Fully automated pipeline for detection of sex linked genes using RNA-Seq data

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F68081707%3A_____%2F15%3A00446325" target="_blank" >RIV/68081707:_____/15:00446325 - isvavai.cz</a>

Nalezeny alternativní kódy

RIV/61389030:_____/15:00446325

Výsledek na webu

<a href="http://dx.doi.org/10.1186/s12859-015-0509-0" target="_blank" >http://dx.doi.org/10.1186/s12859-015-0509-0</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1186/s12859-015-0509-0" target="_blank" >10.1186/s12859-015-0509-0</a>

Jazyk výsledku

angličtina

Název v původním jazyce

Fully automated pipeline for detection of sex linked genes using RNA-Seq data

Popis výsledku v původním jazyce

Background: Sex chromosomes present a genomic region which to some extent, differs between the genders of a single species. Reliable high-throughput methods for detection of sex chromosomes specific markers are needed, especially in species where genomeinformation is limited. Next generation sequencing (NGS) opens the door for identification of unique sequences or searching for nucleotide polymorphisms between datasets. A combination of classical genetic segregation analysis along with RNA-Seq data canpresent an ideal tool to map and identify sex chromosome-specific expressed markers. To address this challenge, we established genetic cross of dioecious plant Rumex acetosa and generated RNA-Seq data from both parental generation and male and female offspring. Results: We present a pipeline for detection of sex linked genes based on nucleotide polymorphism analysis. In our approach, tracking of nucleotide polymorphisms is carried out using a cross of preferably distant populations.

Název v anglickém jazyce

Fully automated pipeline for detection of sex linked genes using RNA-Seq data

Popis výsledku anglicky

Background: Sex chromosomes present a genomic region which to some extent, differs between the genders of a single species. Reliable high-throughput methods for detection of sex chromosomes specific markers are needed, especially in species where genomeinformation is limited. Next generation sequencing (NGS) opens the door for identification of unique sequences or searching for nucleotide polymorphisms between datasets. A combination of classical genetic segregation analysis along with RNA-Seq data canpresent an ideal tool to map and identify sex chromosome-specific expressed markers. To address this challenge, we established genetic cross of dioecious plant Rumex acetosa and generated RNA-Seq data from both parental generation and male and female offspring. Results: We present a pipeline for detection of sex linked genes based on nucleotide polymorphism analysis. In our approach, tracking of nucleotide polymorphisms is carried out using a cross of preferably distant populations.

Druh

J_x - Nezařazeno - Článek v odborném periodiku (Jimp, Jsc a Jost)

CEP obor

BO - Biofyzika

OECD FORD obor

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Projekt

<a href="/cs/project/GBP501%2F12%2FG090" target="_blank" >GBP501/12/G090: Evoluce a funkce komplexních genomů rostlin</a><br>

Návaznosti

I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace

Rok uplatnění

2015

Kód důvěrnosti údajů

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Název periodika

B M C Bioinformatics

ISSN

1471-2105

e-ISSN

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Svazek periodika

16

Číslo periodika v rámci svazku

78

Stát vydavatele periodika

GB - Spojené království Velké Británie a Severního Irska

Počet stran výsledku

8

Strana od-do

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Kód UT WoS článku

000351341600001

EID výsledku v databázi Scopus

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