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This dissertation consists of three projects related to reputational effects in legislative elections. Building on the candidate emergence, repeat candidates and congressional donor literatures, these articles use novel datasets to further our understanding of repeat candidacy and the impact of interest group endorsements on candidate contributions. The first project examines the conditions under which losing state legislative candidates will appear on the successive general election ballot. Broadly speaking, I find a good deal of support for the notion that candidates respond rationally to changes in their political environment when determining whether to run again. The second project aims to measure the impact of repeat candidacy on state legislative election outcomes. Ultimately I find a reward/penalty structure through which losing candidates for lower chamber seats that perform well in their first election have a slight advantage over first-time candidates in their repeat elections. The final chapter of this dissertation examines the relationship between interest group endorsements and individual contributions for 2010 U.S. Senate candidates. The results of this chapter suggest that some interest group endorsements lead to increased campaign contributions, as compared to unendorsed candidates, but that others do not. This research points to a number of opportunities for future research as the relationship between endorsements and campaign resources is vastly understudied. / Political Science

This dissertation examines the implications of sticky rents on the measurement of owner-occupied housing in the Consumer Price Index (CPI). I argue that marginal and not average rents are the most theoretically justified measurement of owners' equivalent rent (OER), and that the current measurement of rental inflation using average rents is methodologically incorrect. I then discuss the literature on sticky rents and tenure discounts and present a theoretical model showing the implications of sticky rents for aggregate measures of inflation. Then I use two new data sources to construct marginal rent measures to compare to average rent measures. The results show that marginal rents reflect market turning points sooner, and show a larger post- housing bubble decline in rents. In addition, marginal rents are shown to forecast overall inflation better than average rents. Finally, the implications of these results for policy are considered using the Taylor Rule for optimal monetary policy. The results present suggestive evidence that the impacts of switching to marginal rents may be large enough to significantly impact monetary policy and allow the Federal Reserve to be more responsive to both the boom and bust of housing bubbles. / Economics

This dissertation focuses on an efficient cooperative communication method for wireless ad hoc networks. Typically, performance enhancement via cooperative communications can be achieved at the cost of other system resources such as additional bandwidth, transmit power, or more complex synchronization methods between cooperating signals. However, the proposed ooperative transmission scheme in this research utilizes system resources more efficiently by reducing the redundant and wasteful cooperating signals typically required, while maintaining the desired performance improvement. There are four main results in this dissertation. First, an efficient cooperative retransmission scheme is introduced to increase bandwidth efficiency by reducing wasteful cooperating signals. The proposed cooperative transmission method does not require any additional information for cooperation. Furthermore, we ensure good quality for the cooperating signals through a simple yet effective selection procedure. Multiple cooperating nodes can be involved in the cooperation without prior planning via distributed beamforming. The proposed cooperative retransmission scheme outperforms traditional retransmission by the source as well as other cooperative methods in terms of delay and packet error rate (PER). Secondly, the outage probabilities of the cooperative retransmission scheme are analyzed for both the perfect synchronization case and when offset estimation is performed for distributed beamforming. The performance with offset estimation is close to the perfect synchronization case, especially for short data packets. A low-rate feedback channel is introduced to adjust the phase shift due to channel variation and the residual frequency offset. It is shown that substantial gain can be achieved with a low-rate feedback channel, even for long data packets. Third, the throughput efficiency and average packet delay of the proposed cooperative retransmission scheme are analyzed using a two-state Markov model for both a simple automatic repeat request (ARQ) and a hybrid ARQ technique. The benefits of the cooperative ARQ approach are also verified in a multihop network with random configurations when there are concurrent packet transmissions. The average transmit power for the cooperating signals is also investigated in the proposed cooperative transmission scheme with various power control approaches. Finally, cooperative multiple input multiple output (MIMO) systems are examined, mainly focusing on power allocation methods to increase overall channel capacity. An efficient and simple power allocation method at the cooperating node is proposed which can be used for an arbitrary number of antennas without any additional information. / Ph. D.

Soybean mosaic virus (SMV), has been the cause of numerous and often devastating disease epidemics, causing reduction in both the quality and quantity of soybeans worldwide. Two important genes for resistance to SMV are Rsv1 and Rsv4. Alleles at the Rsv1 locus have been shown to control resistance to all but the most virulent strain of SMV. This locus has been mapped previously to the soybean F linkage group. Rsv4 is an SMV resistance locus independent of Rsv1 and confers resistance to all strains of SMV. This locus has not been mapped previously. The purpose of this study is to investigate the two genomic regions that contain these vitally important resistance genes. A population of 281 F2 individuals that had previously been genotyped for reaction to SMV was evaluated in a mapping study which combined bulk segregant analysis with Amplified Fragment Length Polymorphism (AFLP). A Rsv4-linked marker, R4-1, was identified that mapped to soybean linkage group D1b using a reference mapping population. More than 40 markers were mapped in the Rsv4 segregating population including eleven markers surrounding Rsv4. This will provide the necessary framework for the fine mapping of this important genetic locus. Previous work has located Rsv1 to a genomic region containing several important resistance genes including Rps3, Rpg1, and Rpv. An RFLP probe, NBS5, whose sequence closely resembles that of several cloned plant disease resistance genes has been mapped to this chromosomal region. The efficacy of using this sequence to identify potential disease resistance genes was assessed by screening a cDNA library to uncover a candidate disease resistance gene which corresponds to this NBS5 sequence. Two related sequence classes were identified that correspond to NBS5. Interestingly, one class corresponds to a full length gene closely resembling other previously cloned disease resistance genes offering evidence that this NBS5-derived clone is a candidate disease resistance gene. A new marker technique was developed by combining the speed and efficiency of AFLP with DNA sequence information from cloned disease resistance genes. Using this strategy, three new markers tightly linked to Rsv1 were identified. One of these markers, which maps 0.6 cM away from Rsv1, has motifs consistent with other cloned disease resistance genes, providing evidence that this approach is an efficient method for targeting genomic regions where disease resistance genes are located. / Ph. D.

Anisotropic plasmonic noble metallic nanoparticles (APMNs) have received enormous attention due to their distinct geometric features and fascinating physicochemical properties. Owing in large part to their tailored localized surface plasmon resonance (LSPR) and the intensive electromagnetic field at the sharp corners and edges, APMNs are exceptionally well suited for biomedical applications such as biosensing, bioimaging, diagnostics and therapeutics. Although a rich variety of surfactant-assisted colloidal routes have been developed to prepare well-defined APMNs, biomedical applications necessitate tedious and rigorous purification processes for the complete removal of toxic surfactants. In this dissertation, we aim to develop generic bioenabled green synthetic methodologies towards APMNs. By applying a series of thermodynamic, kinetic and seed quality control, a series of APMNs with varied morphologies such as branched nanostars and triangular nanoprisms have been successfully prepared. We first presented the preparation of gold nanostars (Au NSTs) through a two-step approach utilizing a common Good's buffer, HEPES, as a weak reducing agent. Single crystalline Au NSTs with tunable branches up to 30 nm in length were produced and the halide ions rather than the ionic strength played a significant roles on the length of the branches of Au NSTs. Then consensus sequence tetratricopetide repeat (CTPR) proteins with increasing number of repeats were used as model proteins to probe the effects of concentration as well as the protein shape on the morphology and resulting physicochemical properties of plasmonic gold nanoparticles. Since the underlying growth mechanism for the biomimetic synthesis of APMNs remains elusive and controversial, the other objective is to elucidate the molecular interactions between inorganic species and biopolymers during the course of NP evolution. Fluorescent quenching and 2D NMR experiments have confirmed the moderate binding affinity of CTPR to the Au(0) and Au(III). We observed that the initial complexation step between gold ions and CTPR3 is ionic strength dependent. Furthermore, we also found that NPs preferentially interact with the negatively charged face of CTPR3 as observed in 2D NMR. Knowledge of binding behavior between biospecies and metal ions/NPs will facilitate rational deign of proteins for biomimetic synthesis of metallic NPs. A modified seed-mediated synthetic strategy was also developed for the growth of silver nanoprisms with low shape polydispersity, narrow size distribution and tailored plasmonic absorbance. During the seed nucleation step, CTPR proteins are utilized as potent stabilizers to facilitate the formation of planar-twinned Ag seeds. Ag nanoprisms were produced in high yield in a growth solution containing ascorbic acid and CTPR-stabilized Ag seeds. From the time-course UV-Vis and transmission electron microscopy (TEM) studies, we postulate that the growth mechanism is the combination of facet selective lateral growth and thermodynamically driven Ostwald ripening. By incorporation of seeded growth and biomimetic synthesis, gold nanotriangles (Au NTs) with tunable edge length were synthesized via a green chemical route in the presence of the designed CTPR protein, halide anions (Br⁻) and CTPR-stabilized Ag seeds. The well-defined morphologies, tailored plasmonic absorbance from visible-light to the near infrared (NIR) region, colloidal stability and biocompatibility are attributed to the synergistic action of CTPR, halide ions, and CTPR-stabilized Ag seeds. We also ascertained that a vast array of biosustainable materials including negatively charged lignin and cellulose derivatives can serve as both a potent stabilizers and an efficient nanocrystal modifiers to regulate the growth of well-defined Ag nanoprisms using a one-pot or seeded growth strategy. The influential effects of reactants and additives including the concentration of sodium lignosulfonate, H2O2 and NaBH4 were studied in great detail. It implies that appropriate physicochemical properties rather than the specific binding sequence of biomaterials are critical for the shaped-controlled growth of Ag NTs and new synthetic paradigms could be proposed based on these findings. Last but not the least, we have demonstrated the resulting APMNs, particularly, Au NSTs and Ag NTs exhibit remarkable colloidal stability, enhanced SERS performance, making them promising materials for biosensing and photothermal therapy. Since the Ag nanoprisms are susceptible to morphological deformation in the presence of strong oxidant, they also hold great potential for the colorimetric sensing of oxidative metal cation species such as Fe3+, Cr3+, etc. / Ph. D. / When a beam of light impinges on the surface of noble metallic nanoparticle (NP), particularly gold (Au) and silver (Ag), the conduction electrons are excited which induces a collective oscillatory motion, resulting in an intense localized surface plasmon resonance (LSPR) absorbance as well as the amplified localized electromagnetic filed. Owing in large part to the tailored LSPR and the intensive electromagnetic field at the sharp corners and edges, anisotropic plasmonic noble metallic nanoparticles (APMNs) can be utilized to span an array of applications such as biosensing, bioimaging, diagnostics and therapeutics. Although great advancement has been made to prepare well-defined APMNs through versatile surfactant-assisted colloidal methodologies, biomedical applications necessitate tedious and rigorous purification processes for the complete removal of toxic surfactants. To address this ubiquitous challenge, biomimetic and bioinspired green synthesis have been extensively explored to fabricate APMNs under mild and ambient conditions. In this dissertation, we aim to develop generic bioenabled synthetic strategies towards APMNs, particularly, Au nanostars and Au/Ag nanoprisms. Herein, protein mediated shape-selective synthesis of APMNs were presented, in which consensus sequence tetratricopetide repeat (CTPR) proteins and biological Good’s buffers were employed as nanocrystal growth modifiers and mild reducing agents, respectively. The dramatic implications of repeat proteins on the morphological and optical properties of the Au NPs were explicitly discussed. The other objective of this dissertation is to elucidate the molecular interactions between inorganic species and biopolymers to further unravel the underlying growth mechanism during the course of APMNs evolution. By incorporation of seeded growth and biomimetic synthesis, Ag/Au nanotriangles (Au NTs) with tunable edge length were synthesized in the presence of the designed CTPR protein, halide anions (Br⁻) and CTPR-stabilized Ag seeds. The well-defined morphologies, tailored plasmonic absorbance from visible-light to the near infrared (NIR) region, colloidal stability and biocompatibility are attributed to the synergistic action of each components in the synthetic system. Last but not the least, we have demonstrated the resulting NPs exhibit remarkable colloidal stability, mitigated cytotoxicity and surface enhanced Raman spectroscopy (SERS) performance, making them good candidates for biosensing and photothermal therapy. This work might shed light on the roles biomolecules play in green synthesis of APMNs, along with rationalizing the design of biomimetic systems to bridge the gap between the bioenabled technique and traditional colloidal synthesis.

京都大学 / 新制・課程博士 / 博士(理学) / 甲第25137号 / 理博第5044号 / 新制||理||1719(附属図書館) / 京都大学大学院理学研究科化学専攻 / (主査)准教授 板東 俊和, 教授 深井 周也, 教授 秋山 芳展 / 学位規則第4条第1項該当 / Doctor of Agricultural Science / Kyoto University / DGAM

It is important to understand the entire spectrum of somatic variants to gain more insight into mutations that occur in different cancers for development of better diagnostic, prognostic and therapeutic tools. This thesis outlines our work in understanding somatic variant calling, improving the identification of somatic variants from whole genome and whole exome platforms and identification of biomarkers for lung cancer. Integrating somatic variants from whole genome and whole exome platforms poses a challenge as variants identified in the exonic regions of the whole genome platform may not be identified on the whole exome platform and vice-versa. Taking a simple union or intersection of the somatic variants from both platforms would lead to inclusion of many false positives (through union) and exclusion of many true variants (through intersection). We develop the first framework to improve the identification of somatic variants on whole genome and exome platforms using a machine learning approach by combining the results from two popular somatic variant callers. Testing on simulated and real data sets shows that our framework identifies variants more accurately than using only one somatic variant caller or using variants from only one platform. Short tandem repeats (STRs) are repetitive units of 2-6 nucleotides. STRs make up approximately 1% of the human genome and have been traditionally used as genetic markers in population studies. We conduct a series of in silico analyses using the exome data of 32 individuals with lung cancer to identify 103 STRs that could potentially serve as cancer diagnostic markers and 624 STRs that could potentially serve as cancer predisposition markers. Overall these studies improve the accuracy in identification of somatic variants and highlight the association of STRs to lung cancer. / Ph. D.