399 research outputs found
Engineering of a semi-automatic pipeline for the construction of a reference genome sequence for barley (Hordeum vulgare L.) and evaluation of assembly quality
No full textBeier S. Engineering of a semi-automatic pipeline for the construction of a reference genome sequence for barley (Hordeum vulgare L.) and evaluation of assembly quality. Bielefeld: Universität Bielefeld; 2017
Image Morphing with the Beier-Neely Method
No full textThe Beier-Neely feature-based image-morphing method is studied. Then, software implementing the Beier-Neely image-morphing method, designed and developed by the author, is presented. The software consists of three programs. The first program is a graphical user interface (GUI) used to manually select feature line segments. The second program is a morphing program that generates a morphing image sequence, where each intermediate frame in the sequence represents a stage in the morphing process. The third program converts the image sequence produced to a video that displays the image morphing effect.Graduat
MISA-web: a web server for microsatellite prediction
No full textBeier S, Thiel T, Münch T, Scholz U, Mascher M. MISA-web: a web server for microsatellite prediction. Bioinformatics. 2017;33(16):2583-2585
DivBrowse – interactive visualization and exploratory data analysis of variant call matrices
No full textDivBrowse is a software for interactive visualization and analysis of the diversity of genomic variants. It uses VCF and GFF3 files as data input and consists of a web server written in Python and a GUI written in Javascript.If you use this software, please cite it using the metadata from this file
Ulli Beier, Obotunde Ijimere and Theopaneia in the Imprisonment of Obatala
No full textUlli Beier's attachment to the arts and the peoples of Nigeria is in itself unique. His choices, in association, research and artistic efforts portray this in an unequivocal manner. Obotunde Ijimere, another of Beier's creations, is the author of The Imprisonment of Obatala. This study examines the posture and the context in which Beier perceives the Yoruba, his involvement with the people's theopanic visions and the significance of the experiences to his work in Nigeria
Ulli beier, Obotunde Ijimere and Theopaneia in the imprisonment of Obatala
No full textUlli Beier's attachment to the arts and the peoples of Nigeria is in itself unique. His choices, in association, research and artistic efforts portray this in an unequivocal manner. Obotunde Ijimere, another of Beier's creations, is the author of The Imprisonment of Obatala. This study examines the posture and the context in which Beier perceives the Yoruba, his involvement with the people's theopanic visions and the significance of the experiences to his work in Nigeria
BARLEX – the Barley Draft Genome Explorer
No full textColmsee C, Beier S, Himmelbach A, et al. BARLEX – the Barley Draft Genome Explorer. Molecular Plant. 2015;8(6):964-966
Insights into breeding history, hotspot regions of selection and untapped allelic diversity for bread wheat breeding.
No full textBreeding has increasingly altered the genetics of crop plants since the domestication of their wild progenitors. It is postulated that the genetic diversity of elite wheat breeding pools is too narrow to cope with future challenges. In contrast, plant genetic resources (PGRs) of wheat stored in genebanks are valuable sources of unexploited genetic diversity. Therefore, to ensure breeding progress in the future, it is of prime importance to identify the useful allelic diversity available in PGRs and to transfer it into elite breeding pools. Here, a diverse collection consisting of modern winter wheat cultivars and genebank accessions was investigated based on reduced-representation genomic sequencing and an iSelect single nucleotide polymorphism (SNP) chip array. Analyses of these datasets provided detailed insights into population structure, levels of genetic diversity, sources of new allelic diversity and genomic regions affected by breeding activities. We identified 57 regions representing genomic signatures of selection and 827 regions representing private alleles associated exclusively with genebank accessions. The presence of known functional wheat genes, quantitative trait loci and large chromosomal modifications, i.e., introgressions from wheat wild relatives, provided initial evidence for putative traits associated within these identified regions. These findings were supported by the results of ontology enrichment analyses. The results reported here will stimulate further research, and promote breeding in the future by allowing for the targeted introduction of novel allelic diversity into elite wheat breeding pools
BRIDGE – A Visual Analytics Web Tool for Barley Genebank Genomics
No full textGenebanks harbor a large treasure trove of untapped plant genetic diversity. A growing world population and a changing climate require an increase in the production and development of stress resistant plant cultivars while decreasing the acreage. These requirements for improved plant cultivars can be supported by the broader exploitation of plant genetic resources (PGR) as inputs for genomics-assisted breeding. To support this process we have developed BRIDGE, a data warehouse and exploratory data analysis tool for genebank genomics of barley (Hordeum vulgare L.). Using efficient technologies for data storage, data transfer and web development, we facilitate access to digital genebank resources of barley by prioritizing the interactive and visual analysis of integrated genotypic and phenotypic data. The underlying data resulted from a barley genebank genomics study cataloging sequence and morphological data of 22,626 barley accessions, mainly from the German Federal ex situ genebank. BRIDGE consists of interactively coupled modules to visualize integrated, curated and quality checked data, such as variation data, results of dimensionality reduction and genome wide association studies (GWAS), phenotyping results, passport data as well as the geographic distribution of germplasm samples. The core component is a manager for custom collections of germplasm. A search module to find and select germplasm by passport and phenotypic attributes is included as well as modules to export genotypic data in gzip-compressed variant call format (VCF) files and phenotypic data in MIAPPE-compliant ISA-Tab files. BRIDGE is accessible at the following URL: https://bridge.ipk-gatersleben.de
Freshwater exchanges and surface salinity in the Colombian basin, Caribbean Sea
No full textDespite the heavy regional rainfall and considerable discharge of many rivers into the Colombian Basin, there have been few detailed studies about the dilution of Caribbean Surface Water and the variability of salinity in the southwestern Caribbean. An analysis of the precipitation, evaporation and runoff in relation to the climate variability demonstrates that although the salt balance in the Colombian Basin overall is in equilibrium, the area south of 12N is an important dilution sub-basin. In the southwest of the basin, in the region of the Panama-Colombia Gyre, Caribbean Sea Water is diluted by precipitation and runoff year round, while in the northeast, off La Guajira, its salinity increases from December to May by upwelling. At the interannual scale, continental runoff is related to El Niño Southern Oscillation, and precipitation and evaporation south of 12°N are related to the Caribbean Low Level Jet. During El Niño years the maximum salinification occurs in the dry season (December-February) while in La Niña years the maximum dilution (or freshening), reaching La Guajira Coastal Zone, occurs in the wet season (September-November). © 2017 Beier et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited
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