Large-scale sequencing of cancer genomes has uncovered thousands of DNA alterations, but the functional relevance of the majority of these mutations to tumorigenesis is unknown. We have developed a computational method, called Cancerspecific High-throughput Annotation of Somatic Mutations (CHASM), to identify and prioritize those missense mutations most likely to generate functional changes that enhance tumor cell proliferation. The method has high sensitivity and specificity when discriminating between known driver missense mutations and randomly generated missense mutations (area under receiver operating characteristic curve, >0.91; area under Precision-Recall curve, >0.79). CHASM substantially outperformed previously described missense mutation function prediction methods at discriminating known oncogenic mutations in P53 and the tyrosine kinase epidermal growth factor receptor. We applied the method to 607 missense mutations found in a recent glioblastoma multiforme sequencing study. Based on a model that assumed the glioblastoma multiforme mutations are a mixture of drivers and passengers, we estimate that 8% of these mutations are drivers, causally contributing to tumorigenesis. [Cancer Res 2009;69(16):6660-7]

The human visual system can rapidly recognize objects despite transformations that alter their appearance. The precise timing of when the brain computes neural representations that are invariant to particular transformations, however, has not been mapped in humans. Here we employ magnetoencephalography decoding analysis to measure the dynamics of size- and position-invariant visual information development in the ventral visual stream. With this method we can read out the identity of objects beginning as early as 60 ms. Size- and position-invariant visual information appear around 125 ms and 150 ms, respectively, and both develop in stages, with invariance to smaller transformations arising before invariance to larger transformations. Additionally, the magnetoencephalography sensor activity localizes to neural sources that are in the most posterior occipital regions at the early decoding times and then move temporally as invariant information develops. These results provide previously unknown latencies for key stages of human-invariant object recognition, as well as new and compelling evidence for a feed-forward hierarchical model of invariant object recognition where invariance increases at each successive visual area along the ventral stream.

Primates are highly attuned not just to social characteristics of individual agents, but also to social interactions between multiple agents. Here we report a neural correlate of the representation of social interactions in the human brain. Specifically, we observe a strong univariate response in the posterior superior temporal sulcus (pSTS) to stimuli depicting social interactions between two agents, compared with (i) pairs of agents not interacting with each other, (ii) physical interactions between inanimate objects, and (iii) individual animate agents pursuing goals and interacting with inanimate objects. We further show that this region contains information about the nature of the social interaction—specifically, whether one agent is helping or hindering the other. This sensitivity to social interactions is strongest in a specific subregion of the pSTS but extends to a lesser extent into nearby regions previously implicated in theory of mind and dynamic face perception. This sensitivity to the presence and nature of social interactions is not easily explainable in terms of low-level visual features, attention, or the animacy, actions, or goals of individual agents. This region may underlie our ability to understand the structure of our social world and navigate within it.

Within a fraction of a second of viewing a face, we have already determined its gender, age and identity. A full understanding of this remarkable feat will require a characterization of the computational steps it entails, along with the representations extracted at each. Here we used magnetencephalography to ask which properties of a face are extracted when, and how early in processing these computations are affected by face familiarity. Subjects viewed images of familiar and unfamiliar faces varying orthogonally in gender and age. Using representational similarity analysis, we found that gender and age information emerged significantly earlier than identity information, followed by a late signature of familiarity. Importantly, gender and identity representations were enhanced for familiar faces early during processing. These findings start to reveal the sequence of processing steps entailed in face perception in humans, and suggest that early stages of face processing are tuned to familiar face features.

Within a fraction of a second of viewing a face, we have already determined its gender, age and identity. A full understanding of this remarkable feat will require a characterization of the computational steps it entails, along with the representations extracted at each. Here, we used magnetoencephalography (MEG) to measure the time course of neural responses to faces, thereby addressing two fundamental questions about how face processing unfolds over time. First, using representational similarity analysis, we found that facial gender and age information emerged before identity information, suggesting a coarse-to-fine processing of face dimensions. Second, identity and gender representations of familiar faces were enhanced very early on, suggesting that the behavioral benefit for familiar faces results from tuning of early feed-forward processing mechanisms. These findings start to reveal the time course of face processing in humans, and provide powerful new constraints on computational theories of face perception.

Humans observe actions performed by others in many different visual and social settings. What features do we extract and attend when we view such complex scenes, and how are they processed in the brain? To answer these questions, we curated two large-scale sets of naturalistic videos of everyday actions and estimated their perceived similarity in two behavioral experiments. We normed and quantified a large range of visual, action-related, and social-affective features across the stimulus sets. Using a cross-validated variance partitioning analysis, we found that social-affective features predicted similarity judgments better than, and independently of, visual and action features in both behavioral experiments. Next, we conducted an electroencephalography experiment, which revealed a sustained correlation between neural responses to videos and their behavioral similarity. Visual, action, and social-affective features predicted neural patterns at early, intermediate, and late stages, respectively, during this behaviorally relevant time window. Together, these findings show that social-affective features are important for perceiving naturalistic actions and are extracted at the final stage of a temporal gradient in the brain.

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† These authors contributed equally to this work.Learning by temporal association rules such as Foldiak's trace rule is an attractive hypothesis that explains the development of invariance in visual recognition. Consistent with these rules, several recent experiments have shown that invariance can be broken at both the psychophysical and single cell levels. We show (1) that temporal association learning provides appropriate invariance in models of object recognition inspired by the visual cortex, (2) that we can replicate the "invariance disruption" experiments using these models with a temporal association learning rule to develop and maintain invariance, and (3) that despite dramatic single cell effects, a population of cells is very robust to these disruptions. We argue that these models account for the stability of perceptual invariance despite the underlying plasticity of the system, the variability of the visual world and expected noise in the biological mechanisms.