The interrelation of process techniques and space radiation effects in metal-insulator-semiconductor structures Final report, 21 Apr. 1966 - 31 Jul. 1967

Interrelation of process techniques and space radiation effects in metal oxide semiconductor

Improving Prison Safety: Breaking the Code of Silence

A system permeated by a code of silence reinforces negative behaviors in inmates, ultimately increasing the risk to staff. As the former Massachusetts Secretary of Public Safety, Edward A. Flynn, is keen on saying, “If nothing else, inmates must leave our custody with a belief that there is moral order in their world. If they leave our care and control believing that rules and regulations do not mean what they say they mean, that rules and regulations can be applied arbitrarily or capriciously or for personal interest, then we will fail society, we will fail them, and we will unleash people more dangerous than when they went in.” We know that many offenders go through life believing that rules and laws do not apply to them. If the system in which they are incarcerated lacks integrity and moral order their notions regarding law and order are reinforced. Corrections staff should be the very best people inmates encounter, as we may be the first individuals they are exposed to who do respect rules and laws. We should be role models of positive behavior. If staff members do not follow the rules there is no hope for intervention or for changing inmate behavior in the long term. If staff members are not held accountable we demonstrate that there is no consequence for bad behavior

James Sullivan and the Birth of Massachusetts Republicanism

Thesis advisor: Alan RogersThe following narrative traces the political lives of James Sullivan, Christopher Gore, Rufus King and John Quincy Adams, four Massachusetts men who were actively involved in the creation of state and national policy during the formative years of the new republic. Their years of public service bridged the critical period between the Revolution and the period of Democratic- Republican dominance. Because they knew each other so well, corresponded with one another on a regular basis, and held so many different state and national government posts, their lives provide an ideal vehicle to explore and better understand the changes that were taking place in post-Revolutionary Massachusetts. Their stories help trace the evolution of Massachusetts from a Federalist stronghold into a legitimate multi-party state firmly committed to the national union. The primary figure in this study is Sullivan, the oldest of the four men, who was the state's highest ranking Republican leader during much of the Federalist Era. A staunch opponent of the Federalist assumption that government should be in the hands of the natural gentry and ruling class, he spent his adult life promoting equal access to power. After serving as a member of the Massachusetts Provincial Congress from 1774 to 1776, Sullivan was an active participant in the creation of the new state government. He later served as attorney general for seventeen years, from 1790 to 1807, through several Federalist administrations and served as a member of state legislature for many years. He also was a member of the Supreme Judicial Court and, in the final years of his life, governor of the Commonwealth. Because he participated in or observed firsthand the most significant political events of his day, his words also help trace, as few others could, the gradual transformation of Massachusetts from a one party state to a multi-party state. His election as governor in 1807 was clear evidence of the growing strength of the Republican Party in Massachusetts and of the extent to which the emerging national consensus had grown. Christopher Gore, whose stature and perspective were more deeply rooted in the colonial past, stood in stark personal as well as political contrast to Sullivan. As a conservative Federalist who often served as spokesman for his party during this period, Gore was a major player in the Massachusetts legal community and government between the American Revolution and early years of the nineteenth century. He stubbornly adhered to the aristocratic belief that the government should only be managed by the propertied class and traditional ruling elite. Where Sullivan was a sentimental moralist who hated everything British, Gore was the stern and unyielding spokesman for the merchant class who seemingly admired everything British. Where Sullivan's father had emigrated from Ireland, the victim of oppressive Penal Laws, Gore's father was a Tory, who fled Boston with the British in March 1776. Though Gore himself supported the Revolution, he was never able to shed, or indeed temper, his attachment to Great Britain in later years. As perhaps the most passionate defender of everything British in the years after the Revolution, Gore's habits and customs reflected the old deferential order and embodied everything Sullivan opposed. Despite their personal and political differences, Sullivan and Gore shared a close personal friend. Rufus King was a longtime confidant of both men, corresponding with each of them over many years. Though King's habits and background were more similar to those of Gore than Sullivan, he was less rooted in the colonial past than his conservative friend. Though an ardent Federalist, he was respected by men on both sides of the political aisle and served not only as a bridge between the two parties, but as a bridge between the two branches of his own party. It is because he enjoyed such a close personal relationship with Sullivan and Gore, and corresponded with both men on a regular basis, that King provides a unique vehicle to explore the differences between the two parties during this critical period in Massachusetts political history. The fourth subject of this study is John Quincy Adams. The fiercely independent one-time Federalist, who, though born many years after Gore, King, and Sullivan, became active in politics at a very young age and crossed political paths with all three men on a regular basis. Although born a member of the second generation of political leaders, Quincy Adams identified with the first generation of Revolutionary leaders. He matured early and took part in every critical debate that took place after the ratification of the Constitution. From the beginning, Quincy Adams charted an independent course and played a critical role in the growth of the Republican Party. John Quincy Adams is particularly relevant to this study because his political transformation reflected the change in attitude that was taking place in Massachusetts and the country in the early years of the nineteenth century. He represented a commitment to the interests of union over sectional concerns. A strong and independent unionist throughout his life, Quincy Adams eventually came to represent a new global nationalism. In many respects, Quincy Adams was the `transition man' in post- Revolutionary America. The son of a colonial who was very much a product of the deferential society of the eighteenth century, young Adams came to embrace the principle of majority rule. His elevation to the highest political posts in the country marked the final stage in America's transition from colony to union to nation. James Sullivan, Christopher Gore and Rufus King each played significant roles in the establishment of constitutional government in Massachusetts and in the United States. Though he was considered a member of the so-called Hancock faction, a group viewed as primarily anti-Constitutionalist, Sullivan was an independent thinker. He would call for greater legal safeguards for the benefit of the more vulnerable and for the end of the practice of multiple office holding which had long been a tool of the ruling elite to maintain power and influence.   A vocal proponent of the national government before King, Gore and Hancock, Sullivan had long recognized the importance of strengthening the central government. His embrace of participatory government and of law aimed at protecting all classes of people naturally appealed to a wider audience would continue to contribute to the democratization of Massachusetts politics. With a new national government in place and a new political era begun, Sullivan, King, Gore, and soon Quincy Adams, were uniquely positioned to play significant, if competing, roles in the coming struggle. This narrative differs from other secondary works on post-colonial Massachusetts in several respects. Firstly, the significant role played by Sullivan in the growth of Republicanism in Massachusetts has been largely overlooked by historians. His persistent calls for equal access to power stood in stark contrast to the views of the Federalists who dominated Massachusetts government in the years after the American Revolution. His active participation in regional politics both during and after the Revolution helped the people of Massachusetts in their transition from colony to state. Furthermore, he was one of the first Massachusetts political leaders to insist on placing the new central government on a sound financial footing. Indeed, his call for a strengthened and sufficiently financed national government predated the efforts of Massachusetts Federalists, including King and Gore. He was, I contend, one of the first political leaders of either party to be considered a true `nationalist.' While Quincy Adams' support for Jefferson's Embargo and his conversion to Republicanism have been well documented, this work explores the link between Sullivan and Quincy Adams, and details the critically important role they played in the national debate over how to respond to British aggression towards American shipping and American sailors. Though Gordon Wood and other historians point to the Embargo as the single biggest failure of Jefferson and his Republican supporters, I contend the opposite is true. The Embargo highlighted the central difference between the two parties, and though it provided Federalists with a temporary victory, it also sowed the seeds of their defeat. The Embargo enabled men like Sullivan and Quincy Adams to clarify one of the central issues of the post-Revolutionary period, ... national honor. Though Paul Goodman correctly points out that Republicanism tapped into the growing sense of nationalism in the country, I carry the discussion further and detail the growing disconnect between the Federalist Party and the American people. Quincy Adams, in particular, articulated the need to announce to the world that the United States would not submit to foreign aggression. Furthermore, his call for a stronger and expanded union, even if it meant a loss of power and prestige for Massachusetts, would soon strike a chord with a growing majority of Americans. Quincy Adams personified the shift in the national mood and represented a new national perspective. When John Quincy Adams left the Federalist Party, many Americans left with him.Thesis (PhD) — Boston College, 2011.Submitted to: Boston College. Graduate School of Arts and Sciences.Discipline: History

Evolutionary interpretations of mycobacteriophage biodiversity and host-range through the analysis of codon usage bias

In an genomics course sponsored by the Howard Hughes Medical Institute (HHMI), undergraduate students have isolated and sequenced the genomes of more than 1,150 mycobacteriophages, creating the largest database of sequenced bacteriophages able to infect a single host, Mycobacterium smegmatis, a soil bacterium. Genomic analysis indicates that these mycobacteriophages can be grouped into 26 clusters based on genetic similarity. These clusters span a continuum of genetic diversity, with extensive genomic mosaicism among phages in different clusters. However, little is known regarding the primary hosts of these mycobacteriophages in their natural habitats, nor of their broader host ranges. As such, it is possible that the primary host of many newly isolated mycobacteriophages is not M. smegmatis, but instead a range of closely related bacterial species. However, determining mycobacteriophage host range presents difficulties associated with mycobacterial cultivability, pathogenicity and growth. Another way to gain insight into mycobacteriophage host range and ecology is through bioinformatic analysis of their genomic sequences. To this end, we examined the correlations between the codon usage biases of 199 different mycobacteriophages and those of several fully sequenced mycobacterial species in order to gain insight into the natural host range of these mycobacteriophages. We find that UPGMA clustering tends to match, but not consistently, clustering by shared nucleotide sequence identify. In addition, analysis of GC content, tRNA usage and correlations between mycobacteriophage and mycobacterial codon usage bias suggests that the preferred host of many clustered mycobacteriophages is not M. smegmatis but other, as yet unknown, members of the mycobacteria complex or closely allied bacterial species

Bacteriophage Migration via Nematode Vectors: Host-Parasite-Consumer Interactions in Laboratory Microcosms

Pathogens vectored by nematodes pose serious agricultural, economic, and health threats; however, little is known of the ecological and evolutionary aspects of pathogen transmission by nematodes. Here we describe a novel model system with two trophic levels, bacteriophages and nematodes, each of which competes for bacteria. We demonstrate for the first time that nematodes are capable of transmitting phages between spatially distinct patches of bacteria. This model system has considerable advantages, including the ease of maintenance and manipulation at the laboratory bench, the ability to observe many generations in short periods, and the capacity to freeze evolved strains for later comparison to their ancestors. More generally, experimental studies of complex multispecies interactions, host-pathogen coevolution, disease dynamics, and the evolution of virulence may benefit from this model system because current models (e.g., chickens, mosquitoes, and malaria parasites) are costly to maintain, are difficult to manipulate, and require considerable space. Our initial explorations centered on independently assessing the impacts of nematode, bacterium, and phage population densities on virus migration between host patches. Our results indicated that virus transmission increases with worm density and host bacterial abundance; however, transmission decreases with initial phage abundance, perhaps because viruses eliminate available hosts before migration can occur. We discuss the microbial growth dynamics that underlie these results, suggest mechanistic explanations for nematode transmission of phages, and propose intriguing possibilities for future research

Scale-up and optimization of a continuous flow synthesis of an α-thio-βchloroacrylamide

Use of continuous flow processing to undertake a multistep chlorination cascade has been achieved with effective inline work-up and end-of-line crystallization in batch leading to isolation of α-thio-β-chloroacrylamide Z-3 in pure form from a complex reaction mixture, exploiting the advantage of efficient heat transfer in flow. During the development of a continuous flow strategy for the production of appreciable quantities of the α-thio-β-chloroacrylamides, difficulties surrounding a labour and resource intensive work-up followed by final product isolation were addressed. A greener solvent choice was applied to the chemical synthesis which enabled inline purification and separation, resulting in the crystallization of pure product directly from the reaction mixture. This process was readily scalable and demonstrated control over impurity formation and removal, which is key in an industrial setting

Tracking Cryptic SARS-CoV-2 Lineages Detected in NYC Wastewater

Tracking SARS-CoV-2 genetic diversity is strongly indicated because diversifying selection may lead to the emergence of novel variants resistant to naturally acquired or vaccine-induced immunity. To monitor New York City (NYC) for the presence of novel variants, we deep sequence most of the receptor binding domain coding sequence of the S protein of SARS-CoV-2 isolated from the New York City wastewater. Here we report detecting increasing frequencies of novel cryptic SARS-CoV-2 lineages not recognized in GISAID’s EpiCoV database. These lineages contain mutations that had been rarely observed in clinical samples, including Q493K, Q498Y, E484A, and T572N and share many mutations with the Omicron variant of concern. Some of these mutations expand the tropism of SARS-CoV-2 pseudoviruses by allowing infection of cells expressing the human, mouse, or rat ACE2 receptor. Finally, pseudoviruses containing the spike amino acid sequence of these lineages were resistant to different classes of receptor binding domain neutralizing monoclonal antibodies. We offer several hypotheses for the anomalous presence of these lineages, including the possibility that these lineages are derived from unsampled human COVID-19 infections or that they indicate the presence of a non-human animal reservoir

Influences on Decision-Making Regarding Antipsychotic Prescribing in Nursing Home Residents With Dementia: A Systematic Review and Synthesis of Qualitative Evidence.

BACKGROUND: Antipsychotic prescribing is prevalent in nursing homes for the management of behavioral and psychological symptoms of dementia (BPSD), despite the known risks and limited effectiveness. Many studies have attempted to understand this continuing phenomenon, using qualitative research methods, and have generated varied and sometimes conflicting findings. To date, the totality of this qualitative evidence has not been systematically collated and synthesized. AIMS: To synthesize the findings from individual qualitative studies on decision-making and prescribing behaviors for antipsychotics in nursing home residents with dementia, with a view to informing intervention development and quality improvement in this field. METHODS: A systematic review and synthesis of qualitative evidence was conducted (PROSPERO protocol registration CRD42015029141). Six electronic databases were searched systematically from inception through July 2016 and supplemented by citation, reference, and gray literature searching. Studies were included if they used qualitative methods for both data collection and analysis, and explored antipsychotic prescribing in nursing homes for the purpose of managing BPSD. The Critical Appraisal Skills Program assessment tool was used for quality appraisal. A meta-ethnography was conducted to synthesize included studies. The Confidence in the Evidence from Reviews of Qualitative research approach was used to assess the confidence in individual review findings. All stages were conducted by at least 2 independent reviewers. RESULTS: Of 1534 unique records identified, 18 met the inclusion criteria. Five key concepts emerged as influencing decision-making: organizational capacity; individual professional capability; communication and collaboration; attitudes; regulations and guidelines. A "line of argument" was synthesized and a conceptual model constructed, comparing this decision-making process to a dysfunctional negative feedback loop. Our synthesis indicates that when all stakeholders come together to communicate and collaborate as equal and empowered partners, this can result in a successful reduction in inappropriate antipsychotic prescribing. CONCLUSIONS: Antipsychotic prescribing in nursing home residents with dementia occurs in a complex environment involving the interplay of various stakeholders, the nursing home organization, and external influences. To improve the quality of antipsychotic prescribing in this cohort, a more holistic approach to BPSD management is required. Although we have found the issue of antipsychotic prescribing has been extensively explored using qualitative methods, there remains a need for research focusing on how best to change the prescribing behaviors identified