Replication of Known Dental Characteristics in Porcine Skin: Emerging Technologies for the Imaging Specialist

This study demonstrates that it is sometimes possible to replicate patterns of human teeth in pig skin and determine scientifically that a given injury pattern (bite mark) correlates with the dentitions of a very small proportion of a population dataset, e.g., 5 percent or even 1 percent. The authors recommend building on the template of this research with a sufficiently large database of samples that reflects the diverse world population. They also envision the development of a sophisticated imaging software application that enables forensic examiners to insert parameters for measurement, as well as additional methods of applying force to produce bite marks for research. The authors further advise that this project is applied science for injury pattern analysis and is only foundational research that should not be cited in testimony and judicial procedures. It supplements but does not contradict current guidelines of the American Board of Forensic Odontology regarding bite mark analysis and comparisons. A much larger population database must be developed. The project’s methodology is described in detail, accompanied by 11 tables and 41 figures

Software evolution prediction using seasonal time analysis: a comparative study

Prediction models of software change requests are useful for supporting rational and timely resource allocation to the evolution process. In this paper we use a time series forecasting model to predict software maintenance and evolution requests in an open source software project (Eclipse), as an example of projects with seasonal release cycles. We build an ARIMA model based on data collected from Eclipse’s change request tracking system since the project’s start. A change request may refer to defects found in the software, but also to suggested improvements in the system under scrutiny. Our model includes the identification of seasonal patterns and tendencies, and is validated through the forecast of the change requests evolution for the next 12 months. The usage of seasonal information significantly improves the estimation ability of this model, when compared to other ARIMA models found in the literature, and does so for a much longer estimation period. Being able to accurately forecast the change requests’ evolution over a fairly long time period is an important ability for enabling adequate process control in maintenance activities, and facilitates effort estimation and timely resources allocation. The approach presented in this paper is suitable for projects with a relatively long history, as the model building process relies on historic data

RNA-Seq optimization with eQTL gold standards.

BackgroundRNA-Sequencing (RNA-Seq) experiments have been optimized for library preparation, mapping, and gene expression estimation. These methods, however, have revealed weaknesses in the next stages of analysis of differential expression, with results sensitive to systematic sample stratification or, in more extreme cases, to outliers. Further, a method to assess normalization and adjustment measures imposed on the data is lacking.ResultsTo address these issues, we utilize previously published eQTLs as a novel gold standard at the center of a framework that integrates DNA genotypes and RNA-Seq data to optimize analysis and aid in the understanding of genetic variation and gene expression. After detecting sample contamination and sequencing outliers in RNA-Seq data, a set of previously published brain eQTLs was used to determine if sample outlier removal was appropriate. Improved replication of known eQTLs supported removal of these samples in downstream analyses. eQTL replication was further employed to assess normalization methods, covariate inclusion, and gene annotation. This method was validated in an independent RNA-Seq blood data set from the GTEx project and a tissue-appropriate set of eQTLs. eQTL replication in both data sets highlights the necessity of accounting for unknown covariates in RNA-Seq data analysis.ConclusionAs each RNA-Seq experiment is unique with its own experiment-specific limitations, we offer an easily-implementable method that uses the replication of known eQTLs to guide each step in one's data analysis pipeline. In the two data sets presented herein, we highlight not only the necessity of careful outlier detection but also the need to account for unknown covariates in RNA-Seq experiments

Data sets and data quality in software engineering

OBJECTIVE - to assess the extent and types of techniques used to manage quality within software engineering data sets. We consider this a particularly interesting question in the context of initiatives to promote sharing and secondary analysis of data sets. METHOD - we perform a systematic review of available empirical software engineering studies. RESULTS - only 23 out of the many hundreds of studies assessed, explicitly considered data quality. CONCLUSIONS - first, the community needs to consider the quality and appropriateness of the data set being utilised; not all data sets are equal. Second, we need more research into means of identifying, and ideally repairing, noisy cases. Third, it should become routine to use sensitivity analysis to assess conclusion stability with respect to the assumptions that must be made concerning noise levels

Surveying the factors that influence maintainability: research design

We want to explore and analyse design decisions that influence maintainability of software. Software maintainability is important because the effort expended on changes and fixes in software is a major cost driver. We take an empirical, qualitative approach, by investigating cases where a change has cost more or less than comparable changes, and analysing the causes for those differences. We will use this analysis of causes as input to following research in which the individual contributions of a selection of those causes will be quantitatively analysed