Bioinformatics Research Center

MetaStrainer : Accurate reconstruction of bacterial strain genotypes from short-read metagenomic samples

Sharaf, H., & Bobay, L.-M. (2026, March 3).

A polygenic growth score and risk for large for gestational age birth weight

Aamir, M., Feghali, M., Yee, L., Silver, R. M., Durnwald, C., Steller, J. G., … Scifres, C. M. (2026, February 5). Journal of the Endocrine Society, Vol. 2.

BPS2026 – Integrating sparse sequence, experimental, and AI-predicted structures for protein-nucleic acid interaction predictions

Zhang, Y., Cisneros, E., Silvernail, I., Li, R., Thornton, T., & Lin, X. (2026, February 1). Biophysical Journal.

Computational Framework for Therapeutic Target Discovery via Perturbation Simulation: Application to Cystic Fibrosis Airway Disease

Sun, G., & Zhou, Y.-H. (2026, March 3).

Fruit Composition Diversity among the North Carolina Strawberry Core Germplasm Collection

Haynes, B., Fernandez, G., Iorizzo, M., Ma, G., Ashrafi, H., & Perkins-Veazie, P. (2026, February 12). HortScience, Vol. 2.

Quantitative Biology

Conant, G. (2026, January 5). CRC Press.

KeySDL: sparse dictionary learning for keystone microbe identification from steady-state observations using a dynamical-systems model

Gordon, M., Akyol, T. Y., Amos, B., Andersen, S. U., & Williams, C. (2026, February 19). BioData Mining, Vol. 2.

Hierarchical Multi-Omics Trajectory Prediction for Fecal Microbiota Transplantation: A Novel Machine Learning Framework for Small-Sample Longitudinal Multi-Omics Integration

Zhou, Y.-H., & Sun, G. (2026, February 23).

Cross-Species Exome Sequencing Reveals Recurrent Genomic Alterations in California Sea Lion (Zalophus californianus) Urogenital Carcinoma and Highlights a Recurrent PD-L1 Variant

Livingston, I. G., Wise, C. F., Dickey, A. N., Thomas, R., Deming, A. C., Halaska, B., … Breen, M. (2026, February 10). Genes, Vol. 2.

Recruitment of bifunctional regulator thermospermine to methylated ribosomes directs xylem fate

Ko, D., Ruonala, R., Faille, A., Hellmann, E., Help, H., Liu, H., … Helariutta, Y. (2026, February 12). Science.

A biophysical framework for accurately identifying antigen single-amino acid escape variants and corresponding variant-specific compensatory TCR sequences

Ghoreyshi, Z. S., Levine, H., Lin, X., Onuchic, J. N., & George, J. T. (2026, February 5). (Vol. 2). Vol. 2.

A deep-learning-based score to evaluate multiple sequence alignments

Serok, N., Polonsky, K., Ashkenazy, H., Mayrose, I., Thorne, J. L., & Pupko, T. (2026, February 5).

Discovery of a major QTL for resistance to Fusarium wilt ( Fusarium oxysporum f. sp. batatas ) in the hexaploid Covington sweetpotato

Fraher, S., Kinczyk, J., Siqueira Gesteira, G., Heim, C., Williamson, S., Olukolu, B. A., … Yencho, G. C. (2026, January 1). Crop Science, Vol. 1.

Active regulation of the epidermal growth factor receptor by the membrane bilayer

Srinivasan, S., Lin, X., Chen, X., Regmi, R., Zhang, B., & Schlau-Cohen, G. S. (2026, January 20).

Pathogenic bacterial species and the microbiome of cat fleas (Ctenocephalides felis) inhabiting flea-infested homes

Gin, T. E., Moore, C. O., Tomlinson, T., Wilson, G., Gray, A., Sutherland, C., … Callahan, B. (2026, January 30). PLoS ONE, Vol. 1.

Prevalence and Evolutionary Implications of Genome Rearrangements in Bacteria

Martinez-Gutierrez, C. A., Huang, Y., & Bobay, L.-M. (2026, January 14). (R. Hershberg, Ed.). Genome Biology and Evolution.

Genetic variation in a plant-parasitic nematode is associated with gene expression changes conserved across evolutionarily distant host plants

Nielsen, D. M. (2026, January 12).

Inferring toxicant susceptibility in global populations from gene-environment interactions involving the Aryl Hydrocarbon Receptor

Chimeh, U. S., Rogers, M. C., & Aylor, D. L. (2026, January 10).

An approach to uncover significant direct and mediated relationships in multi-dimensional new approach methods (NAMs) data: A case study of hazard evaluation of petroleum UVCBs

Zhou, Y.-H., Gallins, P. J., Rusyn, I., & Wright, F. A. (2025, May 28). The Science of The Total Environment.

BPS2025 - Advanced deep learning model to predict DNA-DNA binding interactions

Matange, K. R., Brihadiswaran, G., Tomek, K. J., Tuck, J. M., & Keung, A. J. (2025, February 1). Biophysical Journal, Vol. 2.

Selective Enrichment and Functional Preservation of Treg Cells during IL-2 Mutein-Mediated Expansion and Contraction

Schiliró, D., Sun, M., Lopez, J., Tollison, T., Smith, E., Tunbridge, M., … Kwun, J. (2025, August 1). American Journal of Transplantation.

Strain and Sex Variability in Liver, Kidney and Lung Levels of DNA Adducts EB-GII and bis-N7G-BD Following Inhalation Exposure to 1,3-Butadiene in Collaborative Cross Mice

Moran, E., Goodman, S., Wright, F. A., Evans, R., Tretyakova, N. Y., & Rusyn, I. (2025, October 3). Toxics.

A Reference-Quality NLRome for the Hexaploid Sweetpotato and Diploid Wild Relatives

Parada-Rojas, C. H., Childs, K. L., Soto, M. F., Salcedo, A., Pecota, K., Yencho, G. C., … Quesada-Ocampo, L. M. (2025, January 1). Molecular Plant-Microbe Interactions.

Mesopolyploidy as a taxonomic clade marker for Brassica and relatives (tribe Brassiceae)

Thomas, S. K., Abrahams, R. S., Kick, D. R., Walden, N., Conant, G., McKain, M. R., … Pires, J. C. (2025, August 2). Annals of Botany.

Missing mate pairs reported as poly-G reads can confound analyses of rare members of microbial assemblages

Dhillon, A. K., Workman, A., Kuehn, L. A., Earley, B., Cosby, S. L., Powell, A. J., … Conant, G. C. (2025, August 22). Ecological Genetics and Genomics.