DNA breathing integration with deep learning foundational model advances genome-wide binding prediction of human transcription factors von Kabir, Anowarul, Bhattarai, Manish, Peterson, Selma, Najman-Licht, Yonatan, Rasmussen, Kim Ø, Shehu, Amarda, Bishop, Alan R, Alexandrov, Boian, Usheva, Anny

Volltext

Mammalian stem cells reprogramming in response to terahertz radiation von Bock, Jonathan, Fukuyo, Yayoi, Kang, Sona, Phipps, M Lisa, Alexandrov, Ludmil B, Rasmussen, Kim Ø, Bishop, Alan R, Rosen, Evan D, Martinez, Jennifer S, Chen, Hou-Tong, Rodriguez, George, Alexandrov, Boian S, Usheva, Anny

Volltext

DNA breathing dynamics distinguish binding from nonbinding consensus sites for transcription factor YY1 in cells von Alexandrov, Boian S, Fukuyo, Yayoi, Lange, Martin, Horikoshi, Nobuo, Gelev, Vladimir, Rasmussen, Kim Ø, Bishop, Alan R, Usheva, Anny

Volltext

DNA dynamics play a role as a basal transcription factor in the positioning and regulation of gene transcription initiation von Alexandrov, Boian S, Gelev, Vladimir, Yoo, Sang Wook, Alexandrov, Ludmil B, Fukuyo, Yayoi, Bishop, Alan R, Rasmussen, Kim Ø, Usheva, Anny

Volltext

Binding of nucleoid-associated protein fis to DNA is regulated by DNA breathing dynamics von Nowak-Lovato, Kristy, Alexandrov, Ludmil B, Banisadr, Afsheen, Bauer, Amy L, Bishop, Alan R, Usheva, Anny, Mu, Fangping, Hong-Geller, Elizabeth, Rasmussen, Kim Ø, Hlavacek, William S, Alexandrov, Boian S

Volltext

nonlinear dynamic model of DNA with a sequence-dependent stacking term von Alexandrov, Boian S, Gelev, Vladimir, Monisova, Yevgeniya, Alexandrov, Ludmil B, Bishop, Alan R, Rasmussen, Kim Ø, Usheva, Anny

Volltext

Toward a detailed description of the thermally induced dynamics of the core promoter von Alexandrov, Boian S, Gelev, Vladimir, Yoo, Sang Wook, Bishop, Alan R, Rasmussen, Kim Ø, Usheva, Anny

Volltext

Tensor Network Space-Time Spectral Collocation Method for Time-Dependent Convection-Diffusion-Reaction Equations von Adak, Dibyendu, Truong, Duc P., Manzini, Gianmarco, Rasmussen, Kim Ø., Alexandrov, Boian S.

Volltext

Dynamics and escape of active particles in a harmonic trap von Wexler, Dan, Gov, Nir, Rasmussen, Kim Ø., Bel, Golan

Volltext

Profiling the Thermodynamic Softness of Adenoviral Promoters von Choi, Chu H., Rapti, Zoi, Gelev, Vladimir, Hacker, Michele R., Alexandrov, Boian, Park, Evelyn J., Park, Jae Suk, Horikoshi, Nobuo, Smerzi, Augusto, Rasmussen, Kim Ø., Bishop, Alan R., Usheva, Anny

Volltext

DNA dynamics is likely to be a factor in the genomic nucleotide repeats expansions related to diseases von Alexandrov, Boian S, Valtchinov, Vlad I, Alexandrov, Ludmil B, Gelev, Vladimir, Dagon, Yossi, Bock, Jonathan, Kohane, Isaac S, Rasmussen, Kim Ø, Bishop, Alan R, Usheva, Anny

Volltext

Nanoparticle-regulated phase behavior of ordered block copolymers von Gaines, Michelle K., Smith, Steven D., Samseth, Jon, Bockstaller, Michael R., Thompson, Russell B., Rasmussen, Kim Ø., Spontak, Richard J.

Volltext

Specificity and Heterogeneity of Terahertz Radiation Effect on Gene Expression in Mouse Mesenchymal Stem Cells von Alexandrov, Boian S., Phipps, M. Lisa, Alexandrov, Ludmil B., Booshehri, Layla G., Erat, Anna, Zabolotny, Janice, Mielke, Charles H., Chen, Hou-Tong, Rodriguez, George, Rasmussen, Kim Ø., Martinez, Jennifer S., Bishop, Alan R., Usheva, Anny

Volltext

Controlling the phase behavior of block copolymers via sequential block growth von Gozen, Arif O., Gaines, Michelle K., Hamersky, Mark W., Maniadis, Panagiotis, Rasmussen, Kim Ø., Smith, Steven D., Spontak, Richard J.

Volltext

The role of structural parameters in DNA cyclization von Alexandrov, Ludmil B, Bishop, Alan R, Rasmussen, Kim Ø, Alexandrov, Boian S

Volltext

Evaluating the role of coherent delocalized phonon-like modes in DNA cyclization von Alexandrov, Ludmil B., Rasmussen, Kim Ø., Bishop, Alan R., Alexandrov, Boian S.

Volltext

Molecularly Asymmetric Triblock Copolymers as a Single-Molecule Route to Ordered Bidisperse Polymer Brushes von Smith, Steven D, Hamersky, Mark W, Bowman, Michelle K, Rasmussen, Kim Ø, Spontak, Richard J

Volltext

Selectivity- and Size-Induced Segregation of Molecular and Nanoscale Species in Microphase-Ordered Triblock Copolymers von Spontak, Richard J, Shankar, Ravi, Bowman, Michelle K, Krishnan, Arjun S, Hamersky, Mark W, Samseth, Jon, Bockstaller, Michael R, Rasmussen, Kim Ø

Volltext

Non-thermal effects of terahertz radiation on gene expression in mouse stem cells von Alexandrov, Boian S, Rasmussen, Kim Ø, Bishop, Alan R, Usheva, Anny, Alexandrov, Ludmil B, Chong, Shou, Dagon, Yossi, Booshehri, Layla G, Mielke, Charles H, Phipps, M Lisa, Martinez, Jennifer S, Chen, Hou-Tong, Rodriguez, George

Volltext

Allostery through protein-induced DNA bubbles von Traverso, Joseph J., Manoranjan, Valipuram S., Bishop, A. R., Rasmussen, Kim Ø., Voulgarakis, Nikolaos K.

Volltext