• Protein Structure Prediction
• Chemical Shift Prediction
• Cryo-EM Fit
• Contact Prediction
• Cryo-EM Guided Protein Fold Elucidation
• Jufo9D Secondary Structure and TM Span Prediction
• BCL::Cluster: Clustering biological molecules with PyMOL visualization
• BCL::EMFitMinimize

Lindert, S.;Staritzbichler, R.; Woetzel, N.; Karakas, M.; Stewart, P. L.; Meiler, J.
EM-fold: De novo folding of alpha-helical proteins guided by intermediate-resolution electron microscopy density maps (2009) Structure

Karakas, M.;Woetzel, N.; Meiler, J.
BCL::contact-low confidence fold recognition hits boost protein contact prediction and de novo structure determination (2010) J. Comput. Biol.

Durham, E.;Dorr, B., Woetzel, N., Staritzbichler, R., Meiler, J.
Solvent accessible surface area approximations for rapid and accurate protein structure prediction (2009) J. Mol. Model.

Nils Woetzel;Steffen Lindert, Phoebe L. Stewart, Jens Meiler
BCL::EM-Fit: Rigid body fitting of atomic structures into density maps using geometric hashing and real space refinement (2011) Journal of Structural Biology

Nathan Alexander;Nils Woetzel, Jens Meiler
Bcl::Cluster: A method for clustering biological molecules coupled with visualization in the Pymol Molecular Graphics System (2011) IEEE Conference

Edward W. Lowe, Jr.;Nils Woetzel, Jens Meiler
Poster: GPU-accelerated artificial neural network for QSAR modeling (2011) IEEE Conference

Nils Woetzel;Edward W. Lowe, Jr., Jens Meiler
Poster: GPU-accelerated rigid body fitting of atomic structures into electron density maps (2011) IEEE Conference

Julia Koehler;Nils Woetzel, Rene Staritzbichler, Charles R. Sanders, and Jens Meiler
A unified hydrophobicity scale for multispan membrane proteins (2009) Proteins

Steffen Lindert;Tommy Hofman, Nils Woetzel, Mert Karakas, Phoebe L. Stewart, Jens Meiler
Ab initio protein modeling into cryoEM density maps using EM-Fold (2012) Biopolymers

Steffen Lindert;Nathan Alexander, Nils Woetzel, Mert Karakas, Phoebe L. Stewart, Jens Meiler
EM-Fold: De Novo Atomic-Detail Protein Structure Determination from Medium-Resolution Density Maps (2012) Structure

Edward W. Lowe, Jr.;Mariusz Butkiewicz, Nils Woetzel, Jens Meiler
GPU-Accelerated Machine Learning Techniques Enable QSAR Modeling Of Large HTS Data (2012) Proceedings of 2012 IEEE Symposium on Computational Intelligence and Computational Biology

Nils Woetzel;Mert KarakaS, Rene Staritzbichler, Ralf Mueller, Brian E. Weiner, Jens Meiler
BCL::Score-Knowledge Based Energy Potentials for Ranking Protein Models Represented by Idealized Secondary Structure Elements (2012) PLOS One

Mert Karakas;Nils Woetzel, Rene Staritzbichler, Nathan Alexander, Brian E. Weiner, Jens Meiler
BCL::Fold - De Novo Prediction of Complex and Large Protein Topologies by Assembly of Secondary Structure Elements (2012) PLOS One

Julia Koehler Leman;Ralf Mueller, Mert Karakas, Nils Woetzel, Jens Meiler
Simultaneous prediction of protein secondary structure and transmembrane spans (2013) Proteins

Brian E. Weiner;Nils Woetzel, Mert Karakas, Nathan Alexander, Jens Meiler
BCL::MP-Fold: Folding Membrane Proteins through Assembly of Transmembrane Helices (2013) Structure

Brian E. Weiner;Nathan Alexander, Louesa R. Akin, Nils Woetzel, Mert Karakas, and Jens Meiler
BCL::Fold protein topology determination from limited NMR restraints (2013) Proteins

Axel Fischer;Nathan Alexander, Nils Woetzel, Mert Karakas , Brian E. Weiner, Jens Meiler
BCL::MP Fold: Membrane protein structure prediction guided by EPR restraints (2015) Proteins

Gajewski S, ;Waddell MB, Vaithiyalingam S, Nourse A, Li Z, Woetzel N, Alexander N, Meiler J, White SW
Structure and mechanism of the phage T4 recombination mediator protein UvsY. (2016) Proc Natl Acad Sci U S A

Daniel Putnam;Brian E. Weiner, Nils Woetzel, Edward W. Lowe Jr., Jens Meiler
BCL::SAXS: GPU accelerated Debye method for computation of small angle X-ray scattering profiles (2015) Proteins