Walid Korani

KhufuEnv, an auxiliary toolkit for building computational pipelines for plant and animal breeding

KhufuEnv is an open-source toolkit for building genomic analysis pipelines, demonstrating rapid QTL identification and ROH calculation on published datasets.

An X-linked sex determination mechanism in cannabis and hop

The paper identifies an X-linked sex determination mechanism in cannabis and hop, showing that an X-linked gene involved in ethylene biosynthesis controls female inflorescence development, while the Y chromosome lacks clear sex-determining genes.

Long-Read Low-Pass Sequencing for High-Resolution Trait Mapping

This study develops and applies long-read low-pass sequencing for high-resolution trait mapping in peanut, showing improved variant detection and cost-effectiveness compared to short-read methods.

Gene disruption by structural mutations drives selection in US rice breeding over the last century

The paper tracks structural mutations in rice over a century of breeding, showing exonic mutations are removed more rapidly than other mutation types during selection.

Accurate analysis of short read sequencing in complex genomes: A case study using QTL-seq to target blanchability in peanut (Arachis hypogaea)

The paper introduces Khufu, a pipeline that improves QTL-seq accuracy in complex genomes by filtering loci based on optimal short read alignment, validated using peanut and other species datasets.

crossword: A data-driven simulation language for the design of genetic-mapping experiments and breeding strategies

The paper introduces crossword, a data-driven simulation language for genetic-mapping experiments and breeding strategies, demonstrating its utility in QTL-seq design and genomic selection.

Machine learning as an effective method for identifying true SNPs in polyploid plants

This paper develops machine learning models to identify true SNPs in polyploid plants, achieving high accuracy using real and simulated data.