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1.
Unger,
R., Harel, D., Wherland, S., and Sussman, J.L. 1989. A 3D building blocks
approach to analyzing and predicting structure of proteins. Proteins, 5:
355-373. (Medline
abstract, Building blocks figure ) 2.
Moult,
J. and Unger, R. 1991. An analysis of protein folding pathways. Biochemistry,
30: 3816-3824. (Medline
abstract) 3.
Unger,
R. and Moult, J. 1993. Genetic algorithms for protein folding simulations. J.
Molec. Biol. 231: 75-81. (pdf format). 4.
Unger,
R. and Moult, J. 1993. Finding the lowest free energy conformation of a
protein is a NP-Hard problem: Proof and implications. Bul. Math. Biol. 55:
1183-1198. (Medline
abstract ). 5.
Kandel, D., Matias, Y., Unger, R.,Winkler, P.
1996. Shuffling Biological
Sequences. Discrete Appl. Math. 71: 171-186.
(pdf format) 6.
Unger,
R. and Moult, J. 1996. Local interactions dominate folding in a simple
protein model. J. Molec. Biol. 259: 988-994. (pdf
format). 7.
Bucci,
E., Razynska, A., Kwansa, H., Gryczynski, Z., Collins, J.H., Fronticelli, C.,
Unger, R., Braxenthaler, M., Moult, J., Ji, X. and Gilliland, G. 1996.
Positive and negative cooperativities at subsequent steps of oxygenation
regulate the allosteric behavior of multistate sebacyl-hemoglobin.
Biochemistry 35: 3418-3425. (pdf format). 8.
Braxenthaler, M., Unger, R., Auerbach, D.,
Given, G. and Moult, J. 1997. Chaos
in protein folding dynamics. Proteins, 29: 417-425. (pdf
format). 9.
Yadgari, J., Amir, A., Unger, R., 1998. Genetic algorithms for protein threading. Proc. Int.
Con. on Intelligent Systems for Molecular Biology, ISMB 98:193-202, AAAI
Press. (Medline
abstract). 10. Kaffe-Abramovich, T. and Unger, R.,
1998. A simple model for evolution of protein towards the global minimum of
free energy. Folding & Design, 3: 389-399. (pdf
format). 11. Uliel, S., Fliess, A., Amir, A. and
Unger, R. 1999. A Simple Algorithm for Detecting Circular Permutations in
Proteins. Bioinformatics, 15: 930-936. (pdf
format). 12. Albeck,
S., Unger, R. and Schreiber, G. 2000. Evaluation of Direct and Cooperative Contributions towards the
Strength of Buried Hydrogen Bonds and 13. Uliel, S, Fliess, A. and Unger, R.
2001. Naturally Occurring Circular Permutations in Proteins. Protein
Engineering 14: 533-542. (pdf format). 14. Fliess, A., Motro, B. and Unger, R.
2002. Swaps in protein sequences. Proteins, 48:377-387. (pdf format). 15. Liu, Q.,
Liang, X., Uliel, S., Unger, R., Ullu, E. and Michaeli, S. 2002. RNA interference of signal peptide-binding Protein SRP54
elicits deleterious effects and protein sorting defects in Trypanosomes. JBC,
277:47348-47357. (pdf format). 16. Unger,
R., Uliel, S. and Havlin, S. 2003. Scaling
law in sizes of protein sequence families: From super-families to orphan
genes. Proteins, 51:569-576. (pdf format). 17. Horesh, Y., Amir, A., Michaeli, S. and
Unger, R. 2003. A rapid method for detection of putative RNAi target genes in
genomic data. Bioinformatics, 19:ii73-ii80. (pdf
format). 18. Liu, Q.,
Liang, X., Uliel, S., Belahcen, M., Unger, R. and Michaeli, S. 2004. Identification and functional characterization of
lsm proteins in trypanosome brucei. The Journal of Biological Chemistry,
279:18210-18219. (pdf format). 19. Liang XH, Uliel S, Hury A, Barth S,
Doniger T, Unger R, Michaeli S. 2005. A genome-wide analysis of C/D and
H/ACA-like small nucleolar RNAs in Trypanosoma brucei reveals a
trypanosome-specific pattern of rRNA modification. RNA. May;11(5):619-45. (pdf
format) 20. Unger R, Moult J. 2006. Towards
computing with proteins. Proteins. 2006 Apr 1;63(1):53-64. (pdf format) 21. Horesh Y,
Mehr R, Unger R. 2006. Designing
an A* algorithm for calculating edit distance between rooted-unordered trees.
J Comput Biol. Jul-Aug;13(6):1165-76. (pdf format) 22. Jacob, E. and Unger, R. 2007. A tale
of two tails: why are terminal residues of proteins exposed? Bioinformatics, 23:e225-e230. (pdf format). 23. Horesh Y,
Doniger T, Michaeli S, Unger R. 2007. RNAspa: a shortest path approach for comparative prediction of the
secondary structure of ncRNA molecules. BMC Bioinformatics.
Oct 1;8:366. (pdf format) 24. Noivirt-Brik
O, Unger R, Horovitz A. 2007. Low
folding propensity and high translation efficiency distinguish in vivo
substrates of GroEL from other Escherichia coli proteins. Bioinformatics. Dec 15;23(24):3276-9. (pdf format) 25. Ashkenazy H, Unger R, Kliger Y. 2008
Optimal data collection for correlated mutation analysis. Proteins. Jul 24. (pdf format) 26. Barak M,
Zuckerman NS, Edelman H, Unger R, Mehr R. 2008. IgTree: creating Immunoglobulin variable region gene
lineage trees. J Immunol Methods. Sep
30;338(1-2):67-74. (pdf format) 27. Myslyuk I, Doniger T, Horesh Y, Hury A,
Hoffer R, Ziporen Y, Michaeli S, Unger R. 2008. Psiscan: a computational
approach to identify H/ACA-like and AGA-like non-coding RNA in trypanosomatid
genomes. BMC Bioinformatics. Nov 5;9(1):471. (pdf format) 28. Noivirt-Brik O, Unger R, Horovitz A.
Analysing the origin of long-range interactions in proteins using lattice
models. BMC Struct Biol. 2009 Jan 29;9:4.
(pdf format) 29. Doniger T, Michaeli S, Unger R.
Families of H/ACA ncRNA molecules in trypanosomatids. RNA Biol. 2009
Sep-Oct;6(4):370-4. (pdf format) 30. Noivirt-Brik O, Horovitz A, Unger R.
Trade-off between positive and negative design of protein stability: from
lattice models to real proteins. PLoS Comput Biol. 2009 Dec;5(12):e1000592. (pdf format) 31. Yomtovian I, Teerakulkittipong N, Lee
B, Moult J, Unger R. Composition bias and the origin of ORFan genes.
Bioinformatics. 2010 Apr 15;26(8):996-9. (pdf
format) 32. Yehoshua R, Avigal M,Unger R. Analysis
of the effects of lifetime learning on population fitness using vose model.
Proceedings of the 12th annual conference on Genetic and evolutionary
computation, GECCO 2010. (pdf format) 33. Lebenthal I, Unger R. Computational
evidence for functionality of noncoding mouse transcripts. Genomics. 2010
Jul;96(1):10-6. Epub 2010 Mar 25. (pdf
format) 34. Malnick SD, Bar-Ilan A, Goland S,
Somin M, Doniger T, Basevitz A, Unger R. Perimyocarditis following
streptococcal group A infection: from clinical cases to bioinformatics
analysis. Eur J Intern Med. 2010 Aug;21(4):354-6. (pdf format) 35. Doniger T, Katz R, Wachtel C, Michaeli
S, Unger R. A comparative genome-wide study of ncRNAs in trypanosomatids. BMC
Genomics. 2010 Nov 4;11:615. (pdf format) 36. Ashkenazy
H, Unger R, Kliger Y. Hidden conformations in protein structures.
Bioinformatics. 2011 May 17. (pdf format) |