Melissa A. Wilson

The paper identifies evolutionary processes in acrocentric chromosomes of great apes, including repeat enrichment, inversion, and gene family amplification, with implications for human genomic instability.

The paper presents a population-scale Y chromosome reference panel with 142 assemblies, revealing structural and epigenetic variation across 180,000 years of evolution.

This study investigates speciation in boobies through genomic analysis, finding introgression, divergence patterns, and a neo-sex chromosome linked to coloration diversity.

This study evaluates best practices for improving variant calling on human sex chromosomes by using sex chromosome-informed alignment and accurate ploidy parameters.

This paper introduces SCINKD, a tool to identify sex chromosome linkage groups and curate misassembled regions in a single diploid genome.

This paper presents the first de novo genome assembly of Poecilozonites bermudensis, confirming an ancestral genome duplication in land snails and supporting evolutionary hypotheses.

The paper examines gene expression changes in tumors with altered sex chromosome complements and finds associations with poorer survival and reduced sex-based gene expression differences.

This paper uses an interpretable deep learning framework to analyze transcriptomic data from Alzheimer's disease brain tissues, identifying gene signatures and sex-specific modules associated with microglia activation and neuronal loss.

The paper creates a variant benchmark for X and Y chromosomes using a complete assembly of HG002, highlighting challenges in variant detection in complex regions.

This study compares transcriptomic and immune profiles of HBV- and HCV-mediated HCC, finding convergence in tumor landscapes despite differences in adjacent tissue and highlighting sex sampling limitations.

This paper describes the design and implementation of an online CURE in computational genomics that improved student learning and engagement through asynchronous communication and tailored resources.

The paper produces gapless assemblies of ape sex chromosomes for five great apes and a lesser ape, revealing divergence in Y chromosomes and evolutionary dynamics.

The paper presents the complete sequence of a human Y chromosome, correcting errors in the GRCh38 reference and adding over 30 million base pairs.

The paper investigates how excluding the X chromosome in human genomics affects variant calling and finds that using a sex chromosome-aware reference genome allows reliable variant calls across the entire X chromosome.

This paper reviews recent advances in squamate genomics, highlighting the exponential growth in high-quality genome assemblies and their utility for studying sex chromosome and microchromosome evolution.

The paper identifies sex differences in gene expression in placenta at different pregnancy stages and shows these differences are conserved in adult tissues.

GENESPACE provides pan-genome annotations to analyze syntenic relationships across diverse eukaryotic genomes, revealing structural variation at multiple biological scales.

The paper examines X chromosome inactivation in the human placenta and finds it is patchy, differing from the mosaic pattern observed in adult tissues.

This study shows that geography, not culture, mainly influences genetic variation among northern Kenyan populations.

The paper replicates and extends previous findings showing no parent-of-origin effects in Nasonia jewel wasps, instead finding species-of-origin effects using new data and analysis methods.

The paper examines how mutation, recombination, selection, and demography shape genetic variation across different regions of the human X chromosome using data from 26 populations.

PopInf assigns genetic ancestry to samples with unknown origin using a reference panel, identifying discrepancies between reported race and inferred ancestry in TCGA liver cancer data.

This study evaluates DNA quality from urine and other sources in wild chimpanzees, finding urine provides higher DNA quantity and quality for genomic analysis.

The paper presents the tuatara genome, highlighting its evolutionary significance and unique features compared to other vertebrates.

This paper identifies and corrects technical biases on sex chromosomes in sequencing data using a new tool called XYalign.

This study identifies barriers to integrating bioinformatics into undergraduate life sciences education through a survey of faculty, highlighting lack of training as the most common issue.