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Journal Publications
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Rajaraman, A., Zanetti, J.P.P., Ma\v{n}uch, J., Chauve, C.,
Algorithms and complexity results for genome mapping problems
Transactions on Computational Biology and Bioinformatics
to appear
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Czyzowics, J., Dobrev, S., Joeris, B., Kranakis, E., Kriza nc, D., Manuch, J., Morales-Ponce, O., Opatrny, J., Stacho, L., Urrutia, J.,
Monitoring the plane with rotating radars
Graphs & Combinatorics
31
2
393-405
2015
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Condon, A., Manuch, J., Thachuk, C.,
The complexity of string partitioning
Journal of Discrete Algorithms
32
24-43
2015
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Condon, A., Kirkpatrick, B., Manuch, J.,
Reachability bounds for chemical reaction networks and strand displacement system
Natural Computing
13
499-516
2014
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Manuch, J., Patterson, M., Chauve, C.,
Hardness results on the gapped consecutive-ones
property problem
Discrete Applied Mathematics
160
18
2760-2768
2012
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Condon, A., Hu, A., Manuch, J., Thachuk, C.,
Less haste, less waste: on recycling and its limits in strand
displacement systems
Interface Focus
2
2
512-521
2012
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Manuch, J., Stacho, L., Stoll, C.,
Step-wise tile assembly with a constant number of tile types
Natural Computing
11
3
535-550
2012
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Gupta, A., Manuch, J., Stacho, L., Zhao, X.,
Algorithm for haplotype inference via galled-tree networks with simple galls
Journal of Computational Biology
19
4
439-454
2012
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Manuch, J., Patterson, M.,
The complexity of the gapped consecutive-ones property problem
for matrices of bounded maximum degree
Journal of Computational Biology
18
9
1243-1253
2011
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Wittler, R., Manuch, J., Patterson, M., Stoye, J.,
Consistency of sequence-based gene clusters
Journal of Computational Biology
18
9
1023-1039
2011
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Safaei, J., Manuch, J., Gupta, A., Stacho, L., Pelech, S.,
Prediction of 492 human protein kinase
substrate specificities
Proteome Science
9(Suppl 1)
S6
2011
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Manuch, J., Thachuk, C., Stacho, L., Condon, A.,
NP-completeness of the energy barrier problem without
pseudoknots and temporary arcs
Natural Computing
10
1
391-405
2011
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Gupta, A., Karimi, M., Manuch, J., Stacho, L., Zhao, X.,
Haplotype inference
via galled-tree networks is NP-complete
Journal of Computational Biology
17
10
1435-1449
2010
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Manuch, J., Stacho, L., Stoll, C.,
Two lower bounds for self-assemblies at
temperature 1
Journal of Computational Biology
17
6
841-852
2010
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Adams, P., Ardal, H., Manuch, J., Hoa, V.D.,
Rosenfeld, M., Stacho, L.,
Spanning cubic graph designs
Discrete Mathematics
309
18
5781-5788
2009
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Khodabakhshi, A.H., Manuch, J., Rafiey, A.,
Gupta, A.,
Inverse protein folding in 3D hexagonal prism
lattice under HPC model
Journal of Computational Biology
16
6
769-802
2009
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Ardal, H., Manuch, J., Rosenfeld, M., Shelah,
S., Stacho, L.,
The odd-distance plane graph
Discrete & Computational Geometry
42
2
132-141
2009
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Gupta, A., Manuch, J., Stacho, L., Zhao,
X.,
Haplotype inferring via galled-tree networks
using a hypergraph covering problem for special genotype
matrices
Discrete Applied Mathematics
157
10
2310-2324
2009
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Khodabakhshi, A., Manuch, J., Rafiey, A.,
Gupta, A.,
Stable structure-approximating inverse protein
folding in 2D Hydrophobic-Polar-Cysteine (HPC) model
Journal of Computational Biology
16
1
19-30
2009
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Gupta, A., Heuvel, J., Manuch, J., Stacho,
L., Zhao, X.,
On the complexity of ordered colorings
SIAM Journal on Discrete Mathematics
22
2
832-847
2008
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Manuch, J., Gaur, D.R.,
Fitting protein chains to cubic lattice is
NP-complete
Journal of Bioinformatics and Computational
Biology
6
1
93-106
2008
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Gupta, A., Manuch, J., Stacho, L., Zhao,
X.,
Characterization of the existence of
galled-tree networks
Journal of Bioinformatics and Computational
Biology
4
6
1309-1328
2006
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Gupta, A., Manuch, J., Stacho, L.,
Fault tolerant forwarding and optical indexes:
A design theory approach
Journal of Combinatorial Designs
14
1
25-40
2006
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Gupta, A., Manuch, J., Stacho, L.,
Structure-approximating inverse protein
folding problem in 2D HP model
Journal of Computational Biology
12
10
1328-1345
2005
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Berenbrink, P., Friedetzky, T., Manuch, J.,
Stacho, L.,
(Quasi) spanners for mobile ad hoc
networks
Journal of Interconnection Networks
6
2
63-84
2005
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Manuch, J., Stacho, L.,
On f-wise arc forwarding index and wavelength
allocations in faulty all-optical hypercubes
Theoretical Informatics and
Applications
37
3
255-270
2003
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Duris, P., Manuch, J.,
On the computational complexity of infinite
words
Theoretical Computer Science
295
1-3
141-151
2003
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Karhumaki, J., Manuch, J., Plandowski,
W.,
A defect theorem for bi-infinite words
Theoretical Computer Science
292
1
237-243
2003
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Karhumaki, J., Manuch, J.,
Multiple factorizations of words and defect
effect
Theoretical Computer Science
273
1-2
81-97
2002
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Cassaigne, J., Karhumaki, J., Manuch,
J.,
On conjugacy of languages
Theoretical Informatics and
Applications
35
6
535-550
2001
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Manuch, J.,
Defect effect of bi-infinite words in the
two-element case
Discrete Mathematics and Theoretical
Computer Science
4
2
273-290
2001
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Manuch, J.,
Construction of very hard functions for
multiparty communication complexity
Theoretical Informatics and
Applications
34
1
61-75
2000