Vlieg, Jacob: search on Z-Library

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1

BioVenn - a web application for the comparison and visualization of biological lists using area-proportional Venn diagrams

Tim Hulsen, Jacob de Vlieg, Wynand Alkema

Journal:

Year:

2008

Language:

english

File:

PDF, 308 KB

english, 2008

2

Comparative Analysis of Pharmacophore Screening Tools

Sanders, Marijn P. A., Barbosa, Arménio J. M., Zarzycka, Barbara, Nicolaes, Gerry A.F., Klomp, Jan P.G., de Vlieg, Jacob, Del Rio, Alberto

Journal:

Journal of Chemical Information and Modeling

Year:

2012

Language:

english

File:

PDF, 2.51 MB

english, 2012

3

[Methods in Enzymology] Molecular Design and Modeling: Concepts and Applications Part A: Proteins, Peptides, and Enzymes Volume 202 || [14] Combined procedures of distance geometry and molecular dynamics for determining protein structure from nuclear magnetic resonance data

De Vlieg, Jacob

Year:

1991

Language:

english

File:

PDF, 1.89 MB

english, 1991

4

Fusarium solani pisi cutinase

Maarten R Egmond, Jacob de Vlieg

Journal:

Year:

2000

Language:

english

File:

PDF, 829 KB

english, 2000

5

Benchmarking ortholog identification methods using functional genomics data

Tim Hulsen, Martijn A Huynen, Jacob de Vlieg, Peter MA Groenen

Journal:

Year:

2006

Language:

english

File:

PDF, 280 KB

english, 2006

6

The Use of in Vitro Peptide Binding Profiles and in Silico Ligand-Receptor Interaction Profiles to Describe Ligand-Induced Conformations of the Retinoid X Receptor α Ligand-Binding Domain

Folkertsma, Simon, van Noort, Paula I., de Heer, Arnold, Carati, Peter, Brandt, Ralph, Visser, Arie, Vriend, Gerrit, de Vlieg, Jacob

Journal:

Molecular Endocrinology

Year:

2007

Language:

english

File:

PDF, 1.74 MB

english, 2007

7

Revisiting the Rule of Five on the Basis of Pharmacokinetic Data from Rat

Dr. Lars Ridder, Dr. Hongwu Wang, Prof. Jacob de Vlieg, Dr. Markus Wagener

Journal:

Year:

2011

Language:

english

File:

PDF, 550 KB

english, 2011

8

Prednisolone-induced differential gene expression in mouse liver carrying wild type or a dimerization-defective glucocorticoid receptor

Raoul Frijters, Wilco Fleuren, Erik JM Toonen, Jan P Tuckermann, Holger M Reichardt, Hans van der Maaden, Andrea van Elsas, Marie-Jose van Lierop, Wim Dokter, Jacob de Vlieg, Wynand Alkema

Journal:

Year:

2010

Language:

english

File:

PDF, 4.84 MB

english, 2010

9

Tertiary structure of two-electron reduced Megasphaera elsdenii flavodoxin and some implications, as determined by two-dimensional 1H-NMR and restrained molecular dynamics

Carlo P. M. van MIERLO, Philip LIJNZAAD, Jacques VERVOORT, Franz MÜLLER, Herman J. C. BERENDSEN, Jacob de VLIEG

Journal:

Year:

1990

Language:

english

File:

PDF, 1.49 MB

english, 1990

10

Pharmacophore Fingerprint-Based Approach to Binding Site Subpocket Similarity and Its Application to Bioisostere Replacement

Wood, David J., Vlieg, Jacob de, Wagener, Markus, Ritschel, Tina

Journal:

Journal of Chemical Information and Modeling

Year:

2012

Language:

english

File:

PDF, 2.61 MB

english, 2012

11

Comparison between steroid binding to membrane progesterone receptor α (mPRα) and to nuclear progesterone receptor: Correlation with physicochemical properties assessed by comparative molecular field analysis and identification of mPRα-specific agonists

Jan Kelder, Rita Azevedo, Yefei Pang, Jacob de Vlieg, Jing Dong, Peter Thomas

Journal:

Year:

2010

Language:

english

File:

PDF, 975 KB

english, 2010

12

Data-driven medicinal chemistry in the era of big data

Lusher, Scott J., McGuire, Ross, van Schaik, René C., Nicholson, C. David, de Vlieg, Jacob

Journal:

Drug Discovery Today

Year:

2014

Language:

english

File:

PDF, 1.97 MB

english, 2014

13

The Nuclear Receptor Ligand-Binding Domain: A Family-Based Structure Analysis

Folkertsma, Simon, Noort, Paula, Brandt, Ralph, Bettler, Emmanuel, Vriend, Gerrit, Vlieg, Jacob

Journal:

Current Medicinal Chemistry

Year:

2005

Language:

english

File:

PDF, 624 KB

english, 2005

14

Computational design, synthesis, and evaluation of miniproteins as androgen receptor coactivator mimics

Vaz, Belen, Möcklinghoff, Sabine, Folkertsma, Simon, Lusher, Scott, de Vlieg, Jacob, Brunsveld, Luc

Journal:

Chemical Communications

Year:

2009

Language:

english

File:

PDF, 1.04 MB

english, 2009

15

Snooker: A Structure-Based Pharmacophore Generation Tool Applied to Class A GPCRs

Sanders, Marijn P. A., Verhoeven, Stefan, de Graaf, Chris, Roumen, Luc, Vroling, Bas, Nabuurs, Sander B., de Vlieg, Jacob, Klomp, Jan P. G.

Journal:

Journal of Chemical Information and Modeling

Year:

2011

Language:

english

File:

PDF, 6.65 MB

english, 2011

16

Flexible protein-ligand docking using the Fleksy protocol

Markus Wagener, Jacob de Vlieg, Sander B. Nabuurs

Journal:

Journal of Computational Chemistry

Year:

2012

Language:

english

File:

PDF, 1.19 MB

english, 2012

17

Identification of functional and unfolding motions of cutinase as obtained from molecular dynamics computer simulations

Lucia D. Creveld, Andrea Amadei, René C. van Schaik, Henri A.M. Pepermans, Jacob de Vlieg, Herman J.C. Berendsen

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1998

Language:

english

File:

PDF, 712 KB

english, 1998

18

PhyloPat: phylogenetic pattern analysis of eukaryotic genes

Tim Hulsen, Jacob de Vlieg, Peter MA Groenen

Journal:

BMC Bioinformatics

Year:

2006

Language:

english

File:

PDF, 456 KB

english, 2006

19

Literature Mining for the Discovery of Hidden Connections between Drugs, Genes and Diseases

Frijters, Raoul, van Vugt, Marianne, Smeets, Ruben, van Schaik, René, de Vlieg, Jacob, Alkema, Wynand, Rzhetsky, Andrey

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 818 KB

english, 2010

20

A Flexible Approach to Induced Fit Docking

Nabuurs, Sander B., Wagener, Markus, de Vlieg, Jacob

Journal:

Journal of Medicinal Chemistry

Year:

2007

Language:

english

File:

PDF, 543 KB

english, 2007

21

Testing statistical significance scores of sequence comparison methods with structure similarity

Tim Hulsen, Jacob de Vlieg, Jack AM Leunissen, Peter MA Groenen

Journal:

BMC Bioinformatics

Year:

2006

Language:

english

File:

PDF, 801 KB

english, 2006

22

Engineering surface charges in a subtilisin: the effects on electrophoretic and ion-exchange behaviour

Egmond, Maarten R., Antheunisse, Willem P., van Bemmel, Carla J., Ravestein, Peter, de Vlieg, Jacob, Peters, Hans, Branner, Sven

Journal:

Protein Engineering Design and Selection

Year:

1994

Language:

english

File:

PDF, 729 KB

english, 1994

23

A molecular informatics view on best practice in multi-parameter compound optimization

Scott J. Lusher, Ross McGuire, Rita Azevedo, Jan-Willem Boiten, Rene C. van Schaik, Jacob de Vlieg

Journal:

Drug Discovery Today

Year:

2011

Language:

english

File:

PDF, 632 KB

english, 2011

24

Integrating gene expression and GO classification for PCA by preclustering

Jorn R De Haan, Ester Piek, Rene C van Schaik, Jacob de Vlieg, Susanne Bauerschmidt, Lutgarde MC Buydens, Ron Wehrens

Journal:

BMC Bioinformatics

Year:

2010

Language:

english

File:

PDF, 601 KB

english, 2010

25

Prednisolone induces the Wnt signalling pathway in 3T3-L1 adipocytes

Fleuren, Wilco W. M., Linssen, Margot M. L., Toonen, Erik J. M., van der Zon, Gerard C. M., Guigas, Bruno, de Vlieg, Jacob, Dokter, Wim H. A., Ouwens, D. Margriet, Alkema, Wynand

Journal:

Archives of Physiology and Biochemistry

Year:

2013

Language:

english

File:

PDF, 4.02 MB

english, 2013

26

Increasing thermal stability of subtilisin from mutations suggested by strongly interacting side-chain clusters

Heringa, Jaap, Argos, Patrick, Egmond, Maarten R., de Vlieg, Jacob

Journal:

Protein Engineering Design and Selection

Year:

1995

Language:

english

File:

PDF, 1.22 MB

english, 1995

27

Cutinase from Fusarium solani pisi Hydrolyzing Triglyceride Analogs. Effect of Acyl Chain Length and Position in the Substrate Molecule on Activity and Enantioselectivity

Mannesse, Maurice L. M., Cox, Ruud C., Koops, Bart C., Verheij, Hubertus M., de Haas, Gerard H., Egmond, Maarten R., van der Hijden, Harry T. W. M., de Vlieg, Jacob

Journal:

Year:

1995

Language:

english

File:

PDF, 986 KB

english, 1995

28

A Family-based Approach Reveals the Function of Residues in the Nuclear Receptor Ligand-binding Domain

Simon Folkertsma, Paula van Noort, Joost Van Durme, Henk-Jan Joosten, Emmanuel Bettler, Wilco Fleuren, Laerte Oliveira, Florence Horn, Jacob de Vlieg, Gerrit Vriend

Journal:

Journal of Molecular Biology

Year:

2004

Language:

english

File:

PDF, 791 KB

english, 2004

29

Panulirus Interruptus Hemocyanin: The amino-acid sequence of the region containing one copper-binding site and the sites susceptible to limited proteolysis

Johan M. Vereijken, Jacob de Vlieg, Jaap J. Beintema

Journal:

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

Year:

1984

Language:

english

File:

PDF, 523 KB

english, 1984

30

Structural Properties of 1,2-Diacyl-sn-glycerol in Bulk and at the Water Interface by Molecular Dynamics

van Buuren, Aldert R., de Vlieg, Jacob, Berendsen, Herman J. C.

Journal:

Year:

1995

Language:

english

File:

PDF, 3.42 MB

english, 1995

31

Cosurfactants Lower Surface Tension of the Diglyceride/Water Interface: A Molecular Dynamics Study

van Buuren, Aldert R., Tieleman, D. Peter, de Vlieg, Jacob, Berendsen, Herman J. C.

Journal:

Year:

1996

Language:

english

File:

PDF, 383 KB

english, 1996

32

In Silico Veritas: The Pitfalls and Challenges of Predicting GPCR-Ligand Interactions

Roumen, Luc, Sanders, Marijn P.A., Vroling, Bas, De Esch, Iwan J.P., De Vlieg, Jacob, Leurs, Rob, Klomp, Jan P.G., Nabuurs, Sander B., De Graaf, Chris

Journal:

Pharmaceuticals

Year:

2011

Language:

english

File:

PDF, 2.09 MB

english, 2011

33

ss-TEA: Entropy based identification of receptor specific ligand binding residues from a multiple sequence alignment of class A GPCRs

Marijn PA Sanders, Wilco WM Fleuren, Stefan Verhoeven, Sven van den Beld, Wynand Alkema, Jacob de Vlieg, Jan PG Klomp

Journal:

BMC Bioinformatics

Year:

2011

Language:

english

File:

PDF, 6.17 MB

english, 2011

34

Integrated Project Views: Decision Support Platform for Drug Discovery Project Teams

Baede, Eric J., den Bekker, Ernest, Boiten, Jan-Willem, Cronin, Deborah, van Gammeren, Rob, de Vlieg, Jacob

Journal:

Journal of Chemical Information and Modeling

Year:

2012

Language:

english

File:

PDF, 581 KB

english, 2012

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