Gramene (http://www.gramene.org) is an online resource for comparative functional genomics in crops and model plant species. Its two main frameworks are genomes (collaboration with Ensembl Plants) and pathways (The Plant Reactome and archival BioCyc databases). Since our last NAR update, the database website adopted a new Drupal management platform. The...
Multiplicative random cascades (MRCs) can parsimoniously generate highly intermittent patterns similar to those in rainfall. The elemental MRC model parameter is the cascade weight, which determines how rainfall at one scale is partitioned at the next smallest scale in the cascade. While it is known that the probability density of...
Background: Functional annotations of large plant genome projects mostly provide information on gene function
and gene families based on the presence of protein domains and gene homology, but not necessarily in
association with gene expression or metabolic and regulatory networks. These additional annotations are necessary
to understand the physiology, development...
Production of Kþ mesons in charged-current νμ interactions on plastic scintillator (CH) is measured using MINERvA exposed to the low-energy NuMI beam at Fermilab. Timing information is used to isolate a sample of 885 charged-current events containing a stopping Kþ which decays at rest. The differential cross section in Kþ...
A framework for understanding the synthesis and catalysis of metabolites and other biochemicals by proteins is crucial for unraveling the physiology of cells. To create such a framework for Zea mays L. subsp. mays (maize), we developed MaizeCyc, a metabolic network of enzyme catalysts, proteins, carbohydrates, lipids, amino acids, secondary...
Gramene (http://www.gramene.org) is a curated
online resource for comparative functional
genomics in crops and model plant species, currently
hosting 27 fully and 10 partially sequenced
reference genomes in its build number 38. Its
strength derives from the application of a phylogenetic
framework for genome comparison and the
use of ontologies...
Ballast water discharges are a major source of species introductions into marine and estuarine ecosystems. To mitigate the introduction of new invaders into these ecosystems, many agencies are proposing standards that establish upper concentration limits for organisms in ballast discharge. Ideally, ballast discharge standards will be biologically defensible and adequately...
This pilot study proposed a method for assessing the
status of vascular flow measured by transcutaneous oxygen pressure
(TcPO2) in the area of the ischium in people with spinal cord
injury (SCI). In a sample of 38 men (two groups: 12 physically
active and 26 sedentary) with thoracic SCI, the...
Marine calcifiers as a plankton functional type (PFT) are a crucial part of the global carbon cycle, being responsible for much of the carbon export to the deep ocean entering via biological pathways. Deep ocean carbon export through calcifiers is controlled by physiological, ecological and biogeochemical factors. This paper describes...
In RNA-directed silencing pathways, ternary complexes result from small RNA-guided ARGONAUTE (AGO) associating with target transcripts. Target transcripts are often silenced through direct cleavage (slicing), destabilization through slicer-independent turnover mechanisms, and translational repression. Here, wild-type and active-site defective forms of several Arabidopsis thaliana AGO proteins involved in posttranscriptional silencing were...