Digital Commons Network^™

The Principled Control Of False Positives In Neuroimaging, Craig M. Bennett, George L. Wolford, Michael B. Miller

Dartmouth Scholarship

An incredible amount of data is generated in the course of a functional neuroimaging experiment. The quantity of data gives us improved temporal and spatial resolution with which to evaluate our results. It also creates a staggering multiple testing problem. A number of methods have been created that address the multiple testing problem in neuroimaging in a principled fashion. These methods place limits on either the familywise error rate (FWER) or the false discovery rate (FDR) of the results. These principled approaches are well established in the literature and are known to properly limit the amount of false positives across …

Mir319a Targeting Of Tcp4 Is Critical For Petal Growth And Development In Arabidopsis, Anwesha Nag, Stacey King, Thomas Jack

Dartmouth Scholarship

In a genetic screen in a drnl-2 background, we isolated a loss-of-function allele in miR319a (miR319a¹²⁹). Previously, miR319a has been postulated to play a role in leaf development based on the dramatic curled-leaf phenotype of plants that ectopically express miR319a (jaw-D). miR319a¹²⁹ mutants exhibit defects in petal and stamen development; petals are narrow and short, and stamens exhibit defects in anther development. The miR319a¹²⁹ loss-of-function allele contains a single-base change in the middle of the encoded miRNA, which reduces the ability of miR319a to recognize targets. Analysis of the expression patterns of the …

Proteolytic Regulation Of Toxin-Antitoxin Systems By Clppc In Staphylococcus Aureus, Niles P. Donegan, Earl T. Thompson, Zhibiao Fu, Ambrose L. Cheung

Dartmouth Scholarship

Bacterial toxin-antitoxin (TA) systems typically consist of a small, labile antitoxin that inactivates a specific longer-lived toxin. In Escherichia coli, such antitoxins are proteolytically regulated by the ATP-dependent proteases Lon and ClpP. Under normal conditions, antitoxin synthesis is sufficient to replace this loss from proteolysis, and the bacterium remains protected from the toxin. However, if TA production is interrupted, antitoxin levels decrease, and the cognate toxin is free to inhibit the specific cellular component, such as mRNA, DnaB, or gyrase. To date, antitoxin degradation has been studied only in E. coli, so it remains unclear whether similar mechanisms of regulation …

Gbdr Regulates Pseudomonas Aeruginosa Plch And Pchp Transcription In Response To Choline Catabolites, Matthew J. Wargo, Tiffany C. Ho, Maegan J. Gross, Laurie A. Whittaker, Deborah A. Hogan

Dartmouth Scholarship

Pseudomonas aeruginosa hemolytic phospholipase C, PlcH, can degrade phosphatidylcholine (PC) and sphingomyelin in eukaryotic cell membranes and extracellular PC in lung surfactant. Numerous studies implicate PlcH in P. aeruginosa virulence. The phosphorylcholine released by PlcH activity on phospholipids is hydrolyzed by a periplasmic phosphorylcholine phosphatase, PchP. Both plcH gene expression and PchP enzyme activity are positively regulated by phosphorylcholine degradation products, including glycine betaine. Here we report that the induction of plcH and pchP transcription by glycine betaine is mediated by GbdR, an AraC family transcription factor. Mutants that lack gbdR are unable to induce plcH and pchP in media …

The Acs Survey Of Galactic Globular Clusters. Ix. Horizontal Branch Morphology And The Second Parameter Phenomenon, Aaron Dotter, Ata Sarajedini, Jay Anderson, Antonio Aparicio, Luigi R. Bedin, Brian Chaboyer

Dartmouth Scholarship

The horizontal branch (HB) morphology of globular clusters (GCs) is most strongly influenced by metallicity. The second parameter phenomenon, first described in the 1960s, acknowledges that metallicity alone is not enough to describe the HB morphology of all GCs. In particular, astronomers noticed that the outer Galactic halo contains GCs with redder HBs at a given metallicity than are found inside the solar circle. Thus, at least a second parameter was required to characterize HB morphology. While the term "second parameter" has since come to be used in a broader context, its identity with respect to the original problem has …

Automatic Exposure Control And Estimation Of Effective System Noise In Diffuse Fluorescence Tomography, Dax L. Kepshire, Hamid Dehghani, Frederic Leblond, Brian W. Pogue

Dartmouth Scholarship

A diffuse fluorescence tomography system, based upon time-correlated single photon counting, is presented with an automated algorithm to allow dynamic range variation through exposure control. This automated exposure control allows the upper and lower detection levels of fluorophore to be extended by an order of magnitude beyond the previously published performance and benefits in a slight decrease in system effective noise. The effective noise level is used as a metric to characterize the system performance, integrating both model-mismatch and calibration bias errors into a single parameter. This effective error is near 7% of the reconstructed fluorescent yield value, when imaging …

General Theory Of Oscillon Dynamics, Marcelo Gleiser, David Sicilia

Dartmouth Scholarship

We present a comprehensive, nonperturbative analytical method to investigate the dynamics of time-dependent oscillating scalar field configurations. The method is applied to oscillons in a φ⁴ Klein-Gordon model in two and three spatial dimensions, yielding high accuracy results in the characterization of all aspects of the complex oscillon dynamics. In particular, we show how oscillons can be interpreted as long-lived perturbations about an attractor in field configuration space. By investigating their radiation rate as they approach the attractor, we obtain an accurate estimate of their lifetimes in d = 3 and explain why they seem to be perturbatively stable …

Brain‐Mind And Structure‐Function Relationships: A Methodological Response To Coltheart, Adina L. Roskies

Dartmouth Scholarship

In some recent papers, Max Coltheart has questioned the ability of neuroimaging techniques to tell us anything interesting about the mind and has thrown down the gauntlet before neuroimagers, challenging them to prove he is mistaken. Here I analyze Coltheart’s challenge, show that as posed its terms are unfair, and reconstruct it so that it is addressable. I argue that, so modified, Coltheart’s challenge is able to be met and indeed has been met. In an effort to delineate the extent of neuroimaging’s ability to address Coltheart’s concerns, I explore how different brain structure‐function relationships would constrain the ability of …

Face Gender And Emotion Expression: Are Angry Women More Like Men?, Ursula Hess, Reginald B. Adams, Karl Grammer, Robert E. Kleck

Dartmouth Scholarship

Certain features of facial appearance perceptually resemble expressive cues related to facial displays of emotion. We hypothesized that because expressive markers of anger (such as lowered eyebrows) overlap with perceptual markers of male sex, perceivers would identify androgynous angry faces as more likely to be a man than a woman (Study 1) and would be slower to classify an angry woman as a woman than an angry man as a man (Study 2). Conversely, we hypothesized that because perceptual features of fear (raised eyebrows) and happiness (a rounded smiling face) overlap with female sex markers, perceivers would be more likely …

Ceramide Kinase Regulates Phospholipase C And Phosphatidylinositol 4, 5, Bisphosphate In Phototransduction, Ujjaini Dasgupta, Takeshi Bamba, Salvatore Chiantia, Pusha Karim, Ahmad N. Abou Tayoun

Dartmouth Scholarship

Phosphoinositide-specific phospholipase C (PLC) is a central effector for many biological responses regulated by G-protein-coupled receptors including Drosophila phototransduction where light sensitive channels are activated downstream of NORPA, a PLCbeta homolog. Here we show that the sphingolipid biosynthetic enzyme, ceramide kinase, is a novel regulator of PLC signaling and photoreceptor homeostasis. A mutation in ceramide kinase specifically leads to proteolysis of NORPA, consequent loss of PLC activity, and failure in light signal transduction. The mutant photoreceptors also undergo activity-dependent degeneration. Furthermore, we show that a significant increase in ceramide, resulting from lack of ceramide kinase, perturbs the membrane microenvironment of …

A Functional Role For The Ventrolateral Prefrontal Cortex In Non-Spatial Auditory Cognition, Y. E. Cohen, B. E. Russ, S. J. Davis, A. E. Baker, A. L. Ackelson, R. Niteck

Dartmouth Scholarship

Spatial and non-spatial sensory information is hypothesized to be evaluated in parallel pathways. In this study, we tested the spatial and non-spatial sensitivity of auditory neurons in the ventrolateral prefrontal cortex (vPFC), a cortical area in the non-spatial pathway. Activity was tested while non-human primates reported changes in an auditory stimulus' spatial or non-spatial features. We found that vPFC neurons were reliably modulated during a non-spatial auditory task but were not modulated during a spatial auditory task. The degree of modulation during the non-spatial task correlated positively with the monkeys' behavioral performance. These results are consistent with the hypotheses that …

User Survey Regarding The Needs Of Network Researchers In Trace-Anonymization Tools, Jihwang Yeo, Keren Tan, David Kotz

Computer Science Technical Reports

To understand the needs of network researchers in an anonymization tool, we conducted a survey on the network researchers. We invited network researchers world-wide to the survey by sending invitation emails to well-known mailing lists whose subscribers may be interested in network research with collecting, sharing and sanitizing network traces.

Quantifying And Resolving Multiple Vector Transformants In S. Cerevisiae Plasmid Libraries, Thomas C. Scanlon, Elizabeth C. Gray, Karl E. Griswold

Dartmouth Scholarship

In addition to providing the molecular machinery for transcription and translation, recombinant microbial expression hosts maintain the critical genotype-phenotype link that is essential for high throughput screening and recovery of proteins encoded by plasmid libraries. It is known that Escherichia coli cells can be simultaneously transformed with multiple unique plasmids and thusly complicate recombinant library screening experiments. As a result of their potential to yield misleading results, bacterial multiple vector transformants have been thoroughly characterized in previous model studies. In contrast to bacterial systems, there is little quantitative information available regarding multiple vector transformants in yeast. Saccharomyces cerevisiae is the …

Nmr Multiple Quantum Coherences In Quasi-One-Dimensional Spin Systems: Comparison With Ideal Spin-Chain Dynamics, Wenxian Zhang, Paola Cappellaro, Natania Antler, Brian Pepper, David G. Cory, Viatcheslav V. Dobrovitski, Chandrasekhar Ramanathan, Lorenza Viola

Dartmouth Scholarship

The ¹⁹F spins in a crystal of fluorapatite have often been used to experimentally approximate a one-dimensional spin system. Under suitable multipulse control, the nuclear-spin dynamics may be modeled to first approximation by a double-quantum one-dimensional Hamiltonian, which is analytically solvable for nearest-neighbor couplings. Here, we use solid-state nuclear magnetic resonance techniques to investigate the multiple quantum coherence dynamics of fluorapatite, with an emphasis on understanding the region of validity for such a simplified picture. Using experimental, numerical, and analytical methods, we explore the effects of long-range intrachain couplings, cross-chain couplings, as well as couplings to a spin environment, …

Counting 1324, 4231-Avoiding Permutations, Michael H. Albert, M. D. Atkinson, Vincent Vatter

Dartmouth Scholarship

A complete structural description and enumeration is found for permutations that avoid both 1324 and 4231.

A Privacy Framework For Mobile Health And Home-Care Systems, David Kotz, Sasikanth Avancha, Amit Baxi

Dartmouth Scholarship

In this paper, we consider the challenge of preserving patient privacy in the context of mobile healthcare and home-care systems, that is, the use of mobile computing and communications technologies in the delivery of healthcare or the provision of at-home medical care and assisted living. This paper makes three primary contributions. First, we compare existing privacy frameworks, identifying key differences and shortcomings. Second, we identify a privacy framework for mobile healthcare and home-care systems. Third, we extract a set of privacy properties intended for use by those who design systems and applications for mobile healthcare and home-care systems, linking them …

Mpcs: Mobile-Based Patient Compliance System For Chronic Illness Care, Guanling Chen, Bo Yan, Minho Shin, David Kotz, Ethan Burke

Dartmouth Scholarship

More than 100 million Americans are currently living with at least one chronic health condition and expenditures on chronic diseases account for more than 75 percent of the $2.3 trillion cost of our healthcare system. To improve chronic illness care, patients must be empowered and engaged in health self-management. However, only half of all patients with chronic illness comply with treatment regimen. The self-regulation model, while seemingly valuable, needs practical tools to help patients adopt this self-centered approach for long-term care. \par In this position paper, we propose Mobile-phone based Patient Compliance System (MPCS) that can reduce the time-consuming and …

A Comparison Of Frequentist And Bayesian Approaches To The Estimation Of Long-Stay Per-Diems, Jeff Hatcher, Jason M. Sutherland

Dartmouth Scholarship

Within many diagnosis related group (DRG) systems, there is recognition that a single cost weight per DRG is not suitable, and that cost weights should take into account extremely lengthy hospital stays. Long lengths of stay are considered to be due to factors largely beyond the control of the hospital, and a single weight per DRG would potentially place hospitals under financial risk.

Within Canada's acute-care, inpatient grouping methodology - Case Mix Groups (CMG+) - long-stay episodes represent approximately 4.5% of all discharges. Within a CMG (analogous to DRG), the cost weight assigned to long-stay cases consists of the typical …

Damping And Decoherence Of A Nanomechanical Resonator Due To A Few Two-Level Systems, Laura G. Remus, Miles P. Blencowe, Yukihiro Tanaka

Dartmouth Scholarship

We consider a quantum model of a nanomechanical flexing beam resonator interacting with a bath comprising a few damped tunneling two-level systems. In contrast with a resonator interacting bilinearly with an ohmic free oscillator bath (modeling clamping loss, for example), the mechanical resonator damping is amplitude dependent, while the decoherence of quantum superpositions of mechanical position states depends only weakly on their spatial separation.

Katana: A Hot Patching Framework For Elf Executables, Ashwin Ramaswamy, Sergey Bratus, Michael E. Locasto, Sean W. Smith

Computer Science Technical Reports

Despite advances in software modularity, security, and reliability, offline patching remains the predominant form of updating or protecting commodity software. Unfortunately, the mechanics of hot patching (the process of upgrading a program while it executes) remain understudied, even though such a capability offers practical benefits for both consumer and mission-critical systems. A reliable hot patching procedure would serve particularly well by reducing the downtime necessary for critical functionality or security upgrades. Yet, hot patching also carries the risk -- real or perceived -- of leaving the system in an inconsistent state, which leads many owners to forego its benefits as …

Decreased Replication Origin Activity In Temporal Transition Regions, Zeqiang Guan, Christina M. Hughes, Settapong Kosiyatrakul, Paolo Norio, Ranjan Sen, Steven Fiering

Dartmouth Scholarship

In the mammalian genome, early- and late-replicating domains are often separated by temporal transition regions (TTRs) with novel properties and unknown functions. We identified a TTR in the mouse immunoglobulin heavy chain (Igh) locus, which contains replication origins that are silent in embryonic stem cells but activated during B cell development. To investigate which factors contribute to origin activation during B cell development, we systematically modified the genetic and epigenetic status of the endogenous Igh TTR and used a single-molecule approach to analyze DNA replication. Introduction of a transcription unit into the Igh TTR, activation of gene transcription, …

Microevolution And Macroevolution Are Governed By The Same Processes, Michael Dietrich

Dartmouth Scholarship

This collection of specially commissioned essays puts top scholars head to head to debate the central issues in the lively and fast growing field of philosophy of biology Brings together original essays on ten of the most hotly debated ...

Activity-Aware Ecg-Based Patient Authentication For Remote Health Monitoring, Janani Sriram, Minho Shin, Tanzeem Choudhury, David Kotz

Dartmouth Scholarship

Mobile medical sensors promise to provide an efficient, accurate, and economic way to monitor patients' health outside the hospital. Patient authentication is a necessary security requirement in remote health monitoring scenarios. The monitoring system needs to make sure that the data is coming from the right person before any medical or financial decisions are made based on the data. Credential-based authentication methods (e.g., passwords, certificates) are not well-suited for remote healthcare as patients could hand over credentials to someone else. Furthermore, one-time authentication using credentials or trait-based biometrics (e.g., face, fingerprints, iris) do not cover the entire monitoring period and …

Activity-Aware Ecg-Based Patient Authentication For Remote Health Monitoring, Janani Sriram, Minho Shin, Tanzeem Choudhury, David Kotz

Dartmouth Scholarship

Mobile medical sensors promise to provide an efficient, accurate, and economic way to monitor patients' health outside the hospital. Patient authentication is a necessary security requirement in remote health monitoring scenarios. The monitoring system needs to make sure that the data is coming from the right person before any medical or financial decisions are made based on the data. Credential-based authentication methods (e.g., passwords, certificates) are not well-suited for remote healthcare as patients could hand over credentials to someone else. Furthermore, one-time authentication using credentials or trait-based biometrics (e.g., face, fingerprints, iris) do not cover the entire monitoring period and …

Levels Of The Secreted Vibrio Cholerae Attachment Factor Gbpa Are Modulated By Quorum-Sensing-Induced Proteolysis, Brooke A. Jude, Raquel M. Martinez, Karen Skorupski, Ronald K. Taylor

Dartmouth Scholarship

Vibrio cholerae is the etiologic agent of cholera in humans. Intestinal colonization occurs in a stepwise fashion, initiating with attachment to the small intestinal epithelium. This attachment is followed by expression of the toxin-coregulated pilus, microcolony formation, and cholera toxin (CT) production. We have recently characterized a secreted attachment factor, GlcNAc binding protein A (GbpA), which functions in attachment to environmental chitin sources as well as to intestinal substrates. Studies have been initiated to define the regulatory network involved in GbpA induction. At low cell density, GbpA was detected in the culture supernatant of all wild-type (WT) strains examined. In …

Human Uterine Natural Killer Cells But Not Blood Natural Killer Cells Inhibit Human Immunodeficiency Virus Type 1 Infection By Secretion Of Cxcl12, Teddy F. Mselle, Aexandra L. Howell, Mimi Ghosh, Charles R. Wira, Charles L. Sentman

Dartmouth Scholarship

Natural killer (NK) cells derived from the human female reproductive tract (FRT) are phenotypically and functionally distinct from those obtained from peripheral blood. Because the FRT is a primary site of human immunodeficiency virus type 1 (HIV-1) infection in women, we determined whether soluble factors secreted by uterine-derived NK (uNK) cells inhibit HIV-1 infection. Clonal populations of uNK cells were activated with interleukin-12 (IL-12) and IL-15, and conditioned media (CM) from these cultures evaluated for their ability to inhibit infection of cells by HIV-1_IIIB, HIV-1_NL4.3, and HIV-1_HC4 (X4-tropic) or HIV-1_BaL (R5-tropic) viruses. We found …

Wnt Pathway Reprogramming During Human Embryonal Carcinoma Differentiation And Potential For Therapeutic Targeting, Grace E. Snow, Allison C. Kasper, Alexander M. Busch, Elisabeth Schwarz, Katherine E. Ewings, Thomas Bee, Michael J. Spinella, Ethan Dmitrovsky, Sarah J. Freemantle

Dartmouth Scholarship

Testicular germ cell tumors (TGCTs) are classified as seminonas or non-seminomas of which a major subset is embryonal carcinoma (EC) that can differentiate into diverse tissues. The pluripotent nature of human ECs resembles that of embryonic stem (ES) cells. Many Wnt signalling species are regulated during differentiation of TGCT-derived EC cells. This study comprehensively investigated expression profiles of Wnt signalling components regulated during induced differentiation of EC cells and explored the role of key components in maintaining pluripotency.

Effects Of Gravitational Slip On The Higher-Order Moments Of The Matter Distribution, Scott F. Daniel

Dartmouth Scholarship

Cosmological departures from general relativity offer a possible explanation for the cosmic acceleration. To linear order, these departures (quantified by the model-independent parameter ϖ, referred to as a “gravitational slip”) amplify or suppress the growth of structure in the universe relative to what we would expect to see from a general relativistic universe lately dominated by a cosmological constant. As structures collapse and become more dense, linear perturbation theory is an inadequate descriptor of their behavior, and one must extend calculations to nonlinear order. If the effects of gravitational slip extend to these higher orders, we might expect to see …

Sarz Promotes The Expression Of Virulence Factors And Represses Biofilm Formation By Modulating Sara And Agr In Staphylococcus Aureus, Sandeep Tamber, Ambrose L. Cheung

Dartmouth Scholarship

Staphylococcus aureus is a remarkably adaptable organism capable of multiple modes of growth in the human host, as a part of the normal flora, as a pathogen, or as a biofilm. Many of the regulatory pathways governing these modes of growth are centered on the activities of two regulatory molecules, the DNA binding protein SarA and the regulatory RNAIII effector molecule of the agr system. Here, we describe the modulation of these regulators and their downstream target genes by SarZ, a member of the SarA/MarR family of transcriptional regulators. Transcriptional and phenotypic analyses of a sarZ mutant demonstrated that the …

Integral Membrane Proteins Brr6 And Apq12 Link Assembly Of The Nuclear Pore Complex To Lipid Homeostasis In The Endoplasmic Reticulum, Christine A. Hodge, Vineet Choudhary, Michael J. Wolyniak, John J. Scarcelli, Roger Schneiter, Charles N. Cole

Dartmouth Scholarship

Cells of Saccharomyces cerevisiae lacking Apq12, a nuclear envelope (NE)-endoplasmic reticulum (ER) integral membrane protein, are defective in assembly of nuclear pore complexes (NPCs), possibly because of defects in regulating membrane fluidity. We identified BRR6, which encodes an essential integral membrane protein of the NE-ER, as a dosage suppressor of apq12 Delta. Cells carrying the temperature-sensitive brr6-1 allele have been shown to have defects in nucleoporin localization, mRNA metabolism and nuclear transport. Electron microscopy revealed that brr6-1 cells have gross NE abnormalities and proliferation of the ER. brr6-1 cells were hypersensitive to compounds that affect membrane biophysical properties and to …