cssi/SciSciGPT-SciSciNet huggingface dataset:
Barred from better medicine? Reexamining regulatory barriers to the inclusion of prisoners in research

In 2015, President Obama announced plans for the Precision Medicine Initiative® (PMI), an ambitious longitudinal project aimed at revolutionizing medicine. Integral to this Initiative is the recruitment of over one million Americans into a volunteer research cohort, the All of UsSM Research Program. The announcement has generated much excitement but absent is a discussion of how the All of Us Research Program-to be implemented within the context of social realities of mass incarcerations and racial disparities in criminal justice and healthcare-might excaberate health disparities. We examine how attainment of Initiative's stated goals of reflecting the diversity of the American population and including all who are interested in participating might be impeded by regulatory and administrative barriers to the involvement of participants who become incarcerated during longitudinal studies. Changes have been proposed to the federal policy for human subjects research protections, but current regulations and administrative policies-developed under a protectionist paradigm in response to scandalous research practices with confined populations-dramatically limit research involving prisoners. Our review provides rationale for the development of Initiative policies that anticipate recruitment and retention obstacles that might frustrate inclusivity and exacerbate health disparities. Furthermore, we question the effective ban on biomedical and behavioral research involving prisoners and advocate for regulatory reforms that restore participatory research rights of prisoners. Disparities in health and justice are intertwined, and without regulatory reforms to facilitate participatory research rights of prisoners and careful planning of viable and responsible recruitment, engagement, and retention strategies, Initiative could miss discovery opportunities, exacerbate health disparities, and increase levels of distrust in science.
A guide to the application-oriented selection of AC/AC converter topologies

A comprehensive review and a comparative evaluation of AC/AC converter topologies are presented. The aim is to provide guidelines for selecting an optimum technology for a given application. The topologies are discussed and evaluated based on the type of link they use. The essential features associated with the links are included. Mixed topologies, which are the focus of significant research activity, are also discussed. >
Using Longitudinal Methods for Analysis of a Short-Term Transportation Demonstration Project

This paper documents an application of panel, or longitudinal data collection in the evaluation of a TSM (Transportation Systems Management) demonstration project. The project was a four-week demonstration of staggered work hours in downtown Honolulu during February–March 1988. The 4 wave panel survey elicited commuting experiences of approximately 2,000 downtown employees at two week intervals before and during the project. The sample involved both employees who participated in the project by shifting their work hours, and those who did not. The panel survey was augmented by floating-car observations of travel times on major routes into downtown Honolulu on the same four dates. The purpose of the analysis was to determine whether employee commute times were affected, and if so, how these changes were distributed among various employee segments. Two methods were used. First, travel time changes were estimated using paired t-tests. Second, regression equations were used to estimate project time savings as a function of trip length, route, and location of residence. Results show that travel time savings due to the project were typically small, less than ten percent. Nonparticipants experienced greater savings than participants, and some segments of participants experienced longer travel times during the project. The panel method proved to be an effective way to measure project travel time impacts and shows that the method is appropriate in short time applications.
Thermodynamics of Water Adsorption and Desorption on Montmorillonite

Methods are presented for determining partial and integral thermodynamic quantities for the change in state of water and clay during the course of their interaction. The quantities determined are: free energy, heat and entropy changes. The effect on the magnitude of these quantities of the nature and amount of the exchangeable cations is reported. It is concluded that the magnitude of change in the thermodynamic quantities due to moving the exchangeable cations out of the hexagonal cavities in the oxygen sheets is considerably greater than that due to the parting of the oxygen sheets during the interlayer expansion.
Ligand binding and the gelation of sickle cell hemoglobin

Abstract The solubility equilibrium between monomer and polymer which has been shown to exist in deoxyhemoglobin S solutions is examined in solutions partially saturated with carbon monoxide. The total solubility is found to increase monotonically with increasing fractional saturation. At low fractional saturations the increase is nearly linear, amounting roughly to an increase of 0.01 g cm −3 in solubility for each 10% increase in fractional saturation. Linear dichroism measurements on the spontaneously aligned polymer phase are used to examine the composition of the polymer as a function of the fractional saturation of the corresponding solution phase. The dichroism experiments show that the polymer phase contains less than 5% of CO-liganded hemes even at supernatant fractional saturations in excess of 70%. The polymer selects against totally liganded hemoglobin molecules by a minimum factor of 65 and against singly liganded molecules by a factor of at least 2.5. Consequently, polymerized hemoglobin S has a ligand affinity which is significantly lower than that of monomeric hemoglobin S in the deoxy quaternary structure. The kinetics of the polymerization reaction in the presence of CO are similar to those observed in pure deoxyhemoglobin S solutions. The polymerization is preceded by a pronounced delay, the duration of which, t d , is proportional roughly to the 30th power of the solubility. At low fractional saturations, this amounts to a tenfold increase in t d for each 10% increase in the fractional saturation. These results show that the polymerization reaction is nearly specific for deoxyhemoglobin. Models for the dependence of the solubility and the polymer saturation on ligand partial pressure demonstrate the importance of solution phase non-ideality in determining the solubility of mixtures. The results require selection against partially liganded species which is significantly greater than is predicted by the two-state allosteric model. The data are compatible with either sequential or allosteric models in which the major polymerized component is the unliganded hemoglobin molecule.
Some Directed Subsets of C*-algebras and Semicontinuity Theory

The main result concerns a sigma-unital C*-algebra A, a strongly lower semicontinuous element h of A**, the enveloping von Neumann algebra, and the set of self-adjoint elements a of A such that a \le h - delta 1 for some delta > 0, where 1 is the identity of A**. The theorem is that this set is directed upward. It follows that if this set is non-empty, then h is the limit of an increasing net of self-adjoint elements of A. A complement to the main result, which may be new even if h = 1, is that if a and b are self-adjoint in A, a \le h, and b \le h - delta 1 for delta > 0, then there is a self-adjoint c in A such that c \le h, a \le c, and b \le c.
Global white matter microstructural abnormalities associated with addiction liability score in drug naïve youth

Abnormalities in brain white matter (WM) structure have been reported in youths having a family history of substance use disorders (SUDs). It was hypothesized that these abnormalities constitute features of the liability for SUDs transmitted across generations. The association between severity of intergenerational risk for SUD, measured by the Transmissible Liability Index (TLI), and white matter microstructure was examined. Diffusion tensor imaging (DTI) measured WM microstructure in forty-four drug-naive 10-14 year-olds (N = 19 with parental SUD). Metrics of WM microstructure (i.e., fractional anisotropy, radial diffusivity, mean diffusivity and axial diffusivity) were quantified across the whole brain and in four tracts of interest: anterior corona radiata, superior and inferior longitudinal fasciculi and superior fronto-occipital fasciculi. The TLI was completed by the youths, their parents and, when available, their teachers. The relationship between WM structure and TLI score across the entire group was evaluated using linear multiple regression and between group comparisons were also examined. Fractional anisotropy and radial diffusivity in multiple tracts across the brain were significantly associated with TLI scores. Confirming and extending prior research, the findings indicate that global atypicality in WM tracts was linearly related to liability for eventual SUD development in drug naive youths.
Common genetic polymorphisms of adenosine A2A receptor do not influence response to regadenoson.

Aim: Hemodynamic response to regadenoson varies greatly, and underlying mechanisms for variability are poorly understood. We hypothesized that five common variants of adenosine A2A receptor (ADORA2A) are associated with altered response to regadenoson. Methods: Consecutive subjects (n = 357) undergoing resting regadenoson nuclear stress imaging were enrolled. Genotyping was performed using Taqman-based assays for rs5751862, rs2298383, rs3761422, rs2267076 and rs5751876. Results: There was no significant difference in heart rate or blood pressure between different genotypes following regadenoson administration. There was also no significant difference in myocardial ischemia detected by nuclear perfusion imaging as defined by summed difference score, or in self-reported side effects among the genotypes tested. Conclusion: The common A2A variants studied are not associated with variability in hemodynamic response to regadenoson or variability in detection of ischemia with nuclear perfusion stress imaging.
Simultaneous driver and wire sizing for performance and power optimization

In this paper, we study the simultaneous driver and wire sizing (SDWS) problem under two objective functions: i) delay minimization only, or ii) combined delay and power dissipation minimization. We present general formulations of the SDWS problem under these two objectives based on the distributed Elmore delay model with consideration of both capacitive power dissipation and short-circuit power dissipation. We show several interesting properties of the optimal SDWS solutions under the two objectives, including an important result which reveals the relationship between driver sizing and optimal wire sizing. These results lead to polynomial time algorithms for computing the lower and upper bounds of optimal SDWS solutions under the two objectives, and efficient algorithms for computing optimal SDWS solutions under the two objectives. We have implemented these algorithms and compared them with existing design methods for driver sizing only or independent driver and wire sizing. Accurate SPICE simulation shows that our methods reduce the delay by up to 12%-49% and power dissipation by 26%-63% compared with existing design methods. >
Homelessness and the Public's Health: Legal Responses:

This commentary addresses public health issues underlying homelessness and related law, policy, and advocacy options. After framing public health issues for affected individuals and the community, legal and policy approaches and related barriers are assessed. Major topics include deficits in housing availability, the role of state-based Medicaid programs, criminalization of homelessness, and the use of emergency declarations seeking to address particular issues related to homelessness in select states and localities.
Nanoscale superconducting memory based on the kinetic inductance of asymmetric nanowire loops

The demand for low-dissipation nanoscale memory devices is as strong as ever. As Moore's law is staggering, and the demand for a low-power-consuming supercomputer is high, the goal of making information processing circuits out of superconductors is one of the central goals of modern technology and physics. So far, digital superconducting circuits could not demonstrate their immense potential. One important reason for this is that a dense superconducting memory technology is not yet available. Miniaturization of traditional superconducting quantum interference devices is difficult below a few micrometers because their operation relies on the geometric inductance of the superconducting loop. Magnetic memories do allow nanometer-scale miniaturization, but they are not purely superconducting (Baek et al 2014 Nat. Commun. 5 3888). Our approach is to make nanometer scale memory cells based on the kinetic inductance (and not geometric inductance) of superconducting nanowire loops, which have already shown many fascinating properties (Aprili 2006 Nat. Nanotechnol. 1 15; Hopkins et al 2005 Science 308 1762). This allows much smaller devices and naturally eliminates magnetic-field cross-talk. We demonstrate that the vorticity, i.e., the winding number of the order parameter, of a closed superconducting loop can be used for realizing a nanoscale nonvolatile memory device. We demonstrate how to alter the vorticity in a controlled fashion by applying calibrated current pulses. A reliable read-out of the memory is also demonstrated. We present arguments that such memory can be developed to operate without energy dissipation.
2009 pandemic influenza a vaccination of pregnant women--King County, Washington State, 2009-2010.

Objectives. Our objectives were to estimate 2009 pandemic influenza A (pH1N1) vaccination coverage among pregnant women and identify associated factors. Methods. We distributed a multimodal survey to 5341 women who gave birth between November 1, 2009, and January 31, 2010, identified by hospitals in King County, Washington State, with maternity services (n = 11). Results. Of 4205 respondents, 3233 (76.9%) reported that they had received pH1N1 vaccine during pregnancy or within 2 weeks after delivery. Women whose prenatal care provider recommended vaccine had a higher vaccination prevalence than women whose provider did not (81.5% vs 29.6%; adjusted prevalence ratio = 2.1; 95% confidence interval = 1.72, 2.58). Vaccination prevalence was lower among women who had received prenatal care from a midwife only compared with women who had received care from other providers (62.9% vs 78.8%; adjusted prevalence ratio = 0.89; 95% confidence interval = 0.83, 0.96). Conclusions. Among pregnant women in King County, pH1N1 vaccination coverage was high. To improve coverage during nonpandemic seasons, influenza vaccine should be recommended routinely by prenatal care providers and vaccination provided where prenatal care is received. Barriers to midwives providing vaccination recommendations to patients should be explored. [ABSTRACT FROM AUTHOR]
Spatiotemporal mode-locking in multimode fiber lasers

A laser is based on the electromagnetic modes of its resonator, which provides the feedback required for oscillation. Enormous progress has been made toward controlling the interactions of longitudinal modes in lasers with a single transverse mode. For example, the field of ultrafast science has been built on lasers that lock many longitudinal modes together to form ultrashort light pulses. However, coherent superposition of longitudinal and transverse modes in a laser has received little attention. We show that modal and chromatic dispersions in fiber lasers can be counteracted by strong spatial and spectral filtering. This allows locking of multiple transverse and longitudinal modes to create ultrashort pulses with a variety of spatiotemporal profiles. Multimode fiber lasers thus open new directions in studies of nonlinear wave propagation and capabilities for applications.
Does choice increase information? Evidence from online school search behavior

Abstract We examine whether changes in the local school choice environment affect the amount of information parents collect about local school quality, using data on over 100 million searches from Greatschools.org. We link monthly data on search frequency in local “Search Units” to information on changes in local open enrollment options driven by No Child Left Behind (NCLB) sanctions as well as state school choice policies including open enrollment, tuition vouchers, charitable scholarship tax credits, and tuition tax credits. Our results indicate that NCLB-driven expansions in school choice have large, positive effects on the frequency of searches done for schools in that area. We find less evidence that state choice policies affect online search behavior, however search frequency also increases when charter school penetration in a given area rises. These estimates suggest that the information parents have about local schools is endogenous to the choice environment they face, and that parental information depends not just on the availability of data but also the incentive to seek and use it.
Do Golden Parachutes Matter? Evidence from Firms that Ultimately Filed for Bankruptcy

Abstract We study bankruptcy outcomes of 275 firms and find that hiring CEOs with golden parachutes (GPs) during financial distress is associated with a lower probability of liquidation. In contrast, firms led by incumbent CEOs with GPs are more likely to be liquidated, as are firms led by new CEOs without GPs. Since GPs are nullified during bankruptcy, the observed relationship cannot be attributed to an explicit incentive effect. Rather, we contend that during financial distress GPs help recruit reputable CEOs who, even without explicit incentives, continue to maximize shareholder value due to implicit reputational and career concerns.
Neither Accidental Nor Intended: Pregnancy as an Adolescent Identity Project Among Hispanic Teenage Mothers in Doña Ana County, New Mexico:

Social scientists have dispelled teen pregnancy’s public characterization as inherently pathological and instead frequently study teen reproductive practices as the result of either socioeconomic a...
Properties of a new adaptive sampling method with applications to scalable learning

Sampling is an important technique for parameter estimation and hypothesis testing widely used in statistical analysis, machine learning and knowledge discovery. Adaptive sampling offers advantages over traditional batch sampling methods in that adaptive sampling often uses much lower number of samples and thus better efficiency while assuring guaranteed level of estimation accuracy and confidence. In our previous works, a new adaptive sampling method was developed, and applied to build an efficient, scalable boosting learning algorithm. In this paper, we present a preliminary theoretical analysis of the proposed sampling method. A new variant of the sampling method is also presented. Empirical simulation results indicate that our methods, both the new variant and the original algorithm, often use significantly lower sample size (i.e., the number of sampled instances) while maintaining competitive accuracy and confidence when compared with batch sampling method.
A Human T-Lymphotropic Retrovirus (HTLV-III) as the Cause of the Acquired Immunodeficiency Syndrome

Three human T-lymphotropic viruses have been isolated and characterized in the past 5 years. The ability to culture target cells with T-cell growth factor and sensitive detection systems for the virally encoded polymerase reverse transcriptase permitted isolation of HTLV-I, which is strongly linked to the cause of adult T-cell leukemia and associated with other lymphoid malignancies in endemic areas. The same techniques, using a permissive human tumor cell line, allowed the isolation and characterization of HTLV-III/lymphadenopathy-associated virus, which is implicated as the primary cause of the acquired immunodeficiency syndrome (AIDS). This virus shares some features with HTLV-I and HTLV-II, such as additional genes not found in most retroviruses. One gene codes for a transcriptional activator protein and may be a feature of a larger group of related retroviruses. The clear identification of the primary cause of AIDS has resulted in the development of specific immunologic reagents, preventive and therapeutic proposals, and comprehensive identification of the clinical diseases associated with this virus.
Glandular Inclusions in Inguinal Hernial Sacs and Spermatic Cords. Müllerian-Like Remnants Confused With Functional Reproductive Structures

Small, glandular inclusions are present in approximately 6% of hernial sacs from prepubertal males. Identical structures may be present in the spermatic cord. Histologically, these are composed of ciliated, low columnar epithelium with eosinophilic cytoplasm and basal nuclei. A mantle of fibrous tissue surrounds each gland-like structure. These epithelial inclusions may be confused with reproductive ducts of functional importance; however, specific histologic features allow ready distinction. The origin of these structures is uncertain, but it is most probable that they are remnants of Mullerian ducts.
Concurrent Agenesis of the Corpus Callosum and Ureteroceles in Siblings

Agenesis of the corpus callosum is an uncommon anomaly that exists in complete and partial forms. It has been associated with other cerebral malformations as well as facial, genitourinary, musculoskeletal, cardiac, and respiratory anomalies.1 Agenesis of the corpus callosum is generally sporadic but it has been reported in several families.2 Ureteroceles frequently occur in association with duplications of the ureters.3 The hereditary occurrence of ureteroceles has been reported in five families.4-8 In this report, we describe two brothers with the simultaneous occurrence of agenesis of the corpus callosum and orthotopic ureteroceles. Two brothers were seen at The Hospital of the Albert Einstein College of Medicine for evaluation of urologic abnormalities.
Why Do Defaults Affect Behavior? Experimental Evidence from Afghanistan

We report on an experiment examining why default options impact behavior. By randomly assigning employees to different varieties of a salary-linked savings account, we find that default enrollment increases participation by 40 percentage points—an effect equivalent to providing a 50% matching incentive. We then use a series of experimental interventions to differentiate between explanations for the default effect, which we conclude is driven largely by present-biased preferences and the cognitive cost of thinking through different savings scenarios. Default assignment also changes employees' attitudes toward saving, and makes them more likely to actively decide to save after the study concludes.
Authoritarian Gridlock? Understanding Delay in the Chinese Legislative System:

Legislative gridlock is often viewed as a uniquely democratic phenomenon. The institutional checks and balances that produce gridlock are absent from authoritarian systems, leading many observers t...
Context-dependent Requirements for FimH and Other Canonical Virulence Factors in Gut Colonization by Extraintestinal Pathogenic Escherichia coli

Extraintestinal pathogenic Escherichia coli (ExPEC) acts as a commensal within the mammalian gut but can induce pathology upon dissemination to other host environments such as the urinary tract and bloodstream. ExPEC genomes are likely shaped by evolutionary forces encountered within the gut, where the bacteria spend much of their time, provoking the question of how their extraintestinal virulence traits arose. The principle of coincidental evolution, in which a gene that evolved in one niche happens to be advantageous in another, has been used to argue that ExPEC virulence factors originated in response to selective pressures within the gut ecosystem. As a test of this hypothesis, the fitness of ExPEC mutants lacking canonical virulence factors was assessed within the intact murine gut in the absence of antibiotic treatment. We found that most of the tested factors, including cytotoxic necrotizing factor type 1 (CNF1), Usp, colibactin, flagella, and plasmid pUTI89, were dispensable for gut colonization. The deletion of genes encoding the adhesin PapG or the toxin HlyA had transient effects but did not interfere with longer-term persistence. In contrast, a mutant missing the type 1 pilus-associated adhesin FimH displayed somewhat reduced persistence within the gut. However, this phenotype varied dependent on the presence of specific competing strains and was partially attributable to aberrant flagellin expression in the absence of fimH These data indicate that FimH and other key ExPEC-associated factors are not strictly required for gut colonization, suggesting that the development of extraintestinal virulence traits is not driven solely by selective pressures within the gut.
Condition Monitoring of Electric Components Using 3-D Printed Multiple Magnetic Coil Antennas

The low-frequency electromagnetic radiated field is utilized in this paper for the purpose of condition monitoring and fault diagnosis of electric components. The main purpose is to build arrays of receiving coils that can detect and monitor the radiated electromagnetic field around the electric component and accordingly utilizing the measured fields in condition monitoring and fault diagnosis of various power components. A flexible 3-D printed coil antenna is proposed to be built, which will detect the fault of the electric machines. Primarily, finding the optimum location of the coil antenna to capture the most sensitive stray field from the components is the objective. Using finite-element method, the most sensitive location for the antenna is first identified for the field around the vicinity of the machine in healthy condition. Then, the radiated field of the machine is observed while short circuit occurred in the coil and winding inside the component. Variation in the amplitude of the harmonic orders of the radiated field helps in the identification of the short circuits. The results are then compared based on the variations of the amplitudes of the healthy and faulty fields and sent to the signal processing unit for diagnosis. As the practical implication of the study, the nonintrusive 3-D printed sensor provides the opportunity to locate the faulty winding in various electric components based on their electromagnetic signatures.
Student Perceptions of the Use of Multimedia for Online Course Communication

A great deal of research exists in the use of multimedia communications in online classrooms as a means of furthering student engagement. However, little research exists that examines the perceptions of students when such technologies are used. Additionally, it is unclear that students are likely to engage in the use of such technologies when available. This research explores the perceptions of 69 students taking both online and hybrid undergraduate project management courses. Specifically, the study seeks to explore how students experienced the use of multimedia by their instructor and classmates in both online announcements and discussions, as well as whether these same students used or would be likely to use multimedia for similar communications. Finally, student perceptions of social presence, the degree to which one is perceived as a real person in computer-mediated communication (Gunawardena, 1995), are examined. The results of the study indicate that while students overwhelming enjoy the instructor’s use of multimedia communication, they are unlikely to engage in using these technologies themselves. A discussion of these results and recommendations for further research complete this paper.
Al Qaeda and the Islamic State's Break: Strategic Strife or Lackluster Leadership?

Employing counterfactuals to assess individual and systemic explanations for the split between Al Qaeda and the Islamic State of Iraq and al-Sham (ISIS), this article concludes that individual lead...
Public Health and Economic Consequences of Vaccine Hesitancy for Measles in the United States

Importance Routine childhood vaccination is declining in some regions of the United States due to vaccine hesitancy, which risks the resurgence of many infectious diseases with public health and economic consequences. There are ongoing policy debates on the state and national level, including legislation around nonmedical (personal-belief) exemptions for childhood vaccination and possibly a special government commission on vaccine safety, which may affect vaccine coverage. Objective To estimate the number of measles cases in US children and the associated economic costs under scenarios of different levels of vaccine hesitancy, using the case example of measles, mumps, and rubella (MMR) vaccination and measles. Design, Setting, and Participants Publicly available data from the US Centers for Disease Control and Prevention were used to simulate county-level MMR vaccination coverage in children (age 2-11 years) in the United States. A stochastic mathematical model was adapted for infectious disease transmission that estimated a distribution for outbreak size as it relates to vaccine coverage. Economic costs per measles case were obtained from the literature. The predicted effects of increasing the prevalence of vaccine hesitancy as well as the removal of nonmedical exemptions were estimated. The model was calibrated to annual measles cases in US children over recent years, and the model prediction was validated using an independent data set from England and Wales. Main Outcomes and Measures Annual measles cases in the United States and the associated public sector costs. Results A 5% decline in MMR vaccine coverage in the United States would result in an estimated 3-fold increase in measles cases for children aged 2 to 11 years nationally every year, with an additional $2.1 million in public sector costs. The numbers would be substantially higher if unvaccinated infants, adolescents, and adult populations were also considered. There was variation around these estimates due to the stochastic elements of measles importation and sensitivity of some model inputs, although the trend was robust. Conclusions and Relevance This analysis predicts that even minor reductions in childhood vaccination, driven by vaccine hesitancy (nonmedical and personal belief exemptions), will have substantial public health and economic consequences. The results support an urgent need to address vaccine hesitancy in policy dialogues at the state and national level, with consideration of removing personal belief exemptions of childhood vaccination.
A System On Chip design for fast time domain impedance spectroscopy

Impedance spectroscopy is a powerful technique that can be employed to determine the physical properties of different materials. In principle the technique can be implemented in the time domain using pulsed signal excitation rather than sweeping across frequencies. The advantage is particularly apparent when the measuring instrument is either traveling through the material medium rapidly, as in the case of a satellite moving through space plasma, or if the medium is for example a fluid that flows past an instrument quickly. Here we describe a Time Domain Impedance Probe (TDIP) circuit design that is used to measure the absolute density of ionospheric plasmas. A preliminary version of this instrument was flown on a sounding rocket, but here we outline the system and circuit design that is being implemented for a Low Earth Orbit (LEO) micro-satellite. The design employs a bridge architecture together with a software adaptive filter and LMS algorithm for fast calibration and data compression. We propose that the design can be generalized, and we present a System On Chip (SOC) concept based on the time domain architecture. The proposed concept appears to be well suited to ultra-fast time domain spectroscopic measurements, but does have some inherent limitations such as increased noise. We suggest that this unavoidable shortcoming can be somewhat mitigated through repetitive pulsing and averaging during the measurement process.
Using machine learning algorithms to identify genes essential for cell survival

With the explosion of data comes a proportional opportunity to identify novel knowledge with the potential for application in targeted therapies. In spite of this huge amounts of data, the solutions to treating complex disease is elusive. One reason being that these diseases are driven by a network of genes that need to be targeted in order to understand and treat them effectively. Part of the solution lies in mining and integrating information from various disciplines. Here we propose a machine learning method to mining through publicly available literature on RNA interference with the goal of identifying genes essential for cell survival. A total of 32,164 RNA interference abstracts were identified from 10.5 million pubmed abstracts (2001 - 2015). These abstracts spanned over 1467 cancer cell lines and 4373 genes representing a total of 25,891 cell gene associations. Among the 1467 cell lines 88% of them had at least 1 or up to 25 genes studied in a given cell line. Among the 4373 genes 96% of them were studied in at least 1 or up to 25 different cell lines. Identifying genes that are crucial for cell survival can be a critical piece of information especially in treating complex diseases, such as cancer. The efficacy of a therapeutic intervention is multifactorial in nature and in many cases the source of therapeutic disruption could be from an unsuspected source. Machine learning algorithms helps to narrow down the search and provides information about essential genes in different cancer types. It also provides the building blocks to generate a network of interconnected genes and processes. The information thus gained can be used to generate hypothesis which can be experimentally validated to improve our understanding of what triggers and maintains the growth of cancerous cells.
On Iterative Collision Search for LPN and Subset Sum

Iterative collision search procedures play a key role in developing combinatorial algorithms for the subset sum and learning parity with noise (LPN) problems. In both scenarios, the single-list pair-wise iterative collision search finds the most solutions and offers the best efficiency. However, due to its complex probabilistic structure, no rigorous analysis for it appears to be available to the best of our knowledge. As a result, theoretical works often resort to overly constrained and sub-optimal iterative collision search variants in exchange for analytic simplicity. In this paper, we present rigorous analysis for the single-list pair-wise iterative collision search method and its applications in subset sum and LPN. In the LPN literature, the method is known as the LF2 heuristic. Besides LF2, we also present rigorous analysis of other LPN solving heuristics and show that they work well when combined with LF2. Putting it together, we significantly narrow the gap between theoretical and heuristic algorithms for LPN.
Dynamic Linkages Among U.S. Real Estate Sectors Before and After the Housing Crisis

This study explores the dynamic nature of linkages among seven key real estate sectors which include residential, health, lodging-resort, storage, office, retail and industrial. Long-run results reveal evidence of increased integration and contagion across the real estate sectors in the wake of the housing crisis. Short-run analyses suggest bi-directional causality and indicate that shocks to one real estate sector have a much more severe and persistent impact on other real estate sectors during the post-crisis period in comparison to the pre-crisis period. Finally, ripple effects are observed across the real estate sectors with shocks emanating from the ``dominant” residential sector and spilling over to other real estate sectors.
Risk factors for Clostridium difficile carriage and C. difficile-associated diarrhea in a cohort of hospitalized patients

A prospective cohort study of 399 consecutive patients in a single ward over an 11-month period was conducted to identify risk factors for nosocomial C. difficile colonization and diarrhea. The incidence of asymptomatic carriage was 13.0/100 patient admissions and the incidence of C. difficile-associated diarrhea was 7.8/100 patient admissions. Increased age and more severe underlying illness were associated with increased risk of C. difficile carriage and diarrhea. Multivariate models adjusting for age and severity of underlying disease associated two risk factors with asymptomatic C. difficile carriage: stool softeners (relative risk [RR] = 2.04) and antacids (RR = 1.80). Five risk factors were associated with C. difficile-associated diarrhea: cephalosporin use (RR = 2.07), penicillin use (RR = 3.41), enemas (RR = 3.26), gastrointestinal stimulants (RR = 3.06), and stool softeners (RR = 1.74). C. difficile was a common nosocomial infection on this ward, resulting in asymptomatic carriage more often than diarrhea and accounting for one-fifth of all cases of nosocomial diarrhea.
The lung tissue microbiota of mild and moderate chronic obstructive pulmonary disease

Oral taxa are often found in the chronic obstructive pulmonary disease (COPD) lung microbiota, but it is not clear if this is due to a physiologic process such as aspiration or experimental contamination at the time of specimen collection. Microbiota samples were obtained from nine subjects with mild or moderate COPD by swabbing lung tissue and upper airway sites during lung lobectomy. Lung specimens were not contaminated with upper airway taxa since they were obtained surgically. The microbiota were analyzed with 16S rRNA gene qPCR and 16S rRNA gene hypervariable region 3 (V3) sequencing. Data analyses were performed using QIIME, SourceTracker, and R. Streptococcus was the most common genus in the oral, bronchial, and lung tissue samples, and multiple other taxa were present in both the upper and lower airways. Each subject’s own bronchial and lung tissue microbiota were more similar to each other than were the bronchial and lung tissue microbiota of two different subjects (permutation test, p = 0.0139), indicating more within-subject similarity than between-subject similarity at these two lung sites. Principal coordinate analysis of all subject samples revealed clustering by anatomic sampling site (PERMANOVA, p = 0.001), but not by subject. SourceTracker analysis found that the sources of the lung tissue microbiota were 21.1% (mean) oral microbiota, 8.7% nasal microbiota, and 70.1% unknown. An analysis using the neutral theory of community ecology revealed that the lung tissue microbiota closely reflects the bronchial, oral, and nasal microbiota (immigration parameter estimates 0.69, 0.62, and 0.74, respectively), with some evidence of ecologic drift occurring in the lung tissue. This is the first study to evaluate the mild-moderate COPD lung tissue microbiota without potential for upper airway contamination of the lung samples. In our small study of subjects with COPD, we found oral and nasal bacteria in the lung tissue microbiota, confirming that aspiration is a source of the COPD lung microbiota.
Impact of Gruesome Photographic Evidence on Legal Decisions: A Meta-Analysis

Gruesome crime scene and autopsy photographs are admissible evidence under the Federal Rules of Evidence (FRE) if their probative value substantially outweighs their prejudicial impact. Despite imp...
Comparative Analysis of the Views of Oncologic Subspecialists and Palliative/Supportive Care Physicians Regarding Advanced Care Planning and End-of-Life Care.

Background:Early palliative/supportive care (PSC) consultation and advance care planning (ACP) improve outcomes for patients with incurable cancer. However, PSC is underutilized in the United State...
Behavior and health beliefs as predictors of HIV testing among women: a prospective study of observed HIV testing.

Much of the research examining predictors of HIV testing has used retrospective self-report to assess HIV testing. Findings. therefore, may be subject to recall bias and to difficulties determining...
Revisiting the Economic Case for Fiscal Union in the Euro Area

After significant progress as an immediate result of the euro crisis, the drive to complete Europe’s Economic and Monetary Union (EMU) has decelerated. While there is a broad consensus in Europe that EMU needs further development, the exact nature and timing of the reform agenda remains controversial. This paper makes an analytical contribution to the ongoing discussion about the euro area’s institutional setup. An in-depth look at the remaining gaps in the euro’s architecture, and the trade-offs that repairing them would present, suggests the need for long-run progress along three mutually supportive tracks. The first is more fiscal risk sharing, which will help enhance the credibility of the sovereign “no-bailout” rule. The second is complementary financial sector reforms to delink sovereigns and banks. And the third is more effective rules to discourage moral hazard. Helpfully, this evolution would ensure that financial markets provide more incentives for fiscal discipline than they do now. Introducing more fiscal union comes with myriad legal, technical, operational, and political problems, however, raising questions well beyond the domain of economics. These difficulties notwithstanding, without decisive progress to foster fiscal risk sharing, EMU will continue to face existential risks.
Instrument-Based vs. Target-Based Rules

We develop a simple model to study rules based on instruments vs. targets. A principal faces a better informed but biased agent and relies on joint punishments as incentives. Instrument-based rules condition incentives on the agent's observable action; target-based rules condition incentives on outcomes that depend on the agent's action and private information. In each class, an optimal rule takes a threshold form and imposes the worst punishment upon violation. Target-based rules dominate instrument-based rules if and only if the agent's information is sufficiently precise. An optimal unconstrained rule relaxes the instrument threshold whenever the target threshold is satisfied.
Impaired Expected Value Computations Coupled With Overreliance on Stimulus-Response Learning in Schizophrenia.

Abstract Background While many have emphasized impaired reward prediction error (RPE) signaling in schizophrenia, multiple studies suggest that some decision-making deficits may arise from overreliance on stimulus-response systems together with a compromised ability to represent expected value. Guided by computational frameworks, we formulated and tested two scenarios in which maladaptive representations of expected value should be most evident, thereby delineating conditions that may evoke decision-making impairments in schizophrenia. Methods In a modified reinforcement learning paradigm, 42 medicated people with schizophrenia (PSZ) and 36 healthy volunteers learned to select the most frequently rewarded option in a 75-25 pair: once when presented with more deterministic (90-10) and once when presented with more probabilistic (60-40) pairs. Novel and old combinations of choice options were presented in a subsequent transfer phase. Computational modeling was employed to elucidate contributions from stimulus-response systems (" actor-critic ") and expected value (" Q-learning "). Results PSZ showed robust performance impairments with increasing value difference between two competing options, which strongly correlated with decreased contributions from expected value-based (" Q-learning ") learning. Moreover, a subtle yet consistent contextual choice bias for the "probabilistic" 75 option was present in PSZ, which could be accounted for by a context-dependent RPE in the " actor-critic ". Conclusions We provide evidence that decision-making impairments in schizophrenia increase monotonically with demands placed on expected value computations. A contextual choice bias is consistent with overreliance on stimulus-response learning, which may signify a deficit secondary to the maladaptive representation of expected value. These results shed new light on conditions under which decision-making impairments may arise.
Environmental fitness heterogeneity in the Moran process

Many mathematical models of evolution assume that all individuals experience the same environment. Here, we study the Moran process in heterogeneous environments. The population is of finite size w...
Fast Model Identification via Physics Engines for Data-Efficient Policy Search.

This paper presents a method for identifying mechanical parameters of robots or objects, such as their mass and friction coefficients. Key features are the use of off-the-shelf physics engines and the adaptation of a Bayesian optimization technique towards minimizing the number of real-world experiments needed for model-based reinforcement learning. The proposed framework reproduces in a physics engine experiments performed on a real robot and optimizes the model's mechanical parameters so as to match real-world trajectories. The optimized model is then used for learning a policy in simulation, before real-world deployment. It is well understood, however, that it is hard to exactly reproduce real trajectories in simulation. Moreover, a near-optimal policy can be frequently found with an imperfect model. Therefore, this work proposes a strategy for identifying a model that is just good enough to approximate the value of a locally optimal policy with a certain confidence, instead of wasting effort on identifying the most accurate model. Evaluations, performed both in simulation and on a real robotic manipulation task, indicate that the proposed strategy results in an overall time-efficient, integrated model identification and learning solution, which significantly improves the data-efficiency of existing policy search algorithms.
Extended Producer Responsibility for Durable Products

Problem definition: We study how extended producer responsibility (EPR) legislation implementations for durable products should differ from those for nondurable products. Academic/practical relevan...
Amyloid clearance defect in ApoE4 astrocytes is reversed by epigenetic correction of endosomal pH.

Endosomes have emerged as a central hub and pathogenic driver of Alzheimer's disease (AD). The earliest brain cytopathology in neurodegeneration, occurring decades before amyloid plaques and cognitive decline, is an expansion in the size and number of endosomal compartments. The strongest genetic risk factor for sporadic AD is the e4 allele of Apolipoprotein E (ApoE4). Previous studies have shown that ApoE4 potentiates presymptomatic endosomal dysfunction and defective endocytic clearance of amyloid beta (Aβ), although how these two pathways are linked at a cellular and mechanistic level has been unclear. Here, we show that aberrant endosomal acidification in ApoE4 astrocytes traps the low-density lipoprotein receptor-related protein (LRP1) within intracellular compartments, leading to loss of surface expression and Aβ clearance. Pathological endosome acidification is caused by e4 risk allele-selective down-regulation of the Na+/H+ exchanger isoform NHE6, which functions as a critical leak pathway for endosomal protons. In vivo, the NHE6 knockout (NHE6KO) mouse model showed elevated Aβ in the brain, consistent with a causal effect. Increased nuclear translocation of histone deacetylase 4 (HDAC4) in ApoE4 astrocytes, compared with the nonpathogenic ApoE3 allele, suggested a mechanistic basis for transcriptional down-regulation of NHE6. HDAC inhibitors that restored NHE6 expression normalized ApoE4-specific defects in endosomal pH, LRP1 trafficking, and amyloid clearance. Thus, NHE6 is a downstream effector of ApoE4 and emerges as a promising therapeutic target in AD. These observations have prognostic implications for patients who have Christianson syndrome with loss of function mutations in NHE6 and exhibit prominent glial pathology and progressive hallmarks of neurodegeneration.