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Articles 142201 - 142230 of 302928

Full-Text Articles in Physical Sciences and Mathematics

Development And Application Of Mass Spectrometry-Based Biophysical Approaches, Ying Zhang May 2015

Development And Application Of Mass Spectrometry-Based Biophysical Approaches, Ying Zhang

Arts & Sciences Electronic Theses and Dissertations

Mass spectrometry (MS)-based biophysical approaches are new "tools" for protein characterization owing to its capability to analyze proteins and protein complexes that range in molecular weight from kDa to MDa. Protein characterization requires more than identifying the primary structure. More importantly, protein high order structures (i.e., secondary, tertiary and quaternary structures) are needed for biological studies. MS has become the major tool in studies of protein primary structure and post translational modifications (PTMs) over the past two decades. Because MS has high sensitivity and fast turnaround, more and more biophysical approaches rely on MS to generate information for protein higher …

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Static Analysis Of Malicious Java Applets, Nikitha Ganesh May 2015

Static Analysis Of Malicious Java Applets, Nikitha Ganesh

Master's Projects

In this research, we consider the problem of detecting malicious Java applets, based on static analysis. In general, dynamic analysis is more informative, but static analysis is more efficient, and hence more practical. Consequently, static analysis is preferred, provided we can obtain results comparable to those obtained using dynamic analysis. We conducted experiments with the machine learning technique, Hidden Markov Model (HMM). We show that in some cases a static technique can detect malicious Java applets with greater accuracy than previously published research that relied on dynamic analysis.

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Discovering The Biological Activities Of Maltose Derivatives For Controlling Bacterial Multicellular Behaviors, Gauri Shirish Shetye May 2015

Discovering The Biological Activities Of Maltose Derivatives For Controlling Bacterial Multicellular Behaviors, Gauri Shirish Shetye

Dissertations - ALL

Since the serendipitous discovery of the first antibiotic, the "wonder drug" penicillin by Alexander Fleming, bacteria over time have slowly developed resistance to most antibiotics through three well coordinated processes. Firstly, bacteria can evolve their genetic makeup to become resistant against antibiotics; Secondly, bacteria can relay the modified antibiotic resistant genes to other bacteria and other species through a process called conjugation. Thirdly, bacteria quickly give up their individuality to become a part of a team to form surface attached multicellular communities known as biofilms. Bacteria residing within biofilms are protected by a layer of slime which renders the bacteria …

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Blooming Lotus, Brian Nguyen May 2015

Blooming Lotus, Brian Nguyen

Honors Theses

While reflecting on my poetry chapbook, Blooming Lotus, I ask myself what I was trying to accomplish by creating the chapbook. I have always been interested in my East Asian culture, but growing up as an Asian American has resulted in some ignorance in regards to the topic. I wanted to explore more of my own heritage through the creation of this chapbook by writing poems inspired by East Asian culture. Not only did I want to expose myself to East Asian culture but I also wanted to expose my readers to it as well. Most of my poems required …

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Video Event Understanding With Pattern Theory, Fillipe Souza, Sudeep Sarkar, Anuj Srivastava, Jingyong Su May 2015

Video Event Understanding With Pattern Theory, Fillipe Souza, Sudeep Sarkar, Anuj Srivastava, Jingyong Su

MODVIS Workshop

We propose a combinatorial approach built on Grenander’s pattern theory to generate semantic interpretations of video events of human activities. The basic units of representations, termed generators, are linked with each other using pairwise connections, termed bonds, that satisfy predefined relations. Different generators are specified for different levels, from (image) features at the bottom level to (human) actions at the highest, providing a rich representation of items in a scene. The resulting configurations of connected generators provide scene interpretations; the inference goal is to parse given video data and generate high-probability configurations. The probabilistic structures are imposed using energies that …

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Metacognition: Using Confidence Ratings For Type 2 And Type 1 Roc Curves, S A. Klein May 2015

Metacognition: Using Confidence Ratings For Type 2 And Type 1 Roc Curves, S A. Klein

MODVIS Workshop

In the past five years there has been a surge of renewed interest in metacognition ("thinking about thinking"). The typical experiment involves a binary judgment followed by a multilevel confidence rating. It is a confusing topic because the rating could be made either on one's confidence in the binary response (standard rating Type 1 ROC) or on one's confidence sorted by whether the response was correct (Type 2 ROC). Both are metacognition. After a few remarks on challenging aspects of the Type 2 approach, I will present some interesting results for Type 1 ROC for both memory and vision research. …

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Two Correspondence Problems Easier Than One, Aaron Michaux, Zygmunt Pizlo May 2015

Two Correspondence Problems Easier Than One, Aaron Michaux, Zygmunt Pizlo

MODVIS Workshop

Computer vision research rarely makes use of symmetry in stereo reconstruction despite its established importance in perceptual psychology. Such stereo reconstructions produce visually satisfying figures with precisely located points and lines, even when input images have low or moderate resolution. However, because few invariants exist, there are no known general approaches to solving symmetry correspondence on real images. The problem is significantly easier when combined with the binocular correspondence problem, because each correspondence problem provides strong non-overlapping constraints on the solution space. We demonstrate a system that leverages these constraints to produce accurate stereo models from pairs of binocular images …

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Binocular 3d Motion Perception As Bayesian Inference, Martin Lages, Suzanne Heron May 2015

Binocular 3d Motion Perception As Bayesian Inference, Martin Lages, Suzanne Heron

MODVIS Workshop

The human visual system encodes monocular motion and binocular disparity input before it is integrated into a single 3D percept. Here we propose a geometric-statistical model of human 3D motion perception that solves the aperture problem in 3D by assuming that (i) velocity constraints arise from inverse projection of local 2D velocity constraints in a binocular viewing geometry, (ii) noise from monocular motion and binocular disparity processing is independent, and (iii) slower motions are more likely to occur than faster ones. In two experiments we found that instantiation of this Bayesian model can explain perceived 3D line motion direction under …

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Trophic Response To Multiple Stressors Using Species Sensitivity (Ssd) Distribution Models, Gerald Kitsis May 2015

Trophic Response To Multiple Stressors Using Species Sensitivity (Ssd) Distribution Models, Gerald Kitsis

Scholars Week

For three decades, the species sensitivity distribution (SSD) has been the primary ecotoxicological tool to assess the effects of toxicants on species biodiversity. Despite prolific use by international environmental protection organizations and application in a wide range of ecosystems, there are several problems. 1) The hazardous concentration to protect 95% of a taxonomic group (HC5) is rejecting a portion of species that may have significant ecological roles. 2) Confidence intervals are entirely based on the number of species available with toxicological data and infer a large range of what is considered a “safe” concentration. 3) The minimum sample size to …

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Time Series Modeling Of Baseball Performance​, Kyle Andelin, Sam Kaplan May 2015

Time Series Modeling Of Baseball Performance​, Kyle Andelin, Sam Kaplan

Scholars Week

The 162 game long Major League Baseball season provides ample time for a player’s performance to vary and trend in different directions. Managers must set daily rosters for their teams, using past performance to help make decisions. But which prior performance periods tell us the most about upcoming performance? To answer this, it's helpful to view a player’s future performance, for any given statistic, as a function of his performance in previous playing periods (e.g. previous game, previous week, previous year, etc.). In this on-going research project, we consider two approaches to predicting future performance from the past. In the …

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An Alternative Route To Teacher Certification: Schoolyard Ecology, Carly Feiro May 2015

An Alternative Route To Teacher Certification: Schoolyard Ecology, Carly Feiro

Scholars Week

This research focuses on an alternative route to teacher certification program that prepares 16 working paraeducators to become elementary teachers. Many of the preservice teachers are bilingual and/or first generation teacher candidates. The 16 working paraeducators form a cohort who are taking classes on week nights, weekends and summers. Two questions guided our summer research: 1. How will preservice teachers content and pedagogical knowledge change as they experience a summer science program that includes a content immersion in cell biology and teaching a schoolyard ecology unit? 2. How will preservice teachers understanding of research-based elements of effective instruction change due …

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Structural Studies Of A Circularly Permuted Human Hemoglobin Containing Low O₂-Affinity Mutations, Rachel Hubbard May 2015

Structural Studies Of A Circularly Permuted Human Hemoglobin Containing Low O₂-Affinity Mutations, Rachel Hubbard

Scholars Week

Our research is focused on the production of a hemoglobin-based oxygen carrier (HBOC) which can be used as a therapeutic in the event of acute blood loss. The administration of cell-free hemoglobin is associated with severe adverse effects due to dissociation of the tetrameric α₂β₂ complex into αβ heterodimers. Our approach to designing an effective HBOC is based on a recombinant circularly permuted human hemoglobin in which all of the subunits are linked in a single-chain fashion. This design would prevent the dissociation of the tetramer and allow for the biosynthesis of polymeric hemoglobins of defined mass. Preliminary ligand binding …

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Scene-Based Nonuniformity Correction With Reduced Ghosting Using A Gated Lms Algorithm, Russell C. Hardie, Frank Orion Baxley, Brandon J. Brys, Patrick C. Hytla May 2015

Scene-Based Nonuniformity Correction With Reduced Ghosting Using A Gated Lms Algorithm, Russell C. Hardie, Frank Orion Baxley, Brandon J. Brys, Patrick C. Hytla

Russell C. Hardie

In this paper, we present a scene-based nouniformity correction (NUC) method using a modified adaptive least mean square (LMS) algorithm with a novel gating operation on the updates. The gating is designed to significantly reduce ghosting artifacts produced by many scene-based NUC algorithms by halting updates when temporal variation is lacking. We define the algorithm and present a number of experimental results to demonstrate the efficacy of the proposed method in comparison to several previously published methods including other LMS and constant statistics based methods. The experimental results include simulated imagery and a real infrared image sequence. We show that …

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Fast Super-Resolution With Affine Motion Using An Adaptive Wiener Filter And Its Application To Airborne Imaging, Russell C. Hardie, Kenneth J. Barnard, Raúl Ordóñez May 2015

Fast Super-Resolution With Affine Motion Using An Adaptive Wiener Filter And Its Application To Airborne Imaging, Russell C. Hardie, Kenneth J. Barnard, Raúl Ordóñez

Russell C. Hardie

Fast nonuniform interpolation based super-resolution (SR) has traditionally been limited to applications with translational interframe motion. This is in part because such methods are based on an underlying assumption that the warping and blurring components in the observation model commute. For translational motion this is the case, but it is not true in general. This presents a problem for applications such as airborne imaging where translation may be insufficient. Here we present a new Fourier domain analysis to show that, for many image systems, an affine warping model with limited zoom and shear approximately commutes with the point spread function …

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Super-Resolution For Imagery From Integrated Microgrid Polarimeters, Russell C. Hardie, Daniel A. Lemaster, Bradley Michael Ratliff May 2015

Super-Resolution For Imagery From Integrated Microgrid Polarimeters, Russell C. Hardie, Daniel A. Lemaster, Bradley Michael Ratliff

Russell C. Hardie

Imagery from microgrid polarimeters is obtained by using a mosaic of pixel-wise micropolarizers on a focal plane array (FPA). Each distinct polarization image is obtained by subsampling the full FPA image. Thus, the effective pixel pitch for each polarization channel is increased and the sampling frequency is decreased. As a result, aliasing artifacts from such undersampling can corrupt the true polarization content of the scene. Here we present the first multi-channel multi-frame super-resolution (SR) algorithms designed specifically for the problem of image restoration in microgrid polarization imagers. These SR algorithms can be used to address aliasing and other degradations, without …

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Adaptive Wiener Filter Super-Resolution Of Color Filter Array Images, Barry K. Karch, Russell C. Hardie May 2015

Adaptive Wiener Filter Super-Resolution Of Color Filter Array Images, Barry K. Karch, Russell C. Hardie

Russell C. Hardie

Digital color cameras using a single detector array with a Bayer color filter array (CFA) require interpolation or demosaicing to estimate missing color information and provide full-color images. However, demosaicing does not specifically address fundamental undersampling and aliasing inherent in typical camera designs. Fast non-uniform interpolation based super-resolution (SR) is an attractive approach to reduce or eliminate aliasing and its relatively low computational load is amenable to real-time applications. The adaptive Wiener filter (AWF) SR algorithm was initially developed for grayscale imaging and has not previously been applied to color SR demosaicing. Here, we develop a novel fast SR method …

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Fast Super-Resolution Using An Adaptive Wiener Filter With Robustness To Local Motion, Russell C. Hardie, Kenneth J. Barnard May 2015

Fast Super-Resolution Using An Adaptive Wiener Filter With Robustness To Local Motion, Russell C. Hardie, Kenneth J. Barnard

Russell C. Hardie

We present a new adaptive Wiener filter (AWF) super-resolution (SR) algorithm that employs a global background motion model but is also robust to limited local motion. The AWF relies on registration to populate a common high resolution (HR) grid with samples from several frames. A weighted sum of local samples is then used to perform nonuniform interpolation and image restoration simultaneously. To achieve accurate subpixel registration, we employ a global background motion model with relatively few parameters that can be estimated accurately. However, local motion may be present that includes moving objects, motion parallax, or other deviations from the background …

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Joint Wavelet Transform Correlation With Separated Target And Reference Planes, Boon Yi Soon, Mohammad A. Karim, Russell C. Hardie, Mohammad S. Alam May 2015

Joint Wavelet Transform Correlation With Separated Target And Reference Planes, Boon Yi Soon, Mohammad A. Karim, Russell C. Hardie, Mohammad S. Alam

Russell C. Hardie

In recent years, we realize the usefulness of feature extraction for optical correlator and hereby, we investigate the capability of Laplace operator in feature extraction of multiple targets. The first-order terms and the false alarm terms in the correlation output would be removed using electronic power spectrum subtraction technique. Most importantly, the entire magneto-optic SLM is completely utilized for displaying only targets in the input scene. A new cost efficient hardware implementation is proposed and aforementioned result of the proposed system is evaluated through computer simulation.

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Fast Super-Resolution With Affine Motion Using An Adaptive Wiener Filter And Its Application To Airborne Imaging, Russell C. Hardie, Kenneth J. Barnard, Raúl Ordóñez May 2015

Fast Super-Resolution With Affine Motion Using An Adaptive Wiener Filter And Its Application To Airborne Imaging, Russell C. Hardie, Kenneth J. Barnard, Raúl Ordóñez

Raúl Ordóñez

Fast nonuniform interpolation based super-resolution (SR) has traditionally been limited to applications with translational interframe motion. This is in part because such methods are based on an underlying assumption that the warping and blurring components in the observation model commute. For translational motion this is the case, but it is not true in general. This presents a problem for applications such as airborne imaging where translation may be insufficient. Here we present a new Fourier domain analysis to show that, for many image systems, an affine warping model with limited zoom and shear approximately commutes with the point spread function …

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The Fierce Green Fire: Vol 5 Issue 24, Wofford College Environmental Studies Program May 2015

The Fierce Green Fire: Vol 5 Issue 24, Wofford College Environmental Studies Program

The Fierce Green Fire

No abstract provided.

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Adaptive Pre-Specification In Randomized Trials With And Without Pair-Matching, Laura B. Balzer, Mark J. Van Der Laan, Maya L. Petersen May 2015

Adaptive Pre-Specification In Randomized Trials With And Without Pair-Matching, Laura B. Balzer, Mark J. Van Der Laan, Maya L. Petersen

U.C. Berkeley Division of Biostatistics Working Paper Series

In randomized trials, adjustment for measured covariates during the analysis can reduce variance and increase power. To avoid misleading inference, the analysis plan must be pre-specified. However, it is unclear a priori which baseline covariates (if any) should be included in the analysis. Consider, for example, the Sustainable East Africa Research in Community Health (SEARCH) trial for HIV prevention and treatment. There are 16 matched pairs of communities and many potential adjustment variables, including region, HIV prevalence, male circumcision coverage and measures of community-level viral load. In this paper, we propose a rigorous procedure to data-adaptively select the adjustment set …

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Characterization Of Common Videos With Signatures Extracted From Frame Transition Profiles, Abhiram Reddy Gaddampalli May 2015

Characterization Of Common Videos With Signatures Extracted From Frame Transition Profiles, Abhiram Reddy Gaddampalli

Student Work

People have access to a tremendous amount of video nowadays, both on television and Internet. The amount of video that a viewer has to choose from is so large that it is infeasible for a human to go through it all to find a video of interest. Organizing video into categories will make the process of large number of videos much faster and improves the ease of access. A profile created by observing the rate at which the contents of video frame changes helps in categorization of videos in different types. The experiments we conducted on three types of videos …

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Biological Degredation Of Acetaldehyde In Southern California Wetlands, Anthony Castagnola, Brandon Lamb, Mary Senstad, Sovandara Hok May 2015

Biological Degredation Of Acetaldehyde In Southern California Wetlands, Anthony Castagnola, Brandon Lamb, Mary Senstad, Sovandara Hok

Student Scholar Symposium Abstracts and Posters

Oxygenated hydrocarbons are ubiquitous in the atmosphere with levels ranging from low ppt (acetaldehyde) to low ppb(methanol). As an OH sink and an atmospheric HOx source, oxygenated hydrocarbons have a direct impact on the oxidative capacity of the atmosphere. A better understanding of the processes that produce and destroy these species in natural water would improve our understanding of the role that these systems play in cycling these species into or out of the atmosphere. These species can be lost to chemical, photochemical, and partical mediated (abiotic and biotic) processes in natural waters. Chemical loss and photochemical loss are believed …

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Effects Of Ecologically Realistic Heating Profiles On Feeding In The Intertidal Hermit Crab, Pagurus Sameulis, Paige Davis May 2015

Effects Of Ecologically Realistic Heating Profiles On Feeding In The Intertidal Hermit Crab, Pagurus Sameulis, Paige Davis

Student Scholar Symposium Abstracts and Posters

The intertidal zone is an ideal habitat to investigate effects of global warming because species living in it are very close to their physiological limits. Initial studies of invertebrate physiological responses to heat stress have employed relatively abrupt increases in temperature. My research investigates effects of ecologically more realistic temperature profiles on feeding in the intertidal hermit crab, Pagurus sameulis. Recent work in the Wright lab showed that feeding in this species is inhibited by an abrupt increase in temperature. Because temperature change in the natural environment of Pagurus is much more gradual, I hypothesize that such a gradual temperature …

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Analysis Of Secondary Wastewater Treatment, Jennifer Magana May 2015

Analysis Of Secondary Wastewater Treatment, Jennifer Magana

Student Scholar Symposium Abstracts and Posters

At the Irvine Ranch Water District, two types of secondary treatment are utilized: a sludge and Dual Media Filters (DMF) process and Membrane Bioreactor (MBR) process. This study was proposed to analyze the electrical conductivity (EC) of each secondary effluent and possible reasons for differences. After testing the two effluents using an electrical conductivity probe and ion chromatography, it was discovered that there is no significant difference between the two, though secondary treatment raises the nitrate levels in general.

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Biological Degradation Of Acetaldehyde In Southern California Coastal Waters, Mary Senstad, Sovanndara Hok, Ori Barashy, Catherine D. Clark, Warren J. De Bruyn May 2015

Biological Degradation Of Acetaldehyde In Southern California Coastal Waters, Mary Senstad, Sovanndara Hok, Ori Barashy, Catherine D. Clark, Warren J. De Bruyn

Student Scholar Symposium Abstracts and Posters

Oxygenated hydrocarbons are ubiquitous in the atmosphere with levels ranging from low ppt (acetaldehyde) to low ppb (methanol). As an OH sink and an atmospheric HOx and ozone source, oxygenated hydrocarbons have a direct impact on the oxidative capacity of the atmosphere. The oceans are one of the largest sources of uncertainty in current atmospheric budget estimates of these species. A better understanding of the processes that produce and destroy these species in seawater would improve our understanding of the role of the oceans in cycling these species into or out of the atmosphere. We have measured the degradation rate …

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Removal Of Pb And H2s From Acs Test Procedure For Meta-Phosphoric Acid, Christopher Atlas, Ron Lacock May 2015

Removal Of Pb And H2s From Acs Test Procedure For Meta-Phosphoric Acid, Christopher Atlas, Ron Lacock

Student Scholar Symposium Abstracts and Posters

In the pursuit of green chemistry, adequate substitutes for lead acetate and hydrogen sulfide were investigated for use in the ACS test procedure for stabilizer in meta-phosphoric acid. In the current ACS procedure lead acetate is used to form insoluble lead phosphate. In order to remove lead from the solution lanthanum chloride was investigated with positive results. Hydrogen Sulfide is currently used to precipitate lead by forming insoluble lead sulfide. Several substitutes including oxalic acid and sulfuric acid were investigated. Preliminary testing showed that lanthanum chloride and oxalic acid are sufficient in precipitating phosphate and lead out of the sample …

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Gender Gap In The Environmental Movement, Nicholas Burghard May 2015

Gender Gap In The Environmental Movement, Nicholas Burghard

Student Scholar Symposium Abstracts and Posters

It has been known in recent years, that there is a connection between political party choice, and the importance of the environment to their members. However, this correlation may only be skin deep. The objective of this research is to delve into the specific correlations between the importance of the environment to the voter, and their gender, religion, and propensity to joining New Social Movements (NSM’s). With environmentalism becoming a strong topic in candidate and voter discussions today, studies are being done to see what the audiences are backing environmentalism, and promoting its integration into modern American society. Therefore studies …

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Evaluation Of Temperature Anomalies And Ocean Productivity During The 2004 Sumatra-Andaman Earthquake, Cora Byers, Brenna Mcnabb May 2015

Evaluation Of Temperature Anomalies And Ocean Productivity During The 2004 Sumatra-Andaman Earthquake, Cora Byers, Brenna Mcnabb

Student Scholar Symposium Abstracts and Posters

The oceanic productivity of the Indian Ocean and temperature anomalies prior to the Sumatra-Andaman earthquake (MW =9.3) and tsunami (December 26th 2004) were studied. Data was obtained via NASA’s Giovanni program to determine the effect on phytoplankton (primary producers) and temperature changes over the region of the earthquake. Seasonal trends were visible in the concentrations of chlorophyll a, coccolithophores, cyanobacteria, chlorophytes, diatoms and absorption coefficient, in addition to storm trends.

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Possible Precursor Events To Earthquakes And The Resulting Effects On Organic Material In The Surrounding Water Bodies, Kiyoko Nakatsui May 2015

Possible Precursor Events To Earthquakes And The Resulting Effects On Organic Material In The Surrounding Water Bodies, Kiyoko Nakatsui

Student Scholar Symposium Abstracts and Posters

Being located on the “Ring of Fire” Japan experiences many seismic events. Adding to this, it is located at the convergence of four fault lines where seismic activity will be even more frequent and severe. Although small tremors occurring in an area are indicators of an earthquake to come it only gives minutes of warning. Scientists are now trying to see if latent heat and gas release from fault lines can indicate an earthquake to come with hours or even days of warning. MODIS aqua and terra data will be analyzed in order to see if such precursors can be …

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