Brown University

About: Brown University is a education organization based out in Providence, Rhode Island, United States. It is known for research contribution in the topics: Population & Poison control. The organization has 35778 authors who have published 90896 publications receiving 4471489 citations. The organization is also known as: brown.edu & Brown.

Pan-cancer network analysis identifies combinations of rare somatic mutations across pathways and protein complexes

Abstract: Cancers exhibit extensive mutational heterogeneity, and the resulting long-tail phenomenon complicates the discovery of genes and pathways that are significantly mutated in cancer. We perform a pan-cancer analysis of mutated networks in 3,281 samples from 12 cancer types from The Cancer Genome Atlas (TCGA) using HotNet2, a new algorithm to find mutated subnetworks that overcomes the limitations of existing single-gene, pathway and network approaches. We identify 16 significantly mutated subnetworks that comprise well-known cancer signaling pathways as well as subnetworks with less characterized roles in cancer, including cohesin, condensin and others. Many of these subnetworks exhibit co-occurring mutations across samples. These subnetworks contain dozens of genes with rare somatic mutations across multiple cancers; many of these genes have additional evidence supporting a role in cancer. By illuminating these rare combinations of mutations, pan-cancer network analyses provide a roadmap to investigate new diagnostic and therapeutic opportunities across cancer types.

Exotic plant species as problems and solutions in ecological restoration : A synthesis

Abstract: Exotic species have become increasingly significant management problems in parks and reserves and frequently complicate restoration projects. At the same time there may be circumstances in which their removal may have unforeseen negative consequences or their use in restoration is desirable. We review the types of effects exotic species may have that are important during restoration and suggest research that could increase our ability to set realistic management goals. Their control and use may be controversial; therefore we advocate consideration of exotic species in the greater context of community structure and succession and emphasize areas where ecological research could bring insight to management dilemmas surrounding exotic species and restoration. For example, an understanding of the potential transience of exotics in a site and the role particular exotics might play in changing processes that influence the course of succession is essential to setting removal priorities and realistic management goals. Likewise, a greater understanding of the ecological role of introduced species might help to reduce controversy surrounding their purposeful use in restoration. Here we link generalizations emerging from the invasion ecology literature with practical restoration concerns, including circumstances when it is practical to use exotic species in restoration.

Tuning the electronic properties of semiconducting transition metal dichalcogenides by applying mechanical strains.

Abstract: Semiconducting transition metal dichalcogenides (TMDs) are emerging as the potential alternatives to graphene. As in the case of graphene, the monolayer of TMDs can easily be exfoliated using mechanical or chemical methods, and their properties can also be tuned. At the same time, semiconducting TMDs (MX2; M = Mo, W and X = S, Se, Te) possess an advantage over graphene in that they exhibit a band gap whose magnitude is appropriate for applications in the opto-electronic devices. Using ab initio simulations, we demonstrate that this band gap can be widely tuned by applying mechanical strains. While the electronic properties of graphene remain almost unaffected by tensile strains, we find TMDs to be sensitive to both tensile and shear strains. Moreover, compared to that of graphene, a much smaller amount of strain is required to vary the band gap of TMDs. Our results suggest that mechanical strains reduce the band gap of semiconducting TMDs causing an direct-to-indirect band gap and a semiconductor-to-metal...

Finite deformation analysis of crack-tip opening in elastic-plastic materials and implications for fracture

Abstract: A nalyses of the stress and strain fields around smoothly-blunting crack tips in both non-hardening and hardening elastic-plastic materials, under contained plane-strain yielding and subject to mode I opening loads, have been carried out by use of a finite element method suitably formulated to admit large geometry changes. The results include the crack-tip shape and near-tip deformation field, and the crack-tip opening displacement has been related to a parameter of the applied load, the J -integral. The hydrostatic stresses near the crack tip are limited due to the lack of constraint on the blunted tip, limiting achievable stress levels except in a very small region around the crack tip in power-law hardening materials. The J -integral is found to be path-independent except very close to the crack tip in the region affected by the blunted tip. Models for fracture are discussed in the light of these results including one based on the growth of voids. The rate of void-growth near the tip in hardening materials seems to be little different from the rate in non-hardening ones when measured in terms of crack-tip opening displacement, which leads to a prediction of higher toughness in hardening materials. It is suggested that improvement of this model would follow from better understanding of void-void and void-crack coalescence and void nucleation, and some criteria and models for these effects are discussed. The implications of the finite element results for fracture criteria based on critical stress or strain, or both, is discussed with respect to transition of fracture mode and the angle of initial crack-growth. Localization of flow is discussed as a possible fracture model and as a model for void-crack coalescence.

Physical Principles of Nanoparticle Cellular Endocytosis.

Abstract: This review article focuses on the physiochemical mechanisms underlying nanoparticle uptake into cells When nanoparticles are in close vicinity to a cell, the interactions between the nanoparticles and the cell membrane generate forces from different origins This leads to the membrane wrapping of the nanoparticles followed by cellular uptake This article discusses how the kinetics, energetics, and forces are related to these interactions and dependent on the size, shape, and stiffness of nanoparticles, the biomechanical properties of the cell membrane, as well as the local environment of the cells The discussed fundamental principles of the physiochemical causes for nanoparticle–cell interaction may guide new studies of nanoparticle endocytosis and lead to better strategies to design nanoparticle-based approaches for biomedical applications