Search Results - "Poleksic, A"

PSI-BLAST searches using hidden markov models of structural repeats: prediction of an unusual sliding DNA clamp and of beta-propellers in UV-damaged DNA-binding protein by Neuwald, A F, Poleksic, A

“…We have designed hidden Markov models (HMMs) of structurally conserved repeats that, based on pairwise comparisons, are unconserved at the sequence level. To…”
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Convergent Island Statistics: a fast method for determining local alignment score significance by Poleksic, Aleksandar, Danzer, Joseph F., Hambly, Kevin, Debe, Derek A.

“…Motivation: Background distribution statistics for profile-based sequence alignment algorithms cannot be calculated analytically, and hence such algorithms…”
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The possible role of glutamate uptake in metaphit-induced seizures by LIPOVAC, M. N, HOLLAND, T, POLEKSIC, A, KILLIAN, C, LAJTHA, A

“…In a study of the possible mechanism of action of metaphit and phencyclidine in the brain, the uptake of glutamate at the luminal side of the blood-brain…”
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On Complexity of Protein Structure Alignment Problem under Distance Constraint by Poleksic, A.

“…We study the well-known Largest Common Point-set (LCP) under Bottleneck Distance Problem. Given two proteins o and 6 (as sequences of points in…”
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Optimizing a Widely Used Protein Structure Alignment Measure in Expected Polynomial Time by Poleksic, A.

“…Protein structure alignment is an important tool in many biological applications, such as protein evolution studies, protein structure modeling, and…”
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Optimal pairwise alignment of fixed protein structures in subquadratic time by Poleksic, Aleksandar

“…The problem of finding an optimal structural alignment for a pair of superimposed proteins is often amenable to the Smith-Waterman dynamic programming…”
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Visualizing Protein Structural Superpositions and Alignments with StructAlignViewer by Kattnig, H., Poleksic, A.

“…With emerging amounts of genomic data, research in the field of computational molecular biology is calling for new tools for displaying macromolecular…”
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Ran's C-terminal, basic patch, and nucleotide exchange mechanisms in light of a canonical structure for Rab, Rho, Ras, and Ran GTPases by Neuwald, Andrew F, Kannan, Natarajan, Poleksic, Aleksandar, Hata, Naoya, Liu, Jun S

“…Proteins comprising the core of the eukaryotic cellular machinery are often highly conserved, presumably due to selective constraints maintaining important…”
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Translation numbers in negatively curved groups by Poleksić, Aleksandar

“…We give a very short proof of the claim of Gromov that the translation numbers of elements in a negatively curved group are rational with bounded denominator…”
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The boundary of a quasiconvex space by Poleksić, Aleksandar

“…We study the asymptotic geometry of quasiconvex spaces, a class of nonpositively curved metric spaces that includes both Gromov negatively curved and CAT(…”
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A different look at the quality of modeled three-dimensional protein structures by Poleksic, Aleksandar, Fienup, Mark, Danzer, Joseph F, Debe, Derek A

“…Measuring the accuracy of protein three-dimensional structures is one of the most important problems in protein structure prediction. For structure-based drug…”
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Groups acting on quasiconvex spaces and translation numbers by Aleksandar Poleksic

“…We prove that groups acting geometrically on \delta-quasiconvex spaces contain no essential Baumslag-Solitar quotients as subgroups. This implies that they are…”
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Protein Structure Alignment: Is There Room for Improvement? by Arriagada, M., Poleksic, A.

“…Recent years have seen rapid development of methods for approximate and optimal solutions to the protein structure alignment problem. Albeit slow, these…”
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