Author

B. Novak

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Biophysics· 3 Cell Biology· 3

Signature Assays, Organisms & Methods

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Approach:deep learning· 3 Research Focus:drug response / drug discovery· 3 Approach:statistical model· 3 Research Focus:cell signaling & trafficking· 2 Research Focus:chromatin & epigenetic regulation· 2 Approach:experimental assay· 2 Organism:human· 2 Research Focus:development & morphogenesis· 1

Frequent Co-Authors

G. R. Bowman· 3 shared L. G. Smith· 2 shared A. Crncec· 1 shared A. I. Lamond· 1 shared A. Meller· 1 shared A. R. Barr· 1 shared A. Z. Politi· 1 shared B. Koch· 1 shared

Activity by Year

2019-2023 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 13 mutual co-author links

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3 shared papersBiophysics

G. R. Bowman

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Author profile →

6 papers

Recent·Most cited

POPSHIFT: A THERMODYNAMICALLY SOUND APPROACH TO ESTIMATE BINDING FREE ENERGIES BY ACCOUNTING FOR LIGAND-INDUCED POPULATION SHIFTS FROM A LIGAND-FREE MSM

L. G. Smith, B. Novak, M. Osato, D. L. Mobley, G. R. Bowman

The paper introduces PopShift, a method to estimate binding free energies by accounting for ligand-induced population shifts in protein conformations using Markov state models, showing improved accuracy over traditional methods.

bioRxiv · Jul 14, 2023 · PreprintBiophysics

Drug specificity and affinity are encoded in the probability of cryptic pocket opening in myosin motor domains

A. Meller, J. M. Lotthammer, L. G. Smith, B. Novak, L. A. Lee, C. C. Kuhn, L. Greenberg, L. A. Leinwand, M. J. Greenberg, G. R. Bowman

This paper shows that the probability of cryptic pocket opening in myosin motor domains predicts drug specificity and affinity, using molecular dynamics simulations and Markov state models.

bioRxiv · Sep 5, 2022Biophysics

SARS-CoV-2 Nsp16 activation mechanism and a cryptic pocket with pan-coronavirus antiviral potential

N. Vithani, M. D. Ward, M. I. Zimmerman, B. Novak, J. H. Borowsky, S. Singh, G. R. Bowman

This paper investigates how Nsp10 activates Nsp16 and identifies a cryptic pocket in SARS-CoV-2 Nsp16 that could be targeted for pan-coronavirus antivirals.

bioRxiv · Dec 10, 2020Biophysics

Cyclin A triggers Mitosis either via Greatwall or Cyclin B

N. Hegarat, A. Crncec, M. F. Suarez Peredo Rodriguez, F. Echegaray Iturra, Y. Gu, P. F. Lang, A. R. Barr, C. Bakal, M. T. Kanemaki, A. I. Lamond, B. Novak, T. Ly, H. Hochegger

This study shows Cyclin A can trigger mitosis through Greatwall or Cyclin B by regulating Cdk1 activity and phosphorylation of mitotic substrates.

The EMBO Journal · Apr 30, 2020Peer-reviewedCell Biology

A single light-responsive sizer can control multiple-fission cycles in Chlamydomonas

F. S. Heldt, J. J. Tyson, F. R. Cross, B. Novak

This paper proposes a mechanistic model for multiple fission and size control in Chlamydomonas, showing how a light-sensitive sizer-oscillator system regulates cell division cycles.

bioRxiv · May 27, 2019Cell Biology

Absolute quantification of cohesin, CTCF and their regulators in human cells

J. Holzmann, A. Z. Politi, K. Nagasaka, M. Hantsche-Grininger, N. Walther, B. Koch, J. Fuchs, G. Dürnberger, W. Tang, R. Ladurner, R. R. Stocsits, G. A. Busslinger, B. Novak, K. Mechtler, I. F. Davidson, , J.-M. Peters

The paper measures absolute copy numbers and dynamics of cohesin, CTCF, and related proteins in human cells, revealing that some genomic enrichment sites are unoccupied in single cells.

bioRxiv · Feb 27, 2019Cell Biology