Jaap Heringa

	2012
39		René Pool, Jaap Heringa, Martin Hoefling, Roland Schulz, Jeremy C. Smith, K. Anton Feenstra: Enabling grand-canonical Monte Carlo: Extending the flexibility of GROMACS through the GromPy python interface module. Journal of Computational Chemistry 33(12): 1207-1214 (2012)
	2011
38		Mohammed El-Kebir, Jaap Heringa, Gunnar W. Klau: Lagrangian Relaxation Applied to Sparse Global Network Alignment. PRIB 2011: 225-236
37		Mohammed El-Kebir, Jaap Heringa, Gunnar W. Klau: Lagrangian Relaxation Applied to Sparse Global Network Alignment CoRR abs/1108.4358: (2011)
36		Bernd W. Brandt, Jaap Heringa: Protein analysis tools and services at IBIVU. J. Integrative Bioinformatics 8(2): (2011)
	2010
35		Bart P. P. van Houte, Jaap Heringa: Accurate confidence aware clustering of array CGH tumor profiles. Bioinformatics 26(1): 6-14 (2010)
34		Bart P. P. van Houte, Thomas W. Binsl, Hannes Hettling, Jaap Heringa: CGHnormaliter: a Bioconductor package for normalization of array CGH data with many CNAs. Bioinformatics 26(10): 1366-1367 (2010)
33		Thomas W. Binsl, David J. C. Alders, Jaap Heringa, A. B. Johan Groeneveld, Johannes H. G. M. van Beek: Computational quantification of metabolic fluxes from a single isotope snapshot: application to an animal biopsy. Bioinformatics 26(5): 653-660 (2010)
32		Bernd W. Brandt, K. Anton Feenstra, Jaap Heringa: Multi-Harmony: detecting functional specificity from sequence alignment. Nucleic Acids Research 38(Web-Server-Issue): 35-40 (2010)
	2009
31		Walter Pirovano, Anneke van der Reijden, K. Anton Feenstra, Jaap Heringa: Structure and function analysis of flexible alignment regions in proteins. BMC Bioinformatics 10(S-13): 0 (2009)
30		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)
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(19): 2624 (2009)
28		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)
27		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
26		Pavol Jancura, Jaap Heringa, Elena Marchiori: Divide, Align and Full-Search for Discovering Conserved Protein Complexes. EvoBIO 2008: 71-82
25		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
24		Pavol Jancura, Jaap Heringa, Elena Marchiori: Dividing Protein Interaction Networks by Growing Orthologous Articulations. PRIB 2008: 187-200
23		Walter Pirovano, K. Anton Feenstra, Jaap Heringa: The meaning of alignment: lessons from structural diversity. BMC Bioinformatics 9: (2008)
22		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)
21		Walter Pirovano, K. Anton Feenstra, Jaap Heringa: PRALINETM: a strategy for improved multiple alignment of transmembrane proteins. Bioinformatics 24(4): 492-497 (2008)
20		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
19		Marius C. Codrea, Connie R. Jimenez, Sander R. Piersma, Jaap Heringa, Elena Marchiori: Robust Peak Detection and Alignment of nanoLC-FT Mass Spectrometry Data. EvoBIO 2007: 35-46
18		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)
17		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
16		Elena Marchiori, Walter Pirovano, Jaap Heringa, K. Anton Feenstra: A Feature Selection Algorithm for Detecting Subtype Specific Functional Sites from Protein Sequences for Smad Receptor Binding. ICMLA 2006: 168-173
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	David J. C. Alders	[33]
2	Henri E. Bal	[9] [25] [29] [30]
3	Johannes H. G. M. van Beek	[33]
4	Thomas W. Binsl	[33] [34]
5	Nicola Bonzanni	[25] [29] [30]
6	Bernd W. Brandt	[20] [27] [28] [32] [36]
7	Jorn Bruggeman	[28]
8	Marius C. Codrea	[18] [19]
9	Nigel Douglas	[6]
10	Mohammed El-Kebir	[37] [38]
11	K. Anton Feenstra	[16] [17] [21] [22] [23] [25] [29] [30] [31] [32] [39]
12	Wan Fokkink	[25] [29] [30]
13	Richard A. George	[13]
14	A. B. Johan Groeneveld	[33]
15	Hannes Hettling	[34]
16	Martin Hoefling	[39]
17	Bart P. P. van Houte	[34] [35]
18	Adriaan P. IJzerman	[22]
19	Pavol Jancura	[24] [26]
20	Connie R. Jimenez	[18] [19]
21	Thilo Kielmann	[25] [29] [30]
22	Gunnar W. Klau	[37] [38]
23	Jens Kleinjung	[6] [8]
24	Klaas Krab	[17]
25	Elzbieta Krepska	[25] [29] [30]
26	Jack A. M. Leunissen	[20]
27	Kuang Lin	[8] [13] [14]
28	Elena Marchiori	[16] [18] [19] [22] [24] [26]
29	Sander R. Piersma	[19]
30	Walter Pirovano	[16] [17] [21] [23] [31]
31	David D. Pollock	[3]
32	René Pool	[39]
33	Anneke van der Reijden	[31]
34	John W. Romein	[9]
35	Roland Schulz	[39]
36	Victor A. Simossis	[7] [10] [12] [14]
37	Jeremy C. Smith	[39]
38	Radek Szklarczyk	[11] [15]
39	William R. Taylor	[8] [14]
40	Kai Ye	[22]

Colors in the list of coauthors

Last update Thu May 31 18:55:10 2012 CET by the DBLP Team — Data released under the ODC-BY 1.0 license — See also our legal information page