List of works - Björn Wallner

All are not equal: a benchmark of different homology modeling programs

scientific article

Assessment of global and local model quality in CASP8 using Pcons and ProQ

article

Automatic consensus-based fold recognition using Pcons, ProQ, and Pmodeller

scientific article published on 01 January 2003

Can correct protein models be identified? ⬇️

scientific article published on May 1, 2003

Charge pair interactions in transmembrane helices and turn propensity of the connecting sequence promote helical hairpin insertion.

scientific article published on 7 December 2012

DockQ: A Quality Measure for Protein-Protein Docking Models

scientific article

Estimation of model accuracy in CASP13

scientific article published on 16 July 2019

Identification of correct regions in protein models using structural, alignment, and consensus information

scientific article published on 7 March 2006

Improved model quality assessment using ProQ2.

scientific article

Improved predictions by Pcons.net using multiple templates

scientific article

Improved protein model quality assessments by changing the target function.

scientific article published on 9 March 2018

InterLig: Improved ligand-based virtual screening using topologically-independent structural alignments

scientific article published on 12 February 2020

InterPep2: global peptide-protein docking using interaction surface templates

scientific article published on 09 January 2020

InterPred: A pipeline to identify and model protein-protein interactions.

scientific article

Methods for estimation of model accuracy in CASP12.

scientific article published on 4 October 2017

Microsecond simulations indicate that ethanol binds between subunits and could stabilize an open-state model of a glycine receptor

scientific article

Model quality assessment for membrane proteins ⬇️

scientific article published on October 14, 2010

Modeling anesthetic binding sites within the glycine alpha one receptor based on prokaryotic ion channel templates: the problem with TM4.

scientific article

Pcons.net: protein structure prediction meta server.

scientific article

Pcons5: combining consensus, structural evaluation and fold recognition scores.

scientific article

Predicting protein-peptide interaction sites using distant protein complexes as structural templates

scientific article published on 12 March 2019

Prediction of global and local model quality in CASP7 using Pcons and ProQ.

scientific article

Prediction of membrane protein structures with complex topologies using limited constraints

scientific article

Profile-profile methods provide improved fold-recognition: A study of different profile-profile alignment methods

scholarly article by Tomas Ohlson published in May 2004

Proteus: a random forest classifier to predict disorder-to-order transitioning binding regions in intrinsically disordered proteins

scientific article

Tertiary Windowing to Detect Positive Diversifying Selection

The MYC oncoprotein directly interacts with its chromatin cofactor PNUTS to recruit PP1 phosphatase

scientific article published on 01 April 2022

The free energy barrier for arginine gating charge translation is altered by mutations in the voltage sensor domain

scientific article

Tracking a complete voltage-sensor cycle with metal-ion bridges

scientific article

Using evolutionary information for the query and target improves fold recognition.

scientific article published in February 2004

Using multiple templates to improve quality of homology models in automated homology modeling.

scientific article published on 25 April 2008

rawMSA: End-to-end Deep Learning using raw Multiple Sequence Alignments

scientific article published on 15 August 2019

List of works by Björn Wallner

All are not equal: a benchmark of different homology modeling programs

Assessment of global and local model quality in CASP8 using Pcons and ProQ

Automatic consensus-based fold recognition using Pcons, ProQ, and Pmodeller

Can correct protein models be identified? ⬇️

Charge pair interactions in transmembrane helices and turn propensity of the connecting sequence promote helical hairpin insertion.

DockQ: A Quality Measure for Protein-Protein Docking Models

Estimation of model accuracy in CASP13

Identification of correct regions in protein models using structural, alignment, and consensus information

Improved model quality assessment using ProQ2.

Improved predictions by Pcons.net using multiple templates

Improved protein model quality assessments by changing the target function.

InterLig: Improved ligand-based virtual screening using topologically-independent structural alignments

InterPep2: global peptide-protein docking using interaction surface templates

InterPred: A pipeline to identify and model protein-protein interactions.

Methods for estimation of model accuracy in CASP12.

Microsecond simulations indicate that ethanol binds between subunits and could stabilize an open-state model of a glycine receptor

Model quality assessment for membrane proteins ⬇️

Modeling anesthetic binding sites within the glycine alpha one receptor based on prokaryotic ion channel templates: the problem with TM4.

Pcons.net: protein structure prediction meta server.

Pcons5: combining consensus, structural evaluation and fold recognition scores.

Predicting protein-peptide interaction sites using distant protein complexes as structural templates

Prediction of global and local model quality in CASP7 using Pcons and ProQ.

Prediction of membrane protein structures with complex topologies using limited constraints

Profile-profile methods provide improved fold-recognition: A study of different profile-profile alignment methods

Proteus: a random forest classifier to predict disorder-to-order transitioning binding regions in intrinsically disordered proteins

Tertiary Windowing to Detect Positive Diversifying Selection

The MYC oncoprotein directly interacts with its chromatin cofactor PNUTS to recruit PP1 phosphatase

The free energy barrier for arginine gating charge translation is altered by mutations in the voltage sensor domain

Tracking a complete voltage-sensor cycle with metal-ion bridges

Using evolutionary information for the query and target improves fold recognition.

Using multiple templates to improve quality of homology models in automated homology modeling.

rawMSA: End-to-end Deep Learning using raw Multiple Sequence Alignments