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1

Improved contact prediction in proteins: Using pseudolikelihoods to infer Potts models

Ekeberg, Magnus, Lövkvist, Cecilia, Lan, Yueheng, Weigt, Martin, Aurell, Erik

Journal:

Physical Review E

Year:

2013

Language:

english

File:

PDF, 2.78 MB

english, 2013

2

Inverse Statistical Physics of Protein Sequences: A Key Issues Review

Cocco, S, Feinauer, Christoph, Figliuzzi, Matteo, Monasson, Remi, Weigt, Martin

Journal:

Reports on Progress in Physics

Year:

2017

Language:

english

File:

PDF, 2.89 MB

english, 2017

3

Synthese und Struktur eines linear anti-anellierten Tetracycloundecans, der potentiellen Vorstufe einer Coriolinsynthese

Dr. Martin Demuth, Dr. Antonio Cánovas, Eva Weigt, Prof. Dr. Carl Krüger, Dr. Yi-Hung Tsay

Journal:

Angewandte Chemie

Year:

1983

File:

PDF, 217 KB

1983

4

Synthesis and Structure of a Linearly anti-Annelated Tetracycloundecane. A Potential Precussor for a Coriolin Synthesis

Dr. Martin Demuth, Dr. Antonio Cánovas, Eva Weigt, Prof. Dr. Carl Krüger, Dr. Yi-Hung Tsay (X-ray structure analysis)

Journal:

Angewandte Chemie International Edition

Year:

1983

Language:

english

File:

PDF, 215 KB

english, 1983

5

Synthesis and Structure of a Linearly Anti Fused Tetracyclic Undecane. A Potential Intermediate in a Coriolin Synthesis

Dr. Martin Demuth, Dr. Antonio Cánovas, Eva Weigt, Prof. Dr. Carl Krüger, Dr. Yi-Hung Tsay

Journal:

Angewandte Chemie International Edition

Year:

1983

Language:

english

File:

PDF, 256 KB

english, 1983

6

Statistical mechanics perspective on the phase transition in vertex covering of finite-connectivity random graphs

Alexander K. Hartmann, Martin Weigt

Journal:

Theoretical Computer Science

Year:

2001

Language:

english

File:

PDF, 378 KB

english, 2001

7

The decay of 131Cs

J. Fechner, A. Hammesfahr, A. Kluge, S.K. Sen, H. Toschinski, J. Voss, P. Weigt, B. Martin

Journal:

Nuclear Physics A

Year:

1969

Language:

english

File:

PDF, 773 KB

english, 1969

8

Phase transition and finite-size scaling in the vertex-cover problem

Alexander K. Hartmann, Wolfgang Barthel, Martin Weigt

Journal:

Computer Physics Communications

Year:

2005

Language:

english

File:

PDF, 108 KB

english, 2005

9

Inference of sparse combinatorial-control networks from gene-expression data: a message passing approach

Marc Bailly-Bechet, Alfredo Braunstein, Andrea Pagnani, Martin Weigt, Riccardo Zecchina

Journal:

BMC Bioinformatics

Year:

2010

Language:

english

File:

PDF, 996 KB

english, 2010

10

Jordan homomorphisms between algebras of measurable operators

Journal:

Quaestiones Mathematicae

Year:

2009

Language:

english

File:

PDF, 204 KB

english, 2009

11

Integrating Genomic Information with Molecular Simulation to Understand Protein Complex- and Active Conformation Formation in Two-Component Signal Transduction

Schug, Alexander, Weigt, Martin, Szurmant, Hendrik

Journal:

Biophysical Journal

Year:

2012

Language:

english

File:

PDF, 42 KB

english, 2012

12

A hard-sphere model on generalized Bethe lattices: statics

Hansen-Goos, Hendrik, Weigt, Martin

Journal:

Journal of Statistical Mechanics Theory and Experiment

Year:

2005

Language:

english

File:

PDF, 778 KB

english, 2005

13

A hard-sphere model on generalized Bethe lattices: dynamics

Hansen-Goos, Hendrik, Weigt, Martin

Journal:

Journal of Statistical Mechanics Theory and Experiment

Year:

2005

Language:

english

File:

PDF, 1009 KB

english, 2005

14

Integrating Genomic Information with Molecular Simulation for Protein Dynamics

Schug, Alexander, Verma, Abhinav, Weigt, Martin, Szurmant, Hendrik

Journal:

Biophysical Journal

Year:

2013

Language:

english

File:

PDF, 48 KB

english, 2013

15

Estimation of Residue-Residue Coevolution using Direct Coupling Analysis Identifies Many Native Contacts Across a Large Number of Domain Families

Morcos, Faruck, Pagnini, Andrea, Lunt, Bryan, Bertolino, Arianna, Marks, Debora, Sander, Chris, Zecchina, Riccardo, Onuchic, José N., Hwa, Terence, Weigt, Martin

Journal:

Biophysical Journal

Year:

2012

Language:

english

File:

PDF, 99 KB

english, 2012

16

Total synthesis of (-)-coriolin

Demuth, Martin., Ritterskamp, Peter., Weigt, Eva., Schaffner, Kurt.

Journal:

Journal of the American Chemical Society

Year:

1986

Language:

english

File:

PDF, 824 KB

english, 1986

17

Cavity Approach to the Random Solid State

Mao, Xiaoming, Goldbart, Paul M., Mézard, Marc, Weigt, Martin

Journal:

Physical Review Letters

Year:

2005

Language:

english

File:

PDF, 227 KB

english, 2005

18

Message passing for vertex covers

Weigt, Martin, Zhou, Haijun

Journal:

Physical Review E

Year:

2006

Language:

english

File:

PDF, 463 KB

english, 2006

19

asymptotics for the coloring problem on random graphs

Krząkała, Florent, Pagnani, Andrea, Weigt, Martin

Journal:

Physical Review E

Year:

2004

Language:

english

File:

PDF, 366 KB

english, 2004

20

Minimal vertex covers on finite-connectivity random graphs: A hard-sphere lattice-gas picture

Weigt, Martin, Hartmann, Alexander K.

Journal:

Physical Review E

Year:

2001

Language:

english

File:

PDF, 301 KB

english, 2001

21

Number of Guards Needed by a Museum: A Phase Transition in Vertex Covering of Random Graphs

Weigt, Martin, Hartmann, Alexander K.

Journal:

Physical Review Letters

Year:

2000

Language:

english

File:

PDF, 70 KB

english, 2000

22

[IEEE 2009 47th Annual Allerton Conference on Communication, Control, and Computing (Allerton) - Monticello, IL, USA (2009.09.30-2009.10.2)] 2009 47th Annual Allerton Conference on Communication, Control, and Computing (Allerton) - The importance of dilution in the inference of biological networks

Lage-Castellanos, Alejandro, Pagnani, Andrea, Weigt, Martin

Year:

2009

Language:

english

File:

PDF, 436 KB

english, 2009

23

Solving satisfiability problems by fluctuations: The dynamics of stochastic local search algorithms

Barthel, Wolfgang, Hartmann, Alexander K., Weigt, Martin

Journal:

Physical Review E

Year:

2003

Language:

english

File:

PDF, 202 KB

english, 2003

24

Typical Solution Time for a Vertex-Covering Algorithm on Finite-Connectivity Random Graphs

Weigt, Martin, Hartmann, Alexander K.

Journal:

Physical Review Letters

Year:

2001

Language:

english

File:

PDF, 95 KB

english, 2001

25

Simplest random K -satisfiability problem

Ricci-Tersenghi, Federico, Weigt, Martin, Zecchina, Riccardo

Journal:

Physical Review E

Year:

2001

Language:

english

File:

PDF, 188 KB

english, 2001

26

Computational complexity arising from degree correlations in networks

Vázquez, Alexei, Weigt, Martin

Journal:

Physical Review E

Year:

2003

Language:

english

File:

PDF, 105 KB

english, 2003

27

Statistical Mechanics of Combinatorial Auctions

Galla, Tobias, Leone, Michele, Marsili, Matteo, Sellitto, Mauro, Weigt, Martin, Zecchina, Riccardo

Journal:

Physical Review Letters

Year:

2006

Language:

english

File:

PDF, 182 KB

english, 2006

28

Protein and RNA Structure Prediction by Integration of Co-Evolutionary Information into Molecular Simulation

De Leonardis, Eleonora, Lutz, Benjamin, Cocco, Simona, Monasson, Remi, Szurmant, Hendrik, Weigt, Martin, Schug, Alexander

Journal:

Biophysical Journal

Year:

2015

Language:

english

File:

PDF, 56 KB

english, 2015

29

From Principal Component to Direct Coupling Analysis of Coevolution in Proteins: Low-Eigenvalue Modes are Needed for Structure Prediction

Cocco, Simona, Monasson, Remi, Weigt, Martin, Wallner, Björn

Journal:

PLoS Computational Biology

Year:

2013

Language:

english

File:

PDF, 2.05 MB

english, 2013

30

A thermodynamic model for the agglomeration of DNA-looping proteins

Sumedha,, Weigt, Martin

Journal:

Journal of Statistical Mechanics Theory and Experiment

Year:

2008

Language:

english

File:

PDF, 587 KB

english, 2008

31

Perturbation Biology: Inferring Signaling Networks in Cellular Systems

Molinelli, Evan J., Korkut, Anil, Wang, Weiqing, Miller, Martin L., Gauthier, Nicholas P., Jing, Xiaohong, Kaushik, Poorvi, He, Qin, Mills, Gordon, Solit, David B., Pratilas, Christine A., Weigt, Mart

Journal:

PLoS Computational Biology

Year:

2013

Language:

english

File:

PDF, 2.17 MB

english, 2013

32

Classification and sparse-signature extraction from gene-expression data

Pagnani, Andrea, Tria, Francesca, Weigt, Martin

Journal:

Journal of Statistical Mechanics Theory and Experiment

Year:

2009

Language:

english

File:

PDF, 1.00 MB

english, 2009

33

Approximation schemes for the dynamics of diluted spin models: the Ising ferromagnet on a Bethe lattice

Semerjian, Guilhem, Weigt, Martin

Journal:

Journal of Physics A: Mathematical and General Physics

Year:

2004

Language:

english

File:

PDF, 460 KB

english, 2004

34

Statistical mechanics of the vertex-cover problem

Hartmann, Alexander K, Weigt, Martin

Journal:

Journal of Physics A: Mathematical and General Physics

Year:

2003

Language:

english

File:

PDF, 262 KB

english, 2003

35

Direct-coupling analysis of residue coevolution captures native contacts across many protein families

Faruck Morcos, Andrea Pagnani, Bryan Lunt, Arianna Bertolino, Debora S. Marks, Chris Sander, Riccardo Zecchina, José N. Onuchic, Terence Hwa and Martin Weigt

Journal:

Proceedings of the National Academy of Sciences

Year:

2011

Language:

english

File:

PDF, 1.48 MB

english, 2011

36

Direct-Coupling Analysis of nucleotide coevolution facilitates RNA secondary and tertiary structure prediction

De Leonardis, Eleonora, Lutz, Benjamin, Ratz, Sebastian, Cocco, Simona, Monasson, Rémi, Schug, Alexander, Weigt, Martin

Journal:

Nucleic Acids Research

Year:

2015

Language:

english

File:

PDF, 1.79 MB

english, 2015

37

RNA Secondary and Tertiary Structure Prediction by Tracing Nucleotide Co-Evolution with Direct Coupling Analysis

De Leonardis, Eleonora, Lutz, Benjamin, Ratz, Sebastian, Simona, Cocco, Monasson, Remi, Weigt, Martin, Schug, Alexander

Journal:

Biophysical Journal

Year:

2016

Language:

english

File:

PDF, 44 KB

english, 2016

38

Inference of Hopfield-Potts patterns from covariation in protein families: calculation and statistical error bars

Cocco, Simona, Monasson, Rémi, Weigt, Martin

Journal:

Journal of Physics Conference Series

Year:

2013

Language:

english

File:

PDF, 971 KB

english, 2013

39

Simultaneous identification of specifically interacting paralogs and interprotein contacts by direct coupling analysis

Gueudré, Thomas, Baldassi, Carlo, Zamparo, Marco, Weigt, Martin, Pagnani, Andrea

Journal:

Proceedings of the National Academy of Sciences

Year:

2016

Language:

english

File:

PDF, 1.02 MB

english, 2016

40

Direct coevolutionary couplings reflect biophysical residue interactions in proteins

Coucke, Alice, Uguzzoni, Guido, Oteri, Francesco, Cocco, Simona, Monasson, Remi, Weigt, Martin

Journal:

The Journal of Chemical Physics

Year:

2016

Language:

english

File:

PDF, 4.01 MB

english, 2016

41

Large-scale identification of coevolution signals across homo-oligomeric protein interfaces by direct coupling analysis

Uguzzoni, Guido, John Lovis, Shalini, Oteri, Francesco, Schug, Alexander, Szurmant, Hendrik, Weigt, Martin

Journal:

Proceedings of the National Academy of Sciences

Year:

2017

Language:

english

File:

PDF, 1.59 MB

english, 2017

42

Prediction of Protein and RNA Structures by Co-Evolution: Going Beyond Anecdotal Cases towards Large-Scale

Uguzzoni, Guido, John Lovis, Shalini, Oteri, Francesco, Szurmant, Hendrik, Martin, Weigt, Schug, Alexander

Journal:

Biophysical Journal

Year:

2017

Language:

english

File:

PDF, 47 KB

english, 2017

43

Improving landscape inference by integrating heterogeneous data in the inverse Ising problem

Barrat-Charlaix, Pierre, Figliuzzi, Matteo, Weigt, Martin

Journal:

Scientific Reports

Year:

2016

Language:

english

File:

PDF, 703 KB

english, 2016

44

Mutator genomes decay, despite sustained fitness gains, in a long-term experiment with bacteria

Couce, Alejandro, Caudwell, Larissa Viraphong, Feinauer, Christoph, Hindré, Thomas, Feugeas, Jean-Paul, Weigt, Martin, Lenski, Richard E., Schneider, Dominique, Tenaillon, Olivier

Journal:

Proceedings of the National Academy of Sciences

Year:

2017

Language:

english

File:

PDF, 1.31 MB

english, 2017

45

Inter-residue, inter-protein and inter-family coevolution: bridging the scales

Szurmant, Hendrik, Weigt, Martin

Journal:

Current Opinion in Structural Biology

Year:

2018

Language:

english

File:

PDF, 1.27 MB

english, 2018

46

How pairwise coevolutionary models capture the collective residue variability in proteins

Figliuzzi, Matteo, Barrat-Charlaix, Pierre, Weigt, Martin

Journal:

Molecular Biology and Evolution

Year:

2018

Language:

english

File:

PDF, 1.56 MB

english, 2018

47

De la variabilité des séquences à la prédiction structurale et fonctionnelle : modélisation de familles de protéines homologues

Barrat-Charlaix, Pierre, Weigt, Martin

Journal:

Biologie Aujourd hui

Year:

2017

Language:

french

File:

PDF, 853 KB

french, 2017

48

The evolution of the temporal program of genome replication

Agier, Nicolas, Delmas, Stéphane, Zhang, Qing, Fleiss, Aubin, Jaszczyszyn, Yan, van Dijk, Erwin, Thermes, Claude, Weigt, Martin, Cosentino-Lagomarsino, Marco, Fischer, Gilles

Journal:

Nature Communications

Year:

2018

Language:

english

File:

PDF, 1017 KB

english, 2018

49

Phase Transitions in Combinatorial Optimization Problems (Basics, Algorithms and Statistical Mechanics) || The satisfiability problem

Hartmann, Alexander K., Weigt, Martin

Year:

2005

Language:

english

File:

PDF, 470 KB

english, 2005

50

Phase Transitions in Combinatorial Optimization Problems (Basics, Algorithms and Statistical Mechanics) || The dynamics of vertex-cover algorithms

Hartmann, Alexander K., Weigt, Martin

Year:

2005

Language:

english

File:

PDF, 290 KB

english, 2005

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