Advanced DNA fingerprint genotyping based on a model developed from real chip electrophoresis data

Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216305%3A26220%2F19%3APU131157" target="_blank" >RIV/00216305:26220/19:PU131157 - isvavai.cz</a>
Alternative codes found
RIV/65269705:_____/19:00070876 RIV/00216224:14110/19:00110574
Result on the web
<a href="http://www.sciencedirect.com/science/article/pii/S2090123219300050" target="_blank" >http://www.sciencedirect.com/science/article/pii/S2090123219300050</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1016/j.jare.2019.01.005" target="_blank" >10.1016/j.jare.2019.01.005</a>

Result language
angličtina
Original language name
Advanced DNA fingerprint genotyping based on a model developed from real chip electrophoresis data
Original language description
Large-scale comparative studies of DNA fingerprints prefer automated chip capillary electrophoresis over conventional gel planar electrophoresis due to the higher precision of the digitalization process. However, the determination of band sizes is still limited by the device resolution and sizing accuracy. Band matching, therefore, remains the key step in DNA fingerprint analysis. Most current methods evaluate only the pairwise similarity of the samples, using heuristically determined constant thresholds to evaluate the maximum allowed band size deviation; unfortunately, that approach significantly reduces the ability to distinguish between closely related samples. This study presents a new approach based on global multiple alignments of bands of all samples, with an adaptive threshold derived from the detailed migration analysis of a large number of real samples. The proposed approach allows the accurate automated analysis of DNA fingerprint similarities for extensive epidemiological studies of bacterial strains, thereby helping to prevent the spread of dangerous microbial infections.
Czech name
—
Czech description
—

Type
J<sub>imp</sub> - Article in a specialist periodical, which is included in the Web of Science database
CEP classification
—
OECD FORD branch
10201 - Computer sciences, information science, bioinformathics (hardware development to be 2.2, social aspect to be 5.8)

Project
<a href="/en/project/GA17-01821S" target="_blank" >GA17-01821S: High throughput bacterial genome assembly and annotation techniques using genomic signal processing</a><br>
Continuities
P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Publication year
2019
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

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