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Because maize researchers have a wide range of research interests, we decided to implement a genome browser that could be adapted to address general research questions.
If researchers wanted MaizeGDB to implement a genome browser, we needed to know: what they liked and did not like about available maize genome browsers and examples of workflows they would like to be able to carry out so that we could evaluate which software could best meet our stakeholders' needs.
Based upon results of the Genome Browser Survey, we chose GBrowse as the MaizeGDB Genome Browser for the following reasons: Because maize researchers have a wide range of research interests, we decided to implement a genome browser that could be adapted to address general research questions.
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Here, we implement a genome-wide noncomplementation screen for quantitative trait alleles that affect colony color or size by using the yeast deletion collection.
As a proof of concept, the present study for the first time made an effort to implement a genome-wide NGS-based high-throughput QTL-seq approach in an intra-specific (desi) F4 mapping population (ICC 7184 × ICC 15061) for identifying a major genomic region harbouring the robust QTL associated with 100-seed weight in chickpea.
The time was right to carefully consider implementing a genome browser as a way to integrate genomic sequence features with the existing genetic and physical information at MaizeGDB.
We implemented a genome database for K. pneumoniae, BIGSdb-Kp, and defined 694 genomic loci suitable for genotyping as well as loci associated with virulence and antimicrobial drug resistance.
We identified TRPV6 as a putative target of local selection by implementing a genome scan based on two summary statistics of the sequence data (Figure S1), analogous to that performed previously [6].
The Medical College of Wisconsin and Children's Hospital of Wisconsin have implemented a genome sequencing program to which clinicians can nominate patients who remain undiagnosed after appropriate clinical evaluation and testing.
Concomitant with this new reference sequence release, SGD has also implemented a genome versioning system to clearly distinguish each genome sequence change since the original 1996 assembly (22) (v1) to the most recent (v64).
For such purposes, we have also implemented a genome-alignment module.
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