Nucleic-acid G-quadruplexes (G4s) play vital roles in many cellular processes. Due to their
importance, researchers have developed experimental assays to measure nucleic-acid G4s …

Transcription factors ( TF s) achieve DNA ‐binding specificity through contacts with functional
groups of bases (base readout) and readout of structural properties of the double helix (…

Understanding gene regulation is a key challenge in today's biology. The new technologies
of protein-binding microarrays (PBMs) and high-throughput SELEX (HT-SELEX) allow …

Motivation: Protein–RNA interactions, which play vital roles in many processes, are mediated
through both RNA sequence and structure. CLIP-based methods, which measure protein–…

… We thank members of Orenstein, Hornstein and Monchaud groups for helpful critiques, …
Research in the Orenstein lab was supported by the Israel Cancer Association [20221519]; Israel …

Core promoter elements play a pivotal role in the transcriptional output, yet they are often
detected manually within sequences of interest. Here, we present 2 contributions to the …

Motivation The complexes formed by binding of proteins to RNAs play key roles in many
biological processes, such as splicing, gene expression regulation, translation and viral …

… Calculated assay accuracies ( r 2 × f r a c t i o n o f l i b r a r y o b s e r v e d ) for simulated
HTS of these distributions reveal two regimes with decreased accuracy (SI Appendix, Fig. S5): …

… Let’s define the event Y i , j that the window W i is charged, given that there are j elements
of U k , w in the longer … Hence, when j = 1, W i cannot be charged and P [ Y i , 1 ] has to be 0. …

… (A) Cy5-PDS binding (x-axis) vs binding in the presence of 100 nM TMPyP4 (y-axis). (B)
Cy5-PDS binding (x-axis) vs binding in the presence of 20 μM DC-34 (y-axis). Highlighted are …