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Prospective Doctoral Statement For The University Of Southern California's School Of Cinematic Arts Media Arts + Practice Program, Gabriel Leiner 2016 University of Southern California

Prospective Doctoral Statement For The University Of Southern California's School Of Cinematic Arts Media Arts + Practice Program, Gabriel Leiner

Gabriel Leiner

After visiting L.A. again and seeing the beautiful fountains on the University of Southern California's campus I am filled with all kinds of ideas about the future and brimming with energy. To all those at the University of Southern California's Cinematic Arts Department, thanks for reading my ideas over the past couple years and helping me to evolve and become a better person and a better writer. Starting a position as a doctoral student in the Media Arts + Practice Program in 2016 is an exciting opportunity. I've got a really positive outlook about Kiss The Water.


Interactive Effects Of Nitrogen And Phosphorus On Soil Microbial Communities In A Tropical Forest, Lei Liu, Tao Zhang, Frank S. Gilliam, Per Gundersen, Wei Zhang, Hao Chen, Jiangming Mo 2016 Marshall University

Interactive Effects Of Nitrogen And Phosphorus On Soil Microbial Communities In A Tropical Forest, Lei Liu, Tao Zhang, Frank S. Gilliam, Per Gundersen, Wei Zhang, Hao Chen, Jiangming Mo

Frank S. Gilliam

Elevated nitrogen (N) deposition in humid tropical regions may exacerbate phosphorus (P) deficiency in forests on highly weathered soils. However, it is not clear how P availability affects soil microbes and soil carbon (C), or how P processes interact with N deposition in tropical forests. We examined the effects of N and P additions on soil microbes and soil C pools in a N-saturated old-growth tropical forest in southern China to test the hypotheses that (1) N and P addition will have opposing effects on soil microbial biomass and activity, (2) N and P addition will alter the composition of ...


Changes In Soil Carbon Sequestration In Pinus Massoniana Forests Along An Urban-To-Rural Gradient Of Southern China, H. Chen, W. Zhang, Frank S. Gilliam, L. Liu, J. Huang, T. Zhang, W. Wang, J. Mo 2016 Marshall University

Changes In Soil Carbon Sequestration In Pinus Massoniana Forests Along An Urban-To-Rural Gradient Of Southern China, H. Chen, W. Zhang, Frank S. Gilliam, L. Liu, J. Huang, T. Zhang, W. Wang, J. Mo

Frank S. Gilliam

Urbanization is accelerating globally, causing a variety of environmental changes such as increases in air temperature, precipitation, atmospheric CO2, and nitrogen (N) deposition. However, the effects of these changes on forest soil carbon (C) sequestration remain largely unclear. Here, we used urban-to-rural environmental gradients in Guangdong Province, southern China, to address the potential effects of these environmental changes on soil C sequestration in Pinus massoniana forests. In contrast to our expectations and earlier observations, soil C content in urban sites was significantly lower than that in suburban and rural sites. Lower soil C pools in urban sites were correlated ...


New Clues To A Mass Extinction: Colby Geologist Robert Gastaldo And Student Researchers Unearth Evidence That Contradicts Prevailing Models About Ancient Die-Offs, Stephen Collins 2016 Colby College

New Clues To A Mass Extinction: Colby Geologist Robert Gastaldo And Student Researchers Unearth Evidence That Contradicts Prevailing Models About Ancient Die-Offs, Stephen Collins

Colby Magazine

Colby geologists are rewriting deep time history, altering the script of how scientists understand the mother of all mass extinctions—the End-Permian event that occurred approximately 252 million years ago. Or to suggest that they don’t, in fact, understand it.


Density, Abundance, And Habitat Associations Of The Inland Swamp Sparrow (Melospiza Georgiana Georgiana) In Iowa, Tyler Harms, Stephen Dinsmore 2016 Iowa State University

Density, Abundance, And Habitat Associations Of The Inland Swamp Sparrow (Melospiza Georgiana Georgiana) In Iowa, Tyler Harms, Stephen Dinsmore

Tyler Harms

Wetlands continue to decline throughout North America and the Prairie Pothole Region, thus emphasizing the importance of understanding population trends and habitat associations of wetland species to ensure effective conservation and habitat management of those species. We estimated density and abundance and evaluated habitat associations of the Inland Swamp Sparrow (Melospiza georgiana georgiana) in Iowa. We conducted standardized distance sampling surveys for Swamp Sparrows and measured habitat characteristics at 307 wetlands in two regions of Iowa in 2009 and 2010. We used Program Distance to model detection probability and estimate region-specific breeding densities of Swamp Sparrows at Iowa wetlands. We ...


A Systems Approach To Animal Communication, Eileen A. Hebets, Andrew B. Barron, Christopher N. Balakrishnan, Mark E. Hauber, Paul H. Mason, Kim L. Hoke 2016 University of Nebraska-Lincoln

A Systems Approach To Animal Communication, Eileen A. Hebets, Andrew B. Barron, Christopher N. Balakrishnan, Mark E. Hauber, Paul H. Mason, Kim L. Hoke

Eileen Hebets Publications

Why animal communication displays are so complex and how they have evolved are active foci of research with a long and rich history. Progress towards an evolutionary analysis of signal complexity, however, has been constrained by a lack of hypotheses to explain similarities and/or differences in signalling systems across taxa. To address this, we advocate incorporating a systems approach into studies of animal communication—an approach that includes comprehensive experimental designs and data collection in combination with the implementation of systems concepts and tools. A systems approach evaluates overall display architecture, including how components interact to alter function, and ...


A Continental Analysis Of Ecosystem Vulnerability To Atmospheric Nitrogen Deposition, Samuel M. Simkin, Edith B. Allen, William D. Bowman, Christopher M. Clark, Jayne Belnap, Matthew L. Brooks, Brian S. Cade, Scott L. Collins, Linda H. Geiser, Frank S. Gilliam, Sarah E. Jovan, Linda H. Pardo, Bethany K. Schulz, Carly J. Stevens, Katharine N. Suding, Heather L. Throop, Donald M. Waller 2016 Marshall University

A Continental Analysis Of Ecosystem Vulnerability To Atmospheric Nitrogen Deposition, Samuel M. Simkin, Edith B. Allen, William D. Bowman, Christopher M. Clark, Jayne Belnap, Matthew L. Brooks, Brian S. Cade, Scott L. Collins, Linda H. Geiser, Frank S. Gilliam, Sarah E. Jovan, Linda H. Pardo, Bethany K. Schulz, Carly J. Stevens, Katharine N. Suding, Heather L. Throop, Donald M. Waller

Biological Sciences Faculty Research

Atmospheric nitrogen (N) deposition has been shown to decrease plant species richness along regional deposition gradients in Europe and in experimental manipulations. However, the general response of species richness to N deposition across different vegetation types, soil conditions, and climates remains largely unknown even though responses may be contingent on these environmental factors. We assessed the effect of N deposition on herbaceous richness for15,136 forest, woodland, shrubland, and grassland sites across the continental United States, to address how edaphic and climatic conditions altered vulnerability to this stressor. In our dataset, with N deposition ranging from 1 to 19 kg ...


Genetic Diversity Provides A Useful Measure Of Environmental Impacts, Dan Krane 2016 Wright State University - Main Campus

Genetic Diversity Provides A Useful Measure Of Environmental Impacts, Dan Krane

Dan E. Krane

No abstract provided.


Time For Dna Database Disclosure, Dan Krane 2016 Wright State University - Main Campus

Time For Dna Database Disclosure, Dan Krane

Dan E. Krane

It was apparent from the start that the FBI's allele frequency tables would be relied upon for many tens of thousands of statistical calculations in criminal cases across the United States since 1999. Unusual care should have been taken to ensure that the underlying data would be free from human error due to manual data editing and recording and data processing errors (e.g. genotype duplications).


Evaluating Forensic Dna Evidence, Dan Krane, William Thompson 2016 Wright State University - Main Campus

Evaluating Forensic Dna Evidence, Dan Krane, William Thompson

Dan E. Krane

No abstract provided.


Evaluating Forensic Dna Evidence, Dan Krane 2016 Wright State University - Main Campus

Evaluating Forensic Dna Evidence, Dan Krane

Dan E. Krane

No abstract provided.


Evaluating Forensic Dna Evidence, Dan Krane 2016 Wright State University - Main Campus

Evaluating Forensic Dna Evidence, Dan Krane

Dan E. Krane

No abstract provided.


Suppression Of F1 Male-Specific Lethality In Caenorhabditis Hybrids By Cbr-Him-8, Vaishnavi Ragavapuram, Emily King, Scott Baird 2016 Wright State University - Main Campus

Suppression Of F1 Male-Specific Lethality In Caenorhabditis Hybrids By Cbr-Him-8, Vaishnavi Ragavapuram, Emily King, Scott Baird

Scott Everet Baird

Haldane's Rule and Darwin's Corollary to Haldane's Rule are the observations that heterogametic F1 hybrids frequently are less fit than their homogametic siblings and that asymmetric results often are obtained from reciprocal hybrid crosses. In Caenorhabditis, Haldane's Rule and Darwin's Corollary have been observed in several hybrid crosses, including crosses of Caenorhabditis briggsae and Caenorhabditis nigoni. Fertile F1 females are obtained from reciprocal crosses. However, F1 males obtained from C. nigoni mothers are sterile and F1 males obtained from C. briggsae die during embryogenesis. We have identified cbr-him-8 as a recessive maternal-effect suppressor of F1 ...


Extremely Long-Range Chromatin Loops Link Topological Domains To Facilitate A Diverse Antibody Repertoire, Lindsey Montefiori, Robert Wuerffel, Damian Roqueiro, Bryan R. Lajoie, Changying Guo, Tatiana Gerasimova, Supriyo De, William Wood, Kevin G. Becker, Job Dekker, Jie Liang, Ranjan Sen, Amy L. Kenter 2016 National Institute on Aging

Extremely Long-Range Chromatin Loops Link Topological Domains To Facilitate A Diverse Antibody Repertoire, Lindsey Montefiori, Robert Wuerffel, Damian Roqueiro, Bryan R. Lajoie, Changying Guo, Tatiana Gerasimova, Supriyo De, William Wood, Kevin G. Becker, Job Dekker, Jie Liang, Ranjan Sen, Amy L. Kenter

Program in Systems Biology Publications and Presentations

Early B cell development is characterized by large-scale Igh locus contraction prior to V(D)J recombination to facilitate a highly diverse Ig repertoire. However, an understanding of the molecular architecture that mediates locus contraction remains unclear. We have combined high-resolution chromosome conformation capture (3C) techniques with 3D DNA FISH to identify three conserved topological subdomains. Each of these topological folds encompasses a major VH gene family that become juxtaposed in pro-B cells via megabase-scale chromatin looping. The transcription factor Pax5 organizes the subdomain that spans the VHJ558 gene family. In its absence, the J558 VH genes fail to associate ...


Evolutionary Analysis Across Mammals Reveals Distinct Classes Of Long Non-Coding Rnas, Jenny Chen, Alexander A. Shishkin, Xiaopeng Zhu, Sabah Kadri, Itay Maza, Mitchell Guttman, Jacob H. Hanna, Aviv Regev, Manuel Garber 2016 Broad Institute of MIT and Harvard

Evolutionary Analysis Across Mammals Reveals Distinct Classes Of Long Non-Coding Rnas, Jenny Chen, Alexander A. Shishkin, Xiaopeng Zhu, Sabah Kadri, Itay Maza, Mitchell Guttman, Jacob H. Hanna, Aviv Regev, Manuel Garber

Program in Bioinformatics and Integrative Biology Publications and Presentations

BACKGROUND: Recent advances in transcriptome sequencing have enabled the discovery of thousands of long non-coding RNAs (lncRNAs) across many species. Though several lncRNAs have been shown to play important roles in diverse biological processes, the functions and mechanisms of most lncRNAs remain unknown. Two significant obstacles lie between transcriptome sequencing and functional characterization of lncRNAs: identifying truly non-coding genes from de novo reconstructed transcriptomes, and prioritizing the hundreds of resulting putative lncRNAs for downstream experimental interrogation.

RESULTS: We present slncky, a lncRNA discovery tool that produces a high-quality set of lncRNAs from RNA-sequencing data and further uses evolutionary constraint to ...


The Paradox Of Muscle Hypertrophy In Muscular Dystrophy., Joe Kornegay, Martin Childers, Daniel Bogan, Janet Bogan, Peter Nghiem, JiaHui Wang, Zheng Fan, James Howard, Scott Schatzberg, Jennifer Dow, Robert Grange, Martin Styner, Eric Hoffman, Kathryn Wagner 2016 University of North Carolina at Chapel Hill

The Paradox Of Muscle Hypertrophy In Muscular Dystrophy., Joe Kornegay, Martin Childers, Daniel Bogan, Janet Bogan, Peter Nghiem, Jiahui Wang, Zheng Fan, James Howard, Scott Schatzberg, Jennifer Dow, Robert Grange, Martin Styner, Eric Hoffman, Kathryn Wagner

Dow Scott

No abstract provided.


Parts Of The Whole: Teaching Quantitative Reasoning In The Predator-Prey Model, Dorothy Wallace 2016 Dartmouth College

Parts Of The Whole: Teaching Quantitative Reasoning In The Predator-Prey Model, Dorothy Wallace

Numeracy

The classical predator-prey equations are in nearly every differential equations text and mathematical biology text. Usually they are presented fait accompli, leaving the student to analyze them or play with a computer program. Here we show that the process of fully understanding where these equations come from and how they are derived provides numerous opportunities to teach or reinforce quantitative reasoning skills necessary to future scientists. This example is used to invoke logic, systems thinking, causal reasoning, understanding functions of one or more variables, quantities versus rates of change, proportional reasoning, unit analysis, and comparison to data.


Exploring The Impact Of The E. Coli Proteostasis Network On The Folding Fate Of Proteins With Different Intrinsic Biophysical Properties, Kristine Faye R. Pobre 2016 University of Massachusetts - Amherst

Exploring The Impact Of The E. Coli Proteostasis Network On The Folding Fate Of Proteins With Different Intrinsic Biophysical Properties, Kristine Faye R. Pobre

Doctoral Dissertations May 2014 - current

The three-dimensional (3D) native structure of most proteins is crucial for their functions. Despite the complex cellular environment and the variety of challenges that proteins experience as they fold, proteins can still fold to their native states with high fidelity. The reason for this is the presence of the cellular proteostasis network (PN), consisting of molecular chaperones and degradation enzymes, that collaborates to maintain proteostasis, in which the necessary levels of functional proteins are optimized. Although extensive research has been carried out on the mechanisms of individual components of the proteostasis network, little is known about how these components contribute ...


Metataxonomic And Metagenomic Approaches Vs. Culture-Based Techniques For Clinical Pathology., Sarah K. Hilton, Eduardo Castro-Nallar, Marcos Pérez-Losada, Ian Toma, Timothy A. McCaffrey, Eric P. Hoffman, Marc O. Siegel, Gary L. Simon, W. Evan Johnson, Keith Crandall 2016 George Washington University

Metataxonomic And Metagenomic Approaches Vs. Culture-Based Techniques For Clinical Pathology., Sarah K. Hilton, Eduardo Castro-Nallar, Marcos Pérez-Losada, Ian Toma, Timothy A. Mccaffrey, Eric P. Hoffman, Marc O. Siegel, Gary L. Simon, W. Evan Johnson, Keith Crandall

Integrative Systems Biology Faculty Publications

Diagnoses that are both timely and accurate are critically important for patients with life-threatening or drug resistant infections. Technological improvements in High-Throughput Sequencing (HTS) have led to its use in pathogen detection and its application in clinical diagnoses of infectious diseases. The present study compares two HTS methods, 16S rRNA marker gene sequencing (metataxonomics) and whole metagenomic shotgun sequencing (metagenomics), in their respective abilities to match the same diagnosis as traditional culture methods (culture inference) for patients with ventilator associated pneumonia (VAP). The metagenomic analysis was able to produce the same diagnosis as culture methods at the species-level for five ...


Suppression Of F1 Male-Specific Lethality In Caenorhabditis Hybrids By Cbr-Him-8, Vaishnavi Ragavapuram, Emily Elaine King, Scott Everet Baird 2015 Wright State University - Main Campus

Suppression Of F1 Male-Specific Lethality In Caenorhabditis Hybrids By Cbr-Him-8, Vaishnavi Ragavapuram, Emily Elaine King, Scott Everet Baird

Biological Sciences Faculty Publications

Haldane's Rule and Darwin's Corollary to Haldane's Rule are the observations that heterogametic F1 hybrids frequently are less fit than their homogametic siblings and that asymmetric results often are obtained from reciprocal hybrid crosses. In Caenorhabditis, Haldane's Rule and Darwin's Corollary have been observed in several hybrid crosses, including crosses of Caenorhabditis briggsae and Caenorhabditis nigoni. Fertile F1 females are obtained from reciprocal crosses. However, F1 males obtained from C. nigoni mothers are sterile and F1 males obtained from C. briggsae die during embryogenesis. We have identified cbr-him-8 as a recessive maternal-effect suppressor of F1 ...


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