About: Investigation of plant repetitive DNA by bioinformatic analysis of next-generation sequencing data

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An Entity of Type : http://linked.opendata.cz/ontology/domain/vavai/Projekt, within Data Space : linked.opendata.cz associated with source document(s)

Attributes	Values
rdf:type	http://linked.opendata.cz/ontology/domain/vavai/Projekt
rdfs:seeAlso	http://www.isvav.cz/projectDetail.do?rowId=OC10037
Description	DNA sequencing is one of the basic techniques of genome investigation. However, relatively low speed and high cost of sequencing projects employing traditional, clone-based Sanger sequencing represent limiting factors for in-depth investigation of large and complex genomes, including those of higher plants. The recent introduction of low-cost sequencing technologies based on highly parallel processing of millions of templates (next-generation sequencing) has greatly accelerated genome sequencing and made it available for investigation of a wide range of species. While these technologies generate unprecedented volumes of sequencing data, they also require new bioinformatic tools for their efficient handling and analyzing. This project aims at developing such tools to analyze sequence composition, abundance and evolution of repetitive DNA sequences which make up major part of most higher plant genomes. In addition to the development of novel bioinformatic approaches and corresponding computer programs (en) Vývoj bioinformatických metod pro analýzu dat z masivně-paralelního sekvenování genomů rostlin, které umožní komplexní charakterizaci repetitivní DNA. Implementace těchto algoritmů do programů a jejich využití pro studium repetic u vybraných druhů.
Title	Investigation of plant repetitive DNA by bioinformatic analysis of next-generation sequencing data (en) Výzkum repetitivní DNA rostlin pomocí bioinformatické analýzy dat z nové generace sekvenačních technologií
skos:notation	OC10037
http://linked.open...avai/cep/aktivita	COST
http://linked.open...kovaStatniPodpora	http://linked.opendata.cz/resource/domain/vavai/projekt/OC10037/celkovaStatniPodpora
http://linked.open...ep/celkoveNaklady	http://linked.opendata.cz/resource/domain/vavai/projekt/OC10037/celkoveNaklady
http://linked.open...datumDodatniDoRIV	2013-06-28 (xsd:date)
http://linked.open...i/cep/druhSouteze	VS - Veřejná soutěž ve výzkumu a vývoji
http://linked.open...ep/duvernostUdaju	S - Úplné a pravdivé údaje nepodléhající ochraně podle zvláštních právních předpisů
http://linked.open.../cep/fazeProjektu	92927894
http://linked.open...ai/cep/hlavniObor	EB - Genetika a molekulární biologie
http://linked.open...hodnoceniProjektu	V - Vynikající výsledky (s mezinárodním významem apod.). Zároveň byly splněny cíle a předpokládané výsledky uvedené ve smlouvě / rozhodnutí o poskytnutí podpory.
http://linked.open...vai/cep/kategorie	ZV - Základní výzkum
http://linked.open.../cep/klicovaSlova	next-generation sequencing; repetitive DNA; bioinformatics; plant genomics (en)
http://linked.open...ep/partnetrHlavni	Biologické centrum AV ČR, v. v. i.
http://linked.open...inujicichPrijemcu	0 (xsd:int)
http://linked.open...cep/pocetPrijemcu	1 (xsd:int)
http://linked.open...ocetSpoluPrijemcu	0 (xsd:int)
http://linked.open.../pocetVysledkuRIV	9 (xsd:int)
http://linked.open...enychVysledkuVRIV	9 (xsd:int)
http://linked.open...lneniVMinulemRoce	2012-02-27 (xsd:date)
http://linked.open.../prideleniPodpory	http://linked.opendata.cz/resource/domain/vavai/cep/prideleniPodpory/1081%2F2011-320
http://linked.open...iciPoslednihoRoku	2012
http://linked.open...atUdajeProjZameru	2013
http://linked.open.../vavai/cep/soutez	SMSM2010OC5
http://linked.open...usZobrazovaneFaze	DUU
http://linked.open...ai/cep/typPojektu	P - Projekt výzkumu a vývoje financovaný ze státního rozpočtu
http://linked.open...ep/ukonceniReseni	2012-12-31 (xsd:date)
http://linked.open.../cep/vedlejsiObor	IN - Informatika GE - Šlechtění rostlin
http://linked.open...ep/zahajeniReseni	2010-05-01 (xsd:date)
http://linked.open...jektu+dodavatelem	Our previously developed bioinformatic approaches for comparative analysis of repetitive DNA in plant genomes v^ere applied to investigate repeat composition in 36 species from four famihes of higher plants. Resulting data was published in peer-reviewed international journals and computer programs were made publicly available via web server. (en) Metody pro srovnávací analýzu složení repetitivní DNA v genomech rostlin vyvinuté během předchozího řešení projektu byly v tomto roce aplikovány na celkem 36 druhů ze čtyř čeledí vyšších rostlin. Výsledkem této práce bylo několik publikací v mezinárodních časopisech a nový webový server zpřístupňující vyvinuté programy. (cs)
http://linked.open...tniCyklusProjektu	ZBKU
http://linked.open.../cep/klicoveSlovo	next-generation sequencing bioinformatics repetitive DNA
is http://linked.open...vavai/riv/projekt of	Flow Sorting and Sequencing Meadow Fescue Chromosome 4F Selfish supernumerary chromosome reveals its origin as a mosaic of host genome and organellar sequences RepeatExplorer: a Galaxy-based web server for genome-wide characterization of eukaryotic repetitive elements from next-generation sequence reads Independent, rapid and targeted loss of highly repetitive DNA in natural and synthetic allopolyploids of Nicotiana tabacum Graph-based clustering and characterization of repetitive sequences in next-generation sequencing data Global sequence characterization of rice centromeric satellite based on oligomer frequency analysis in large-scale sequencing data SeqGrapheR Tool for visualization and analysi of clusters of repetitive sequences from next generation sequencing data Next Generation Sequencing-Based Analysis of Repetitive DNA in the Model Dioceous Plant Silene latifolia Next generation sequencing reveals genome downsizing in allotetraploid Nicotiana tabacum, predominantly through the elimination of paternally derived repetitive DNAs
is http://linked.open...vavai/cep/projekt of	http://linked.opendata.cz/resource/domain/vavai/cep/ucast/OC10037/2010/ico%3A60077344 http://linked.opendata.cz/resource/domain/vavai/cep/ucast/OC10037/2011/ico%3A60077344 http://linked.opendata.cz/resource/domain/vavai/cep/ucast/OC10037/2012/ico%3A60077344 http://linked.opendata.cz/resource/domain/vavai/cep/ucast/OC10037/2013/ico%3A60077344

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