Biology subjects

Goods, B.

Publications and source records attributed to Goods, B..

3 recordsLinked to original sources

bioRxiv2026

A Designed Ankyrin Repeat Protein (DARPin) Targeting EGFR Inhibits Ovulation and Enables a Novel Platform for Studying Ovarian Biology and Pathophysiology

Ovarian disorders, including anovulation, primary ovarian insufficiency (POI), and polyendocrine metabolic ovarian syndrome (PMOS), affect millions of reproductive-age women worldwide; however, mechanistic studies of ovarian biology and pathophysiology remain challenging because current experimental approaches often lack selectivity, tunability, or physiological relevance. Genetically modified animal models are labor-intensive and irreversible; small molecules frequently exhibit off-target effects; and conventional antibodies have limited tissue penetration and restricted temporal control. Designed ankyrin repeat proteins (DARPins) represent a highly modular protein engineering platform with advantages in specificity, size, stability, and extracellular targeting, but their utility in reproductive biology remains largely unexplored. Here, we used epidermal growth factor receptor (EGFR)-targeting DARPins as a proof-of-concept platform to interrogate ovarian signaling during ovulation. Screening of engineered anti-EGFR DARPins identified SX-006, a bispecific tetravalent construct with robust cross-species EGFR binding and potent biological activity. Using an ex vivo murine ovulation system, SX-006 inhibited follicle rupture in a dose-dependent manner with IC50 of 1.21 M without overt cytotoxicity. Lower concentrations of SX-006 preferentially perturbed follicle rupture while largely preserving oocyte meiotic maturation and luteinization, suggesting differential sensitivity of ovulatory processes to extracellular EGFR blockade. Comparative transcriptomic analyses further revealed that extracellular EGFR blockade and small molecule-based intracellular EGFR kinase inhibition produce overlapping but also distinct transcriptional responses, supporting biologically distinct modes of ovulatory signaling pathway perturbation. Together, these findings establish DARPins as a selective, tunable, and physiologically relevant platform for studying ovarian signaling and provide proof-of-concept for extracellular receptor targeting in ovarian biology, infertility research, and non-hormonal contraceptive development. Summary sentenceAn engineered EGFR-targeting DARPin selectively inhibits ovulation through extracellular receptor blockade and establishes a versatile platform for investigating ovarian signaling and reproductive disorders.

pharmacology and toxicology↗

bioRxiv2025

A pre-menopausal single-cell atlas for ovarian drug discovery

Multi-tissue single-cell atlas efforts have transformed our understanding of cellular diversity across the human body and led to the creation of harmonized resources to advance research and therapeutic development. Ovarian biology, however, often remains underrepresented in these resources and is rarely analyzed with menopausal status as a biological variable. Here, we present the Menopause Cell Map (MenoMap), an integrated single-cell resource comprising more than 2 million cells from 13 healthy human tissues, including the ovary, from pre- and post-menopausal age donors. This harmonized atlas leverages curated samples from healthy female donors and enables transcriptomic comparisons across cell types, tissues, and organs while preserving menopausal status based on age as an interpretable variable. Using this resource, we show that menopause-associated gene expression changes are highly context dependent, with prominent remodeling in ovarian stromal, endothelial, immune, and reproductive cell populations. Within the ovary, post-menopausal remodeling rewired intercellular communication and shifted reproductive and steroidogenic programs toward collagen-integrin signaling, endothelial-to-mesenchymal transition, and senescence concentrated in the endothelial and stromal compartments. Cross-species comparison with young and aged mouse ovarian single-cell data showed these endothelial and stromal changes were conserved with age, most prominently in tumor necrosis factor-nuclear factor-kappa-beta signaling. Finally, we apply Human Protein Atlas-inspired specificity rules and fertility phenotype annotations to evaluate how menopausal age status affects tissue- and cell-type-specific gene classification and to prioritize ovary-enriched genes for downstream biological and translational investigation. Through this analysis, we find that the tissue specificity classification of several genes involved in reproductive-specific programs change in the pre- to post-menopausal transition, highlighting the need for age-aware and healthy donors in multi-tissue single-cell atlas efforts. Together, the MenoMap provides a human single-cell framework that leverages existing and standardized single-cell datasets curated for studying ovarian biology across reproductive aging, evaluating the influence of menopausal status on gene expression and tissue specificity, and nominating candidate genes for future investigation in reproductive biology, fertility, and target discovery.

bioinformatics↗

bioRxiv2025

Integrated omics analysis reveals human milk oligosaccharide biosynthesis programs in human lactocytes

Human milk oligosaccharides (HMOs) are integral to infant health. Yet, their complex biosynthesis pathways in the mammary gland during lactation remain under characterized. To address this knowledge gap, we performed integrated analyses of single-cell RNA-sequencing (scRNA-seq) datasets combined with select HMO concentration measures. We identify differential expression patterns of known HMO synthesis genes in epithelial subsets and nominate several candidate genes that vary with HMO concentration. Additionally, we identify novel gene patterns and transcription factors that may regulate the expression of HMO biosynthesis genes and the cellular pathways supporting HMO production. Finally, we demonstrate that co-expression of HMO synthesis genes and milk fat synthesis genes is limited, suggesting distinct epithelial cell subtypes may be responsible for the production of different milk components. Our study suggests that HMO synthesis may be achieved through cell type specialization within the lactocyte compartment.

systems biology↗