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» Computability of Models for Sequence Assembly
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TCS
2011
13 years 3 months ago
Limitations of self-assembly at temperature 1
We prove that if a set X ⊆ Z2 weakly self-assembles at temperature 1 in a deterministic (Winfree) tile assembly system satisfying a natural condition known as pumpability, then ...
David Doty, Matthew J. Patitz, Scott M. Summers
STACS
2010
Springer
14 years 3 months ago
Intrinsic Universality in Self-Assembly
We show that the Tile Assembly Model exhibits a strong notion of universality where the goal is to give a single tile assembly system that simulates the behavior of any other tile...
David Doty, Jack H. Lutz, Matthew J. Patitz, Scott...
CEC
2007
IEEE
14 years 17 days ago
Efficient assembling of genome fragments using genetic algorithm enhanced by heuristic search
Abstract-- Shotgun sequencing is the state-of-the-art to decode genome sequence. However this technique needs a lot of fragments. Combining those fragments correctly requires enorm...
Satoko Kikuchi, Goutam Chakraborty
BIBM
2010
IEEE
286views Bioinformatics» more  BIBM 2010»
13 years 6 months ago
Evaluation of short read metagenomic assembly
Advances in sequencing technologies have equipped researchers with the ability to sequence the collective genome of entire microbial communities commonly referred to as metagenomi...
Anveshi Charuvaka, Huzefa Rangwala
FUIN
2008
96views more  FUIN 2008»
13 years 8 months ago
Computational Efficiency of Intermolecular Gene Assembly
In this paper, we investigate the computational efficiency of gene rearrangement operations found in ciliates, a type of unicellular organisms. We show how the so-called guided re...
Tseren-Onolt Ishdorj, Remco Loos, Ion Petre