SNPSTR: a database of compound microsatellite-SNP markers

There has been widespread and growing interest in genetic markers suitable for drawing population genetic inferences about past demographic events and to detect the effects of selection. In addition to single nucleotide polymorphisms (SNPs), microsatellites (or short tandem repeats, STRs) have received great attention in the analysis of human population history. In the SNPSTR database () we catalogue a relatively new type of compound genetic marker called SNPSTR which combines a microsatellite marker (STR) with one or more tightly linked SNPs. Here, the SNP(s) and the microsatellite are less than 250 bp apart so each SNPSTR can be considered a small haplotype with no recombination occurring between the two individual markers. Thus, SNPSTRs have the potential to become a very useful tool in the field of population genetics. The SNPSTR database contains all inferable human SNPSTRs as well as those in mouse, rat, dog and chicken, i.e. all model organisms for which extensive SNP datasets are available

Tell me more?: the effects of mental model soundness on personalizing an intelligent agent

What does a user need to know to productively work with an intelligent agent? Intelligent agents and recommender systems are gaining widespread use, potentially creating a need for end users to understand how these systems operate in order to fix their agent's personalized behavior. This paper explores the effects of mental model soundness on such personalization by providing structural knowledge of a music recommender system in an empirical study. Our findings show that participants were able to quickly build sound mental models of the recommender system's reasoning, and that participants who most improved their mental models during the study were significantly more likely to make the recommender operate to their satisfaction. These results suggest that by helping end users understand a system's reasoning, intelligent agents may elicit more and better feedback, thus more closely aligning their output with each user's intentions

Nanoscale periodicity in stripe-forming systems at high temperature: Au/W(110)

We observe using low-energy electron microscopy the self-assembly of monolayer-thick stripes of Au on W(110) near the transition temperature between stripes and the non-patterned (homogeneous) phase. We demonstrate that the amplitude of this Au stripe phase decreases with increasing temperature and vanishes at the order-disorder transition (ODT). The wavelength varies much more slowly with temperature and coverage than theories of stress-domain patterns with sharp phase boundaries would predict, and maintains a finite value of about 100 nm at the ODT. We argue that such nanometer-scale stripes should often appear near the ODT.Comment: 5 page

Explanatory debugging: Supporting end-user debugging of machine-learned programs

Many machine-learning algorithms learn rules of behavior from individual end users, such as task-oriented desktop organizers and handwriting recognizers. These rules form a “program” that tells the computer what to do when future inputs arrive. Little research has explored how an end user can debug these programs when they make mistakes. We present our progress toward enabling end users to debug these learned programs via a Natural Programming methodology. We began with a formative study exploring how users reason about and correct a text-classification program. From the results, we derived and prototyped a concept based on “explanatory debugging”, then empirically evaluated it. Our results contribute methods for exposing a learned program's logic to end users and for eliciting user corrections to improve the program's predictions

Too much, too little, or just right? Ways explanations impact end users' mental models

Research is emerging on how end users can correct mistakes their intelligent agents make, but before users can correctly "debug" an intelligent agent, they need some degree of understanding of how it works. In this paper we consider ways intelligent agents should explain themselves to end users, especially focusing on how the soundness and completeness of the explanations impacts the fidelity of end users' mental models. Our findings suggest that completeness is more important than soundness: increasing completeness via certain information types helped participants' mental models and, surprisingly, their perception of the cost/benefit tradeoff of attending to the explanations. We also found that oversimplification, as per many commercial agents, can be a problem: when soundness was very low, participants experienced more mental demand and lost trust in the explanations, thereby reducing the likelihood that users will pay attention to such explanations at all

Integrating rich user feedback into intelligent user interfaces

The potential for machine learning systems to improve via a mutually beneficial exchange of information with users has yet to be explored in much detail. Previously, we found that users were willing to provide a generous amount of rich feedback to machine learning systems, and that the types of some of this rich feedback seem promising for assimilation by machine learning algorithms. Following up on those findings, we ran an experiment to assess the viability of incorporating real-time keyword-based feedback in initial training phases when data is limited. We found that rich feedback improved accuracy but an initial unstable period often caused large fluctuations in classifier behavior. Participants were able to give feedback by relying heavily on system communication in order to respond to changes. The results show that in order to benefit from the user’s knowledge, machine learning systems must be able to absorb keyword-based rich feedback in a graceful manner and provide clear explanations of their predictions

Atomistic modelling of large-scale metal film growth fronts

We present simulations of metallization morphologies under ionized sputter deposition conditions, obtained by a new theoretical approach. By means of molecular dynamics simulations using a carefully designed interaction potential, we analyze the surface adsorption, reflection, and etching reactions taking place during Al physical vapor deposition, and calculate their relative probability. These probabilities are then employed in a feature-scale cellular-automaton simulator, which produces calculated film morphologies in excellent agreement with scanning-electron-microscopy data on ionized sputter deposition.Comment: RevTeX 4 pages, 2 figure