Virginia Tech

About: Virginia Tech is a education organization based out in Blacksburg, Virginia, United States. It is known for research contribution in the topics: Population & Poison control. The organization has 42053 authors who have published 95234 publications receiving 2905142 citations. The organization is also known as: VT & Virginia Polytechnic Institute and State University.

A global reference for human genetic variation.

Abstract: The 1000 Genomes Project set out to provide a comprehensive description of common human genetic variation by applying whole-genome sequencing to a diverse set of individuals from multiple populations. Here we report completion of the project, having reconstructed the genomes of 2,504 individuals from 26 populations using a combination of low-coverage whole-genome sequencing, deep exome sequencing, and dense microarray genotyping. We characterized a broad spectrum of genetic variation, in total over 88 million variants (84.7 million single nucleotide polymorphisms (SNPs), 3.6 million short insertions/deletions (indels), and 60,000 structural variants), all phased onto high-quality haplotypes. This resource includes >99% of SNP variants with a frequency of >1% for a variety of ancestries. We describe the distribution of genetic variation across the global sample, and discuss the implications for common disease studies.

The Amber biomolecular simulation programs

Abstract: We describe the development, current features, and some directions for future development of the Amber package of computer programs. This package evolved from a program that was constructed in the late 1970s to do Assisted Model Building with Energy Refinement, and now contains a group of programs embodying a number of powerful tools of modern computational chemistry, focused on molecular dynamics and free energy calculations of proteins, nucleic acids, and carbohydrates.

Grad-CAM: Visual Explanations from Deep Networks via Gradient-Based Localization

Abstract: We propose a technique for producing ‘visual explanations’ for decisions from a large class of Convolutional Neural Network (CNN)-based models, making them more transparent. Our approach – Gradient-weighted Class Activation Mapping (Grad-CAM), uses the gradients of any target concept (say logits for ‘dog’ or even a caption), flowing into the final convolutional layer to produce a coarse localization map highlighting the important regions in the image for predicting the concept. Unlike previous approaches, Grad- CAM is applicable to a wide variety of CNN model-families: (1) CNNs with fully-connected layers (e.g. VGG), (2) CNNs used for structured outputs (e.g. captioning), (3) CNNs used in tasks with multi-modal inputs (e.g. visual question answering) or reinforcement learning, without architectural changes or re-training. We combine Grad-CAM with existing fine-grained visualizations to create a high-resolution class-discriminative visualization, Guided Grad-CAM, and apply it to image classification, image captioning, and visual question answering (VQA) models, including ResNet-based architectures. In the context of image classification models, our visualizations (a) lend insights into failure modes of these models (showing that seemingly unreasonable predictions have reasonable explanations), (b) outperform previous methods on the ILSVRC-15 weakly-supervised localization task, (c) are more faithful to the underlying model, and (d) help achieve model generalization by identifying dataset bias. For image captioning and VQA, our visualizations show even non-attention based models can localize inputs. Finally, we design and conduct human studies to measure if Grad-CAM explanations help users establish appropriate trust in predictions from deep networks and show that Grad-CAM helps untrained users successfully discern a ‘stronger’ deep network from a ‘weaker’ one even when both make identical predictions. Our code is available at https: //github.com/ramprs/grad-cam/ along with a demo on CloudCV [2] and video at youtu.be/COjUB9Izk6E.

Multilevel inverters: a survey of topologies, controls, and applications

Abstract: Multilevel inverter technology has emerged recently as a very important alternative in the area of high-power medium-voltage energy control. This paper presents the most important topologies like diode-clamped inverter (neutral-point clamped), capacitor-clamped (flying capacitor), and cascaded multicell with separate DC sources. Emerging topologies like asymmetric hybrid cells and soft-switched multilevel inverters are also discussed. This paper also presents the most relevant control and modulation methods developed for this family of converters: multilevel sinusoidal pulsewidth modulation, multilevel selective harmonic elimination, and space-vector modulation. Special attention is dedicated to the latest and more relevant applications of these converters such as laminators, conveyor belts, and unified power-flow controllers. The need of an active front end at the input side for those inverters supplying regenerative loads is also discussed, and the circuit topology options are also presented. Finally, the peripherally developing areas such as high-voltage high-power devices and optical sensors and other opportunities for future development are addressed.