Hao Wang

Creator 1.0: Phylogeny-Guided Stagewise Pretraining for Plant Genome Foundation Models across 1,000 Species

Creator 1.0 is a plant genome foundation model pretrained on 1,000 species using phylogeny-guided stagewise pretraining, achieving strong performance on plant-related tasks.

Hidden grassland productivity from overlooked herbivore impacts

The paper quantifies biases in grassland productivity estimates caused by ignoring herbivore biomass consumption and compensatory growth, finding underestimations of 34-51% and variable biases from 29% underestimation to 19% overestimation.

Genetic Variation at 19q13.33 confers colorectal cancer risk through the interaction of mucosal expression of FUT2 and plasma vitamin B12 levels

UcTCRp: a TCRβ-based framework for quantitative MAIT- and iNKT-associated repertoire-state profiling

UcTCRp profiles MAIT- and iNKT-associated immune states using TCRβ sequences without requiring single-cell data or antigen-specific markers.

CLEAR-HPV: Interpretable Concept Discovery for HPV-Associated Morphology in Whole-Slide Histology

CLEAR-HPV discovers interpretable morphologic concepts in HPV-associated histology slides using attention-based methods, reducing high-dimensional features to 10 concepts while preserving predictive information.

MERFISH 2.0, an ultra-sensitive single-cell spatial transcriptomics imaging chemistry across diverse tissue types

MERFISH 2.0 improves transcript detection sensitivity in degraded and archival tissues, enhancing spatial transcriptomic analysis of human and mouse samples.

Multi-season analysis reveals hundreds of drought-responsive genes in sorghum

This study identifies hundreds of drought-responsive genes in sorghum using multi-season transcriptomic data from field experiments.

Bayesian rhythmic model for jointly detecting circadian biomarkers and predicting molecular circadian time in human post-mortem brain transcriptome

BayCT detects circadian biomarkers and estimates molecular circadian time in human brain transcriptomes, outperforming existing methods by jointly addressing both tasks.

Genomic Resources of Broomcorn Millet: Demonstration and Application of a High-throughput BAC Mapping Pipeline

The paper constructs a BAC library and develops a pipeline for BAC end profiling in broomcorn millet, filling genome gaps and providing genomic resources for further research.

Quantification of nuclear protein dynamics reveals chromatin remodeling during acute protein degradation

This study develops a method to quantify nuclear protein dynamics by isolating chromatin compartments and using mass spectrometry, revealing chromatin remodeling during BET protein degradation.

Isoform-level Ribosome Occupancy Estimation Guided by Transcript Abundance with Ribomap

The paper introduces Ribomap, a method to improve ribosome occupancy estimation by assigning reads based on transcript abundance, leading to more accurate ribosome profiles.

DNA methylation modulates transcription factor occupancy chiefly at sites of high intrinsic cell-type variability

This study shows DNA methylation primarily stabilizes transcription factor binding at sites with high cell-type variability, not broadly repressing TF occupancy.