Dataset Information

Systematic misperceptions of 3-D motion explained by Bayesian inference.

ABSTRACT: People make surprising but reliable perceptual errors. Here, we provide a unified explanation for systematic errors in the perception of three-dimensional (3-D) motion. To do so, we characterized the binocular retinal motion signals produced by objects moving through arbitrary locations in 3-D. Next, we developed a Bayesian model, treating 3-D motion perception as optimal inference given sensory noise in the measurement of retinal motion. The model predicts a set of systematic perceptual errors, which depend on stimulus distance, contrast, and eccentricity. We then used a virtual-reality headset as well as a standard 3-D desktop stereoscopic display to test these predictions in a series of perceptual experiments. As predicted, we found evidence that errors in 3-D motion perception depend on the contrast, viewing distance, and eccentricity of a stimulus. These errors include a lateral bias in perceived motion direction and a surprising tendency to misreport approaching motion as receding and vice versa. In sum, we present a Bayesian model that provides a parsimonious account for a range of systematic misperceptions of motion in naturalistic environments.

SUBMITTER: Rokers B

PROVIDER: S-EPMC6691918 | biostudies-literature | 2018 Mar

REPOSITORIES: biostudies-literature

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Systematic misperceptions of 3-D motion explained by Bayesian inference.

Rokers Bas B Fulvio Jacqueline M JM Pillow Jonathan W JW Cooper Emily A EA

Journal of vision 20180301 3

People make surprising but reliable perceptual errors. Here, we provide a unified explanation for systematic errors in the perception of three-dimensional (3-D) motion. To do so, we characterized the binocular retinal motion signals produced by objects moving through arbitrary locations in 3-D. Next, we developed a Bayesian model, treating 3-D motion perception as optimal inference given sensory noise in the measurement of retinal motion. The model predicts a set of systematic perceptual errors, ...[more]

PMID: 29677339

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Project description:The dataset in this Proteome Exchange entry are specific to the WTC11 benchmarking samples described in the "IsoBayes" publication (Bollon et al.) Motivation: Studying protein isoforms is an essential step in biomedical research; at present, the main approach for analyzing proteins is via bottom-up mass spectrometry proteomics, which return peptide identifications, that are indirectly used to infer the presence of protein isoforms. However, the detection and quantification processes are noisy; in particular, peptides may be erroneously detected, and most peptides, known as shared peptides, are associated to multiple protein isoforms. As a consequence, studying individual protein isoforms is challenging, and inferred protein results are often abstracted to the gene-level or to groups of protein isoforms. Results: Here, we introduce IsoBayes, a novel statistical method to perform inference at the isoform level. Our method enhances the information available, by integrating mass spectrometry proteomics and transcriptomics data in a Bayesian probabilistic framework. To account for the uncertainty in the measurement process, we propose a two-layer latent variable approach: first, we sample if a peptide has been correctly detected (or, alternatively filter peptides); second, we allocate the abundance of such selected peptides across the protein(s) they are compatible with. This enables us, starting from peptide-level data, to recover protein-level data; in particular, we: i) infer the presence/absence of each protein isoform (via a posterior probability), ii) estimate its abundance (and credible interval), and iii) target isoforms where transcript and protein relative abundances significantly differ. We benchmarked our approach in simulations, and in two multi-protease real datasets: our method displays good sensitivity and specificity when detecting protein isoforms, its estimated abundances highly correlate with the ground truth, and can detect changes between protein and transcript relative abundances. Availability and implementation: IsoBayes is freely distributed as a Bioconductor R package, and is accompanied by an example usage vignette.

Dataset Information

Systematic misperceptions of 3-D motion explained by Bayesian inference.

Publications

Systematic misperceptions of 3-D motion explained by Bayesian inference.

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