5 Works

Data from: Deep phylogenomics of a tandem-repeat galectin regulating appendicular skeletal pattern formation

Ramray Bhat, Mahul Chakraborty, Tilmann Glimm, Thomas A. Stewart & Stuart A. Newman
Background: A multiscale network of two galectins Galectin-1 (Gal-1) and Galectin-8 (Gal-8) patterns the avian limb skeleton. Among vertebrates with paired appendages, chondrichthyan fins typically have one or more cartilage plates and many repeating parallel endoskeletal elements, actinopterygian fins have more varied patterns of nodules, bars and plates, while tetrapod limbs exhibit tandem arrays of few, proximodistally increasing numbers of elements. We applied a comparative genomic and protein evolution approach to understand the origin of...

Data from: Surface energies of elemental crystals

Richard Tran, Zihan Xu, Balachandran Radhakrishnan, Donald Winston, Wenhao Sun, Kristin A. Persson & Shyue Ping Ong
The surface energy is a fundamental property of the different facets of a crystal that is crucial to the understanding of various phenomena like surface segregation, roughening, catalytic activity, and the crystal’s equilibrium shape. Such surface phenomena are especially important at the nanoscale, where the large surface area to volume ratios leads to properties that are significantly different from the bulk. In this work, we present the largest database of the calculated surface energies of...

Data from: Cooperative interactions between different classes of disordered proteins play a functional role in the nuclear pore complex of Baker's yeast

David E. Ando, Ajay Gopinathan & David Ando
Nucleocytoplasmic transport is highly selective, efficient, and is regulated by a poorly understood mechanism involving hundreds of disordered FG nucleoporin proteins (FG nups) lining the inside wall of the nuclear pore complex (NPC). Previous research has concluded that FG nups in Baker's yeast (S. cerevisiae) are present in a bimodal distribution, with the ``Forest Model'' classifying FG nups as either di-block polymer like ``trees'' or single-block polymer like ``shrubs''. Using a combination of coarse-grained modeling...

Data from: High-throughput screening of inorganic compounds for dielectric and optical properties to enable the discovery of novel materials

Ioannis Petousis, David Mrdjenovich, Eric Ballouz, Miao Liu, Wei Chen, Tanja Graf, Thomas D. Schladt, Kristin A. Persson & Fritz B. Prinz
Dielectrics are an important class of materials that are ubiquitous in modern electronic applications. Even though their properties are important for the performance of devices, the number of compounds with known dielectric constant is on the order of a few hundred. Here, we use Density Functional Perturbation Theory as a way to screen for the dielectric constant and refractive index of materials in a fast and computationally efficient way. Our results form the largest database...

Data from: A new theory of plant-microbe nutrient competition resolves inconsistencies between observations and model predictions

Qing Zhu, William J. Riley & Jinyun Tang
Terrestrial plants assimilate anthropogenic CO2 through photosynthesis and synthesizing new tissues. However, sustaining these processes requires plants to compete with microbes for soil nutrients, which therefore calls for an appropriate understanding and modeling of nutrient competition mechanisms in Earth System Models (ESMs). Here, we survey existing plant-microbe competition theories and their implementations in Earth System Models (ESMs). We found no consensus regarding the representation of nutrient competition and that observational and theoretical support for current...

Registration Year

  • 2016

Resource Types

  • Dataset


  • Lawrence Berkeley National Laboratory
  • University of Washington
  • University of California, Merced
  • Stanford University
  • University of California, San Diego
  • New York Medical College
  • Yale University
  • Joint BioEnergy Institute
  • Massachusetts Institute of Technology
  • University of California, Irvine