Algorithms in Bioinformatics


A   A   A
Sections
Home > Publications

Skip to content. | Skip to navigation

Publications

Publications from the Huson lab, sorted by year and author.

2004

Friedrichs, OD, Halpern, AL, Lippert, R, Rausch, C, Schuster, SC, and Huson, D (2004).
Syntenic Layout of Two Assemblies of Related Genomes
In: Proceedings of the German Conference on Bioinformatics (GCB 2004), Bielefeld, Germany, October 4-6, 2004, ed. by Robert Giegerich and Jens Stoye, vol. 53, pp. 3–12, GI. LNI.

Huson, D and Steel, M (2004).
Distances that perfectly mislead
Syst. Biol(53):327–332.

Huson, DH and Steel, M (2004).
Phylogenetic Trees Based on Gene Content
Bioinformatics, 20(13):2044-9.

Huson, DH, Dezulian, T, Kloepper, T, and Steel, MA (2004).
Phylogenetic Super-Networks from Partial Trees
IEEE/ACM Transactions in Computational Biology and Bioinformatics, 1(4):151-158.

M. Eppinger, CB and Schuster, S (2004).
Comparative analysis of four Campylobacterales
Nature Reviews in Microbiology, 2:872-884.

2003

Bryant, D, Huson, D, Kloepper, T, and Nieselt-Struwe, K (2003).
Distance Corrections on Recombinant Sequences
In: Algorithms in Bioinformatics, ed. by Benson, G and Page R. Springer Berlin / Heidelberg, chap. 2812, pp. 271-286.

Dezulian, T, Steel, MA, and Disotell, T (2003).
Discovering human history from stomach bacteria
In: Proceedings of the meeting of the International Federation of Classification Societies (IFCS) 2004, ed. D. Banks, L. House, F. R. McMorris, P. Arabie, and W. Gaul, vol. 4(5), pp. 213, Springer.

Friedrichs, OD, Dezulian, T, and Huson, D (2003).
A meta-viewer for biomolecular data
GI Jahrestagung, 1:375–380.

2002

Conway, J and Huson, D (2002).
The Orbifold Notation for Two-Dimensional Groups
Structural Chemistry, 13(3-4):247-257.

Halpern, AL, Huson, DH, and Reinert, K (2002).
Segment match refinement and applications
In: Proceedings of the ``Workshop in Algorithms in Bioinformatics'', pp. 12-139.

Huson, DH, Reinert, K, and Myers, EW (2002).
The greedy path-merging algorithm for contig scaffolding
Journal of the ACM, 49(5):603-615.

Mural, RJ, Adams, MD, Myers, EW, Smith, HO, Miklos, GL, Wides, R, Halpern, A, Li, PW, Sutton, GG, Nadeau, J, Salzberg, SL, Holt, RA, Kodira, CD, Lu, F, Chen, L, Deng, Z, Evangelista, CC, Gan, W, Heiman, TJ, Li, J, Li, Z, Merkulov, GV, Milshina, NV, Naik, AK, Qi, R, Shue, BC, Wang, A, Wang, J, Wang, X, Yan, X, Ye, J, Yooseph, S, Zhao, Q, Zheng, L, Zhu, SC, Biddick, K, Bolanos, R, Delcher, AL, Dew, IM, Fasulo, D, Flanigan, MJ, Huson, DH, Kravitz, SA, Miller, JR, Mobarry, CM, Reinert, K, Remington, KA, Zhang, Q, Zheng, XH, Nusskern, DR, Lai, Z, Lei, Y, Zhong, W, Yao, A, Guan, P, Ji, RR, Gu, Z, Wang, ZY, Zhong, F, Xiao, C, Chiang, CC, Yandell, M, Wortman, JR, Amanatides, PG, Hladun, SL, Pratts, EC, Johnson, JE, Dodson, KL, Woodford, KJ, Evans, CA, Gropman, B, Rusch, DB, Venter, E, Wang, M, Smith, TJ, Houck, JT, Tompkins, DE, Haynes, C, Jacob, D, Chin, SH, Allen, DR, Dahlke, CE, Sanders, R, Li, K, Liu, X, Levitsky, AA, Majoros, WH, Chen, Q, Xia, AC, Lopez, JR, Donnelly, MT, Newman, MH, Glodek, A, Kraft, CL, Nodell, M, Ali, F, An, HJ, Baldwin-Pitts, D, Beeson, KY, Cai, S, Carnes, M, Carver, A, Caulk, PM, Center, A, Chen, YH, Cheng, ML, Coyne, MD, Crowder, M, Danaher, S, Davenport, LB, Desilets, R, Dietz, SM, Doup, L, Dullaghan, P, Ferriera, S, Fosler, CR, Gire, HC, Gluecksmann, A, Gocayne, JD, Gray, J, Hart, B, Haynes, J, Hoover, J, Howland, T, Ibegwam, C, Jalali, M, Johns, D, Kline, L, Ma, DS, MacCawley, S, Magoon, A, Mann, F, May, D, McIntosh, TC, Mehta, S, Moy, L, Moy, MC, Murphy, BJ, Murphy, SD, Nelson, KA, Nuri, Z, Parker, KA, Prudhomme, AC, Puri, VN, Qureshi, H, Raley, JC, Reardon, MS, Regier, MA, Rogers, YH, Romblad, DL, Schutz, J, Scott, JL, Scott, R, Sitter, CD, Smallwood, M, Sprague, AC, Stewart, E, Strong, RV, Suh, E, Sylvester, K, Thomas, R, Tint, NN, Tsonis, C, Wang, G, Wang, G, Williams, MS, Williams, SM, Windsor, SM, Wolfe, K, Wu, MM, Zaveri, J, Chaturvedi, K, Gabrielian, AE, Ke, Z, Sun, J, Subramanian, G, Venter, JC, Pfannkoch, CM, Barnstead, M, and Stephenson, LD (2002).
A comparison of whole-genome shotgun-derived mouse chromosome 16 and the human genome.
Science, 296(5573):1661–1671.

2001

Conway, J, Friedrichs, OD, Huson, D, and Thurston, W (2001).
On Three-Dimensional Space Groups
Contributations to Geometry and Algebra, 42(2):475-507.

Huson, DH, Halpern, AL, Lai, Z, Myers, EW, Sutton, KR, and G., G (2001).
Comparing assemblies using fragments and mate-pairs
LNCS, 2149:294-306.

Huson, DH, Reinert, K, and Myers, EW (2001).
The Greedy Path-Merging Algorithm for Sequence Assembly
In: Proceedings of the Fifth Annual International Conference on Computational Molecular Biology (RECOMB-01), pp. 157-163.

Huson, DH, Reinert, K, Kravitz, SA, Delcher, KA, L., A, Dew, IM, Flanigan, M, Lai, AL, Z, Mobarry, CM, Sutton, GG, and Myers, EW (2001).
Design of a Compartmentalized Shotgun Assembler for the Human Genome
Bioinformatics, 17:132-139.

Lockhart, PJ, McLenachan, PA, Havell, D, Glenny, D, Huson, D, and Jensen, U (2001).
Phylogeny, dispersal and radiation of New Zealand alpine buttercups: molecular evidence under split decomposition
Ann Missouri Bot Gard, 88:458-477.

Turner, RJ, Chaturvedi, K, Edwards, NJ, Fasulo, D, Halpern, AL, Huson, DH, Kohlbacher, O, Reinert, JR, K, Remington, KA, Schwartz, R, Yooseph, BW, S, and Istrail, S (2001).
Visualization Challenges for a New Cyberpharmaceutical Computing Paradigm
IEEE Press, vol. Proceedings of the IEEE 2001 symposium on parallel and large-data visualization and graphics.

Venter, JC, Adams, MD, Myers, EW, Li, P, Mural, RJ, Sutton, GG, Smith, HO, Yandell, M, Evans, CA, Holt, RA, Gocayne, JD, Amanatides, P, Ballew, RM, Huson, DH, Wortman, JR, Zhang, Q, Zheng, CK, H., X, Chen, L, Skupski, M, Subramanian, G, Thomas, PD, Zhang, J, Miklos, GL, Nelson, C, Broder, S, Clark, AG, Nadeau, J, McKusick, VA, Zinder, N, Levine, AJ, Roberts, RJ, Simon, M, and Hunkapiller, CS (2001).
The Sequence of the Human Genome
, 291:1145-1434.

2000

Bafna, V and Huson, DH (2000).
The Conserved Exon Method for Gene Finding
In: Processings of ISMB 2000, ed. by Altman, R. and Bailey, T. L. and Bourne, P. and Gribskov, M. and Shindyalov, T. Lengauer and I. N. and Eyck, L. F. Ten and Weissig, H., pp. 3-12, Menlo Park, California, AAAI Press.

Friedrichs, OD and Huson, D (2000).
Four-regular vertex-transitive space tilings
J. Discrete and Computational Geometry, 24:279–292.

Huson, DH, Nettles, S, Rice, K, and Warnow, T (2000).
Hybrid tree reconstruction methods
ACM Journal of Experimental Algorithmics, 4:5.

Lockhart, PJ, Steel, MA, and Huson, D (2000).
Invariable site models and their uses in phylogeny reconstruction.
Syst. Biol., 49(2):225–232.

1999

Friedrichs, OD and Huson, D (1999).
Tiling Space By Platonic Solids I.
Discrete and Computational Geometry, 21:299-315.

Friedrichs, OD, Dress, A, Huson, D, Klinowski, J, and Mackay, A (1999).
Systematic Enumeration of Crystalline Nets
Nature, 400:644–647.