Elinor K. Karlsson

Alignment-free pan-k-mer profiles track minimap2 similarity (whole-chromosome r^2 0.959-0.968), profile 605 vertebrate genomes in about a day on 40 cores, and nominate trait-linked loci across plants and animals.

This paper uses GWAS in dogs and humans to identify a gene network linked to compulsive disorders, revealing biological pathways not detectable in human studies alone.

This study uses untargeted sequencing to analyze population genetics and pathogen surveillance in timber rattlesnakes, finding genetic distinctness and a color variation locus linked to ALDH4A1.

This study uses paleogenomes of dire wolves to resolve their evolutionary relationships and identify genes under diversifying selection.

This study evaluates how preanalytical factors affect liquid biopsy in canine cancer models, finding that tumor content and metrics vary by blood draw location and cancer type.

This paper introduces an interpretable machine learning framework to infer dog breeds from genomic data, achieving high accuracy and identifying key genetic variants.

The paper analyzes the canine gut microbiome across 900 dogs to identify factors influencing microbiome composition and develops a metagenomics-based aging clock.

This study identifies blood biomarkers and genetic factors associated with aging in dogs using genomic and phenotypic data from 7,627 dogs.

This study analyzes multi-omic data from canine osteosarcoma to identify inter-patient heterogeneity and immune enrichment in metastatic lesions.

This study compares genomic features of dog and human cancers across multiple types, finding widespread shared mutational signatures and genes, suggesting dogs as valuable models for precision oncology.

This paper introduces GISMO and GISMO-mis metrics to quantify gene loss and missense variation across mammals, identifying essential genes and improving gene-disease associations.

This study conducts a large-scale GWAS of OCD, identifying 15 new genome-wide significant loci and linking OCD to multiple cortical regions and cell types.

The paper identifies proteins and regulatory elements associated with vocal learning by analyzing bat neural activity and epigenomic data.

TOGA integrates gene annotation and orthology inference across hundreds of genomes, improving ortholog detection and creating large comparative gene resources.

A machine learning approach identifies enhancer-phenotype associations across mammals, revealing links to brain size and behavior evolution.

The paper curates TE content in 248 mammalian genomes, finding trends in recent TE accumulation and associations with dietary habits.

A 240-species placental mammal alignment resolves constraint to single bases, estimating at least 10.7% of the human genome is constrained, with 48.5% of constrained bases unannotated.

The paper uses evolutionary constraint scores to identify functional genomic regions and finds they are enriched for variants associated with common diseases.

The paper identifies bats as a hotspot for horizontal transfer of DNA transposons, finding over 200 putative elements and shared transposons across mammals and reptiles.

This study investigates the genetic basis of hibernation in the meadow jumping mouse by analyzing its genome and transcriptome, identifying key genes and pathways involved in hibernation-related processes.

The paper predicts the broad host range of SARS-CoV-2 by analyzing ACE2 conservation across vertebrates and identifying high-risk species.

The paper improves the Cactus multiple-genome aligner to handle large numbers of vertebrate genomes with high accuracy and better orthology resolution.

The paper compares genomic features of canine and human angiosarcoma, finding shared genes and pathways, suggesting dogs as a valuable model for studying this cancer.

The paper identifies OCD-associated genes by combining evolutionary and functional data with targeted sequencing in humans and animal models.