Ancestral DNA Sequence Reconstruction Using Recursive Genetic Algorithms

2007 ◽  
pp. 390-400
Author(s):  
Mauricio Martínez ◽  
Edgar E. Vallejo ◽  
Enrique Morett
Keyword(s):  
Genetic Algorithms ◽  
Dna Sequence ◽  
Sequence Reconstruction

RESEARCH FINDINGS

2012 ◽  
Vol 16 (01) ◽  
pp. 49-51
Keyword(s):  
Stem Cell ◽  
Body Temperature ◽  
Dna Sequence ◽  
Systematic Method ◽  
Sequence Reconstruction ◽  
Research Findings

Study Reveals Link Between Body Temperature and Stillbirth. GIS Researchers Develop Systematic Method for Accurate DNA Sequence Reconstruction. Taiwan Researchers Find Possible Markers of Stem Cell.

scholarly journals DNA Sequence Reconstruction Based On Genetic Algorithm

2008 ◽  
Vol 21 (1) ◽  
pp. 13-23
Author(s):  
Md. Rafiqul Islam ◽  
Md. Rowshan Shahriar ◽  
Abul Faisal Mohammad Shaheed
Keyword(s):  
Genetic Algorithm ◽  
Dna Sequence ◽  
Sequence Reconstruction

scholarly journals QuASeR: Quantum Accelerated de novo DNA sequence reconstruction

PLoS ONE ◽  
2021 ◽  
Vol 16 (4) ◽  
pp. e0249850 ◽  
Author(s):  
Aritra Sarkar ◽  
Zaid Al-Ars ◽  
Koen Bertels
Keyword(s):  
Dna Sequence ◽  
De Novo ◽  
Proof Of Concept ◽  
Quantum Annealing ◽  
Classical Simulation ◽  
Genomics Research ◽  
Sequence Reconstruction ◽  
Quantum Simulator ◽  
Application Developers ◽  
First Time

In this article, we present QuASeR, a reference-free DNA sequence reconstruction implementation via de novo assembly on both gate-based and quantum annealing platforms. This is the first time this important application in bioinformatics is modeled using quantum computation. Each one of the four steps of the implementation (TSP, QUBO, Hamiltonians and QAOA) is explained with a proof-of-concept example to target both the genomics research community and quantum application developers in a self-contained manner. The implementation and results on executing the algorithm from a set of DNA reads to a reconstructed sequence, on a gate-based quantum simulator, the D-Wave quantum annealing simulator and hardware are detailed. We also highlight the limitations of current classical simulation and available quantum hardware systems. The implementation is open-source and can be found onhttps://github.com/QE-Lab/QuASeR.

DNA sequence mapping in interphase and metaphase chromosomes by fluorescence in situ hybridization

1992 ◽  
Vol 50 (1) ◽  
pp. 496-497
Author(s):  
Barbara Trask ◽  
Susan Allen ◽  
Anne Bergmann ◽  
Mari Christensen ◽  
Anne Fertitta ◽  
...  
Keyword(s):  
In Situ Hybridization ◽  
Dna Sequence ◽  
Dna Sequences ◽  
Dual Band ◽  
Nick Translation ◽  
Metaphase Chromosomes ◽  
Band Pass ◽  
Texas Red ◽  
Fluorescent Spot

Using fluorescence in situ hybridization (FISH), the positions of DNA sequences can be discretely marked with a fluorescent spot. The efficiency of marking DNA sequences of the size cloned in cosmids is 90-95%, and the fluorescent spots produced after FISH are ≈0.3 μm in diameter. Sites of two sequences can be distinguished using two-color FISH. Different reporter molecules, such as biotin or digoxigenin, are incorporated into DNA sequence probes by nick translation. These reporter molecules are labeled after hybridization with different fluorochromes, e.g., FITC and Texas Red. The development of dual band pass filters (Chromatechnology) allows these fluorochromes to be photographed simultaneously without registration shift.

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