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Displaying 301 - 325 of 1174

Metagenomic assembly through the lens of validation: a review of recent advances in assessing and improving the quality of genes and genomes assembled from metagenomes.

August 7, 2017
Author(s)
Nathanael D. Olson, Chris M. Hill, Vistoria Cepeda-Espinoza, Jay Ghurye, Sergey Koren, Todd J. Treangen, Mihai Pop
Metagenomic samples are snapshots of complex ecosystems at work. These samples often involve hundreds of bacteria from known and unknown species, contain multiple strain variants, and vary greatly both within and across environments. Many microbes found in

Genome-wide reconstruction of complex structural variants using read clouds

July 17, 2017
Author(s)
Noah Spies, Ziming Weng, Alex Bishara, Jennifer H. McDaniel, David N. Catoe, Justin M. Zook, Marc L. Salit, Robert B. West, Serafim Batzoglou, Arend Sidow
Recently developed methods that utilize partitioning of long genomic DNA fragments, and barcoding of shorter fragments derived from them, have succeeded in retaining long-range information in short sequencing reads. These so-called read cloud approaches

Non-Uniform Sampling for All: More Spectral Quality, Less Measurement Time

June 30, 2017
Author(s)
Frank Delaglio, Gregory S. Walker, Kathleen A. Farley, Raman Sharma, Jeffrey C. Hoch, Luke Arbogast, Robert Brinson, John Marino
Nuclear Magnetic Resonance (NMR) spectroscopy is an indispensable tool in pharmaceutical science, with uses in drug discovery, development, and manufacturing. Non-Uniform Sampling (NUS) is an acquisition method for NMR experiments with two or more

Associations between perfluorinated alkyl acids measured in blood and ovarian follicular fluid and ovarian function in women undergoing assisted reproductive treatment

June 26, 2017
Author(s)
Jessica A. Cloy-McCoy, Jacqueline T. Bangma, Jessica L. Reiner, John Bowden, John Schnorr, Michael Slowey, Tom O'Leary, Louis J. Guillette, Benjamin B. Parrott
Endocrine disrupting contaminants, in combination with other environmental variables, are associated with altered reproductive health. Assisted reproductive technology (ART) procedures offer valuable opportunities to explore the connections between

The GAN exonuclease, or the flap endonuclease Fen1 and RNase HII are necessary for viability of Thermococcus kodakarensis.

June 13, 2017
Author(s)
Brett W. Burkhart, Lubomira Cubonova, Margaret R. Heider, John N. Reeve, Thomas J. Santangelo, Zvi Kelman
Many aspects of and factors required for DNA replication are conserved across all three Domains of life but there are some significant differences surrounding lagging strand synthesis. In Archaea a 5' to 3' exonuclease, related to both bacterial RecJ and

Phosphorylation-induced conformational dynamics in an intrinsically disordered protein and potential role in phenotypic heterogeneity

June 2, 2017
Author(s)
Prakash Kulkarni, Mohit Jolly, Dongya Jia, Steven Mooney, Ajay Bhargava, Luciane Kagohara, Yihong Chen, Pengyu Hao, Yanan He, Roberft Veltri, Alexander Grishaev, Keith Weninger, Herbert Levine, John Orban
Intrinsically disordered proteins (IDPs) that lack a unique 3D structure and comprise a large fraction of the human proteome play important roles in numerous cellular functions. Prostate- Associated Gene 4 (PAGE4) is an IDP that acts as a potentiator of

FLOW CYTOMETER PERFORMANCE CHARACTERIZATION, STANDARDIZATION AND CONTROL

May 9, 2017
Author(s)
Lili Wang, Robert A. Hoffman
Flow cytometry is a widely used technique for the analysis of single cells and particles. It is an essential tool for immunological research, drug and device development, clinical trials, disease diagnosis, and therapy monitoring. However, the measurements

Conformational Changes in Active and Inactive States of Human PP2C? characterized by Hydrogen/Deuterium Exchange-Mass Spectrometry

May 8, 2017
Author(s)
Sharlyn Mazur, Elyssia S. Gallagher, Subrata Debnath, Stewart R. Durell, Kyle Anderson, Lisa M. Jenkins, Ettore Appella, Jeffrey W. Hudgens
PPM serine/threonine protein phosphatases function in signaling pathways and require millimolar concentrations of Mn2+ or Mg2+ ions for activity. Whereas the crystal structure of human PP2Cα displayed two tightly bound Mn2+ ions in the active site, recent

A novel measure and significance testing in data analysis of cell image segmentation

April 20, 2017
Author(s)
Jin Chu Wu, Michael W. Halter, Raghu N. Kacker, John T. Elliott, Anne L. Plant
Background: Cell image segmentation (CIS) is an essential part of quantitative imaging of biological cells. Designing a performance measure and conducting significance testing are critical for evaluating and comparing the CIS algorithms for image-based

The Hybrid Search: A Mass Spectral Library Search Method for Discovery of Modifications in Proteomics

April 3, 2017
Author(s)
Meghan C. Burke, Yuri A. Mirokhin, Dmitrii V. Tchekhovskoi, Sanford P. Markey, Stephen E. Stein, Jenny Heidbrink Thompson, Christopher Larkin
We present a mass spectral library based method to identify tandem mass spectra of peptides that contain unanticipated modifications and amino acid variants. We describe this as a ‘hybrid’ method since it combines matching both ion m/z and mass losses. The

Biofilm Over Teeth and Restorations, What Do We Need to Know?

March 31, 2017
Author(s)
Nancy J. Lin
Objectives The goal of this paper is to provide an overview of biofilms and biofilm measurements in the context of studying biofilms on tooth and dental material surfaces to improve oral health. Methods A historical perspective and terminology is presented

Label-free hyperspectral dark-field microscopy towards quantitative scatter imaging

March 27, 2017
Author(s)
Philip Cheney, David McClatchy III, Stephen Kanick, Paul Lemaillet, David W. Allen, Daniel Samarov, Brian Pogue, Jeeseong C. Hwang
A hyperspectral dark-field microscopy technique has been developed for imaging spatially distributed diffuse reflectance spectra from light-scattering samples. In this report, quantitative scatter spectroscopy was demonstrated with a uniform scattering

Polydimethylsiloxane tissue-mimicking phantoms for quantitative optical medical imaging standards

March 24, 2017
Author(s)
Jeeseong Hwang, Hyun J. Kim, Paul Lemaillet, Dirk Grosenick, Thomas Gladytz, David McClatchy III, Kimberly A. Briggman, Brian Pogue
We report on a procedure to build and characterize solid tissue-mimicking phantoms of polydimethylsiloxane (PDMS) polymers. Controlled inclusion of light scattering titanium dioxide (TiO2) nanoparticles enables the creation of phantoms having tunable light

Life Time Dosimetric Assessment for Mice and Rats Exposed to Cell Phone Radiation in Reverberation Chambers

March 17, 2017
Author(s)
Perry F. Wilson, John M. Ladbury, Galen H. Koepke, Yijian Gong, Myles Capstick, Keven Kuhn, David L. McCormick, Ronald L. Melnick, Niels Kuster
In this paper, we present a detailed life time dosimetry analysis for individually housed rodents exposed to radio frequency (RF) signals. The unrestrained rodents were exposed in reverberation chambers for 2 years at three whole-body averaged specific

Neuroelectronic Device Process Development and Challenge

March 16, 2017
Author(s)
Jessie Zhang, Gymama Slaughter, Matthew Robinson, Joel Tyson
One of the major challenges of brain activity monitoring is to obtain high quality signals from the brain using metal electrodes. The probes consisting of metal electrodes have to be thin enough without damaging the tissue while maintaining good contact to

NIST Micronutrients Measurement Quality Assurance Program Winter and Summer 2016 Comparability Studies: Results for Round Robin LXXIX and LXXX Fat-Soluble Vitamins and Carotenoids in Human Serum

March 16, 2017
Author(s)
Jeanice M. Brown Thomas, David L. Duewer
The National Institute of Standards and Technology coordinates the Micronutrients Measurement Quality Assurance Program (MMQAP) for laboratories that measure fat-soluble vitamins and carotenoids in human serum and plasma. This report describes the design
Displaying 301 - 325 of 1174