Guojie Zhang

The paper identifies a Hymenoptera-specific gene, torch, that controls caste-specific organ size by co-opting conserved Hippo signaling machinery across species.

This study identifies lncRNAs as key regulators of caste differentiation in ants through transcriptomic analysis and functional validation.

The paper examines copy-number variation in the human pepsinogen A gene across Eurasia, linking it to dietary adaptation and selective pressures.

The paper uses population genomic analyses to study the social parasite Acromyrmex insinuator and its hosts, finding reduced genetic diversity, eroded adaptive potential, and cryptic population structure in the parasite.

The paper presents 320 nearly-complete East Asian genome assemblies, revealing new genetic diversity and structural variations not present in existing global pangenomes.

Over 8,000 gapless human centromeres reveal population-stratified satellite-array, inversion and haplotype variation, multiple candidate kinetochore sites in 16.8% of centromeres, and single-base substitution rates comparable to flanking pericentromeres.

The paper introduces ASMaid, a method to detect archaic introgression sequences in human genomes, revealing more complete and diverse archaic segments than previous methods.

The paper identifies conserved regulatory programs in placental invasion across mammals and links their dysregulation to pregnancy disorders and cancers.

The paper develops a method to detect and analyze NUMTs in human and non-human primate genomes, revealing their genomic features, population dynamics, and evolutionary implications.

Antscan provides 2,193 standardized whole-body 3D synchrotron micro-CT datasets across 792 ant species (212 genera), pairing morphological volumes with automated deep-learning segmentation and genome sequencing projects.

The paper identifies a human-specific genomic structure formed by a joint segmental duplication that drives transcriptional readthrough and expression fine-tuning of NPEPPS-TBC1D3.

The paper identifies novel structural variants and archaic introgressions in Tibetan genomes linked to high-altitude adaptation.

The paper identifies three ancient segmental duplications at the human chromosome 2 fusion site, showing their differential distribution due to incomplete lineage sorting and their regulatory impact on gene expression.

This study identifies AMHY as the primary male sex determination gene in monotremes by analyzing its expression and function during sexual differentiation.

This study decomposes evolutionary rates in birds to identify drivers of genomic change, finding clutch size, generation length, and beak shape predict mutation rates, with rapid evolution linked to meiosis, heart function, and ecological diversification.

This study presents genome assemblies and analyses of macaques to explore genetic variation, population history, and evolutionary differences between species and humans.

GFFx provides a fast, scalable toolkit for genome annotation access, improving runtime and scalability over existing tools.

This paper presents a developmental table for the Pharaoh ant Monomorium pharaonis, showing that queen and worker phenotypes are determined by early embryogenesis.

GCI evaluates genome assembly continuity at single nucleotide resolution to determine how close an assembly is to T2T standards.

The paper traces the evolutionary changes in TRPM2 channel activation mechanisms across species, identifying key stages in the transition from simple to complex ligand binding and calcium gating.

The paper constructs a synthetic disomic yeast using SCRaMbLE and a newly synthesized chromosome to study aneuploidy phenotypes, finding that both copy number and specific chromosomal regions affect fitness.

The paper uses primate genetic data to predict human variant pathogenicity with a deep learning classifier trained on 4.3 million common missense variants.

This study presents whole-genome data from 233 primate species, revealing patterns of genetic diversity, mutation rates, and recurrent missense mutations across primate clades.

This paper presents a haplotype-resolved genome assembly of the Nile rat, revealing unique genomic features relevant to type 2 diabetes and metabolic dysfunctions.

The paper evaluates sequencing and assembly methods to create high-quality diploid human genome assemblies, finding that long reads and haplotype sorting improve accuracy and completeness.

The paper evaluates new vertebrate genome assemblies from the VGP against previous references, finding significant improvements in completeness and accuracy.

The paper sequenced the genome of an extinct Sardinian dhole to determine its evolutionary history and phylogenetic position, finding it diverged from Asian dholes and experienced gene flow before isolation.

The paper analyzes ACE2 gene sequences in strepsirrhine primates to assess their susceptibility to SARS-CoV-2, finding high variability and potential risk in some species.

This study presents a nearly complete duck genome assembly, revealing conserved and convergent chromosome architectures between birds and mammals, including TAD organization and W chromosome evolution.

The paper presents a draft genome assembly of the eastern banjo frog, identifying repetitive elements and protein-coding genes, and highlights its utility for studying anuran phylogeny and genome evolution.