14790
2016
eng
D1054-D1059
D1
45
article
1
2017-05-05
--
--
AraPheno: a public database for Arabidopsis thaliana phenotypes
Natural genetic variation makes it possible to discover evolutionary changes that have been maintained in a population because they are advantageous. To understand genotype–phenotype relationships and to investigate trait architecture, the existence of both high-resolution genotypic and phenotypic data is necessary. Arabidopsis thaliana is a prime model for these purposes. This herb naturally occurs across much of the Eurasian continent and North America. Thus, it is exposed to a wide range of environmental factors and has been subject to natural selection under distinct conditions. Full genome sequencing data for more than 1000 different natural inbred lines are available, and this has encouraged the distributed generation of many types of phenotypic data. To leverage these data for meta analyses, AraPheno (https://arapheno.1001genomes.org) provide a central repository of population-scale phenotypes for A. thaliana inbred lines. AraPheno includes various features to easily access, download and visualize the phenotypic data. This will facilitate a comparative analysis of the many different types of phenotypic data, which is the base to further enhance our understanding of the genotype–phenotype map.
Nucleic Acids Research
10.1093/nar/gkw986
urn:nbn:de:bvb:20-opus-147909
Nucleic Acids Research, 2017, Vol. 45, Database issue, D1054–D1059. doi: 10.1093/nar/gkw986
340602
268962
Ümit Seren
Dominik Grimm
Joffrey Fitz
Detlef Weigel
Magnus Nordborg
Karsten Borgwardt
Arthur Korte
eng
uncontrolled
phenotype
eng
uncontrolled
arabidopsis
eng
uncontrolled
genotype
Biowissenschaften; Biologie
open_access
Theodor-Boveri-Institut für Biowissenschaften
OpenAIRE
Förderzeitraum 2016
Universität Würzburg
https://opus.bibliothek.uni-wuerzburg.de/files/14790/Seren_gkw986.pdf
15872
2018
eng
D1150–D1156
D1
46
article
1
2018-03-09
--
--
The AraGWAS Catalog: a curated and standardized Arabidopsis thaliana GWAS catalog
The abundance of high-quality genotype and phenotype data for the model organism Arabidopsis thaliana enables scientists to study the genetic architecture of many complex traits at an unprecedented level of detail using genome-wide association studies (GWAS). GWAS have been a great success in A. thaliana and many SNP-trait associations have been published. With the AraGWAS Catalog (https://aragwas.1001genomes.org) we provide a publicly available, manually curated and standardized GWAS catalog for all publicly available phenotypes from the central A. thaliana phenotype repository, AraPheno. All GWAS have been recomputed on the latest imputed genotype release of the 1001 Genomes Consortium using a standardized GWAS pipeline to ensure comparability between results. The catalog includes currently 167 phenotypes and more than 222 000 SNP-trait associations with P < 10\(^{-4}\), of which 3887 are significantly associated using permutation-based thresholds. The AraGWAS Catalog can be accessed via a modern web-interface and provides various features to easily access, download and visualize the results and summary statistics across GWAS.
Nucleic Acids Research
10.1093/nar/gkx954
urn:nbn:de:bvb:20-opus-158727
Nucleic Acids Research, 2018, 46:D1, D1150-D1156. DOI: 10.1093/nar/gkx954
CC BY-NC: Creative-Commons-Lizenz: Namensnennung, Nicht kommerziell 4.0 International
Matteo Togninalli
Ümit Seren
Dazhe Meng
Joffrey Fitz
Magnus Nordborg
Detlef Weigel
Karsten Borgwardt
Arthur Korte
Dominik G. Grimm
eng
uncontrolled
model organism
eng
uncontrolled
genotype
eng
uncontrolled
phenotype
Biowissenschaften; Biologie
open_access
Center for Computational and Theoretical Biology
Förderzeitraum 2017
Universität Würzburg
https://opus.bibliothek.uni-wuerzburg.de/files/15872/Togninalli_Nucleic_Acids_Research.pdf