Hamelryck, T. W.: search on Z-Library

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1

Biopython: freely available Python tools for computational molecular biology and bioinformatics

Cock, P. J. A., Antao, T., Chang, J. T., Chapman, B. A., Cox, C. J., Dalke, A., Friedberg, I., Hamelryck, T., Kauff, F., Wilczynski, B., de Hoon, M. J. L.

Journal:

Year:

2009

Language:

english

File:

PDF, 69 KB

english, 2009

2

Probabilistic models and machine learning in structural bioinformatics

Journal:

Statistical Methods in Medical Research

Year:

2009

Language:

english

File:

PDF, 275 KB

english, 2009

3

Crystallization of glycosylated and nonglycosylated phytohemagglutinin-L

Dao-Thi, Minh-Hoa, Hamelryck, Thomas W., Poortmans, Freddy, Voelker, Toni A., Chrispeels, Maarten J., Wyns, Lode

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1996

Language:

english

File:

PDF, 392 KB

english, 1996

4

Efficient identification of side-chain patterns using a multidimensional index tree

Thomas Hamelryck

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2003

Language:

english

File:

PDF, 202 KB

english, 2003

5

An amino acid has two sides: A new 2D measure provides a different view of solvent exposure

Thomas Hamelryck

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2005

Language:

english

File:

PDF, 551 KB

english, 2005

6

Generative probabilistic models extend the scope of inferential structure determination

Simon Olsson, Wouter Boomsma, Jes Frellsen, Sandro Bottaro, Tim Harder, Jesper Ferkinghoff-Borg, Thomas Hamelryck

Journal:

Journal of Magnetic Resonance

Year:

2011

Language:

english

File:

PDF, 718 KB

english, 2011

7

An Efficient Null Model for Conformational Fluctuations in Proteins

Tim Harder, Mikael Borg, Sandro Bottaro, Wouter Boomsma, Simon Olsson, Jesper Ferkinghoff-Borg, Thomas Hamelryck

Journal:

Year:

2012

Language:

english

File:

PDF, 1.01 MB

english, 2012

8

Legume lectin structure

Remy Loris, Thomas Hamelryck, Julie Bouckaert, Lode Wyns

Journal:

Biochimica et Biophysica Acta (BBA) - Protein Structure and Molecular Enzymology

Year:

1998

Language:

english

File:

PDF, 1.32 MB

english, 1998

9

Novel structures of plant lectins and their complexes with carbohydrates

Julie Bouckaert, Thomas Hamelryck, Lode Wyns, Remy Loris

Journal:

Current Opinion in Structural Biology

Year:

1999

Language:

english

File:

PDF, 605 KB

english, 1999

10

Mocapy++ - A toolkit for inference and learning in dynamic Bayesian networks

Martin Paluszewski, Thomas Hamelryck

Journal:

BMC Bioinformatics

Year:

2010

Language:

english

File:

PDF, 1.20 MB

english, 2010

11

Beyond rotamers: a generative, probabilistic model of side chains in proteins

Tim Harder, Wouter Boomsma, Martin Paluszewski, Jes Frellsen, Kristoffer E Johansson, Thomas Hamelryck

Journal:

BMC Bioinformatics

Year:

2010

Language:

english

File:

PDF, 1.39 MB

english, 2010

12

Calculation of accurate small angle X-ray scattering curves from coarse-grained protein models

Kasper Stovgaard, Christian Andreetta, Jesper Ferkinghoff-Borg, Thomas Hamelryck

Journal:

BMC Bioinformatics

Year:

2010

Language:

english

File:

PDF, 1.29 MB

english, 2010

13

Full cyclic coordinate descent: solving the protein loop closure problem in Cαspace

Wouter Boomsma, Thomas Hamelryck

Journal:

BMC Bioinformatics

Year:

2005

Language:

english

File:

PDF, 525 KB

english, 2005

14

An evolutionary method for learning HMM structure: prediction of protein secondary structure

Kyoung-Jae Won, Thomas Hamelryck, Adam Prügel-Bennett, Anders Krogh

Journal:

BMC Bioinformatics

Year:

2007

Language:

english

File:

PDF, 420 KB

english, 2007

15

Mixtures of concentrated multivariate sine distributions with applications to bioinformatics

Mardia, Kanti V., Kent, John T., Zhang, Zhengzheng, Taylor, Charles C., Hamelryck, Thomas

Journal:

Journal of Applied Statistics

Year:

2012

Language:

english

File:

PDF, 920 KB

english, 2012

16

Carbohydrate binding, quaternary structure and a novel hydrophobic binding site in two legume lectin oligomers fromDolichos biflorus

Thomas W Hamelryck, Remy Loris, Julie Bouckaert, Minh-Hoa Dao-Thi, Gerard Strecker, Anne Imberty, Elias Fernandez, Lode Wyns, Marilynn E Etzler

Journal:

Journal of Molecular Biology

Year:

1999

Language:

english

File:

PDF, 2.07 MB

english, 1999

17

Carbohydrate binding, quaternary structure and a novel hydrophobic binding site in two legume lectin oligomers from Dolichos biflorus

Thomas W Hamelryck, Remy Loris, Julie Bouckaert, Minh-Hoa Doa-Thi, Gerard Strecker, Anne Imberty, Elias Fernandez, Lode Wyns, Marylinn E Etzer

Journal:

Journal of Molecular Biology

Year:

1999

File:

PDF, 39 KB

1999

18

The role of weak protein-protein interactions in multivalent lectin-carbohydrate binding: crystal structure of cross-linked FRIL

Thomas W Hamelryck, Jeffrey G Moore, Maarten J Chrispeels, Remy Loris, Lode Wyns

Journal:

Journal of Molecular Biology

Year:

2000

Language:

english

File:

PDF, 530 KB

english, 2000

19

Weak protein-protein interactions in lectins: the crystal structure of a vegetative lectin from the legume Dolichos biflorus

Lieven Buts, Minh-Hoa Dao-Thi, Remy Loris, Lode Wyns, Marilynn Etzler, Thomas Hamelryck

Journal:

Journal of Molecular Biology

Year:

2001

Language:

english

File:

PDF, 426 KB

english, 2001

20

Diverse bacterial genomes encode an operon of two genes, one of which is an unusual class-I release factor that potentially recognizes atypical mRNA signals other than normal stop codons

Pavel V Baranov, Bente Vestergaard, Thomas Hamelryck, Raymond F Gesteland, Jens Nyborg, John F Atkins

Journal:

Year:

2006

Language:

english

File:

PDF, 617 KB

english, 2006

21

A simple probabilistic model of multibody interactions in proteins

Johansson, Kristoffer Enøe, Hamelryck, Thomas

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2013

Language:

english

File:

PDF, 690 KB

english, 2013

22

[Statistics for Biology and Health] Bayesian Methods in Structural Bioinformatics ||

Hamelryck, Thomas, Mardia, Kanti, Ferkinghoff-Borg, Jesper

Year:

2012

Language:

english

File:

PDF, 7.04 MB

english, 2012

23

Reconstructing protein structure from solvent exposure using tabu search

Martin Paluszewski, Thomas Hamelryck, Pawel Winter

Journal:

Algorithms for Molecular Biology

Year:

2006

Language:

english

File:

PDF, 3.18 MB

english, 2006

24

Formulation of probabilistic models of protein structure in atomic detail using the reference ratio method

Valentin, Jan B., Andreetta, Christian, Boomsma, Wouter, Bottaro, Sandro, Ferkinghoff-Borg, Jesper, Frellsen, Jes, Mardia, Kanti V., Tian, Pengfei, Hamelryck, Thomas

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2014

Language:

english

File:

PDF, 3.02 MB

english, 2014

25

Equilibrium simulations of proteins using molecular fragment replacement and NMR chemical shifts

Boomsma, W., Tian, P., Frellsen, J., Ferkinghoff-Borg, J., Hamelryck, T., Lindorff-Larsen, K., Vendruscolo, M.

Journal:

Proceedings of the National Academy of Sciences

Year:

2014

Language:

english

File:

PDF, 1.34 MB

english, 2014

26

Subtle Monte Carlo Updates in Dense Molecular Systems

Bottaro, Sandro, Boomsma, Wouter, E. Johansson, Kristoffer, Andreetta, Christian, Hamelryck, Thomas, Ferkinghoff-Borg, Jesper

Journal:

Journal of Chemical Theory and Computation

Year:

2012

Language:

english

File:

PDF, 3.61 MB

english, 2012

27

Probabilistic Determination of Native State Ensembles of Proteins

Olsson, Simon, Vögeli, Beat Rolf, Cavalli, Andrea, Boomsma, Wouter, Ferkinghoff-Borg, Jesper, Lindorff-Larsen, Kresten, Hamelryck, Thomas

Journal:

Journal of Chemical Theory and Computation

Year:

2014

Language:

english

File:

PDF, 2.23 MB

english, 2014

28

[IEEE 2009 Sixth International Symposium on Voronoi Diagrams (ISVD) - Copenhagen, Denmark (2009.06.23-2009.06.26)] 2009 Sixth International Symposium on Voronoi Diagrams - The Voronoi Diagram of Half-Balls and its Application to the Prediction of the 3D Structure of Proteins

Anton, François, Hamelryck, Thomas

Year:

2009

Language:

english

File:

PDF, 291 KB

english, 2009

29

The Crystallographic Structure of Phytohemagglutinin-L

Hamelryck, T. W., Dao-Thi, M.-H., Poortmans, F., Chrispeels, M. J., Wyns, L., Loris, R.

Journal:

Journal of Biological Chemistry

Year:

1996

Language:

english

File:

PDF, 880 KB

english, 1996

30

Crystal Structure of Arcelin-5, a Lectin-like Defense Protein from Phaseolus vulgaris

Hamelryck, T. W., Poortmans, F., Goossens, A., Angenon, G., Van Montagu, M., Wyns, L., Loris, R.

Journal:

Journal of Biological Chemistry

Year:

1996

Language:

english

File:

PDF, 864 KB

english, 1996

31

NMR, Molecular Modeling, and Crystallographic Studies of Lentil Lectin-Sucrose Interaction

Casset, F., Hamelryck, T., Loris, R., Brisson, J.-R., Tellier, C., Dao-Thi, M.-H., Wyns, L., Poortmans, F., Perez, S., Imberty, A.

Journal:

Journal of Biological Chemistry

Year:

1995

Language:

english

File:

PDF, 724 KB

english, 1995

32

Sampling Realistic Protein Conformations Using Local Structural Bias

Hamelryck, Thomas, Kent, John T., Krogh, Anders

Journal:

PLoS Computational Biology

Year:

2006

Language:

english

File:

PDF, 796 KB

english, 2006

33

PDB file parser and structure class implemented in Python

Hamelryck, T., Manderick, B.

Journal:

Year:

2003

Language:

english

File:

PDF, 44 KB

english, 2003

34

Fast large-scale clustering of protein structures using Gauss integrals

Harder, T., Borg, M., Boomsma, W., Rogen, P., Hamelryck, T.

Journal:

Year:

2012

Language:

english

File:

PDF, 455 KB

english, 2012

35

Bayesian inference of protein ensembles from SAXS data

Antonov, L. D., Olsson, S., Boomsma, W., Hamelryck, T.

Journal:

Physical Chemistry Chemical Physics

Year:

2015

Language:

english

File:

PDF, 2.17 MB

english, 2015

36

The Crystal Structures of Man( 1-3)Man( 1-O)Me and Man( 1-6)Man( 1-O)Me in Complex with Concanavalin A

Bouckaert, J., Hamelryck, T. W., Wyns, L., Loris, R.

Journal:

Journal of Biological Chemistry

Year:

1999

Language:

english

File:

PDF, 918 KB

english, 1999

37

[IEEE 2005 IEEE Congress on Evolutionary Computation - Edinburgh, Scotland, UK (02-05 Sept. 2005)] 2005 IEEE Congress on Evolutionary Computation - Evolving Hidden Markov Models for Protein Secondary Structure Prediction

Kyoung-Jae Won,, Hamelryck, T., Prugel-Bennett, A., Krogh, A.

Year:

2005

Language:

english

File:

PDF, 2.73 MB

english, 2005

38

A generative angular model of protein structure evolution

Golden, Michael, Garcia-Portugues, Eduardo, Sørensen, Michael, Mardia, Kanti V., Hamelryck, Thomas, Hein, Jotun

Journal:

Molecular Biology and Evolution

Year:

2017

Language:

english

File:

PDF, 15.22 MB

english, 2017

39

Langevin diffusions on the torus: estimation and applications

García-Portugués, Eduardo, Sørensen, Michael, Mardia, Kanti V., Hamelryck, Thomas

Journal:

Statistics and Computing

Year:

2017

Language:

english

File:

PDF, 5.44 MB

english, 2017

40

MyPMFs: a simple tool for creating statistical potentials to assess protein structural models

Postic, Guillaume, Hamelryck, Thomas, Chomilier, Jacques, Stratmann, Dirk

Journal:

Year:

2018

Language:

english

File:

PDF, 508 KB

english, 2018

41

A Probabilistic Model of RNA Conformational Space

Frellsen, Jes, Moltke, Ida, Thiim, Martin, Mardia, Kanti V., Ferkinghoff-Borg, Jesper, Hamelryck, Thomas, Gardner, Paul

Journal:

PLoS Computational Biology

Year:

2009

Language:

english

File:

PDF, 738 KB

english, 2009

42

Protein Structure Validation and Refinement Using Amide Proton Chemical Shifts Derived from Quantum Mechanics

Christensen, Anders S., Linnet, Troels E., Borg, Mikael, Boomsma, Wouter, Lindorff-Larsen, Kresten, Hamelryck, Thomas, Jensen, Jan H., Salsbury, Freddie

Journal:

Year:

2013

Language:

english

File:

PDF, 1023 KB

english, 2013

43

Structural Features of the Legume Lectins.

Hamelryck, Thomas W., Loris, Remy, Bouckaert, Julie, Wyns, Lode

Journal:

Trends in Glycoscience and Glycotechnology

Year:

1998

Language:

english

File:

PDF, 2.17 MB

english, 1998