Targeted Mutagenesis of the Multicopy Gene Family in Allotetraploid Reduces Pungency in Fresh Leaves across Environments.

Recent breeding efforts in have focused on the development of new oilseed feedstock crop for biofuels (e.g., ethanol, biodiesel, bio-jet fuel), bio-industrial uses (e.

Expression Elements Derived From Plant Sequences Provide Effective Gene Expression Regulation and New Opportunities for Plant Biotechnology Traits.

Plant biotechnology traits provide a means to increase crop yields, manage weeds and pests, and sustainably contribute to addressing the needs of a growing population. One of the key challenges in developing new traits for plant biotechnology is the availability of expression elements for efficacious and predictable transgene regulation. Recent advances in genomics, transcriptomics, and computational tools have enabled the generation of new expression elements in a variety of model organisms.

Quantifying the Twitter Influence of Third Party Commercial Entities versus Healthcare Providers in Thirteen Medical Conferences from 2011 - 2013.

Introduction: Twitter channels are increasingly popular at medical conferences. Many groups, including healthcare providers and third party entities (e.g.

Automated Learning of Subcellular Variation among Punctate Protein Patterns and a Generative Model of Their Relation to Microtubules.

Characterizing the spatial distribution of proteins directly from microscopy images is a difficult problem with numerous applications in cell biology (e.g. identifying motor-related proteins) and clinical research (e.

Estimating microtubule distributions from 2D immunofluorescence microscopy images reveals differences among human cultured cell lines.

Microtubules are filamentous structures that are involved in several important cellular processes, including cell division, cellular structure and mechanics, and intracellular transportation. Little is known about potential differences in microtubule distributions within and across cell lines. Here we describe a method to estimate information pertaining to 3D microtubule distributions from 2D fluorescence images.

Tweeting the meeting: an in-depth analysis of Twitter activity at Kidney Week 2011.

In recent years, the American Society of Nephrology (ASN) has increased its efforts to use its annual conference to inform and educate the public about kidney disease. Social media, including Twitter, has been one method used by the Society to accomplish this goal. Twitter is a popular microblogging service that serves as a potent tool for disseminating information.

High-throughput imaging and analysis of root system architecture in Brachypodium distachyon under differential nutrient availability.

Nitrogen (N) and phosphorus (P) deficiency are primary constraints for plant productivity, and root system architecture (RSA) plays a vital role in the acquisition of these nutrients. The genetic determinants of RSA are poorly understood, primarily owing to the complexity of crop genomes and the lack of sufficient RSA phenotyping methods. The objective of this study was to characterize the RSA of two Brachypodium distachyon accessions under different nutrient availability.

AUTOMATED ESTIMATION OF MICROTUBULE MODEL PARAMETERS FROM 3-D LIVE CELL MICROSCOPY IMAGES.

While basic principles of microtubule organization are well understood, much remains to be learned about the extent and significance of variation in that organization among cell types and conditions. Large numbers of images of microtubule distributions for many cell types can be readily obtained by high throughput fluorescence microscopy but direct estimation of the parameters underlying the organization is problematic because it is difficult to resolve individual microtubules present at the microtubule-organizing center or at regions of high crossover. Previously, we developed an indirect, generative model-based approach that can estimate such spatial distribution parameters as the number and mean length of microtubules.

Automated image analysis for high-content screening and analysis.

The field of high-content screening and analysis consists of a set of methodologies for automated discovery in cell biology and drug development using large amounts of image data. In most cases, imaging is carried out by automated microscopes, often assisted by automated liquid handling and cell culture. Image processing, computer vision, and machine learning are used to automatically process high-dimensional image data into meaningful cell biological results.

A generative model of microtubule distributions, and indirect estimation of its parameters from fluorescence microscopy images.

The microtubule network plays critical roles in many cellular processes, and quantitative models of how its organization varies across cell types and conditions are required for understanding those roles and as input to cell simulations. High-throughput image acquisition technologies are potentially valuable for this purpose, but do not provide sufficient resolution for current analysis methods that rely on tracing of individual microtubules. We describe a parametric conditional model of microtubule distribution that can generate a microtubule network in intact cells using a persistent random walk approach.

NUCLEAR SEGMENTATION IN MICROSCOPE CELL IMAGES: A HAND-SEGMENTED DATASET AND COMPARISON OF ALGORITHMS.

Image segmentation is an essential step in many image analysis pipelines and many algorithms have been proposed to solve this problem. However, they are often evaluated subjectively or based on a small number of examples. To fill this gap, we hand-segmented a set of 97 fluorescence microscopy images (a total of 4009 cells) and objectively evaluated some previously proposed segmentation algorithms.