The paper introduces a curated dataset and platform for the OpenClaw scientific agent ecosystem, analyzing its structure and challenges in reproducibility and governance.

bioRxiv · Apr 1, 2026 · PreprintBioinformatics

A new chromosome-level genome assembly for western painted turtle Chrysemys picta belli, a model for extreme physiological adaptations

Junhao Chen, John R. Bermingham, Patrick J. Minx, Milinn Kremitzki, Zhenguo Lin, Daniel E. Warren

The paper presents a new chromosome-level genome assembly for the western painted turtle, improving upon a previous fragmented assembly and revealing novel genes and transcript isoforms.

bioRxiv · Apr 1, 2025 · PreprintGenomics

PhyloForge: Unifying micro and macro evolution with comprehensive genomic signals

Ya Wang, Wei Dong, Yufan Liang, Weiwei Lin, Junhao Chen, Robert James Henry, Fei Chen

PhyloForge integrates micro and macroevolutionary data using diverse genomic signals, offering a versatile tool for phylogenetic analysis across species.

Molecular Ecology Resources · Nov 26, 2024Peer-reviewedMolecular Biology

Chromosome-level Subgenome-aware de novo Assembly of Saccharomyces bayanus Provides Insight into Genome Divergence after Hybridization

Cory Gardner, Junhao Chen, Christina Hadfield, Zhaolian Lu, David DeBruin, Yu Zhan, Maureen J. Donlin, Zhenguo Lin, Tae-Hyuk Ahn

This study assembles the chromosome-level genome of Saccharomyces bayanus and compares it to its parental species to understand genome divergence after hybridization.

bioRxiv · Mar 17, 2024 · PreprintEvolutionary Biology

A 3D genome atlas of genetic variants and their pathological effects

Li Jie Tang, Matthew C. Hill, Mingxing He, Junhao Chen, Patrick T. Ellinor, Min Li

This study constructs a 3D genome atlas of genetic variants and their pathological effects using a scoring algorithm and a web-based database.

bioRxiv · Nov 27, 2022 · PreprintBioinformatics