Anders Irbäck

Using quantum annealing to design lattice proteins

Anders Irbäck, Lucas Knuthson, Sandipan Mohanty, Carsten Peterson
(2024) Physical Review Research, 6
Journal article

Folding lattice proteins with quantum annealing

Anders Irbäck, Lucas Knuthson, Sandipan Mohanty, Carsten Peterson
(2022) Physical Review Research, 4
Journal article

Limitations of field-theory simulation for exploring phase separation: The role of repulsion in a lattice protein model

Daniel Nilsson, Behruz Bozorg, Sandipan Mohanty, Bo Söderberg, Anders Irbäck
(2022) The Journal of chemical physics, 156
Journal article

Finite-size shifts in simulated protein droplet phase diagrams

Daniel Nilsson, Anders Irbäck
(2021) Journal of Chemical Physics, 154
Journal article

When a foreign gene meets its native counterpart : computational biophysics analysis of two PgiC loci in the grass Festuca ovina

Yuan Li, Sandipan Mohanty, Daniel Nilsson, Bengt Hansson, Kangshan Mao, et al.
(2020) Scientific Reports, 10
Journal article

Finite-size scaling analysis of protein droplet formation

Daniel Nilsson, Anders Irbäck
(2020) Physical Review E, 101
Journal article

Stability and Local Unfolding of SOD1 in the Presence of Protein Crowders

Anna Bille, Kristine Steen Jensen, Sandipan Mohanty, Mikael Akke, Anders Irbäck
(2019) Journal of Physical Chemistry B, 123 p.1920-1930
Journal article

Peptide folding in cellular environments: a Monte Carlo and Markov modeling approach

Daniel Nilsson, Sandipan Mohanty, Anders Irbäck
(2019) Computational Methods to Study the Structure and Dynamics of Biomolecules and Biomolecular Processes , p.453-466
Book chapter

Fitting a function to time-dependent ensemble averaged data

Karl Fogelmark, Michael A. Lomholt, Anders Irbäck, Tobias Ambjörnsson
(2018) Scientific Reports, 8
Journal article

Markov modeling of peptide folding in the presence of protein crowders

Daniel Nilsson, Sandipan Mohanty, Anders Irbäck
(2018) Journal of Chemical Physics, 148
Journal article

Protein folding/unfolding in the presence of interacting macromolecular crowders

Anders Irbäck, Sandipan Mohanty
(2017) European Physical Journal: Special Topics, 226 p.627-638
Journal article review

Peptide folding in the presence of interacting protein crowders

Anna Bille, Sandipan Mohanty, Anders Irbäck
(2016) Journal of Chemical Physics, 144
Journal article

Equilibrium simulation of trp-cage in the presence of protein crowders.

Anna Bille, Björn Linse, Sandipan Mohanty, Anders Irbäck
(2015) Journal of Chemical Physics, 143
Journal article

Thermodynamics of amyloid formation and the role of intersheet interactions

Anders Irbäck, Jonas Wessén
(2015) Journal of Chemical Physics, 143
Journal article

Conformational and aggregation properties of the 1-93 fragment of apolipoprotein A-I

Jitka Petrlova, Arnab Bhattacherjee, Wouter Boomsma, Stefan Wallin, Jens O Lagerstedt, et al.
(2014) Protein Science, 23 p.71-1559
Journal article

Robust Estimation of Diffusion-Optimized Ensembles for Enhanced Sampling

Pengfei Tian, Sigurdur Jonsson, Jesper Ferkinghoff-Borg, Sergi V. Krivov, Kresten Lindorff-Larsen, et al.
(2014) Journal of Chemical Theory and Computation, 10 p.543-553
Journal article

Hybrid Monte Carlo with non-uniform step size

Christian Holzgräfe, Arnab Bhattacherjee, Anders Irbäck
(2014) Journal of Chemical Physics, 140
Journal article

Mechanical resistance in unstructured proteins.

Sigurdur Jonsson, Simon Mitternacht, Anders Irbäck
(2013) Biophysical Journal, 104 p.2725-2732
Journal article

All-atom Monte Carlo simulations of protein folding and aggregation

Anders Irbäck, Sandipan Mohanty
(2013) Computational methods to study the structure and dynamics of biomolecules and biomolecular processes: from bioinformatics to molecular quantum mechanics, 1 p.433-444
Book chapter

Aggregate geometry in amyloid fibril nucleation.

Anders Irbäck, Sigurdur Jonsson, Niels Linnemann, Björn Linse, Stefan Wallin
(2013) Physical Review Letters, 110
Journal article

Local Unfolding and Aggregation Mechanisms of SOD1: A Monte Carlo Exploration.

Anna Bille, Sigurdur Jonsson, Mikael Akke, Anders Irbäck
(2013) The Journal of Physical Chemistry Part B, 117 p.9194-9202
Journal article

Distinct phases of free α-synuclein - A Monte Carlo study.

Sigurdur Jonsson, Sandipan Mohanty, Anders Irbäck
(2012) Proteins, 80 p.2169-2177
Journal article

Monte Carlo studies of protein aggregation

Sigurdur Jonsson, Iskra Staneva, Sandipan Mohanty, Anders Irbäck
(2012) Physics Procedia, 34 p.49-54
Conference paper

Monte Carlo Study of the Formation and Conformational Properties of Dimers of Aβ42 Variants.

Simon Mitternacht, Iskra Staneva, Torleif Härd, Anders Irbäck
(2011) Journal of Molecular Biology, 410 p.357-367
Journal article

Accelerating atomic-level protein simulations by flat-histogram techniques.

Sigurdur Jonsson, Sandipan Mohanty, Anders Irbäck
(2011) Journal of Chemical Physics, 135
Journal article

Mutation-induced fold switching among lattice proteins.

Christian Holzgräfe, Anders Irbäck, Carl Troein
(2011) Journal of Chemical Physics, 135
Journal article

Effective all-atom potentials for proteins

Anders Irbäck, Sandipan Mohanty
(2011) Multiscale approaches to protein modeling , p.111-126
Book chapter

Comparing the folding free-energy landscapes of Abeta42 variants with different aggregation properties.

Simon Mitternacht, Iskra Staneva, Torleif Härd, Anders Irbäck
(2010) Proteins, 78 p.2600-2608
Journal article

Microscopic Mechanism of Specific Peptide Adhesion to Semiconductor Substrates

Michael Bachmann, Karsten Goede, Annette G. Beck-Sickinger, Marius Grundmann, Anders Irbäck, et al.
(2010) Angewandte Chemie (International edition), 49 p.9530-9533
Journal article

Unfolding times for proteins in a force clamp

Stefano Luccioli, Alberto Imparato, Simon Mitternacht, Anders Irbäck, Alessandro Torcini
(2010) Physical Review E (Statistical, Nonlinear, and Soft Matter Physics), 81
Journal article

Protein folding, aggregation and unfolding in Monte Carlo Simulations

Sandipan Mohanty, Anders Irbäck, Simon Mitternacht, Giorgio Favrin, U. H E Hansmann
(2010) Physics Procedia, 7 p.68-71
Conference paper

Changing the Mechanical Unfolding Pathway of FnIII(10) by Tuning the Pulling Strength

Simon Mitternacht, Stefano Luccioli, Alessandro Torcini, Alberto Imparato, Anders Irbäck
(2009) Biophysical Journal, 96 p.429-441
Journal article

An effective all-atom potential for proteins

Anders Irbäck, Simon Mitternacht, Sandipan Mohanty
(2009) Food Biophysics, 2 p.2-2
Journal article

Formation and Growth of Oligomers: A Monte Carlo Study of an Amyloid Tau Fragment

Da-Wei Li, Sandipan Mohanty, Anders Irbäck, Shuanghong Huo
(2008) PLoS Computational Biology, 4
Journal article

Protein folding, unfolding and aggregation studied using an all-atom model with a simplified interaction potential

Anders Irbäck
(2008) Lecture Notes in Physics, volume "Rugged Free Energy Landscapes", 736 p.269-291
Book chapter

Spontaneous beta-barrel formation: an all-atom study of Abeta(16-22) oligomerization

Anders Irbäck, Simon Mitternacht
(2008) Proteins, 71 p.207-214
Journal article

Differences in solution behavior among four semiconductor-binding peptides

Simon Mitternacht, Stefan Schnabel, Michael Bachmann, Wolfhard Janke, Anders Irbäck
(2007) The Journal of Physical Chemistry Part B, 111 p.4355-4360
Journal article

Hans-Uno Bengtsson - Docent i teoretisk fysik och folkbildare, dog den 18 maj 2007, 54 år gammal

Johan Bijnens, Gösta Gustafson, Anders Irbäck, Leif Lönnblad, Carsten Peterson, et al.
(2007)
Other

Hans-Uno Bengtsson: Hans grund var i fysiken

Anders Irbäck
(2007)
Other

Thermal versus mechanical unfolding of ubiquitin

Anders Irbäck, Simon Mitternacht
(2006) Proteins, 65 p.759-766
Journal article

PROFASI: A Monte Carlo simulation package for protein folding and aggregation

Anders Irbäck, Sandipan Mohanty
(2006) Journal of Computational Chemistry, 27 p.1548-1555
Journal article

Protein aggregation and unfolding studied using an all-atom model with a simplified energy function

Anders Irbäck, Simon Mitternacht
(2006) John von Neumann Institute for Computing, NIC Series, 34 p.15-20
Conference paper

Dissecting the mechanical unfolding of ubiquitin

Anders Irbäck, Simon Mitternacht, Sandipan Mohanty
(2005) Proceedings of the National Academy of Sciences, 102 p.13427-13432
Journal article

Peptide folding and aggregation studied using a simplified atomic model

Anders Irbäck
(2005) Journal of Physics: Condensed Matter, 17 p.1553-1564
Journal article

Folding thermodynamics of peptides

Anders Irbäck, Sandipan Mohanty
(2005) Biophysical Journal, 88 p.1560-1569
Journal article

Oligomerization of amyloid A beta(16-22) peptides using hydrogen bonds and hydrophobicity forces

Giorgio Favrin, Anders Irbäck, Sandipan Mohanty
(2004) Biophysical Journal, 87 p.3657-3664
Journal article

Coupled folding-binding versus docking: A lattice model study

N Gupta, Anders Irbäck
(2004) Journal of Chemical Physics, 120 p.3983-3989
Journal article

Folding thermodynamics of three beta-sheet peptides: A model study

Anders Irbäck, Fredrik Sjunnesson
(2004) Proteins, 56 p.110-116
Journal article

Sequence-based study of two related proteins with different folding behaviors

Giorgio Favrin, Anders Irbäck, Stefan Wallin
(2004) Proteins, 54 p.8-12
Journal article

Thermodynamics of α- and β-structure formation in proteins

Anders Irbäck, Björn Samuelsson, Fredrik Sjunnesson, Stefan Wallin
(2003) Biophysical Journal, 85 p.1466-1473
Journal article

A minimalistic all-atom approach to protein folding

Anders Irbäck
(2003) Journal of Physics: Condensed Matter, 15 p.1797-1807
Journal article

Protein folding in the absence of a clear free-energy barrier

Anders Irbäck
(2003) Acta Physica Polonica. Series B: Elementary Particle Physics, Nuclear Physics, Statistical Physics, Theory of Relativity, Field Theory, 34 p.4867-4878
Journal article

Two-state folding over a weak free-energy barrier

Giorgio Favrin, Anders Irbäck, Björn Samuelsson, Stefan Wallin
(2003) Biophysical Journal, 85 p.1457-1465
Journal article

Enumerating designing sequences in the HP model

Anders Irbäck, Carl Troein
(2002) Journal of Biological Physics, 28 p.1-15
Journal article

Folding of a small helical protein using hydrogen bonds and hydrophobicity forces.

Giorgio Favrin, Anders Irbäck, Stefan Wallin
(2002) Proteins, 47 p.99-105
Journal article

Hydrogen bonds, hydrophobicity forces and the character of the collapse transition

A Irbäck, F Sjunnesson, S Wallin
(2001) Journal of Biological Physics, 27 p.79-169
Journal article

Monte Carlo update for chain molecules: Biased Gaussian steps in torsional space

Giorgio Favrin, Anders Irbäck, Fredrik Sjunnesson
(2001) Journal of Chemical Physics, 114 p.8154-8158
Journal article

Three-helix-bundle protein in a Ramachandran model

A Irbäck, F Sjunnesson, S Wallin
(2000) Proceedings of the National Academy of Sciences, 97 p.8-13614
Journal article

On hydrophobicity correlations in protein chains

A Irbäck, E Sandelin
(2000) Biophysical Journal, 79 p.8-2252
Journal article

Sequence design in coarse-grained protein models

Anders Irbäck
(2000) Progress of Theoretical Physics Supplement, 138 p.273-281
Conference paper

Monte Carlo study of the phase structure of compact polymer chains

Anders Irbäck, Erik Sandelin
(1999) Journal of Chemical Physics, 110 p.12256-12262
Journal article

Design of sequences with good folding properties in coarse-grained protein models

A Irbäck, C Peterson, F Potthast, E Sandelin
(1999) Structure, 7 p.60-347
Journal article

Local interactions and protein folding : A model study on the square and triangular lattices

Anders Irbäck, Erik Sandelin
(1998) Journal of Chemical Physics, 108 p.2245-2250
Journal article

Monte Carlo procedure for protein design

Anders Irbäck, Carsten Peterson, Frank Potthast, Erik Sandelin
(1998) Physical Review E, 58
Journal article

Binary assignments of amino acids from pattern conservation

A Irbäck, F Potthast
(1997) Protein Engineering, 10 p.1013-1017
Journal article

Local interactions and protein folding : A three-dimensional off-lattice approach

Anders Irbäck, Carsten Peterson, Fránk Potthast, Ola Sommelius
(1997) Journal of Chemical Physics, 107 p.273-282
Journal article

Identification of amino acid sequences with good folding properties in an off-lattice model

Anders Irbäck, Carsten Peterson, Frank Potthast
(1997) Physical Review E, 55 p.860-867
Journal article

Evidence for nonrandom hydrophobicity structures in protein chains

A Irbäck, C Peterson, F Potthast
(1996) Proceedings of the National Academy of Sciences, 93 p.8-9533
Journal article

Sequence dependence of self-interacting random chains

Anders Irbäck, H. Schwarze
(1995) Journal of Physics A: Mathematical and General, 28 p.2121-2132
Journal article

Studies of an off-lattice model for protein folding : Sequence dependence and improved sampling at finite temperature

Anders Irbäck, Frank Potthast
(1995) Journal of Chemical Physics, 103 p.10298-10305
Journal article

Scaling in Steiner random surfaces

C. F. Baillie, A. Irbäck, W. Janke, D. A. Johnston
(1994) Physics Letters. Section B: Nuclear, Elementary Particle and High-Energy Physics, 325 p.45-50
Journal article

Hybrid Monte Carlo simulation of polymer chains

A. Irbäck
(1994) Journal of Chemical Physics, 101 p.1661-1667
Journal article

Finite-size scaling at phase coexistence

Sourendu Gupta, A. Irbäck, M. Ohlsson
(1993) Nuclear Physics, Section B, 409 p.663-683
Journal article

The theory of dynamical random surfaces with extrinsic curvature

J. Ambjørn, A. Irbäck, J. Jurkiewicz, B. Petersson
(1993) Nuclear Physics, Section B, 393 p.571-600
Journal article

Finite-size scaling on the Ising coexistence line

Sourendu Gupta, A. Irbäck
(1993) Nuclear Physics B - Proceedings Supplements, 30 p.861-864
Journal article

Physics beyond instantons. Measuring the physical correlation length

Sourendu Gupta, A. Irbäck
(1992) Physics Letters B, 286 p.112-117
Journal article

Measuring the string tension in random surface models with extrinsic curvature

A. Irbäck, J. Jurkiewicz, S. Varsted
(1992) Computer Physics Communications, 70 p.59-68
Journal article

Spectral density analysis of the chiral transition in nf=4 finite temperature QCD

Nelson A. Alves, Bernd A. Berg, Dennis W. Duke, Anders Irbäck, Sergiu Sanielevici
(1992) Physics Letters B, 280 p.261-266
Journal article

Critical properties of the dynamical random surface with extrinsic curvature

J. Ambjørn, J. Jurkiewicz, S. Varsted, A. Irbäck, B. Petersson
(1992) Physics Letters B, 275 p.295-303
Journal article

Scaling properties at the crumpling transition

Anders Irbäck
(1992) Nuclear Physics B (Proceedings Supplements), 26 p.572-574
Conference paper

The heavy quark potential in SU(2) gauge theory at high temperature

A. Irbäck, P. Lacock, D. Miller, B. Petersson, T. Reisz
(1991) Nuclear Physics, Section B, 363 p.34-64
Journal article

Hadronic correlation functions in the QCD plasma phase

K.D. Born, S. Gupta, Anders Irbäck, F. Karsch, E. Laermann, et al.
(1991) Physical Review Letters, 67 p.302-305
Journal article

Dynamics near a first-order phase transition with the Metropolis and Swendsen-Wang algorithms

A. Billoire, R. Lacaze, A. Morel, Sourendu Gupta, A. Irbäck, et al.
(1991) Nuclear Physics, Section B, 358 p.231-248
Journal article

Hadronic correlation functions in the QCD plasma phase

Anders Irbäck
(1991) Nuclear Physics B (Proceedings Supplements), 20 p.280-283
Conference paper

Flavour degrees of freedom and the transition temperature in QCD

R. V. Gavai, Sourendu Gupta, A. Irbäck, F. Karsch, S. Meyer, et al.
(1990) Physics Letters B, 241 p.567-573
Journal article

Hybrid Monte Carlo simulation of four flavour QCD at finite temperature

Anders Irbäck
(1990) Nuclear Physics B (Proceedings Supplements), 17 p.210-213
Conference paper

The correlation lengths and the order of the phase transition in three-dimensional Z ₃ symmetric models

Sourendu Gupta, A. Irbäck, B. Petersson, R. V. Gavai, F. Karsch
(1990) Nuclear Physics, Section B, 329 p.263-284
Journal article

A 3-dimensional Z ₃ symmetric model : Correlation lengths at a first order phase transition

Sourendu Gupta, A. Irbäck, B. Petersson, R. V. Gavai, F. Karsch
(1990) Nuclear Physics B (Proceedings Supplements), 17 p.199-203
Conference paper

The finite temperature phase transition in four flavour QCD on an 8×12 ³ lattice

R. V. Gavai, Sourendu Gupta, A. Irbäck, F. Karsch, S. Meyer, et al.
(1989) Physics Letters B, 232 p.491-497
Journal article

Lattice QCD with small number of flavours

A. Irbäck, F. Karsch, B. Petersson, H. W. Wyld
(1989) Physics Letters B, 216 p.177-183
Journal article

A random surface representation of Wilson loops in Z(2) gauge theory

A. Irbäck
(1988) Physics Letters B, 211 p.129-131
Journal article

Nonperturbative aspects of Gauge theories

Anders Irbäck
(1988)
Dissertation

Compact three-dimensional U(1) gauge theory reexamined

A. Irbäck, C. Peterson
(1987) Physical Review D, 36 p.3804-3808
Journal article

The effective string and SU(2) lattice MC data

M. Flensburg, A. Irbäck, C. Peterson
(1987) Zeitschrift für Physik C Particles and Fields, 36 p.629-637
Journal article

Measurement of T_c in the scaling region of (2+1)-dimensional SU(2) lattice gauge theory

M. Flensburg, A. Irbäck
(1986) Physics Letters B, 175 p.187-191
Journal article

Numerical evidence for a mass gap in three-dimensional SU(2)

A. Irbäck, C. Peterson
(1986) Physics Letters B, 174 p.99-103
Journal article

Mixed-Symmetry interacting-Boson-Model states in the nuclei Ba140, Ce142, and Nd144 with N=84

W. D. Hamilton, A. Irbäck, J. P. Elliott
(1984) Physical Review Letters, 53 p.2469-2472
Journal article