Asger Hobolth

This paper improves HMM analyses for inferring archaic introgression in modern humans by introducing sampling methods and hybrid decoding, showing better accuracy in admixture estimates.

This paper extends phase-type theory to time-inhomogeneous coalescent processes, enabling exact computation of moments under diverse demographic scenarios and introduces a software package for parameter estimation.

The paper introduces a method to estimate gene conversion tract length and rate from PacBio HiFi data, showing low visibility of NCO events in human sperm due to low SNV density.

This study uses long-read sequencing to analyze gene conversion and crossover events in human, chimpanzee, and gorilla testes and sperm, revealing species-specific patterns and GC bias in gene conversion.

This paper develops graph-based algorithms for phase-type distributions, showing they are faster and more memory-efficient than traditional matrix-based methods.

PhaseTypeR provides R functions for phase-type distributions and their applications in population genetics, including reward transformations and multivariate cases.

The paper introduces the Cancer LncRNA Census (CLC), a curated resource of lncRNAs with causative roles in cancer, and shows their genomic and evolutionary features.

ActivePathways integrates multivariate omics data to identify enriched pathways, revealing cancer driver genes and prognostic pathways in breast cancer.

The paper applies phase-type theory to population genetics models to simplify calculations of genetic variation metrics using matrix notation.

Regmex identifies overrepresented motifs in ranked sequence lists using regular expressions and Markov models, with options for enrichment evaluation.

This paper introduces CubSFS, a method to estimate population size changes from the site frequency spectrum using cubic splines and validates it on simulated and human population data.

The paper develops a site-specific model to predict mutation rates in cancer genomes, showing it outperforms regional models by incorporating local genomic variables.

The paper introduces a method to detect archaic introgression in genomes without archaic reference genomes, finding more Denisovan admixture and differences in admixture timing in Papuans.

The paper identifies and characterizes coding and non-coding driver mutations across 2,500 cancer genomes, revealing new candidates and questioning previous findings.

The paper introduces an improved approximation for allele frequency distribution under the Wright-Fisher model, showing better performance in inferring divergence times between populations.