Jaap Heringa

	2009
29		Nicola Bonzanni, Elzbieta Krepska, K. Anton Feenstra, Wan Fokkink, Thilo Kielmann, Henri E. Bal, Jaap Heringa: Executing multicellular differentiation: quantitative predictive modelling of C.elegans vulval development. Bioinformatics 25(16): 2049-2056 (2009)
28		Nicola Bonzanni, Elzbieta Krepska, K. Anton Feenstra, Wan Fokkink, Thilo Kielmann, Henri E. Bal, Jaap Heringa: Executing multicellular differentiation: quantitative predictive modelling of C.elegans vulval development. Bioinformatics 25(19): 2624 (2009)
27		Jorn Bruggeman, Jaap Heringa, Bernd W. Brandt: PhyloPars: estimation of missing parameter values using phylogeny. Nucleic Acids Research 37(Web-Server-Issue): 179-184 (2009)
26		Bernd W. Brandt, Jaap Heringa: webPRC: the Profile Comparer for alignment-based searching of public domain databases. Nucleic Acids Research 37(Web-Server-Issue): 48-52 (2009)
	2008
25		Pavol Jancura, Jaap Heringa, Elena Marchiori: Divide, Align and Full-Search for Discovering Conserved Protein Complexes. EvoBIO 2008: 71-82
24		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
23		Pavol Jancura, Jaap Heringa, Elena Marchiori: Dividing Protein Interaction Networks by Growing Orthologous Articulations. PRIB 2008: 187-200
22		Walter Pirovano, K. Anton Feenstra, Jaap Heringa: The meaning of alignment: lessons from structural diversity. BMC Bioinformatics 9: (2008)
21		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)
20		Walter Pirovano, K. Anton Feenstra, Jaap Heringa: PRALINETM: a strategy for improved multiple alignment of transmembrane proteins. Bioinformatics 24(4): 492-497 (2008)
19		Bernd W. Brandt, Jaap Heringa, Jack A. M. Leunissen: SEQATOMS: a web tool for identifying missing regions in PDB in sequence context. Nucleic Acids Research 36(Web-Server-Issue): 255-259 (2008)
	2007
18		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		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		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		Radek Szklarczyk, Jaap Heringa: AuberGene - a sensitive genome alignment tool. Bioinformatics 22(12): 1431-1436 (2006)
	2005
14		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		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		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		Radek Szklarczyk, Jaap Heringa: Tracking repeats using significance and transitivity. ISMB/ECCB (Supplement of Bioinformatics) 2004: 311-317
10		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		John W. Romein, Jaap Heringa, Henri E. Bal: A Million-Fold Speed Improvement in Genomic Repeats Detection. SC 2003: 20
8		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		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		Jaap Heringa: Local Weighting Schemes for Protein Multiple Sequence Alignment. Computers & Chemistry 26(5): 459-477 (2002)
	2001
4		Jaap Heringa: Post-genome Informatics: Minoru Kanehisa, Oxford University Press, Oxford, 2000, 148 pages. Computers & Chemistry 25(4): 425-426 (2001)
	2000
3		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		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		Jaap Heringa: The Evolution and Recognition of Protein Sequence Repeats. Computers & Chemistry 18(3): 233-243 (1994)

Coauthor Index

1	Henri E. Bal	[9] [24] [28] [29]
2	Nicola Bonzanni	[24] [28] [29]
3	Bernd W. Brandt	[19] [26] [27]
4	Jorn Bruggeman	[27]
5	Marius C. Codrea	[17] [18]
6	Nigel Douglas	[6]
7	K. Anton Feenstra	[16] [20] [21] [22] [24] [28] [29]
8	Wan Fokkink	[24] [28] [29]
9	Richard A. George	[13]
10	Adriaan P. IJzerman	[21]
11	Pavol Jancura	[23] [25]
12	Connie R. Jimenez	[17] [18]
13	Thilo Kielmann	[24] [28] [29]
14	Jens Kleinjung	[6] [8]
15	Klaas Krab	[16]
16	Elzbieta Krepska	[24] [28] [29]
17	Jack A. M. Leunissen	[19]
18	Kuang Lin	[8] [13] [14]
19	Elena Marchiori	[17] [18] [21] [23] [25]
20	Sander Piersma	[18]
21	Walter Pirovano	[16] [20] [22]
22	David D. Pollock	[3]
23	John W. Romein	[9]
24	Victor A. Simossis	[7] [10] [12] [14]
25	Radek Szklarczyk	[11] [15]
26	William R. Taylor	[8] [14]
27	Kai Ye	[21]

Colors in the list of coauthors