Magnus Nordborg

The paper models mutation probability in Arabidopsis thaliana using epigenetic data, identifying combinatorial patterns that predict mutation-rate variation across coding sequences.

This study identifies CDCA7 as a trans-regulator of CG methylation in Arabidopsis thaliana, showing its role in local adaptation through allele variation.

The paper identifies and addresses cytosine-conversion errors in bisulphite sequencing caused by transposase activity, providing a Python package to correct these errors.

This study shows that local adaptation in Arabidopsis thaliana involves strong and variable selection on multiple traits, with trade-offs and life-history strategies affecting fitness.

Pannagram identifies mobile element families across insect pangenomes, revealing horizontal transfer of polintons and transposons beyond traditional TE models.

The paper curates and presents a collection of long-read genome assemblies for Arabidopsis thaliana accessions to enhance plant genome research.

This study shows that PTGS is not required for the initiation of epigenetic silencing of an active transposon in Arabidopsis.

The paper identifies position-dependent transcriptional regulatory sequences in plants, showing they differ from position-independent enhancers in animals.

The paper analyzes whole-genome polymorphism data from 27 Arabidopsis thaliana genomes to highlight challenges and insights in unbiased genetic variation characterization.

The paper identifies genetic heterogeneity in plants and humans using machine learning, finding allelic heterogeneity in maize eQTL and potential synthetic associations in human GWAS data.

This study identifies alternative silencing states of transposable elements in Arabidopsis, showing H3K27me3 can silence TEs independently of DNA methylation and reveals epigenetic variation across species.

The paper identifies a genetic region associated with systemic necrosis in Arabidopsis thaliana infected with turnip mosaic virus, showing a trade-off between resistance and fitness costs.

This study identifies three lncRNAs in Arabidopsis thaliana that are upregulated by DNA damage and whose deletion impairs stress recovery.

The paper annotates lncRNA loci in Arabidopsis thaliana across multiple natural accessions, revealing high expression variability and silencing linked to transposable elements.

This study investigates gene-body methylation variation in Arabidopsis thaliana by analyzing F2 plants from a cross between two Swedish lines, showing genetic and environmental influences on methylation patterns.

The paper uses conditional GWAS to show that CHG-methylation in Arabidopsis thaliana is influenced by five trans-regulators, which interact with known mCHH modifiers.

The paper identifies 2500 putatively duplicated genes in Arabidopsis thaliana by analyzing SNP calls from short-read sequencing and validates them using de novo genome assemblies.

The paper reanalyzes a GWAS peak in Arabidopsis thaliana and proposes that the association with flowering time is due to genetic heterogeneity rather than the previously suggested gene cluster.

The paper analyzes gene expression and DNA methylation in Arabidopsis shoot stem cells, revealing transient transposon activation and epigenetic reprogramming during their transition to reproductive lineage.

The paper identifies CMT2 and NRPE1 as major genetic factors influencing de novo DNA methylation variation in Arabidopsis thaliana by analyzing TE-specific methylation patterns.

The paper analyzes the Aquilegia genome to show that core eudicots originated from a hybridization event involving a tetraploid and diploid species.

The paper identifies FLC alleles as a major determinant of flowering time variation in Arabidopsis thaliana using population-scale data and shows their effect is mediated through gene expression.

The paper introduces SNPmatch, an algorithm for genotyping Arabidopsis strains from low-coverage sequencing data, and validates its accuracy using over 2000 strains.

The paper shows that rRNA gene copy number variation in Arabidopsis thaliana is heritable but unstably inherited, explaining why GWAS failed to identify the NORs as the source.

The paper develops a method to map structural variants as quantitative traits in Arabidopsis, identifying transpositions and their phenotypic effects using low-coverage sequencing data.