Sequence comparison by sequence harmony identifies subtype-specific functional sites

Por Pirovano, Walter, Feenstra, K. Anton, Heringa, Jaap
Publicado em 2006

The meaning of alignment: lessons from structural diversity

Por Pirovano, Walter, Feenstra, K Anton, Heringa, Jaap
Publicado em 2008

Multi-Harmony: detecting functional specificity from sequence alignment

Por Brandt, Bernd W., Feenstra, K. Anton, Heringa, Jaap
Publicado em 2010

Sequence harmony: detecting functional specificity from alignments

Por Feenstra, K. Anton, Pirovano, Walter, Krab, Klaas, Heringa, Jaap
Publicado em 2007

CLUB-MARTINI: Selecting Favourable Interactions amongst Available Candidates, a Coarse-Grained Simulation Approach to Scoring Docking Decoys

Por Hou, Qingzhen, Lensink, Marc F., Heringa, Jaap, Feenstra, K. Anton
Publicado no PLoS One (2016)

Structure and function analysis of flexible alignment regions in proteins

Por Pirovano, Walter, Reijden, Anneke van der, Feenstra, K Anton, Heringa, Jaap
Publicado em 2009

Sequence specificity between interacting and non-interacting homologs identifies interface residues – a homodimer and monomer use case

Por Hou, Qingzhen, Dutilh, Bas E., Huynen, Martijn A., Heringa, Jaap, Feenstra, K. Anton
Publicado no BMC Bioinformatics (2015)

BioASF: a framework for automatically generating executable pathway models specified in BioPAX

Por Haydarlou, Reza, Jacobsen, Annika, Bonzanni, Nicola, Feenstra, K. Anton, Abeln, Sanne, Heringa, Jaap
Publicado no Bioinformatics (2016)

Motif-Aware PRALINE: Improving the alignment of motif regions

Por Dijkstra, Maurits, Bawono, Punto, Abeln, Sanne, Feenstra, K. Anton, Fokkink, Wan, Heringa, Jaap
Publicado no PLoS Comput Biol (2018)

Predicting the relationships between gut microbiota and mental disorders with knowledge graphs

Por Liu, Ting, Pan, Xueli, Wang, Xu, Feenstra, K. Anton, Heringa, Jaap, Huang, Zhisheng
Publicado no Health Inf Sci Syst (2020)

Enantioselective Substrate Binding in a Monooxygenase Protein Model by Molecular Dynamics and Docking

Por Feenstra, K. Anton, Hofstetter, Karin, Bosch, Rolien, Schmid, Andreas, Commandeur, Jan N. M., Vermeulen, Nico P. E.
Publicado em 2006

Combining substrate dynamics, binding statistics, and energy barriers to rationalize regioselective hydroxylation of octane and lauric acid by CYP102A1 and mutants

Por Feenstra, K. Anton, Starikov, Eugene B., Urlacher, Vlada B., Commandeur, Jan N.M., Vermeulen, Nico P.E.
Publicado em 2007

Construction and Experimental Validation of a Petri Net Model of Wnt/β-Catenin Signaling

Por Jacobsen, Annika, Heijmans, Nika, Verkaar, Folkert, Smit, Martine J., Heringa, Jaap, van Amerongen, Renée, Feenstra, K. Anton
Publicado no PLoS One (2016)

HIV-1 Replication Fitness of HLA-B*57/58:01 CTL Escape Variants Is Restored by the Accumulation of Compensatory Mutations in Gag

Por Gijsbers, Esther F., Feenstra, K. Anton, van Nuenen, Ad C., Navis, Marjon, Heringa, Jaap, Schuitemaker, Hanneke, Kootstra, Neeltje A.
Publicado em 2013

The ability of transcription factors to differentially regulate gene expression is a crucial component of the mechanism underlying inversion, a frequently observed genetic interact...

Por Amini, Saman, Jacobsen, Annika, Ivanova, Olga, Lijnzaad, Philip, Heringa, Jaap, Holstege, Frank C. P., Feenstra, K. Anton, Kemmeren, Patrick
Publicado no PLoS Comput Biol (2019)

Tailor-made multiple sequence alignments using the PRALINE 2 alignment toolkit

Por Dijkstra, Maurits J J, van der Ploeg, Atze J, Feenstra, K Anton, Fokkink, Wan J, Abeln, Sanne, Heringa, Jaap
Publicado no Bioinformatics (2019)

Hard-wired heterogeneity in blood stem cells revealed using a dynamic regulatory network model

Por Bonzanni, Nicola, Garg, Abhishek, Feenstra, K. Anton, Schütte, Judith, Kinston, Sarah, Miranda-Saavedra, Diego, Heringa, Jaap, Xenarios, Ioannis, Göttgens, Berthold
Publicado em 2013

HIV-1 envelope glycoprotein signatures that correlate with the development of cross-reactive neutralizing activity

Por van den Kerkhof, Tom L G M, Feenstra, K Anton, Euler, Zelda, van Gils, Marit J, Rijsdijk, Linda W E, Boeser-Nunnink, Brigitte D, Heringa, Jaap, Schuitemaker, Hanneke, Sanders, Rogier W
Publicado em 2013

Aurora kinase A (AURKA) interaction with Wnt and Ras-MAPK signalling pathways in colorectal cancer

Por Jacobsen, Annika, Bosch, Linda J. W., Martens-de Kemp, Sanne R., Carvalho, Beatriz, Sillars-Hardebol, Anke H., Dobson, Richard J., de Rinaldis, Emanuele, Meijer, Gerrit A., Abeln, Sanne, Heringa, Jaap, Fijneman, Remond J. A., Feenstra, K. Anton
Publicado no Sci Rep (2018)

Interaction of 14-3-3 proteins with the Estrogen Receptor Alpha F domain provides a drug target interface

Por De Vries-van Leeuwen, Ingrid J., da Costa Pereira, Daniel, Flach, Koen D., Piersma, Sander R., Haase, Christian, Bier, David, Yalcin, Zeliha, Michalides, Rob, Feenstra, K. Anton, Jiménez, Connie R., de Greef, Tom F. A., Brunsveld, Luc, Ottmann, Christian, Zwart, Wilbert, de Boer, Albertus H.
Publicado em 2013