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Boult, T.

Publications and source records attributed to Boult, T..

2 recordsLinked to original sources

Extreme Value Theory for Modeling Category Decision Boundaries in Visual Recognition

Several possibilities exist for modeling decision boundaries in category learning, with varying degrees of human fidelity. This paper finds evidence for preferentially focusing representational resources on the extremes of the distribution of visual inputs in a generative model as an alternative to the central tendency models that are commonly used for prototypes and exemplars. The notion of treating extrema near a decision boundary as features in visual recognition is not new, but a comprehensive statistical framework of recognition based on extrema has yet to emerge for category learning. Here we suggest that the statistical Extreme Value Theory [Coles et al., 2001] provides such a framework. In Experiment 1, line segment stimuli that vary in a single dimension of length [Hsu and Griffiths, 2010] are used to assess how human subjects and statistical models assign category membership to a gap region between two categories shown as reference stimuli. A Weibull fit better predicts an observed human shift when moving from uniform to enriched or long tails as reference stimuli. In Experiment 2, more complex 2D rendered face sequences drawn from morphspaces [Folstein et al., 2012] are used as stimuli. Again, the Weibull fit better predicts an observed human shift when reference stimuli are sampled differently. An extrema-based model lends new insight into how discriminative information may be encoded in the brain with implications for the understanding of how decision making works in category learning.

neuroscience↗

Comparative study on chromatin loop callers using Hi-C data reveals their effectiveness

The chromosome is a fundamental component of cell biology, housing DNA that encapsulates hierarchical genetic information. DNA compresses its size by forming loops, and these loop regions contain numerous protein particles, including CTCF, SMC3, H3 histone, and Topologically Associating Domains (TADs). In this study, we conducted a comprehensive study of 22 loop calling methods. Additionally, we have provided detailed insights into the methodologies underlying these algorithms for loop detection, categorizing them into five distinct groups based on their fundamental approaches. Furthermore, we have included critical information such as resolution, input and output formats, and parameters. For this analysis, we utilized the primary and replicate GM12878 Hi-C datasets at 5KB and 10KB resolutions. Our evaluation criteria encompassed various factors, including loop count, reproducibility, overlap, running time, Aggregated Peak Analysis (APA), and recovery of protein-specific sites such as CTCF, H3K27ac, and RNAPII. This analysis offers insights into the loop detection processes of each method, along with the strengths and weaknesses of each, enabling readers to effectively choose suitable methods for their datasets. We evaluate the capabilities of these tools and introduce a novel Biological, Consistency, and Computational robustness score (BCCscore) to measure their overall robustness ensuring a comprehensive evaluation of their performance.

bioinformatics↗