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1

Dynamics and adaptive benefits of modular protein evolution

Bornberg-Bauer, Erich, Albà, M Mar

Journal:

Current Opinion in Structural Biology

Year:

2013

Language:

english

File:

PDF, 456 KB

english, 2013

2

RNA folding and combinatory landscapes

Fontana, Walter, Stadler, Peter F., Bornberg-Bauer, Erich G., Griesmacher, Thomas, Hofacker, Ivo L., Tacker, Manfred, Tarazona, Pedro, Weinberger, Edward D., Schuster, Peter

Journal:

Physical Review E

Year:

1993

File:

PDF, 2.35 MB

1993

3

Chapter 6. Comparative genomic approaches to investigate molecular traits specific to social insects.

Elsner, Daniel, Kremer, Lukas P.M., Arning, Nicolas, Bornberg-Bauer, Erich

Journal:

Current Opinion in Insect Science

Year:

2016

Language:

english

File:

PDF, 1.32 MB

english, 2016

4

Genome-wide genotype-expression relationships reveal both copy number and single nucleotide differentiation contribute to differential gene expression between stickleback ecotypes

Huang, Yun, Feulner, Philine G D, Eizaguirre, Christophe, Lenz, Tobias L, Bornberg-Bauer, Erich, Milinski, Manfred, Reusch, Thorsten B H, Chain, Frédéric J J

Journal:

Genome Biology and Evolution

Year:

2019

Language:

english

File:

PDF, 2.32 MB

english, 2019

5

The evolution of protein interaction networks in regulatory proteins

Gregory D. Amoutzias, David L. Robertson, Erich Bornberg-Bauer

Journal:

Comparative and Functional Genomics

Year:

2004

Language:

english

File:

PDF, 100 KB

english, 2004

6

Back to the sea twice: identifying candidate plant genes for molecular evolution to marine life

Lothar Wissler, Francisco M Codoñer, Jenny Gu, Thorsten BH Reusch, Jeanine L Olsen, Gabriele Procaccini, Erich Bornberg-Bauer

Journal:

BMC Evolutionary Biology

Year:

2011

Language:

english

File:

PDF, 1.95 MB

english, 2011

7

Comprehensive transcriptome analysis of the highly complexPisum sativumgenome using next generation sequencing

Susanne U Franssen, Roshan P Shrestha, Andrea Bräutigam, Erich Bornberg-Bauer, Andreas PM Weber

Journal:

Year:

2011

Language:

english

File:

PDF, 2.69 MB

english, 2011

8

The Crohn’s disease susceptibility geneDLG5as a member of the CARD interaction network

Frauke Friedrichs, Liesbet Henckaerts, Severine Vermeire, Torsten Kucharzik, Tanja Seehafer, Maren Möller-Krull, Erich Bornberg-Bauer, Monika Stoll, January Weiner

Journal:

Journal of Molecular Medicine

Year:

2008

Language:

english

File:

PDF, 421 KB

english, 2008

9

Algorithm independent properties of RNA secondary structure predictions

Manfred Tacker, Peter F. Stadler, Erich G. Bornberg-Bauer, Ivo L. Hofacker, P. Schuster

Journal:

European Biophysics Journal

Year:

1996

Language:

english

File:

PDF, 826 KB

english, 1996

10

Metabolism of halophilic archaea

Michaela Falb, Kerstin Müller, Lisa Königsmaier, Tanja Oberwinkler, Patrick Horn, Susanne von Gronau, Orland Gonzalez, Friedhelm Pfeiffer, Erich Bornberg-Bauer, Dieter Oesterhelt

Journal:

Year:

2008

Language:

english

File:

PDF, 535 KB

english, 2008

11

Comparative Analysis of Expressed Sequence Tag (EST) Libraries in the SeagrassZostera marinaSubjected to Temperature Stress

Thorsten B. H. Reusch, Amelie S. Veron, Christoph Preuss, January Weiner, Lothar Wissler, Alfred Beck, Sven Klages, Michael Kube, Richard Reinhardt, Erich Bornberg-Bauer

Journal:

Marine Biotechnology

Year:

2008

Language:

english

File:

PDF, 229 KB

english, 2008

12

Distribution of gibberellin biosynthetic genes and gibberellin production in the Gibberella fujikuroi species complex

Stefan Malonek, Christiane Bömke, Erich Bornberg-Bauer, María C. Rojas, Peter Hedden, Paul Hopkins, Bettina Tudzynski

Journal:

Year:

2005

Language:

english

File:

PDF, 677 KB

english, 2005

13

The AtGenExpress global stress expression data set: protocols, evaluation and model data analysis of UV-B light, drought and cold stress responses

Joachim Kilian, Dion Whitehead, Jakub Horak, Dierk Wanke, Stefan Weinl, Oliver Batistic, Cecilia D’Angelo, Erich Bornberg-Bauer, Jörg Kudla, Klaus Harter

Journal:

The Plant Journal

Year:

2007

Language:

english

File:

PDF, 1.08 MB

english, 2007

14

Domain deletions and substitutions in the modular protein evolution

January Weiner 3rd, Francois Beaussart, Erich Bornberg-Bauer

Journal:

Year:

2006

Language:

english

File:

PDF, 513 KB

english, 2006

15

Convergent evolution of gene networks by single-gene duplications in higher eukaryotes

Amoutzias, Gregory D, Robertson, David L, Oliver, Stephen G, Bornberg-Bauer, Erich

Journal:

Year:

2004

Language:

english

File:

PDF, 276 KB

english, 2004

16

The interface of protein structure, protein biophysics, and molecular evolution

David A. Liberles, Sarah A. Teichmann, Ivet Bahar, Ugo Bastolla, Jesse Bloom, Erich Bornberg-Bauer, Lucy J. Colwell, A. P. Jason de Koning, Nikolay V. Dokholyan, Julian Echave, Arne Elofsson, Dietlind

Journal:

Protein Science

Year:

2012

Language:

english

File:

PDF, 1.00 MB

english, 2012

17

Random structures and evolution of biopolymers: A computational case study on RNA secondary structures

Erich Bornberg-Bauer

Journal:

Pharmaceutica Acta Helvetiae

Year:

1996

Language:

english

File:

PDF, 738 KB

english, 1996

18

How do new proteins arise?

Erich Bornberg-Bauer, Ann-Kathrin Huylmans, Tobias Sikosek

Journal:

Current Opinion in Structural Biology

Year:

2010

Language:

english

File:

PDF, 404 KB

english, 2010

19

Arrangements in the modular evolution of proteins

Andrew D. Moore, Åsa K. Björklund, Diana Ekman, Erich Bornberg-Bauer, Arne Elofsson

Journal:

Trends in Biochemical Sciences

Year:

2008

Language:

english

File:

PDF, 636 KB

english, 2008

20

Just how versatile are domains?

January Weiner, Andrew D Moore, Erich Bornberg-Bauer

Journal:

BMC Evolutionary Biology

Year:

2008

Language:

english

File:

PDF, 393 KB

english, 2008

21

Reduction/oxidation-phosphorylation control of DNA binding in the bZIP dimerization network

Gregory D Amoutzias, Erich Bornberg-Bauer, Stephen G Oliver, David L Robertson

Journal:

Year:

2006

Language:

english

File:

PDF, 2.02 MB

english, 2006

22

Molecular and phylogenetic characterization of the sieve element occlusion gene family inFabaceaeand non-Fabaceaeplants

Boris Rüping, Antonia M Ernst, Stephan B Jekat, Steffen Nordzieke, Anna R Reineke, Boje Müller, Erich Bornberg-Bauer, Dirk Prüfer, Gundula A Noll

Journal:

BMC Plant Biology

Year:

2010

Language:

english

File:

PDF, 2.34 MB

english, 2010

23

A protein interaction atlas for the nuclear receptors: properties and quality of a hub-based dimerisation network

Gregory D Amoutzias, Elgar E Pichler, Nina Mian, David De Graaf, Anastasia Imsiridou, Marc Robinson-Rechavi, Erich Bornberg-Bauer, David L Robertson, Stephen G Oliver

Journal:

BMC Systems Biology

Year:

2007

Language:

english

File:

PDF, 1.67 MB

english, 2007

24

Phylogenetic profiling of protein interaction networks in eukaryotic transcription factors reveals focal proteins being ancestral to hubs

Gregory D. Amoutzias, January Weiner, Erich Bornberg-Bauer

Journal:

Year:

2005

Language:

english

File:

PDF, 591 KB

english, 2005

25

Specificity of the innate immune system and diversity of C-type lectin domain (CTLD) proteins in the nematode Caenorhabditis elegans

Hinrich Schulenburg, Marc P. Hoeppner, January Weiner III, Erich Bornberg-Bauer

Journal:

Year:

2008

Language:

english

File:

PDF, 464 KB

english, 2008

26

Evolvability and Single-Genotype Fluctuation in Phenotypic Properties: A Simple Heteropolymer Model

Chen, Tao, Vernazobres, David, Yomo, Tetsuya, Bornberg-Bauer, Erich, Chan, Hue Sun

Journal:

Biophysical Journal

Year:

2010

Language:

english

File:

PDF, 2.02 MB

english, 2010

27

The look-ahead effect of phenotypic mutations

Dion J Whitehead, Claus O Wilke, David Vernazobres, Erich Bornberg-Bauer

Journal:

Year:

2008

Language:

english

File:

PDF, 424 KB

english, 2008

28

Comparing Folding Codes in Simple Heteropolymer Models of Protein Evolutionary Landscape: Robustness of the Superfunnel Paradigm

Wroe, Richard, Bornberg-Bauer, Erich, Chan, Hue Sun

Journal:

Biophysical Journal

Year:

2005

Language:

english

File:

PDF, 441 KB

english, 2005

29

Quantification and functional analysis of modular protein evolution in a dense phylogenetic tree

Moore, Andrew D., Grath, Sonja, Schüler, Andreas, Huylmans, Ann K., Bornberg-Bauer, Erich

Journal:

Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics

Year:

2013

Language:

english

File:

PDF, 1.07 MB

english, 2013

30

Transcriptional networking

Sarah A Teichmann, Erich Bornberg-Bauer, Nicholas M Luscombe

Journal:

Year:

2005

Language:

english

File:

PDF, 56 KB

english, 2005

31

Genomic divergence between nine- and three-spined sticklebacks

Guo, Baocheng, Chain, Frédéric JJ, Bornberg-Bauer, Erich, Leder, Erica H, Merilä, Juha

Journal:

Year:

2013

Language:

english

File:

PDF, 428 KB

english, 2013

32

Genome-wide transcriptomic responses of the seagrasses Zostera marina and Nanozostera noltii under a simulated heatwave confirm functional types

Franssen, Susanne U., Gu, Jenny, Winters, Gidon, Huylmans, Ann-Kathrin, Wienpahl, Isabell, Sparwel, Maximiliane, Coyer, James A., Olsen, Jeanine L., Reusch, Thorsten B.H., Bornberg-Bauer, Erich

Journal:

Marine Genomics

Year:

2014

Language:

english

File:

PDF, 1.81 MB

english, 2014

33

Modeling Evolutionary Landscapes: Mutational Stability, Topology, and Superfunnels in Sequence Space

Erich Bornberg-Bauer and Hue Sun Chan

Journal:

Proceedings of the National Academy of Sciences

Year:

1999

Language:

english

File:

PDF, 1.17 MB

english, 1999

34

Identifying core features of adaptive metabolic mechanisms for chronic heat stress attenuation contributing to systems robustness

Gu, Jenny, Weber, Katrin, Klemp, Elisabeth, Winters, Gidon, Franssen, Susanne U., Wienpahl, Isabell, Huylmans, Ann-Kathrin, Zecher, Karsten, Reusch, Thorsten B. H., Bornberg-Bauer, Erich, Weber, Andre

Journal:

Integrative Biology

Year:

2012

Language:

english

File:

PDF, 4.63 MB

english, 2012

35

Protein domain evolution is associated with reproductive diversification and adaptive radiation in the genus Eucalyptus

Kersting, Anna R., Mizrachi, Eshchar, Bornberg-Bauer, Erich, Myburg, Alexander A.

Journal:

New Phytologist

Year:

2015

Language:

english

File:

PDF, 1000 KB

english, 2015

36

Detection of orphan domains in Drosophila using “hydrophobic cluster analysis”

Bitard-Feildel, Tristan, Heberlein, Magdalena, Bornberg-Bauer, Erich, Callebaut, Isabelle

Journal:

Year:

2015

Language:

english

File:

PDF, 1.51 MB

english, 2015

37

MDAT- Aligning multiple domain arrangements

Kemena, Carsten, Bitard-Feildel, Tristan, Bornberg-Bauer, Erich

Journal:

BMC Bioinformatics

Year:

2015

Language:

english

File:

PDF, 1.44 MB

english, 2015

38

Randomness, Structural Uniqueness, Modularity and Neutral Evolution in Sequence Space of Model Proteins

Bornberg-Bauer, Erich

Journal:

Zeitschrift für Physikalische Chemie

Year:

2002

Language:

english

File:

PDF, 266 KB

english, 2002

39

Evolutionary dynamics of simple sequence repeats across long evolutionary time scale in genus Drosophila

Wissler, Lothar, Godmann, Lars, Bornberg-Bauer, Erich

Journal:

Trends in Evolutionary Biology

Year:

2012

Language:

english

File:

PDF, 717 KB

english, 2012

40

Genomics of Divergence along a Continuum of Parapatric Population Differentiation

Feulner, Philine G. D., Chain, Frédéric J. J., Panchal, Mahesh, Huang, Yun, Eizaguirre, Christophe, Kalbe, Martin, Lenz, Tobias L., Samonte, Irene E., Stoll, Monika, Bornberg-Bauer, Erich, Reusch, Tho

Journal:

Year:

2015

Language:

english

File:

PDF, 3.12 MB

english, 2015

41

The Amino Acid Alphabet and the Architecture of the Protein Sequence-Structure Map. I. Binary Alphabets

Ferrada, Evandro, Bornberg-Bauer, Erich

Journal:

PLoS Computational Biology

Year:

2014

Language:

english

File:

PDF, 1.74 MB

english, 2014

42

The Genome Sequence of the Leaf-Cutter Ant Atta cephalotes Reveals Insights into Its Obligate Symbiotic Lifestyle

Suen, Garret, Teiling, Clotilde, Li, Lewyn, Holt, Carson, Abouheif, Ehab, Bornberg-Bauer, Erich, Bouffard, Pascal, Caldera, Eric J., Cash, Elizabeth, Cavanaugh, Amy, Denas, Olgert, Elhaik, Eran, Favé,

Journal:

Year:

2011

Language:

english

File:

PDF, 729 KB

english, 2011

43

Evolutionary Dynamics on Protein Bi-stability Landscapes can Potentially Resolve Adaptive Conflicts

Sikosek, Tobias, Bornberg-Bauer, Erich, Chan, Hue Sun, Wilke, Claus O.

Journal:

PLoS Computational Biology

Year:

2012

Language:

english

File:

PDF, 1.01 MB

english, 2012

44

Extensive Copy-Number Variation of Young Genes across Stickleback Populations

Chain, Frédéric J. J., Feulner, Philine G. D., Panchal, Mahesh, Eizaguirre, Christophe, Samonte, Irene E., Kalbe, Martin, Lenz, Tobias L., Stoll, Monika, Bornberg-Bauer, Erich, Milinski, Manfred, Reus

Journal:

Year:

2014

Language:

english

File:

PDF, 1.14 MB

english, 2014

45

[ACM Press the first annual international conference - Santa Fe, New Mexico, United States (1997.01.20-1997.01.23)] Proceedings of the first annual international conference on Computational molecular biology - RECOMB '97 - Chain growth algorithms for HP-type lattice proteins

Bornberg-Bauer, Erich

Year:

1997

Language:

english

File:

PDF, 1.07 MB

english, 1997

46

Immunity comes first: The effect of parasite genotypes on adaptive immunity and immunization in three-spined sticklebacks

Haase, David, Rieger, Jennifer K., Witten, Anika, Stoll, Monika, Bornberg-Bauer, Erich, Kalbe, Martin, Reusch, Thorsten B.H.

Journal:

Developmental & Comparative Immunology

Year:

2016

Language:

english

File:

PDF, 2.39 MB

english, 2016

47

Domain similarity based orthology detection

Bitard-Feildel, Tristan, Kemena, Carsten, Greenwood, Jenny M, Bornberg-Bauer, Erich

Journal:

BMC Bioinformatics

Year:

2015

Language:

english

File:

PDF, 1.02 MB

english, 2015

48

Transcriptomic resilience to global warming in the seagrass Zostera marina, a marine foundation species

Susanne U. Franssen, Jenny Gu, Nina Bergmann, Gidon Winters, Ulrich C. Klostermeier, Philip Rosenstiel, Erich Bornberg-Bauer and Thorsten B. H. Reusch

Journal:

Proceedings of the National Academy of Sciences

Year:

2011

Language:

english

File:

PDF, 1.67 MB

english, 2011

49

The Rise and Fall of TRP-N, an Ancient Family of Mechanogated Ion Channels, in Metazoa

Schüler, Andreas, Schmitz, Gregor, Reft, Abigail, Özbek, Suat, Thurm, Ulrich, Bornberg-Bauer, Erich

Journal:

Genome Biology and Evolution

Year:

2015

Language:

english

File:

PDF, 1.02 MB

english, 2015

50

How Do Genomes Create Novel Phenotypes? Insights from the Loss of the Worker Caste in Ant Social Parasites

Smith, Chris R., Helms Cahan, Sara, Kemena, Carsten, Brady, Seán G., Yang, Wei, Bornberg-Bauer, Erich, Eriksson, Ti, Gadau, Juergen, Helmkampf, Martin, Gotzek, Dietrich, Okamoto Miyakawa, Misato, Suar

Journal:

Molecular Biology and Evolution

Year:

2015

Language:

english

File:

PDF, 648 KB

english, 2015