9 papers · ranked by Valyu relevance
Claus Kadelka, Kishore Hari
The inference of gene regulatory networks (GRNs) from high-throughput data constitutes a fundamental and challenging task in systems biology. Boolean networks are a popular modeling framework to understand the dynamic nature of GRNs. In the absence of reliable methods to infer the regulatory logic of Boolean GRN…
Nicholas Theis, Jonathan Rubin, Joshua Cape, Satish Iyengar + 1 more
Structural and functional brain connectomes built using macroscale data collected through magnetic resonance imaging (MRI) may contain noise that contributes to false-positive edges, which can obscure structure-function relationships with implications for data interpretation. Thresholding procedures are routinely…
Zheng Zhang, Timothy G. Constandinou
This paper assesses and challenges whether commonly used methods for defining amplitude thresholds for spike detection are optimal. This is achieved through empirical testing of single amplitude thresholds across multiple recordings of varying SNR levels. Our results suggest that the most widely used…
Krishna Rijal, Ashok Prasad, Dibyendu Das
Protein thresholds have been shown to act as an ancient timekeeping device, such as in the time to lysis of E. coli infected with bacteriophage lambda. The time taken for protein levels to reach a particular threshold for the first time is defined as the first passage time of the protein synthesis system, which is a…
Luke A. Shaheen, Brad N. Buran, Kirupa Suthakar, Seth D. Koehler + 1 more
The auditory brainstem response (ABR) is an essential diagnostic indicator of overall cochlear health, used extensively in both basic research and clinical studies. A key quantification of the ABR is threshold, the lowest sound level that elicits a response. Because the morphology of ABR waveforms shift with stimulus…
Mike D. Rinderknecht, Olivier Lambercy, Roger Gassert
When estimating psychometric functions with sampling procedures, psychophysical assessments should be precise and accurate while being as efficient as possible to reduce assessment duration. The estimation performance of sampling procedures is commonly evaluated in computer simulations for single psychometric functions…
Nicolas Canac, Mina Ranjbaran, Michael J. O’Brien, Shadnaz Asgari + 6 more
Transcranial Doppler (TCD) ultrasound has been demonstrated to be a valuable tool for assessing cerebral hemodynamics via measurement of cerebral blood flow velocity (CBFV), with a number of established clinical indications. However, CBFV waveform analysis depends on reliable pulse onset detection, an inherently…
Zachary D Langford, Charles R E Wilson
In neurophysiological research, the traditional view of beta band activity as sustained oscillations is being reinterpreted as transient bursts. Bursts are characterized by a distinct wavelet shape, high amplitude, and, most importantly, brief temporal occurrence. The primary method for their detection relies on a…
Fabricio Cravo, Matthias Függer, Thomas Nowak
Reliable detection of substances present at potentially low concentrations is a problem common to many biomedical applications. Complementary to well-established enzyme-, antibody-antigen-, and sequencing-based approaches, so-called microbial whole-cell sensors, i.e., synthetically engineered microbial cells that sense…