of non-model organisms are becoming increasingly important in a broad range of studies from developmental biology, biodiversity analyses, to conservation. Genomic sample definition, description, quality, voucher information and metadata all need to be digitized and disseminated across scientific communities. This information needs to be concise and consistent in today’s ever-increasing bioinformatic era, for complementary data aggregators to easily map databases to one another. In order to facilitate exchange of information on genomic samples and their derived data, the Global Genome Biodiversity Network (GGBN) Data Standard is intended to provide a platform based on a documented agreement to promote the efficient sharing and usage of genomic sample material and associated specimen information in a consistent way. The new data standard presented here build upon existing standards commonly used within the community extending them with the capability to exchange data on tissue, environmental and DNA sample as well as sequences. The GGBN Data Standard will reveal and democratize the hidden contents of biodiversity biobanks, for the convenience of everyone in the wider biobanking community. Technical tools exist for data providers to easily map their databases to the standard.

Published
2016
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24. Genome sequence of the muddwelling archaeon Methanoplanus limicola type strain (DSM 2279T), reclassification of Methanoplanus petrolearius as Methanolacinia petrolearia and emended descriptions of the genera Methanoplanus and Methanolacinia

Author

Göker, M, Lu, M, Fiebig, A, Nolan, M, Lapidus, A, Tice, H, Del Rio, TG, Cheng, JF, Han, C, Tapia, R, Goodwin, LA, Pitluck, S, Liolios, K, Mavromatis, K, Pagani, I, Ivanova, N, Mikhailova, N, Pati, A, Chen, A, Palaniappan, K, Land, M, Mayilraj, S, Rohde, M, Detter, JC, Bunk, B, Spring, S, Wirth, R, Woyke, T, Bristow, J, Eisen, JA, Markowitz, V, Hugenholtz, P, Kyrpides, NC, and Klenk, HP

Abstract

Methanoplanus limicola Wildgruber et al. 1984 is a mesophilic methanogen that was isolated from a swamp composed of drilling waste near Naples, Italy, shortly after the Archaea were recognized as a separate domain of life. Methanoplanus is the type genus in the family Methanoplanaceae, a taxon that felt into disuse since modern 16S rRNA gene sequences-based taxonomy was established. Methanoplanus is now placed within the Methanomicrobiaceae, a family that is so far poorly characterized at the genome level. The only other type strain of the genus with a sequenced genome, Methanoplanus petrolearius SEBR 4847T, turned out to be misclassified and required reclassification to Methanolacinia. Both, Methanoplanus and Methanolacinia, needed taxonomic emendations due to a significant deviation of the G+C content of their genomes from previously published (pregenome-sequence era) values. Until now genome sequences were published for only four of the 33 species with validly published names in the Methanomicrobiaceae. Here we describe the features of M. limicola, together with the improved-high-quality draft genome sequence and an notation of the type strain, M3T. The 3,200,946 bp long chromosome (permanent draft sequence) with its 3,064 protein-coding and 65 RNA genes is a part of the Genomic Encyclopedia of Bacteria and Archaea project.

Published
2015
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25. D8.6_MIRRI_Report on human and programmatic access

Author

Bunk, B., Colobraro, DP, Dawyndt, P., De Vos, P., Glöckner, F.O., Kopf, A., Robert, V., Romano, P., Smith, D., Söhngen, C., Van Hauwenhuyse, F., and Vasilenko, A.

Subjects
microorganism, MIRRI, data integration, database
Abstract

This report outlines the optimal approach following technology produced in the World Wide Web Consortium (W3C), as well as in the ELIXIR system and in the BioMedBriges project. It intends to get the maximum compliance with databases, ontologies and the standards for applications like human health, veterinary science, pharma, agriculture, food production, winemaking, brewing and life science in general.

Published
2015
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26. The Global Genome Biodiversity Network (GGBN) Data Standard specification

Author

Droege, Gabriele, Barker, Katie, Seberg, Ole, Coddington, Jonathan, Benson, E., Berendsohn, Walter G., Bunk, B., Butler, Carol, Cawsey, E. M., Deck, J., Döring, M., Flemons, P., Gemeinholzer, Birgit, Güntsch, A., Hollowell, T., Kelbert, P., Kostadinov, I., Kottmann, R., Lawlor, R. T., Lyal, C., MacKenzie-Dodds, Jacqueline, Meyer, C., Mulcahy, D., Nussbeck, S. Y., O'Tuama, É., Orrell, T., Petersen, Gitte, Robertson, T., Söhngren, C., Whitacre, J., Wieczorek, J., Yilmaz, P., Zetzsche, H., Zhang, Y., Zhou, X., Droege, Gabriele, Barker, Katie, Seberg, Ole, Coddington, Jonathan, Benson, E., Berendsohn, Walter G., Bunk, B., Butler, Carol, Cawsey, E. M., Deck, J., Döring, M., Flemons, P., Gemeinholzer, Birgit, Güntsch, A., Hollowell, T., Kelbert, P., Kostadinov, I., Kottmann, R., Lawlor, R. T., Lyal, C., MacKenzie-Dodds, Jacqueline, Meyer, C., Mulcahy, D., Nussbeck, S. Y., O'Tuama, É., Orrell, T., Petersen, Gitte, Robertson, T., Söhngren, C., Whitacre, J., Wieczorek, J., Yilmaz, P., Zetzsche, H., Zhang, Y., and Zhou, X.

Published
2016

27. The Global Genome Biodiversity Network (GGBN) Data Standard specification

Author

Droege, G., primary, Barker, K., additional, Seberg, O., additional, Coddington, J., additional, Benson, E., additional, Berendsohn, W. G., additional, Bunk, B., additional, Butler, C., additional, Cawsey, E. M., additional, Deck, J., additional, Döring, M., additional, Flemons, P., additional, Gemeinholzer, B., additional, Güntsch, A., additional, Hollowell, T., additional, Kelbert, P., additional, Kostadinov, I., additional, Kottmann, R., additional, Lawlor, R. T., additional, Lyal, C., additional, Mackenzie-Dodds, J., additional, Meyer, C., additional, Mulcahy, D., additional, Nussbeck, S. Y., additional, O'Tuama, É., additional, Orrell, T., additional, Petersen, G., additional, Robertson, T., additional, Söhngen, C., additional, Whitacre, J., additional, Wieczorek, J., additional, Yilmaz, P., additional, Zetzsche, H., additional, Zhang, Y., additional, and Zhou, X., additional

Published
2016
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28. Absract

Author

Kaszkin, Marietta, Kinzel, Volker, Maly, Karl, Bichler, Irina, Lang, Florian, Grunicke, Hans H., Pepperkok, R., Jakobi, R., Lorenz, P., Ansorge, W., Pyerin, W., Borowski, P., Harbers, M., Ludwig, A., Kischel, T., Hilz, H., Eckert, K., Granetzny, A., Fischer, J., Grosse, R., Manch, V., Wehner, S., Kornhuber, B., Ebener, U., Müller-Decker, K., Fürstenberger, G., Vogt, I., Marks, F., Graschew, G., Küsel, A., Hull, W., Lorenz, W., Thielmann, H. W., Degen, Gisela H., Freyberger, Alexius, Müller, A., Linscheid, M., Hindermeier, Ulrike, Jorritsma, Ute, Golka, K., Föllmann, W., Peter, H., Bolt, H. M., Monnerjahn, S., Phillips, D. N., Never, A., Seidel, A., Glatt, A. R., Wiench, K., Frei, E., Schroth, P., Wiessler, M., Schäfer, T., Hergenhahn, M., Hecker, E., Proft, D., Bartholmes, P., Bagewadikar, R. S., Bertram, B., Frank, N., Leibersperger, Hanno, Gschwendt, Michael, Marks, Friedrich, Fasco, S., Plein, Peter, Schiess, Karin, Seidler, Lothar, Jacobi, T., Besemfelder, E., Stephan, M., Lehmann, W. D., Grell, M., Thoma, B., Scheurich, P., Meyer, Markus, Grunicke, Hans, Jaques G., Wegmann B., Ravemann K., Popanda, Odilia, Thielmann, Heinz Walter, Voss, H., Wirkner, U., Werner, Dieter, Strand, D., Kalmes, A., Walther, H. -P., Mechler, B., Schirrmacher, S. Volker, Kinzel, V., Hess, R., Hanagarth, H. -G., Hässler, C., Brandner, G., Ertel, Christian, Gückel, B., Schirrmacher, V., Kyewski, B. A., Bogdahn U., Jachimczak P., Schneider J., Brysch W., Schlingensiepen W., Drenkard D., Behl C., Winkler J., Apfel R., Meixensberger J., Stulle, K., Marquardt, P., Vollmers, H. P., Müller, J., Müller-Hermelink, H. -K., Schuermann, M., Seemann, G., Ptok, Angelika, Ptok, M., Carey, T. E., Steffen M., Nitz U. C., Everding B., Hölzel F., Kantwerk-Funke, G., Boll, G., Zänker, K. S., Everding, B., Steffen, M., Hölzel, P., Heymanns, J., Hennig, C., Rotsch, M., Havemann, K., Fischer, Jürgen R., Stehr, Sabine, Lahm, Harald, Drings, Peter, Krammer, Peter H., Kirsch M., Strubel A., Kist A., Hinn R., Fischer H., Buttler A., Schackert G., Friedenauer, S., Lindner, D., Marczynski, B., Karcls, H., Goergens, H. W., Epe, B., Müller, E., Schütze, D., Boiteux, S., Eder, E., Deininger, C., Hoffman, C., Scherer, E., Vermeulen, E., van Kranen, H. J., Bax, J., Woutersen, R. A., van Kreijl, C. F., Schurich, B., Hagedorn, H., Kamp, E., Eisenbrand, G., Spiegelhalder B., Bolm-Audorff U., Bienfait H. G., Preussmann R., Wacker, C. -D., Preussmann, R., Kehl, H., Spiegelhalder, B., Akkan, Z., Ries, J., Meger, M., Shephard, S. E., Gunz, D., Lutz, W. K., Tricker, A. R., Kurnar, R., Siddiqi, M., Mende, P., Pfundstein, B., Scholl, A., Janzowski, C., Jacob, D., Goelzer, P., Henn, I., Zankl, H., Zimlich, K. -H., Gansewendt, Barbara, Thier, Ricarda, Schroeder, K. R., Hallier, E., Moeckel, G., Heiden, W., Waldherr-Teschner, M., Brickmann, J., Roeser, H., Krauter, G., Scherer, G., Krätschmer, A., Hauenstein, H., Adlkofer, F., Fernando, R. C., Schmeiser, H. H., Nicklas, W., Pfau, Wolfgang, Phillips, David H., Scheckenbach, S., Cantoreggi, S., Leutbecher, Monika, Ottenwälder, H., Föst, U., Baumgart, P. M., Kliem, H. -C., Data, S., Pfeiffer, C., Fuchs, A., Schmezer, P., Kuchenmeister, F., Pool-Zober, B. L., Liegibel, U. M., Pool-Zobel, B. L., Steeb, L., Friesel, H., Schneider, Th., Scherf, H. R., Buchmann, A., Bauer-Hofmann, R., Mahr, J., Schwarz, M., Schmidt, R., Rippmann, F., Steinbauer, B., Zlfu, P., Bunk, B., Hefter, W., Klinga, K., Berger, M. R., Robertson, L. W., Luebeck, G., Moolgavkar, S., Torsten U., Kowalczyk-Wagner M., Weitzel H., Zechel, Ch., Peters, H., Anders, F., Ambs, S., Kirchner, T., Neumann, H. -G., Einig, C., Eigenbrodt, E., Oesterle, D., Deml, E., Weisse, G., Gerbracht, U., Stumpf, H., Filsingcr, E., Bannasch, P., Muster, W., Cikryt, P., Münzel, P., Röhrdanz, E., Bock, K. W., Lipp, H. -P., Wiesmüller, T., Hagenmaier, H., Schrenk, D., Karger, A., Bauer, G., Höfler, P., Götschl, M., Viesel, E., Jürgensmeier, J., Schaefer, D., Picht, G., Kiefer, J., Krieg, P., Schnapke, R., Feil, S., Wagner, E., Schleenbecker, U., Anders, A., Gross, M. M., Unger, S., Stanbridge, E. J., Boukamp, Petra, Pascheberg, Ulrich, Fusenig, Norbert E., Abken, H., Weidle, U. H., Grummt, F., Willecke, K., Schäfer, R., Hajnal, A., Balmer, I., Klemenz, R., Goretzki, P. E., Reishaus, H., Demeure, M., Haubruck, H., Lyons, J., Röher, H. D., Trouliaris, Sylvia, Hadwiger-Fangmeier, Angelika, Simon, Elke, Niemann, Heiner, Tamura, Teruko, Westphal, G., Turner, Elke, Karels, H., Blaszkewicz, M., Stopper, Helga, Schiffmann, Dietmar, De Boni, Umberto, Schuler, M., Schnitzler, R., Metzler, M., Pfeiffer, E., Aulenbacher, R., Langhof, T., Schröder, K. R., Saal, K., Müller-Hermelink, H. K., Henn W., Seitz G., Lagoda P., Christmann A., Blin N., Welter C., Adam, D., Fömzler, D., Winkler, C., Mäueler, W., Schartl, M., Theisinger B., Schüder G., Rüther U., Nunnensiek C., Müller H. A. G., Rupp W., Lüthgens M., Jipp P., Kinzler, I., Gulich, M., Seidel, H. J., Clark, O. H., McCormick, F., Bourne, H. R., Gieseler, F., Boege, F., Biersack, H., Spohn, B., Clark, M., Wilms, K., Boege, Fritz, Gieseler, Frank, Biersack, Harald, Clark, Michael, Wllms, Klaus, Polack, Axel, Strobl, Lothar, Feederle, Regina, Schweizer, Matthias, Eick, Dirk, Bornkamm, Georg W., Kopun M., Scherthan H., Granzow C., Janiaud, P., Rueß, D., Mechler, B. M., Strauss, P. G., Erfle, V., Fritsche, M., Haessler, C., Christiansen, H., Schestag, J., Christiansen, N. M., Lampert, F., Schulz, Wolfgang A., Hasse, Andreas, Sies, Helmut, Orend, G., Kuhlmann, I., Doerfler, W., Behn-Krappa, A., Hölker, I., Sandaradura de Silva, U., Smola, Ute, Hennig, Dagmar, Hadviger-Fangmeier, Angelika, Schütz, Burkhard, Kerler R., Rabes H. M., Dölken, G., Fauser, A. A., Kerkert, R., Ragoczy, U., Fritzen, R., Lange, W., Finke, J., Nowicki, B., Schalipp, E., Siegert, W., Mertelsmann, R., Schilling, U., Sinn, H. J., Maier-Borst, W., Friedrich, E. A., Löhde E., Lück M., Raude H., Schlicker H., Barzen G., Kraas E., Milleck, J., Keymer, R., Störkel, S., Reichert, T., Steinbach, F., Lippold, R., Thoenes, W., Wagner, W., Reiffen, K. -A., Bardosi, A., Brkovic, D., Gabius, H. -J., Brandt B., Jackisch C., Seitzer D., Hillebrand M., Habermann, F. A., Rabes, H. M., Zeindl-Eberhart, Evelyn, Robl, C., Röttgen, V., Nowak, C., Richter-Reichhelm, H. -B., Waldmann, V., Suchy, B., Zietz, Ch., Sarafoff, M., Ostermayr, Richard, Rabes, Hartmut M., Lorenz, J., Friedberg, T., Paulus, W., Ferlinz, R., Oesch, F., Jähde, E., Glüsenkamp, K. -H., Tietze, L. F., Rajewsky, M. F., Chen, G., Hutter, K. -J., Bullerdiek, J., Zeller, W. J., Schirner, M., Schneider, M. R., Zbu, P., Gebelein, M., Naser-Hijazi, B., Hynes, Nancy E., Reinhardt, M., Heyl, P., Schmähl, D., Presek, P., Liebenhoff, U., Findik, D., Hartmann, G. H., Fischer, H., Kliesch, C., Schackert, G., Albert, F., Kunze, S., Wannnenmacher, M., Boese-Landgraf, J., Lorenz, E., Albrecht, D., Dulce, M., Aigner, K. R., Thiem, N., Müller, H., Leonardi, M., Bogdahn, U., Justh, A., Drenkard, D., Lutz, M., Apfel, R., Behl, C., Lang, E., Lieth, C. W. v. d., Sinn, H., Betsch, B. R., Hengstler, Jan Georg, Fuchs, Jürgen, Oesch, Franz, Busch, F. J., Cato, A. B. C., Schied, G., Tang, W., Bogdahn U., Richter B., Schaefer, C., Kelleher, D. K., Vaupel, P., Mundt, D., Bartsch, H. H., Meden, H., Meyer, M., Vehmeyer, K., Mull, R., Kuhn, W., Hoffmann, S., Berger, D., Fiebig, H., Moog, Ch., Luu, B., Frühauf, S., Keppler, B. K., Galeano, A., Valenzuela-Paz, P., Klenner, T., Stadler, H., Golomb, G., Breuer, E., Voegeli, R., Hilgard, P., Nowrousian, H. R., Aulenbacher, P., Winterhalter, B., Granson, C., Stöhr, M., Ponstingl, H., Granzow, C., Drings, P., Osswald, H., Sobottka, S. B., Amtmann, E., Sauer, G., Hornung, B., Volland, S., Kahl, S., Gerspach, R., Matz, B., Schmidt, J., Lipp, M., Brehm, G., Luz, A., Rüther, U., Wendel, S., Strauß, P. G., Erflte, V., Greehmann, S., Zobel, A., Kalkbrenner, F., Vorbrüggen, G., Moelling, K., Iftner, T., Müller, A. H., Fuchs, P. G., Pfister, H., Cichutek, Klaus, Treinies, Iris, Lang, Matthias, Braun, C., Denner J., Norley S., Kurth R., Music, L., Wiestler, O. D., Aguzzi, A., von Deimling, A., Schneemann, M., Elbl, R., Kleihues, P., Land, H., Hohn, H. -P., Höök, M., Denker, H. -W., Kemmner, W., Zaar, K., Jones, Peter A., Kath, R., Herlyn, M., Maier, P., Schawalder, H. P., Elsner, J., Parzefall, W., Erber, E., Sedivy, R., Schulte-Hermann, R., Hemmer, J., Tomakidi, P., Boukamp, P., Breitkreutz, D., Fusenig, N. E., Kallinowski, F., Strauss, W., Brownell, A. L., Bassukas, I. D., Vester, G., Maurer-Schultze, B., Langbein, L., Kosmehl, H., Katenkamp, D., Spiess, Eberhard, Trefz, Günther, Ebert, Werner, Jordan, Peter, Kübler, Dieter, Lichtner, Rosemarie B., Wiedemuth, Marion, Kittmann, Annette, Ullrich, Axel, Khazaie, Khashayarsha, Kowitz, Aiga, Kadmon, Guni, Altevogt, Peter, Frixen, U. H., Behrens, J., Schipper, J., Sachs, M., Birchmeier, H., Hackenberg, R., Hawighorst, Th., Hofmann, J., Beato, H., Schulz, K. -D., Erbil, C., Maasberg, M., Kunz, L. A., Simm, A., Adam, G., Mueller-Klieser, W., Kaufmann, Andreas M., Stoeck, Michael, Hülsen A., Boukamp P., Game S., Donnelly M., Fusenig N. E., Stark, H. -J., Schlingensiepen K. -H., Kurzik-Dumke U., Phannavong B., Gundacker D., Gateff E., Gabius, S., Joshi, S. S., Franz, H., John, N. J., Grümmer, R., Denker, H. W., Gross, M. W., and Karbach, U.

Published
1991
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32. The complete genome sequence of the algal symbiont Dinoroseobacter shibae: a hitchhiker s guide to life in the sea

Author

Wagner-Doebler, I., Ballhausen, B., Berger, M., Brinkhoff, T., Buchholz, I., Bunk, B., Cypionka, H., Daniel, R., Drepper, T., Gerdts, Gunnar, Hahnke, S., Han, H., Jahn, D., Kalhoefer, D., Kiss, H., Klenk, H. P., Kyrpides, N., Liebl, W., Liesegang, H., Meincke, L., Pati, A., Petersen, J., Piekarski, T., Pommerenke, C., Pradella, S., Pukall, R., Rabus, R., Stackebrandt, E., Thole, S., Thompson, L., Tielen, P., Tomasch, J., von Jan, M., Wanphrut, N., Wichels, Antje, Zech, H., Simon, M., Wagner-Doebler, I., Ballhausen, B., Berger, M., Brinkhoff, T., Buchholz, I., Bunk, B., Cypionka, H., Daniel, R., Drepper, T., Gerdts, Gunnar, Hahnke, S., Han, H., Jahn, D., Kalhoefer, D., Kiss, H., Klenk, H. P., Kyrpides, N., Liebl, W., Liesegang, H., Meincke, L., Pati, A., Petersen, J., Piekarski, T., Pommerenke, C., Pradella, S., Pukall, R., Rabus, R., Stackebrandt, E., Thole, S., Thompson, L., Tielen, P., Tomasch, J., von Jan, M., Wanphrut, N., Wichels, Antje, Zech, H., and Simon, M.

Published
2009

34. SYSTOMONAS -- an integrated database for systems biology analysis of Pseudomonas

Author

Choi, C., primary, Munch, R., additional, Leupold, S., additional, Klein, J., additional, Siegel, I., additional, Thielen, B., additional, Benkert, B., additional, Kucklick, M., additional, Schobert, M., additional, Barthelmes, J., additional, Ebeling, C., additional, Haddad, I., additional, Scheer, M., additional, Grote, A., additional, Hiller, K., additional, Bunk, B., additional, Schreiber, K., additional, Retter, I., additional, Schomburg, D., additional, and Jahn, D., additional

Published
2007
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50. Combination of a data warehouse concept with web services for the establishment of the Pseudomonas systems biology database SYSTOMONAS

Author

Choi Claudia, Münch Richard, Bunk Boyke, Barthelmes Jens, Ebeling Christian, Schomburg Dietmar, Schobert Max, and Jahn Dieter

Subjects
Biotechnology, TP248.13-248.65
Abstract

Systems biology requires the integration of data from various sources and their combined interpretation using different bioinformatics tools. Integration of different biological databases, however, is often problematic due to their semantic and structural diversity. Moreover, necessary continuous updates of both the structure and content of a database provide further challenges for an integration process. We established the novel database SYSTOMONAS for SYSTems biology of pseudOMONAS by integrating heterogeneous data from highly different external resources including BioCyc, BRENDA, ENZYME, Pseudomonas Genome Database v2, KEGG, and PRODORIC. For this purpose we combined a data warehouse concept with the advantages of web services. This hybrid approach benefits from the fast performance and data consistency provided by the data warehouse system and from the up-to-dateness ensured by use of dynamic web services. The data warehouse part is realized by ETL processes (Extract, Transform, Load), during which data are checked for consistency and standardized to ensure their integrity. While accessing SYSTOMONAS via the internet, parts of the data warehouse content are dynamically enriched using the web service part of the system via SOAP (originally for Simple Object Access Protocol) interfaces with BRENDA, KEGG and PRODORIC. SYSTOMONAS is designed to integrate in-house experimental high-throughput data with up-to-date information available in the mentioned public databases. SYSTOMONAS also serves as a repository for the prediction of metabolic and regulatory networks. SYSTOMONAS is accessible at http://www.systomonas.de.

Published
2007
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