Olatunji, Isaac and Feng Cui. "Multimodal AI for prediction of distant metastasis in carcinoma patients." Frontiers in Bioinformatics 3. (2023): 1131021. Web.
Subramanya, Sridevi K., et al. "Deep learning for histopathological segmentation of smooth muscle in the urinary bladder." BMC Medical Informatics and Decision Making 23. (2023): 122. Web.
Rynkiewicz, Patrick, et al. "Functional binding dynamics relevant to the evolution of zoonotic spillovers in endemic and emergent Betacoronavirus strains." Journal of Biomolecular Structure and Dynamics 40. 21 (2022): 10978-10996. Web.
Kc, Kishan, et al. "Predicting Biomedical Interactions with Higher-Order Graph Convolutional Networks." IEEE/ACM Transaction on Computational Biology and Bioinformatics 19. 2 (2022): 676-687. Web.
Gupta, Aditya, Andrew J. Rosato, and Feng Cui. "Vaccine candidate designed against carcinoembryonic antigen-related cell adhesion molecules using immunoinformatics tools." Journal of Biomolecular Structure and Dynamics 39. 16 (2021): 6084–6098. Web.
Freewoman, Julia M, Rajiv Snape, and Feng Cui. "Temporal gene regulation by p53 is associated with the rotational setting of its binding sites in nucleosomes." Cell Cycle 20. 8 (2021): 792-807. Web.
Kc, Kishan, et al. "Machine learning predicts nucleosome binding modes of transcription factors." BMC Bioinformatics 22. (2021): 166. Web.
Yin, Peng-Nien, et al. "Histopathological distinction of non-invasive and invasive bladder cancers using machine learning approaches." BMC Medical Informatics and Decision Making 20. 1 (2020): 162. Web.
Zhang, Jimmy F., et al. "BioVR: a platform for virtual reality assisted biological data integration and visualization." BMC Bioinformatics 20. (2019): 78. Web.
KC, Kishan, et al. "GNE: a deep learning framework for gene network inference by aggregating biological information." BMC Systems Biology 13. (2019): 38. Web.
Wright, Gregory M and Feng Cui. "The nucleosome position-encoding WW/SS sequence pattern is depleted in mammalian genes relative to other eukaryotes." Nucleic Acids Research 47. 15 (2019): 7942–7954. Print.
F., Bao, et al. "P53 Binding Sites in Normal and Cancer Cells are Characterized by Distinct Chromatin Context." Cell Cycle 16. 21 (2017): 2073-2085. Print.
Cole, Hope A., et al. "Novel Nucleosomal Particles Containing Core Histones and Linker DNA but no Histone H1." Nucleic Acids Research 44. 2 (2016): 573-581. Print.
Ocampo, Josefina, et al. "The Proto-chromatosome: A Fundamental Subunit of Chromatin?" Nucleus 7. 4 (2016): 382-387. Print.
LoVerso, Peter R and Feng Cui. "A Computational Pipeline for Cross-Species Analysis of RNA-seq Data Using R and Bioconductor." Bioinformatics and Biology Insights 9. (2015): 165-174. Print.
LoVerso, Peter R, Christopher M Wachter, and Feng Cui. "Cross-species Transcriptomic Comparison of In Vitro and In Vivo Mammalian Neural Cells." Bioinformatics and Biology Insights 9. (2015): 153-164. Print.
Norouzi, Davood, et al. "Topological diversity of chromatin fibers: Interplay between nucleosome repeat length, DNA linking number and the level of transcription." AIMS Biophysics 2. 4 (2015): 613-629. Print.
Cui, Feng and Victor B. Zhurkin. "Rotational Positioning of Nucleosomes Facilitates Selective Binding of p53 to Response Elements Associated with Cell Cycle Arrest." Nucleic Acids Research 42. 2 (2014): 836-847. Print.
Cui, Feng, et al. "Prediction of Nucleosome Rotational Positioning in Yeast and Human Genomes Based on Sequence-dependent DNA Anisotropy." BMC Bioinformatics 15. (2014): 313. Print.
Alharbi, Bader A., et al. "nuMap: A Web Platform for Accurate Prediction of Nucleosome Positioning." Genomics Proteomics and Bioinformatics 12. 5 (2014): 249-253. Print.
Cui, F, et al. "Transcriptional Activation of Yeast Genes Disrupts Intragenic Nucleosome Phasing." Nucleic Acids Research 40. 21 (2012): 10753-10764. Print.
Macvanin, M, et al. "Noncoding RNAs Binding to the Nucleoid Protein HU in Escherichia Coli." Journal of Bacteriology 194. 22 (2012): 6046-6055. Print.