Benjamin L. Kidder

This study shows that KDM4 inhibition changes chromatin structure and transcription in embryonic stem cells, with some effects dependent on Setdb1 status.

The paper shows that the PWK genetic background alters transcriptional programs, heterochromatin organization, and malignant epithelial state trajectories in NeuT mammary tumors.

ORBIT improves gene-set interpretation by combining empirical enrichment, semantic reranking, and redundancy reduction to provide interpretable functional summaries.

PixelDeck organizes and manages large biomedical image and video libraries with duplicate detection and metadata extraction, enabling efficient curation and preparation for downstream analysis.

PubMed Atlas provides a reproducible framework for analyzing PubMed-scale bibliometric data to identify scientific trends and research gaps.

NEWT, a multimodal deep learning framework, improves drug-target prediction and lineage reconstruction by integrating diverse biological data into a unified representation space.

This paper introduces DesignForge, a de novo protein design framework that creates therapeutic protein binders targeting oncogenic PPIs, showing high structural confidence and hotspot engagement.

The paper establishes stable 2C-like cells from ESCs, showing persistent MERVL expression and expanded developmental potential through epigenomic and transcriptomic analysis.

ColonyQuant automates image analysis of pluripotent stem cell colonies, revealing dose-dependent morphological and functional changes in response to a KDM4 inhibitor.