Physical Sciences and Mathematics Commons^™

A Pseudolikelihood Approach For Simultaneous Analysis Of Array Comparative Genomic Hybridizations (Acgh), David A. Engler, Gayatry Mohapatra, David N. Louis, Rebecca Betensky

Harvard University Biostatistics Working Paper Series

DNA sequence copy number has been shown to be associated with cancer development and progression. Array-based Comparative Genomic Hybridization (aCGH) is a recent development that seeks to identify the copy number ratio at large numbers of markers across the genome. Due to experimental and biological variations across chromosomes and across hybridizations, current methods are limited to analyses of single chromosomes. We propose a more powerful approach that borrows strength across chromosomes and across hybridizations. We assume a Gaussian mixture model, with a hidden Markov dependence structure, and with random effects to allow for intertumoral variation, as well as intratumoral clonal …

Polymer Microchips For Capillary Electrophoresis And Electric Field Gradient Focusing Of Biomolecules, Ryan Thomas Kelly

Theses and Dissertations

Polymeric materials have seen increasing use as microfluidic device substrates due to their low cost and the simplicity of templated fabrication procedures. I showed that poly(methyl methacrylate) (PMMA) microdevices could be enclosed in a boiling water bath, which allowed the seal to form more quickly than in conventional approaches, and enabled microchannels to remain hydrated throughout the bonding process. Microchip capillary electrophoresis (µ-CE) devices were fabricated using water-based enclosure, and a mixture of fluorescently labeled amino acids was separated in 30 s in these microchips. To create more robust capillary electrophoresis (CE) microdevices with improved separation performance, phase-changing sacrificial materials …

Red Rock Desert Learning Center Core Group Meeting: September 20, 2005, Red Rock Desert Learning Center

Reports (RRLC)

1. Introductions & Announcements (5 min.)
2. Approval of Minutes from August 16, 2005 Meeting (5 min.)
3. Discussion of Scope/Design Issues –Michael Reiland/David Frommer (30 min.)
4. Cost Update – Michael Reiland (15 min.)
5. Schedule Update – Michael Reiland (15 min.)
6. Standing Reports (15 minutes)
   A. Line and Space Architects – Les Wallach/Henry Tom
   B. BLM Capital Improvements – Michael Reiland
   C. Community Outreach – Nancy Flagg
7. Committee Reports (5 min.)
   A. Building Committee – Angie Lara
   B. Design Oversight – David Frommer
   C. Educational Programs – Paul Buck
   D. Fund-raising and Partnerships – Blaine Benedict
   E. NEPA – Michael Johnson
   F. Operations …

Catlett-Burruss Research And Education Laboratory Dedication Ceremony, College Of William And Mary, Virginia Institute Of Marine Science, Chesapeake Bay National Estuarine Research Reserve In Virginia

Miscellaneous

Brochure for Dedication: Program of events celebrating the dedication of the Catlett-Burruss Research and Education Laboratory and honoring Dr. William Reay with the NOAA Environmental Hero Award.

Red Rock Desert Learning Center: The Vision, Red Rock Desert Learning Center

Oliver Ranch Project

A public meeting will be held to introduce the Red Rock Learning Center, the first outdoor education center for local fifth grade children in Southern Nevada. Designed to enhance math and science skills, the school will be built in the Red Rock Canyon National Conservation Area. It will feature a curriculum that teaches children about conservation and the natural world by increasing their knowledge and understanding of the Mojave Desert ecosystem.

The Optimal Discovery Procedure: A New Approach To Simultaneous Significance Testing, John D. Storey

UW Biostatistics Working Paper Series

Significance testing is one of the main objectives of statistics. The Neyman-Pearson lemma provides a simple rule for optimally testing a single hypothesis when the null and alternative distributions are known. This result has played a major role in the development of significance testing strategies that are used in practice. Most of the work extending single testing strategies to multiple tests has focused on formulating and estimating new types of significance measures, such as the false discovery rate. These methods tend to be based on p-values that are calculated from each test individually, ignoring information from the other tests. As …

Structure Elucidation Of Bioactive Compounds Isolated From Endophytes Of Alstonia Scholaris And Acmena Graveolens, Nicholas James Hundley

Theses and Dissertations

Alstonia scholaris is an evergreen tree native to Southeast Asia and Australia. It is commonly used as a medicinal plant throughout these regions. In the present study, an endophyte of the genus Xylaria was isolated from a stem of Alstonia scholaris, its mycelia and exudate extracted, and the extract assayed for growth inhibition of HeLa cancer cells in vitro. Several known compounds were isolated and identified based on NMR, infrared, and mass spectral data. The compounds identified are 19,20-epoxycytochalasin C; 19,20epoxycytochalasin D; and xylobovide. Two other compounds, fusaric acid and dehydrofusaric acid, were discovered in an endophyte of the Hypocreales …

An Acyl Radical Cascade Model For The Total Synthesis Of Lyconadin A, Seth W. Grant

Theses and Dissertations

Lyconadin A (1) is a structurally unique Lycopodium alkaloid with antitumor properties, isolated from the club moss Lycopodium complanatum. We are developing a synthetic route to 1 based on a novel 7-exo-trig/6-exo-trig acyl radical cascade cyclization. The synthesis of model acyl radical cascade precursor 23 will be presented. Key features of this synthesis include the suppression of competing elimination during the alkylation of a hindered phenethyl bromide and the use of a lactone as a precursor to a compound bearing two differentially protected primary alcohols. An account of our studies on the model acyl radical cascade cyclization (23 to 24 …

Guide To Nebraska’S Wetlands And Their Conservation Needs: Second Edition, 2005, Ted Lagrange

Nebraska Game and Parks Commission: Publications

Wetlands — a source of great interest, and at times conflict. Wetlands represent different things to different people. At times they’re viewed as shallow, muddy nuisances while at other times they’re viewed as wonderful, varied and productive assets. This is because wetlands take on many roles as part of a complex and dynamic system. Understanding wetlands and wetland issues requires understanding the complex and varying roles that wetlands can play. To aid in this understanding, this guide defines wetlands, discusses their importance and dynamics, identifies threats and losses, describes conservation programs, and takes an in-depth look at Nebraska’s regional wetland …

Proposals For Community Discussion : A Quality Future For The Recreational Marron Fishery : A Five-Year Draft Strategy To Ensure The Long-Term Sustainability Of The Marron Fishery, Recreational Freshwater Fisheries Stakeholder Sub-Committee

Fisheries management papers

While some of the factors threatening the future of the marron fishery can be managed via traditional fisheries controls, many fall outside of the Department of Fisheries’ jurisdiction and require a ‘whole of Government’ approach to management. To help ensure a quality future for the recreational marron fishery, the Recreational Freshwater Fisheries Stakeholder Sub-committee (RFFSS) has now developed a set of draft management proposals designed to form the basis of a five-year management plan for the fishery.

Integrated Fisheries Management Report Abalone Resource., Department Of Fisheries

Fisheries management papers

This report includes information on sustainability and sustainable harvest levels for Western Australian abalone stocks as required under the IFM policy. It also contains additional information on the current state of knowledge of the abalone resource, which provides a broader context for considering allocations. In particular, detailed information is provided on the Roe’s abalone resource in the Perth metropolitan area (commercial Area 7/recreational West Coast Zone).

The Optimal Discovery Procedure For Large-Scale Significance Testing, With Applications To Comparative Microarray Experiments, John D. Storey, James Y. Dai, Jeffrey T. Leek

UW Biostatistics Working Paper Series

As much of the focus of genetics and molecular biology has shifted toward the systems level, it has become increasingly important to accurately extract biologically relevant signal from thousands of related measurements. The common property among these high-dimensional biological studies is that the measured features have a rich and largely unknown underlying structure. One example of much recent interest is identifying differentially expressed genes in comparative microarray experiments. We propose a new approach aimed at optimally performing many hypothesis tests in a high-dimensional study. This approach estimates the Optimal Discovery Procedure (ODP), which has recently been introduced and theoretically shown …

A Five Year Management Strategy For Recreational Fishing On The South Coast. The Minister For Fisheries' Decision In Response To The Final Report Of The South Coast Recreational Fishing Working Group., Jon Ford (Minister For Fisheries; The Kimberley, Pilbara And Gascoyne)

Fisheries management papers

After careful consideration of the South Coast Recreational Fishing Working Group’s recommendations and the wide range of issues raised in submissions, I have made my decisions in respect to the future management arrangements for recreational fishing in South Coast Region. I believe the new management arrangements which will be implemented in 1 January 2006 will go a long way to protecting recreational fishing quality and meeting the long term needs for the sustainable management of recreational fishing. I did note that some of the most pressing concerns raised during public meetings, and in submissions, related to the interaction between the …

Ga-Facilitated Knn Classifier Optimization With Varying Similarity Measures, Michael R. Peterson, Travis E. Doom, Michael L. Raymer

Kno.e.sis Publications

Genetic algorithms are powerful tools for k-nearest neighbors classifier optimization. While traditional knn classification techniques typically employ Euclidian distance to assess pattern similarity, other measures may also be utilized. Previous research demonstrates that GAs can improve predictive accuracy by searching for optimal feature weights and offsets for a cosine similarity-based knn classifier. GA-selected weights determine the classification relevance of each feature, while offsets provide alternative points of reference when assessing angular similarity. Such optimized classifiers perform competitively with other contemporary classification techniques. This paper explores the effectiveness of GA weight and offset optimization for knowledge discovery using knn classifiers with …

The Prairie Naturalist, Volume 37, Number 3, September 2005

The Prairie Naturalist

Landscape Compostiona and Greater Prairie Chicken Lek Attendance: Implications for Management by N. D. Niemuth

Helminthic Parasites in Ring-necked Pheasant from Southwestern Kansas by R. J. Robel, T. L. Walker, Jr., R. K. Ridley, K. E. Kemp, and R. D. Applegate

Seasonal Migration and Home Ranges of Female Elk in the Black Hills of South Dakota and Wyoming by L. Benkobi, M. A. Rumble, C. H. Stubblefield, R. S. Garno, and J. J. Millspaugh

Ring-necked Pheasant Survive with Broken Wings by R. D. Applegate and L. Scott

First Nebraska Nest Record for Henslow's Sparrow by D. H. Kim

RangeE Extension …

A Comparison Of Diets And Water Agitation Methods For Larval Culture Of The Edible Sea Urchin, Tripneustes Ventricosus (Echinodermata: Echinoidea), Ray Wolcott, Charles G. Messing

Marine & Environmental Sciences Faculty Articles

Tripneustes ventricosus (Lamarck, 1816) has been harvested for human consumption in the Caribbean for centuries, where harvest rates occasionally exceed sustainability. Historically a backreef and grass-bed urchin, the species has recently been observed on the forereef where it appears to control macroalgal growth in the absence of Diadema antillarum (Philippi, 1845) (Woodley and Gayle, 1999). Large-scale culturing has the potential to produce T. ventricosus in sufficient numbers for remediation of degraded coral reefs, restocking of nearshore habitats, and development of an aquaculture industry for one or more Caribbean islands. We report the first successful culturing of T. ventricosus from fertilization …

Graduate Colloquium, Borbala Mazzag

Borbala Mazzag

No abstract provided.

Effect Of Melatonin And Dopamine In Site Specific Phosphorylation Of Phosducin In Intact Retina, Arinzechukwu Okere Nkemdirim

Theses and Dissertations

Phosducin (Pdc) is a 28 kDa binding partner for the G protein beta gamma subunit dimer (G-beta-gamma) found abundantly in the photoreceptor cells of the retina and pineal gland. In the retina, light-dependent changes in cAMP and Ca2+ control the phosphorylation of Pdc at serine 73 and 54, respectively, which in turn controls the binding of Pdc to G protein beta gamma subunit dimer . G protein beta gamma subunit dimer binding has been proposed to facilitate light-driven transport of G protein beta gamma subunit dimer from the site of phototransduction in the outer segment of the photoreceptor cell to …

Assessing The Health Of Fringing Salt Marshes Along The Fore River And Its Tributaries, Pamela A. Morgan, Lucas Curci, Cayce Dalton, Jeremy Miller

Environmental Studies Faculty Publications

Casco Bay has experienced two significant oil spills in recent history - the Tamano Tanker spill in 1972 and the Julie N spill in 1996. In addition, the Fore River and its tributaries have experienced numerous small spills over the years, including the August 2002 fuel oil spill (2,900 gallons) and the April 2003 jet fuel spill (6,000 gallons). The impacts of these spills on the fringing salt marshes that line the edges of the Fore River and its tributaries are not well understood. Are these salt marshes resilient enough to withstand these impacts and still act as healthy marshes …

Post-Translational Regulation Of Adipose Differentiation-Related Protein By The Ubiquitin/Proteasome Pathway, John Tansey

Chemistry Faculty Scholarship

Adipose differentiation-related protein (ADRP) is localized to lipid droplets in most mammalian cells. ADRP, proposed to regulate
fatty acid mobilization and lipid droplet formation, is linked to lipid accumulation in foam cells of human atherosclerotic
lesions. In this report, we show that ADRP protein accumulates in Chinese hamster ovary fibroblastic cells cultured in the
presence of oleic acid but is destabilized when fatty acid sources are removed from culture serum. The latter effect was blocked
by the proteasome inhibitor MG132, whereas inhibitors of other proteolytic processes were ineffective. Pulse-chase experiments
confirmed that ADRP degradation is inhibited by MG132. Conditions that …

Red Rock Desert Learning Center: The Vision, Red Rock Desert Learning Center

Oliver Ranch Project

To instill stewardship and respect by increasing knowledge and understanding of the Mojave Desert ecosystems and cultures through a unique experiential discovery program.

Day 3: Friday, 19 August 2005: Habitat Conservation Plans, Susan Linner, Anne Ruggles, Anne Winans

Endangered Species Act Congressional Field Tour (August 17-19)

5 pages (includes illustration).

Contains references.

Day 3: Friday, 19 August 2005: Section 7 Consultation, Susan Linner, Leslie Elwood, Steve Culver

Endangered Species Act Congressional Field Tour (August 17-19)

10 pages (includes color illustrations and map).

Contains references.

Day 2: Thursday, 18 August 2005: Colorado Native Aquatic Species Restoration Program, Dave Schnoor

Endangered Species Act Congressional Field Tour (August 17-19)

6 pages (includes illustrations).

Contains one reference.

Day 2: Thursday, 18 August 2005: Candidate Conservation Agreements And Collaborative Multi-Party Agreements, Al Pfister, Gary Skiba, Tim Lehmann

Endangered Species Act Congressional Field Tour (August 17-19)

8 pages (includes illustrations and maps).

Contains references.

Day 2: Thursday, 18 August 2005: Canada Lynx Reintroduction, Gary Skiba, Rob Edward, Bonnie Kline

Endangered Species Act Congressional Field Tour (August 17-19)

5 pages (includes some color illustrations and maps).

Contains references.

Day 2: Thursday, 18 August 2005: Upper Colorado River Endangered Fish Recovery Program, Bob Muth, Tom Pitts, Dan Luecke

Endangered Species Act Congressional Field Tour (August 17-19)

58 pages (includes illustrations and maps).

Contains references.

Agenda: Endangered Species Act Congressional Field Tour, University Of Colorado Boulder. Natural Resources Law Center

Endangered Species Act Congressional Field Tour (August 17-19)

The Center sponsored its third annual field tour for staff members of the United States Congress, the United States Environmental Protection Agency, and the Colorado state legislature.

Day 1: Wednesday, 17 August 2005: Introduction, Mark Squillace

Endangered Species Act Congressional Field Tour (August 17-19)

5 pages.

Contains references.

Day 1: Wednesday, 17 August 2005: Biodiversity And Critical Habitat, Charles Bedford, Federico Cheever, Tim Sullivan

Endangered Species Act Congressional Field Tour (August 17-19)

6 pages (includes color illustration).

Contains references.