Use of Macroinvertebrate Predictive Models to Evaluate Stream Restoration Effect

Multivariate analysis was used to build macroinvertebrate predictive models for stream assessment in Britain, Australia, and the west coast of the United States. The philosophy behind these predictive models was similar, but variations exist and have been adapted for different regions. The macroinvertebrate predictive model in Maryland has been improved using Region-style models, including the Assessment by Nearest Neighbour Analysis (ANNA), the Burn's Region of Influence (BROI), and the New Datum Region of Influence (NROI) predictive schemes. For better prediction precision, different parameter selection methods (stepwise AIC, exhaustive AIC, and exhaustive BIC) and rational multiple regression function checking have been used to prevent overfitting. Root mean squared error (RMSE) was used to select the final best model. The calibration results from the Region-Style models are better than those from previously built River InVertebrate Prediction And Classification System (RIVPACS)-style model. The different parameter selection criteria along with rational regression function checking discourage overfitting and improve the prediction results. Region-style methods can be alternative methods for building predictive model. GISHydro2000 is a GIS-based program for performing hydrologic analysis in Maryland. This tool was used to determine numerous hydrologic characteristics as potential predictors to be used in the macroinvertebrate predictive model. The best performing ANNA, BROI, and NROI predictive models can be automated in the GISHydro2000 environment. Theses multivariate analyses (i.e., Observed/Expected (O/E) scores), as well as multimetric analysis (i.e., Benthic Index of Biotic Integrity (IBI) metrics), were applied to evaluate the stream restoration sites in Montgomery County, Maryland. The evaluation results show most stream habitat conditions were still degraded after stream restoration projects. The environmental stressors at the stream site were not immediately alleviated by the restoration design, or the stressors overshadowed the restoration efforts. At many sites, the stream condition starts to recover at the 3rd- or 4th- year post-restoration. More time may be needed for monitoring the recovery of stream ecosystems. The benthic IBI metrics response to not only environmental stressor, but also other natural variances. The results suggested that O/E scores from multivariate analysis provides valuable supplemental information for evaluating stream health

“An ethnographic seduction”: how qualitative research and Agent-based models can benefit each other

We provide a general analytical framework for empirically informed agent-based simulations. This methodology provides present-day agent-based models with a sound and proper insight as to the behavior of social agents — an insight that statistical data often fall short of providing at least at a micro level and for hidden and sensitive populations. In the other direction, simulations can provide qualitative researchers in sociology, anthropology and other fields with valuable tools for: (a) testing the consistency and pushing the boundaries, of specific theoretical frameworks; (b) replicating and generalizing results; (c) providing a platform for cross-disciplinary validation of results

Dynamic association between energy transition technologies, renewable energy production, trade openness, green investment, carbon tax, and carbon neutrality: empirical evidences from China

The existing millennium documents the most adverse consequences of global warming which in contrast to pre-industrial era are more devastating. Thus, these prevailing consequences raise numerous concerns regarding the well-being of future and current generation. Scholars, in this regard, are putting efforts punctiliously towards methods that could halt the surging emissions. This paper also attempts to contributes to existing literature by reporting the empirical evidences regarding the role of energy transition technologies, renewable energy production (REP), trade openness, green investment, and carbon taxes in carbon neutrality in Chinse economy covering the time span of 1980–2020. By employing Dynamic Auto-regressive Distributed Lags (DARDL) model to check the association, findings exposed that electricity production from water sources, electricity production from solar sources, REP, trade openness, green investment, and carbon taxes are negatively correlated with CO2 emissions. Study offers policymakers a help in formulating policies related to achieve carbon neutrality using renewable sources of energy production, carbon taxes, and green investmen

Ion heating resulting from pickup in magnetic reconnection exhausts

Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/95415/1/jgra19672.pd

caCORRECT2: Improving the accuracy and reliability of microarray data in the presence of artifacts

© 2011 Moffitt et al.; licensee BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.DOI: 10.1186/1471-2105-12-383Background. In previous work, we reported the development of caCORRECT, a novel microarray quality control system built to identify and correct spatial artifacts commonly found on Affymetrix arrays. We have made recent improvements to caCORRECT, including the development of a model-based data-replacement strategy and integration with typical microarray workflows via caCORRECT's web portal and caBIG grid services. In this report, we demonstrate that caCORRECT improves the reproducibility and reliability of experimental results across several common Affymetrix microarray platforms. caCORRECT represents an advance over state-of-art quality control methods such as Harshlighting, and acts to improve gene expression calculation techniques such as PLIER, RMA and MAS5.0, because it incorporates spatial information into outlier detection as well as outlier information into probe normalization. The ability of caCORRECT to recover accurate gene expressions from low quality probe intensity data is assessed using a combination of real and synthetic artifacts with PCR follow-up confirmation and the affycomp spike in data. The caCORRECT tool can be accessed at the website: http://cacorrect.bme.gatech.edu webcite. Results. We demonstrate that (1) caCORRECT's artifact-aware normalization avoids the undesirable global data warping that happens when any damaged chips are processed without caCORRECT; (2) When used upstream of RMA, PLIER, or MAS5.0, the data imputation of caCORRECT generally improves the accuracy of microarray gene expression in the presence of artifacts more than using Harshlighting or not using any quality control; (3) Biomarkers selected from artifactual microarray data which have undergone the quality control procedures of caCORRECT are more likely to be reliable, as shown by both spike in and PCR validation experiments. Finally, we present a case study of the use of caCORRECT to reliably identify biomarkers for renal cell carcinoma, yielding two diagnostic biomarkers with potential clinical utility, PRKAB1 and NNMT. Conclusions. caCORRECT is shown to improve the accuracy of gene expression, and the reproducibility of experimental results in clinical application. This study suggests that caCORRECT will be useful to clean up possible artifacts in new as well as archived microarray data

Performance measures of net-enabled hypercompetitive industries: the case of tourism

This paper investigates the theory and practise of e-metrics. It examines the tourism sector as one of the most successful sectors on-line and identifies best practice in the industry. Qualitative research with top e-Marketing executives demonstrates the usage and satisfaction levels from current e-metrics deployment, selection of e-metrics for ROI calculation as well as intention of new e-metrics implementation and future trends and developments. This paper concludes that tourism organizations gradually realise the value of e-measurement and are willing to implement e-metrics to enable them evaluate the effectiveness of their planning processes and assess their results against their short and the long term objectives

Factors Associated With Prolonged Length of Stay for Elective Hepatobiliary and Neurosurgery Patients: A Retrospective Medical Record Review

Background: Patients with prolonged length of hospital stay (LOS) not only increase their risks of nosocomial infections but also deny other patients access to inpatient care. Hepatobiliary (HPB) malignancies have some of highest incidences in East and Southeast Asia and the management of patients undergoing HPB surgeries have yet to be standardized. With improved neurosurgery techniques for intracranial aneurysms and tumors, neurosurgeries (NS) can be expected to increase. Elective surgeries account for far more operations than emergencies surgeries. Thus, with potentially increased numbers of elective HPB and NS, this study seeks to explore perioperative factors associated with prolonged LOS for these patients to improve safety and quality of practice. Methods: A retrospective cross-sectional medical record review study from January 2014 to January 2015 was conducted at a 1250-bed tertiary academic hospital in Singapore. All elective HPB and NS patients over 18　years old were included in the study except day and emergency surgeries, resulting in 150 and 166 patients respectively. Prolonged LOS was defined as above median LOS based on the complexity of the surgical procedure. The predictor variables were preoperative, intraoperative, and postoperative factors. Student\u27s t-test and stepwise logistic regression analyses were conducted to determine which factors were associated with prolonged LOS. Results: Factors associated with prolonged LOS for the HPB sample were age and admission after 5　pm but for the NS sample, they were functional status, referral to occupational therapy, and the number of hospital-acquired infections. Conclusion: Our findings indicate that preoperative factors had the greatest association with prolonged LOS for HPB and NS elective surgeries even after adjusting for surgical complexity, suggesting that patient safety and quality of care may be improved with better pre-surgery patient preparation and admission practices

Prompting Large Language Models to Generate Code-Mixed Texts: The Case of South East Asian Languages

While code-mixing is a common linguistic practice in many parts of the world, collecting high-quality and low-cost code-mixed data remains a challenge for natural language processing (NLP) research. The proliferation of Large Language Models (LLMs) in recent times compels one to ask: can these systems be used for data generation? In this article, we explore prompting LLMs in a zero-shot manner to create code-mixed data for five languages in South East Asia (SEA) -- Indonesian, Malay, Chinese, Tagalog, Vietnamese, as well as the creole language Singlish. We find that ChatGPT shows the most potential, capable of producing code-mixed text 68% of the time when the term "code-mixing" is explicitly defined. Moreover, both ChatGPT and InstructGPT's (davinci-003) performances in generating Singlish texts are noteworthy, averaging a 96% success rate across a variety of prompts. The code-mixing proficiency of ChatGPT and InstructGPT, however, is dampened by word choice errors that lead to semantic inaccuracies. Other multilingual models such as BLOOMZ and Flan-T5-XXL are unable to produce code-mixed texts altogether. By highlighting the limited promises of LLMs in a specific form of low-resource data generation, we call for a measured approach when applying similar techniques to other data-scarce NLP contexts

Lineage-Specific Methyltransferases Define the Methylome of the Globally Disseminated Escherichia coli ST131 Clone.

UNLABELLED: Escherichia coli sequence type 131 (ST131) is a clone of uropathogenic E. coli that has emerged rapidly and disseminated globally in both clinical and community settings. Members of the ST131 lineage from across the globe have been comprehensively characterized in terms of antibiotic resistance, virulence potential, and pathogenicity, but to date nothing is known about the methylome of these important human pathogens. Here we used single-molecule real-time (SMRT) PacBio sequencing to determine the methylome of E. coli EC958, the most-well-characterized completely sequenced ST131 strain. Our analysis of 52,081 methylated adenines in the genome of EC958 discovered three (m6)A methylation motifs that have not been described previously. Subsequent SMRT sequencing of isogenic knockout mutants identified the two type I methyltransferases (MTases) and one type IIG MTase responsible for (m6)A methylation of novel recognition sites. Although both type I sites were rare, the type IIG sites accounted for more than 12% of all methylated adenines in EC958. Analysis of the distribution of MTase genes across 95 ST131 genomes revealed their prevalence is highly conserved within the ST131 lineage, with most variation due to the presence or absence of mobile genetic elements on which individual MTase genes are located. IMPORTANCE: DNA modification plays a crucial role in bacterial regulation. Despite several examples demonstrating the role of methyltransferase (MTase) enzymes in bacterial virulence, investigation of this phenomenon on a whole-genome scale has remained elusive until now. Here we used single-molecule real-time (SMRT) sequencing to determine the first complete methylome of a strain from the multidrug-resistant E. coli sequence type 131 (ST131) lineage. By interrogating the methylome computationally and with further SMRT sequencing of isogenic mutants representing previously uncharacterized MTase genes, we defined the target sequences of three novel ST131-specific MTases and determined the genomic distribution of all MTase target sequences. Using a large collection of 95 previously sequenced ST131 genomes, we identified mobile genetic elements as a major factor driving diversity in DNA methylation patterns. Overall, our analysis highlights the potential for DNA methylation to dramatically influence gene regulation at the transcriptional level within a well-defined E. coli clone

Long-term streamflow trends in Hawai'i and implications for native stream fauna

Climate change has fundamentally altered the water cycle in tropical islands, which is a critical driver of freshwater ecosystems. To examine how changes in streamflow regime have impacted habitat quality for native migratory aquatic species, we present a 50‐year (1967–2016) analysis of hydrologic records in 23 unregulated streams across the five largest Hawaiian Islands. For each stream, flow was separated into direct run‐off and baseflow and high‐ and low‐flow statistics (i.e., Q10 and Q90) with ecologically important hydrologic indices (e.g., frequency of flooding and low flow duration) derived. Using Mann–Kendall tests with a running trend analysis, we determined the persistence of streamflow trends through time. We analysed native stream fauna from ~400 sites, sampled from 1992 to 2007, to assess species richness among islands and streams. Declines in streamflow metrics indicated a general drying across the islands. In particular, significant declines in low flow conditions (baseflows), were experienced in 57% of streams, compared with a significant decline in storm flow conditions for 22% of streams. The running trend analysis indicated that many of the significant downward trends were not persistent through time but were only significant if recent decades (1987–2016) were included, with an average decline in baseflow and run‐off of 10.90% and 8.28% per decade, respectively. Streams that supported higher native species diversity were associated with moderate discharge and baseflow index, short duration of low flows, and negligible downward trends in flow. A significant decline in dry season flows (May–October) has led to an increase in the number of no‐flow days in drier areas, indicating that more streams may become intermittent, which has important implications for mauka to makai (mountain to ocean) hydrological connectivity and management of Hawai'i's native migratory freshwater fauna