2008 |
23 | EE | Pavol Jancura,
Jaap Heringa,
Elena Marchiori:
Divide, Align and Full-Search for Discovering Conserved Protein Complexes.
EvoBIO 2008: 71-82 |
22 | EE | Elzbieta Krepska,
Nicola Bonzanni,
K. Anton Feenstra,
Wan Fokkink,
Thilo Kielmann,
Henri E. Bal,
Jaap Heringa:
Design Issues for Qualitative Modelling of Biological Cells with Petri Nets.
FMSB 2008: 48-62 |
21 | EE | Pavol Jancura,
Jaap Heringa,
Elena Marchiori:
Dividing Protein Interaction Networks by Growing Orthologous Articulations.
PRIB 2008: 187-200 |
20 | EE | Kai Ye,
K. Anton Feenstra,
Jaap Heringa,
Adriaan P. IJzerman,
Elena Marchiori:
Multi-RELIEF: a method to recognize specificity determining residues from multiple sequence alignments using a Machine-Learning approach for feature weighting.
Bioinformatics 24(1): 18-25 (2008) |
19 | EE | Walter Pirovano,
K. Anton Feenstra,
Jaap Heringa:
PRALINETM: a strategy for improved multiple alignment of transmembrane proteins.
Bioinformatics 24(4): 492-497 (2008) |
2007 |
18 | EE | Marius C. Codrea,
Connie R. Jimenez,
Sander Piersma,
Jaap Heringa,
Elena Marchiori:
Robust Peak Detection and Alignment of nanoLC-FT Mass Spectrometry Data.
EvoBIO 2007: 35-46 |
17 | EE | Marius C. Codrea,
Connie R. Jimenez,
Jaap Heringa,
Elena Marchiori:
Tools for computational processing of LC-MS datasets: A user's perspective.
Computer Methods and Programs in Biomedicine 86(3): 281-290 (2007) |
16 | EE | K. Anton Feenstra,
Walter Pirovano,
Klaas Krab,
Jaap Heringa:
Sequence harmony: detecting functional specificity from alignments.
Nucleic Acids Research 35(Web-Server-Issue): 495-498 (2007) |
2006 |
15 | EE | Radek Szklarczyk,
Jaap Heringa:
AuberGene - a sensitive genome alignment tool.
Bioinformatics 22(12): 1431-1436 (2006) |
2005 |
14 | EE | Kuang Lin,
Victor A. Simossis,
William R. Taylor,
Jaap Heringa:
A simple and fast secondary structure prediction method using hidden neural networks.
Bioinformatics 21(2): 152-159 (2005) |
13 | EE | Richard A. George,
Kuang Lin,
Jaap Heringa:
Scooby-domain: prediction of globular domains in protein sequence.
Nucleic Acids Research 33(Web-Server-Issue): 160-163 (2005) |
12 | EE | Victor A. Simossis,
Jaap Heringa:
PRALINE: a multiple sequence alignment toolbox that integrates homology-extended and secondary structure information.
Nucleic Acids Research 33(Web-Server-Issue): 289-294 (2005) |
2004 |
11 | EE | Radek Szklarczyk,
Jaap Heringa:
Tracking repeats using significance and transitivity.
ISMB/ECCB (Supplement of Bioinformatics) 2004: 311-317 |
10 | EE | Victor A. Simossis,
Jaap Heringa:
The influence of gapped positions in multiple sequence alignments on secondary structure prediction methods.
Computational Biology and Chemistry 28(5-6): 351-366 (2004) |
2003 |
9 | EE | John W. Romein,
Jaap Heringa,
Henri E. Bal:
A Million-Fold Speed Improvement in Genomic Repeats Detection.
SC 2003: 20 |
8 | EE | Kuang Lin,
Jens Kleinjung,
William R. Taylor,
Jaap Heringa:
Testing homology with Contact Accepted mutatiOn (CAO): a contact-based Markov model of protein evolution.
Computational Biology and Chemistry 27(2): 93-102 (2003) |
7 | EE | Victor A. Simossis,
Jaap Heringa:
The PRALINE online server: optimising progressive multiple alignment on the web.
Computational Biology and Chemistry 27(4-5): 511-519 (2003) |
2002 |
6 | | Jens Kleinjung,
Nigel Douglas,
Jaap Heringa:
Parallelized multiple alignment.
Bioinformatics 18(9): 1270-1271 (2002) |
5 | EE | Jaap Heringa:
Local Weighting Schemes for Protein Multiple Sequence Alignment.
Computers & Chemistry 26(5): 459-477 (2002) |
2001 |
4 | EE | Jaap Heringa:
Post-genome Informatics: Minoru Kanehisa, Oxford University Press, Oxford, 2000, 148 pages.
Computers & Chemistry 25(4): 425-426 (2001) |
2000 |
3 | EE | David D. Pollock,
Jaap Heringa:
RECOMB98. Computational Molecular Biology: Pre- and Post-genomics, March 22-25, 1998, New York.
Computers & Chemistry 24(1): 133-134 (2000) |
1999 |
2 | EE | Jaap Heringa:
Two Strategies for Sequence Comparison: Profile-preprocessed and Secondary Structure-induced Multiple Alignment.
Computers & Chemistry 23(3-4): 341-364 (1999) |
1994 |
1 | EE | Jaap Heringa:
The Evolution and Recognition of Protein Sequence Repeats.
Computers & Chemistry 18(3): 233-243 (1994) |