Basten L. Snoek

This paper identifies the lettuce receptor LNR that recognizes the conserved heptapeptide motif in microbial NLPs, revealing convergent evolution of NLP recognition and potential for crop defense improvement.

DeepPheno links SNP genotypes to hyperspectral imaging in lettuce using deep learning, showing predictive performance for known and novel genotype-phenotype associations.

The paper introduces the EcoCore panel, a curated set of Arabidopsis thaliana accessions, and shows it reveals novel genetic associations with hypocotyl length compared to a larger panel.

This study uses hyperspectral imaging to identify time-specific QTLs in field-grown lettuce by integrating phenotypic data with environmental factors and genome-wide association analysis.

The paper maps quantitative trait loci for root exudate metabolome in tomato and links them to rhizosphere microbiome composition.

GreenLeafVI is a FIJI plugin that enables high-throughput leaf chlorophyll content measurement using image-based colorimetric analysis, showing accuracy comparable to traditional methods.

This study uses drone-based phenotyping to conduct a GWAS on lettuce, confirming known QTLs and identifying new ones for plant height and color in field conditions.

The paper conducts GWAS on Lactuca species to identify genetic loci associated with phenotypic traits, finding novel QTLs in wild species not detected in domesticated lettuce.

This study observes rapid genetic adaptation and population dynamics in Arabidopsis thaliana across diverse climates over 5 years, showing predictable adaptation trends linked to survival and extinction risks.

SpeSpeNet is an R-shiny tool for creating and visualizing microbial correlation networks, with features for environmental data integration and customization.

This study constructs a lettuce super-pangenome to reduce bias in reference genes, identifying novel QTLs for disease resistance and origins of non-reference resistance loci from wild relatives.

This study analyzes seed coat color variation across lettuce and wild Lactuca species using GWAS to identify genetic loci associated with color differences.

RAT improves metagenomic read annotation and taxonomic profiling by integrating MAGs and contigs, achieving high precision and sensitivity in diverse samples.

This study investigates how developmental age variation affects eQTL patterns in C. elegans using dynamical eQTL mapping and compares it to classical methods.

The paper introduces reciprocal introgression line populations in C. elegans to study genetic interactions and complex trait architectures through QTL mapping and expression analysis.

This study identifies QTLs affecting body size and plasticity in C. elegans across different temperatures and developmental stages.

The paper examines genetic variation in the Intracellular Pathogen Response (IPR) in C. elegans, finding balancing selection in key regulators and showing haplotype-specific antiviral defense.

The paper identifies two loci on chromosome IV in C. elegans associated with OrV susceptibility, with a single nucleotide polymorphism in cul-6 contributing to the difference between strains.

The paper uses a multi-parental recombinant inbred line population in C. elegans to study gene expression variation and identifies eQTLs and trans-bands affecting gene expression.

The paper shows that conserved codon usage in highly expressed genes correlates with reduced mRNA secondary structure variability, enhancing translation efficiency and mRNA stability.

This study maps eQTL in C. elegans RILs across environments, showing higher reproducibility of local eQTL and environmental effects on eQTL micro-architecture.

The paper quantitatively maps transcriptome and proteome changes during human iPSC-derived neuron polarization, identifying extensive remodeling of gene and protein expression.

WormQTL2 is a database platform that integrates and allows analysis of eQTL datasets in C. elegans to facilitate systems genetics research.

The paper measures transcriptional resilience to heat stress in C. elegans and finds it predicts long-term thermotolerance.

This study develops a multi-parent recombinant inbred line population of C. elegans to improve QTL mapping resolution and identify novel QTLs for life-history traits.

The paper identifies genetic loci controlling metabolite levels in C. elegans using recombinant inbred lines and QTL mapping.

This study examines gene expression changes in C. elegans during heat stress, identifying a critical time window where gene expression shifts and phenotypic damage becomes irreversible.

The paper identifies eQTLs in C. elegans that modulate Ras/MAPK signaling, revealing genetic modifiers that are not detectable in single genetic backgrounds.