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Bioscience

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Displaying 526 - 550 of 1261

Production, Purification and Characterization of 15N-Labeled DNA Repair Proteins as Internal Standards for Mass Spectrometric Measurements

July 26, 2015
Author(s)
Prasad T. Reddy, Pawel Jaruga, Bryant C. Nelson, Mark Lowenthal, Ann-Sofie Jemth, Olga Loseva, Erdem Coskun, Thomas Helleday, Miral M. Dizdar
Oxidatively induced DNA damage is caused in living organisms by a variety of damaging agents, resulting in the formation of a multiplicity of lesions, which are mutagenic and cytotoxic. Unless repaired by DNA repair mechanisms before DNA replication, DNA

Quantifying and Improving Clinical-grade Coverage and Accuracy using Augmented Exome Sequencing

July 16, 2015
Author(s)
Justin M. Zook, Anil Patwardhan, Marc L. Salit, Carlos Bustamante, Euan Ashley, Michael Snyder, John West, Richard Chen
Exome sequencing is increasingly used for the clinical evaluation of genetic disease, yet accuracy and coverage in medically interpretable parts of the genome remains under-characterized. We evaluate recently developed exome sequencing platforms in the

Best Practices for Evaluating Single Nucleotide Variant Calling Methods for Microbial Genomics

July 7, 2015
Author(s)
Nathanael D. Olson, Steven P. Lund, Rebecca Colman, Jeffery T. Foster, Jason W. Sahl, James M. Schupp, Paul Keim, Jayne B. Morrow, Marc L. Salit, Justin M. Zook
Innovations in sequencing technologies have allowed biologists to make incredible advances in understanding biological systems. As experience grows, researchers increasingly recognize that analyzing the wealth of data provided by these new sequencing

Applying Thymine Isostere 2,4-Difluoro-5-methylbenzene as an Assignment Tool and Probe of Purine-rich DNA Dynamics Using Proton NMR Spectroscopy

June 30, 2015
Author(s)
Robert G. Brinson, Jennifer T. Miller, Kahn Jason, Stuart F. Le Grice, John P. Marino
Proton assignment of NMR spectra of oligonucleotide duplexes can become difficult with increasing helical length due to cross peak overlap. Here we describe an alternative to 15N and 13C labeling that facilitates assignment via single site substitution

Addiction to MTH1 protein results in intense expression in human breast cancer tissue as measured by liquid chromatography-isotope-dilution tandem mass spectrometry

June 23, 2015
Author(s)
Erdem Coskun, Pawel Jaruga, Ann-Sofie Jemth, Olga Loseva, Leona D. Scanlan, Alessandro Tona, Mark S. Lowenthal, Thomas Helleday, M Miral Dizdar
MTH1 protein sanitizes the nucleotide pool so that modified 2'-deoxynucleoside triphosphates (dNTPs) cannot be used in DNA replication. Cancer cells require MTH1 to avoid incorporation of modified dNTPs resulting in DNA damage mutations and cell death

Histone H3 Ser57 and Thr58 Phosphorylation in 5XFAD Mouse Brain

June 20, 2015
Author(s)
Kyle W. Anderson, Illarion V. Turko, Natalia Mast, Irina A. Pikuleva
Alzheimer’s disease (AD) is the most common neurodegenerative disorder, yet it is poorly understood. Currently, there is no treatment to delay onset or slow progression of AD. Epigenetics of AD is a growing field that has gained interest due to the

Performance of a next generation sequencing SNP assay on degraded DNA

May 27, 2015
Author(s)
Katherine Gettings, Kevin M. Kiesler, Peter Vallone
Forensic DNA casework samples are often of insufficient quantity or quality to generate full profiles by conventional DNA typing methods. Amplification of STR loci is inherently limited in samples containing degraded DNA, as the cumulative size of repeat

Quantitative scheme for full-field polarization rotating fluorescence microscopy (PROM) using a liquid crystal variable retarder

May 14, 2015
Author(s)
John F. Lesoine, Ji Y. Lee, Hyeong G. Kang, Matthew L. Clarke, Robert C. Chang, Ralph Nossal, Jeeseong C. Hwang
We introduce real-time, full-field, polarization rotating fluorescence microscopy (PROM) to monitor the absorption dipole orientations of fluorescent molecules. A quarter-wave plate, in combination with a liquid crystal variable retarder (LCVR), provides a

New night vision goggle gain definition

May 12, 2015
Author(s)
Vyacheslav B. Podobedov, George P. Eppeldauer, Thomas C. Larason
A new definition is proposed for the calibration of Night Vision Goggle (NVG) gains. This definition is based on the measurement of radiometric input and output quantities of the NVG. While the old definition used the “equivalent fL” which is a non SI

Validated Open Source Nanofiber Diameter Measurement Tool

April 30, 2015
Author(s)
Nathan A. Hotaling, Kapil Bharti, Haydn Kriel, Carl G. Simon Jr.
Despite the growing use of nanofiber scaffolds for tissue engineering applications, there is not a validated, readily available (commercial or open source) solution for rapid, automated analysis of nanofiber diameter from scanning electron microscope (SEM)

The Art in Science of MicroTAS: the 2014 issue

April 14, 2015
Author(s)
Darwin R. Reyes-Hernandez
For the 7th year in a row the Art in Science award competition, sponsored by Lab on a Chip and the National Institute of Standards and Technology (NIST), took place at the 18th International Conference of Miniaturized Systems for Chemistry and Life

Bioreactor Process Parameter Screening Utilizing a Plackett-Burman Design for a Model Monoclonal Antibody

March 11, 2015
Author(s)
John E. Schiel, Cyrus D. Agarabi, Scott C. Lute, Brittany K. Chavez, Michael T. Boyne, Kurt A. Brorson, Mansoor A. Kahn, Erik K. Read
Consistent high quality antibody yield is a key goal for cell culture bioprocessing. This endpoint is typically achieved in commercial settings through product and process engineering of bioreactor parameters during development. When the process is complex

Quantification of Cells with Specific Phenotypes I: Determination of CD4+ Cell Count per mL in Reconstituted Lyophilized Human PBMC Pre-labelled with Anti-CD4 FITC Antibody

March 10, 2015
Author(s)
Richard Stebbings, Lili Wang, Janet Sutherland, Martin Kammel, Adolfas Gaigalas, M. John, B. Roemer, M. Kuhne, R. J. Schneider, M. Braun, N. Leclere, D. Dikshit, Fatima Abbasi, Gerald Marti, P. Porcedda, M. Sassi, L. Revel, S. K. Kim, D. Marshall, L. Whitby, Jing Wang, V. Ost, M. Vonski, Joerg Neukammer
A surface-labelled lyophilised lymphocyte (sLL) preparation has been developed using human peripheral blood mononuclear cells (PBMC) pre-labelled with a fluorescein isothiocyanate (FITC) conjugated anti-CD4 monoclonal antibody. The sLL preparation is

Proceedings of SPIE

March 4, 2015
Author(s)
Maritoni A. Litorja, Aaron A. Urbas, Yuqin Zong
The fluorescent light detected by a clinical imager is assumed to be proportional to the amount of fluorescent substance present in the sample. Unfortunately, there are many factors that can add or subtract to the light signal directly attributable to the

An analytical framework for optimizing variant discovery from personal genomes

February 25, 2015
Author(s)
Justin M. Zook, Gareth Highnam, Jason Wang, Dean Kusler, Vinaya Vijayan, Nir Leibovich, David Mittelman
The standardization and performance testing of analysis tools is a prerequisite to widespread adoption of high-throughput sequencing, particularly in the clinic. However, performance testing is currently complicated by the paucity of standards and

Application of NMR-based Metabolomics for Environmental Assessment in the Great Lakes using Zebra Mussel (Dreissena polymorpha) polymorpha)

February 21, 2015
Author(s)
Miki Watanabe, Katherine Meyer, Tyler Jackson, Tracey Johnston, Ed Johnson, Dan Bearden
Zebra mussel, Dreissena polymorpha, in the Great Lakes is being monitored as a bio-indicator organism for environmental health effects by the National Oceanic and Atmospheric Administration's Mussel Watch program. In order to monitor the environmental
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