LLukas22/scidocs huggingface dataset:
A systematic review of software fault prediction studies

0957-4174/$ see front matter 2008 Elsevier Ltd. A doi:10.1016/j.eswa.2008.10.027 * Corresponding author. E-mail addresses: cagatay.catal@bte.mam.gov.tr (C (B. Diri). This paper provides a systematic review of previous software fault prediction studies with a specific focus on metrics, methods, and datasets. The review uses 74 software fault prediction papers in 11 journals and several conference proceedings. According to the review results, the usage percentage of public datasets increased significantly and the usage percentage of machine learning algorithms increased slightly since 2005. In addition, method-level metrics are still the most dominant metrics in fault prediction research area and machine learning algorithms are still the most popular methods for fault prediction. Researchers working on software fault prediction area should continue to use public datasets and machine learning algorithms to build better fault predictors. The usage percentage of class-level is beyond acceptable levels and they should be used much more than they are now in order to predict the faults earlier in design phase of software life cycle. 2008 Elsevier Ltd. All rights reserved.
Phylogenetic Inference of Colony Isolates Comprising Seasonal Microcystis Blooms in Lake Taihu, China

Blooms of the toxin-producing cyanobacterium, Microcystis spp., are an increasingly prevalent water quality problem and health hazard worldwide. China’s third largest lake, Lake Taihu, has been experiencing progressively more severe Microcystis blooms over the past three decades. In 2009 and 2010, individual Microcystis colonies, consisting of four different morphospecies, were isolated and genotyped using a whole-cell multiplex PCR assay. The 16S–23S rDNA-ITS sequences were aligned based on Bayesian inference and indicated that one morphospecies was genetically unique (Microcystis wesenbergii) and three were indistinguishable (Microcystis aeruginosa, Microcystis flos-aquae, and Microcystis ichthyoblabe). Microcystin (mcyB) genes were detected intermittently in two of the morphospecies while the other two morphospecies lacked the mcyB gene in all samples. Water temperature was found to influence bloom formation and morphotype prevalence, and chlorophyll a and temperature were positively and significantly correlated with microcystin concentration. Cooler water temperatures promoted toxigenic strains of Microcystis. Wind appeared to influence the distribution of morphotypes across the lake, with M. aeruginosa and M. ichthyoblabe being more susceptible to wind stress than M. wesenbergii and M. flos-aquae. The results of this study indicated that the blooms were composed of a variety of Microcystis morphospecies, with more genotypes observed than can be attributed to individual morphotypes. We conclude that morphology is not a reliable indicator of toxigenicity in Lake Taihu, and caution should be exercised when the M. aeruginosa morphotype is present because it is capable of producing MC-LR, the most toxic microcystin isoform.
Greater vertical loading rate in obese compared to normal weight young adults.

BACKGROUND
Obesity is a risk factor for knee osteoarthritis. Altered gait biomechanics are common in obese individuals, and may contribute to the development of knee osteoarthritis. Research has focused on older obese adults with knee osteoarthritis, and it is unclear if young obese individuals display similar aberrant biomechanics. The purpose of this study was to compare gait biomechanics between normal-weight and obese young adults.


METHODS
15 normal-weight (body mass index=21.5 (1.1)) and 15 obese (body mass index=33.5 (3.7)) young adults were recruited and categorized by body mass index. Lower extremity kinematics and kinetics were collected while participants walked at standardized (1m/s) and self-selected speeds. Analysis of variance (group by condition) was used to compare peak vertical ground reaction force, vertical loading rate, peak internal knee extension moment, peak internal knee abduction moment, peak knee flexion angle, and knee flexion excursion between groups.


FINDINGS
Gait biomechanics did not differ between groups during walking at a self-selected speed. When walking at a standardized speed, obese subjects displayed greater instantaneous vertical loading rates (46.2 vs. 35.0 N/s, P<0.001), and lesser knee flexion excursion (5.5° vs. 7.7°, P=0.04). Instantaneous vertical loading rate was greater during walking at a self-selected speed compared to a standardized speed in the obese (P=0.007) and normal weight groups (P=0.001).


INTERPRETATION
As greater loading rates are related to cartilage degeneration, these results suggest that obesity may contribute to knee osteoarthritis. Prospective studies are needed to identify the influence of higher loading rates on knee osteoarthritis.
Decoding the neural representation of story meanings across languages.

Drawing from a common lexicon of semantic units, humans fashion narratives whose meaning transcends that of their individual utterances. However, while brain regions that represent lower-level semantic units, such as words and sentences, have been identified, questions remain about the neural representation of narrative comprehension, which involves inferring cumulative meaning. To address these questions, we exposed English, Mandarin, and Farsi native speakers to native language translations of the same stories during fMRI scanning. Using a new technique in natural language processing, we calculated the distributed representations of these stories (capturing the meaning of the stories in high-dimensional semantic space), and demonstrate that using these representations we can identify the specific story a participant was reading from the neural data. Notably, this was possible even when the distributed representations were calculated using stories in a different language than the participant was reading. Our results reveal that identification relied on a collection of brain regions most prominently located in the default mode network. These results demonstrate that neuro-semantic encoding of narratives happens at levels higher than individual semantic units and that this encoding is systematic across both individuals and languages. Hum Brain Mapp 38:6096-6106, 2017. © 2017 Wiley Periodicals, Inc.
Dimensional stability of heat treated wood floorings.

Heat treated wood (HTW) is successfully applied for floorings due to its better moisture resistance, increased dimensional stability, and uniform colour change to darker, brownish colours. The aim of this work was to define the hygroscopic range and equilibrium moisture content at ambient conditions of heat treated wood of two wood species – ash and beech. Material was treated at two temperature levels, 190 and 210 °C, and the properties were compared with native wood. The reduction in dimensional changes is expressed by volumetric shrinking and Anti Shrink Efficiency (ASE). Additionally, parquet elements were made out of such HTW, oil-impregnated and waxed, and subsequently tested for water vapour and liquid water permeability. Shrinking gradients of HTW were not reduced in comparison with native beech wood, but the absolute reduction in water uptake resulted in cca 50 % lower EMC values and up to cca 60 % improved ASE values. Surface treatment further improved the hygroscopic properties of HTW.
Contribution of early weight gain to childhood overweight and metabolic health: a longitudinal study (EarlyBird 36).

BACKGROUND
Early weight gain (0-5 years) is thought to be an important contributor to childhood obesity and consequently metabolic risk. There is a scarcity of longitudinal studies in contemporary children reporting the impact of early weight gain on metabolic health.


OBJECTIVE
We aimed to assess the impact of early weight gain on metabolic health at 9 years of age.


METHOD
Two hundred thirty-three children (134 boys, 99 girls) with a gestational age of >37 weeks were assessed at birth, 5 years of age, and 9 years of age. Measures included weight SD scores at each time point and excess weight gained (Delta weight SD score) between them. The outcome measure included composite metabolic score (sum of internally derived z scores of insulin resistance, mean blood pressure, triglyceride level, and total cholesterol/high-density lipoprotein cholesterol ratio).


RESULTS
Weight SD score increased by 0.29 SD score in girls and 0.26 SD score in boys from 0 to 5 years of age and by 0.03 SD score in girls and 0.11 SD score in boys from 5 to 9 years of age. Weight SD score correlated poorly to moderately before 5 years of age but strongly after 5 years of age. Birth weight SD score predicted (girls/boys) 2.4%/0% of the variability in composite metabolic score at 9 years of age. Adding Delta weight SD score (0-5 years old) contributed (girls/boys) 11.2%/7.0% to the score, and adding Delta weight SD score (5-9 years old) additionally contributed (girls/boys) 26.4%/16.5%. Importantly, once weight SD score at 9 years of age was known, predictive strength was changed little by adding Delta weight SD score.


CONCLUSIONS
Most excess weight before puberty is gained before 5 years of age. Weight at 5 years of age bears little relation to birth weight but closely predicts weight at 9 years of age. Single measures of current weight are predictive of metabolic health, whereas weight gain within a specific period adds little. A single measure of weight at 5 years of age provides a pointer to future health for the individual. If metabolic status at 9 years of age means future risk, diabetes/cardiovascular prevention strategies might better focus on preschool-aged children, because the die seems to be largely cast by 5 years of age, and a healthy weight early in childhood may be maintained at least into puberty.
Social isolation rearing increases nucleus accumbens dopamine and norepinephrine responses to acute ethanol in adulthood.

BACKGROUND
Early-life stress is associated with increased vulnerability to alcohol addiction. However, the neural substrates linking chronic childhood/adolescent stress and increased risk of alcohol addiction are not well understood. In the nucleus accumbens (NAc), dopamine (DA) and norepinephrine (NE) signaling can be profoundly influenced by stress, anxiety, and drugs of abuse, including ethanol (EtOH). Here, we employed a rodent model of early-life stress that results in enduring increases in behavioral risk factors of alcoholism to gain a better understanding of how chronic adolescent stress may impact the EtOH sensitivity of DA and NE release in the NAc.


METHODS
Male Long-Evans rats were either group housed (GH; 4 rats/cage) or socially isolated (SI; 1 rat/cage) for 6 weeks beginning on postnatal day 28. SI and GH rats were tested in adulthood for anxiety-like behaviors (elevated plus maze), and the effects of EtOH (1 and 2 g/kg; intraperitoneally.) on NAc DA and NE were assessed by microdialysis.


RESULTS
SI animals showed increased anxiety-like behavior compared to GH animals. Although SI had no effect on baseline levels of DA or NE, baseline DA levels were positively correlated with anxiety measures. In addition, while no significant differences were observed with 1 g/kg EtOH, the 2 g/kg dose induced significantly greater DA release in SI animals. Moreover, EtOH (2 g/kg) only elevated NAc NE levels in SI rats.


CONCLUSIONS
These results suggest that chronic early-life stress sensitizes accumbal DA and NE release in response to an acute EtOH challenge. A greater EtOH sensitivity of DA and NE release dynamics in the NAc may contribute to increases in behavioral risk factors of alcoholism, like greater EtOH self-administration, that are observed in SI rats.
The impact of EGFR T790M mutations and BIM mRNA expression on outcome in patients with EGFR-mutant NSCLC treated with erlotinib or chemotherapy in the randomized phase III EURTAC trial.

PURPOSE
Concomitant genetic alterations could account for transient clinical responses to tyrosine kinase inhibitors of the EGF receptor (EGFR) in patients harboring activating EGFR mutations.


EXPERIMENTAL DESIGN
We have evaluated the impact of pretreatment somatic EGFR T790M mutations, TP53 mutations, and Bcl-2 interacting mediator of cell death (BCL2L11, also known as BIM) mRNA expression in 95 patients with EGFR-mutant non-small-cell lung cancer (NSCLC) included in the EURTAC trial (trial registration: NCT00446225).


RESULTS
T790M mutations were detected in 65.26% of patients using our highly sensitive method based on laser microdissection and peptide-nucleic acid-clamping PCR, which can detect the mutation at an allelic dilution of 1 in 5,000. Progression-free survival (PFS) to erlotinib was 9.7 months for those with T790M mutations and 15.8 months for those without, whereas among patients receiving chemotherapy, it was 6 and 5.1 months, respectively (P < 0.0001). PFS to erlotinib was 12.9 months for those with high and 7.2 months for those with low/intermediate BCL2L11 expression levels, whereas among chemotherapy-treated patients, it was 5.8 and 5.5 months, respectively (P = 0.0003). Overall survival was 28.6 months for patients with high BCL2L11 expression and 22.1 months for those with low/intermediate BCL2L11 expression (P = 0.0364). Multivariate analyses showed that erlotinib was a marker of longer PFS (HR = 0.35; P = 0.0003), whereas high BCL2L11 expression was a marker of longer PFS (HR = 0.49; P = 0.0122) and overall survival (HR = 0.53; P = 0.0323).


CONCLUSIONS
Low-level pretreatment T790M mutations can frequently be detected and can be used for customizing treatment with T790M-specific inhibitors. BCL2L11 mRNA expression is a biomarker of survival in EGFR-mutant NSCLC and can potentially be used for synthetic lethality therapies.
Unipolar and bipolar electrogram characteristics predict exit block during pulmonary vein antral isolation.

INTRODUCTION
 The usefulness of unipolar electrograms (EGMs) has been reported in assessing lesion transmurality and conduction block along ablation lines. It is unknown whether unipolar and bipolar EGM characteristics predict exit block during pulmonary vein isolation (PVI) procedures.


METHODS AND RESULTS
 Twenty patients (63 ± 7 years; 14 males [70%]) undergoing PVI with a circular mapping catheter (CMC) placed outside each PV ostium were retrospectively studied. After entrance block was achieved, pacing at each bipole around the CMC was performed to assess for absence of atrial capture (exit block). Bipolar EGMs recorded before pacing were examined for voltage, duration, fractionation, and monophasic morphology. Unipolar EGMs were examined for positive and negative amplitude, PQ segment elevation, fractionation, and monophasic morphology. The association of these parameters with atrial capture (absence of exit block) at each site was analyzed. After achievement of entrance block, only 23 of 64 PV antra (36%) exhibited exit block. Unipolar EGMs at sites with persistent capture were more likely to be fractionated and had larger negative deflections. Bipolar EGMs at sites with persistent capture showed higher amplitude, longer duration, were more likely to be fractionated, and were less likely to be monophasic. In a multivariate logistic regression model, bipolar and unipolar fractionation, bipolar duration, and lack of bipolar monophasic morphology were independently associated with persistent atrial capture.


CONCLUSION
 Specific unipolar and bipolar EGM characteristics are associated with left atrium capture after PV antral isolation. These parameters might be useful in predicting the need for further ablation to achieve exit block.
Vitamin D supplementation in obese type 2 diabetes subjects in Ajman, UAE: a randomized controlled double-blinded clinical trial

Objectives:To study the effect of Vitamin D3 supplementation on metabolic control in an obese type 2 diabetes Emirati population.Methods:This randomized double-blind clinical trial was conducted with 87 vitamin D-deficient obese, type 2 diabetic participants. The vitamin D-group (n=45) and the placebo group (n=42) were matched for gender, age, HbA1c and 25-hydroxy vitamin D (25(OH) D) at the baseline. The study was divided into two phases of 3 months each; in phase 1, the vitamin D-group received 6000 IU vitamin D3/day followed by 3000 IU vitamin D3/day in phase 2, whereas the placebo group (n=42) received matching placebo.Results:After supplementation, serum 25(OH) D peaked in the vitamin D-group in phase 1 (77.2±30.1 nmol/l, P=0.003) followed by a decrease in the phase 2 (61.4±18.8 nmol/l, P=0.006), although this was higher compared with baseline. In the placebo group, no difference was observed in the serum 25(OH) D levels throughout the intervention. Relative to baseline serum, parathyroid hormone decreased 24% (P=0.003) in the vitamin D-group in phase 2, but remained unchanged in the placebo group. No significant changes were observed in blood pressure, fasting blood glucose, HbA1c, C-peptide, creatinine, phosphorous, alkaline phosphatase, lipids, C-reactive protein or thyroid stimulating hormone concentrations compared with baseline in either group.Conclusions:Six months of vitamin D3 supplementation to vitamin D-deficient obese type 2 diabetes patients in the UAE normalized the vitamin D status and reduced the incidence of eucalcemic parathyroid hormone elevation but showed no effect on the metabolic control.
Improving Lexical Choice in Neural Machine Translation

We explore two solutions to the problem of mistranslating rare words in neural machine translation. First, we argue that the standard output layer, which computes the inner product of a vector representing the context with all possible output word embeddings, rewards frequent words disproportionately, and we propose to fix the norms of both vectors to a constant value. Second, we integrate a simple lexical module which is jointly trained with the rest of the model. We evaluate our approaches on eight language pairs with data sizes ranging from 100k to 8M words, and achieve improvements of up to +4.3 BLEU, surpassing phrasebased translation in nearly all settings.1
The Five Components of BIM Performance Measurement

Building Information Modelling (BIM) is an expansive knowledge domain within the Design, Construction and Operation (DCO) industry
Intraoperative continuous monitoring of evoked facial nerve electromyograms in acoustic neuroma surgery

Preservation of facial nerve function is one of the most important goals in acoustic neuroma surgery. We have been using intraoperative continuous monitoring of evoked facial nerve electromyograms (EMGs) since 1997 in acoustic neuroma surgery. We therefore investigated surgically treated patients to clarify the usefulness of this monitoring, and to determine safety criteria for preserving facial nerve function. This intraoperative continuous monitoring of evoked facial nerve EMG is a method for checking the EMG evoked by continuous direct electrical stimulation of the facial nerve during tumor excision. The greatest advantage of this method is the ability to identify changes in EMG in real time. We retrospectively investigated 216 patients with surgically treated acoustic neuroma to identify correlations between parameters in this monitoring and postoperative facial nerve function immediately and 1 year after surgery. In these patients, the functional preservation rate of the facial nerve (House and Brackmann grade 1 or 2 at 1 year after surgery) was 98.6% with a 98.2% mean tumor resection rate. Amplitude preservation ratio correlated significantly with facial nerve function both immediately and 1 year after surgery. To avoid severe facial nerve palsy, a warning criterion of amplitude preservation ratio >50% appears useful. Postoperative course of facial nerve function appears predictable using intraoperative continuous monitoring of evoked facial nerve EMGs. This monitoring is useful to increase the tumor excision rate while avoiding severe postoperative facial nerve palsy in acoustic neuroma surgery.
Investigating Leadership Styles, Behavioural and Managerial Competency Profiles of Successful Project Managers in Greece

This study examines the relationship between behavioural and managerial competency profiles of Project Managers (PMs) and project success in a holistic approach. The Competing Values Model (CVM) and ICB conceptualization (IPMA Competence Baseline, Version 3.0) served as the ground for the operationalisation of managerial and behavioural competencies, respectively. In this way, fifteen critical behavioural competency elements were taken into account (leadership, engagement & motivation, self-control, assertiveness, relaxation, openness, creativity, results orientation, efficiency, consultation, negotiation, conflict and crisis, reliability, values appreciation, ethics). CVM is constituted from two dimensions (Flexibility versus Stability, Internal versus External Focus), defining four quadrants (Open Systems, Human Relations, Internal Processes, Rational Model) that address distinct demands in the organizational arena. Regarding leadership, CVM has also been utilized as a device for mapping Project Managers’ leadership profiles and conducting comparative analysis. The field research was based on a sample of 97 Project Managers. The crucial behavioural, managerial and emotional competency areas as well as the leadership styles contributing most to project success have been detected. The managerial implications derived justify the need for practitioners to be trained in specific categories of competencies. © 2012 The Authors. Published by Elsevier Ltd. Selection and/or peer-review under responsibility of The 2nd International Conference on Integrated Information.
Treatment of borderline personality disorder with psychoanalytically oriented partial hospitalization: an 18-month follow-up.

OBJECTIVE
The aim of this study was to determine whether the substantial gains made by patients with borderline personality disorder following completion of a psychoanalytically oriented partial hospitalization program, in comparison to patients treated with standard psychiatric care, were maintained over an 18-month follow-up period.


METHOD
Forty-four patients who participated in the original study were assessed every 3 months after completion of the treatment phase. Outcome measures included frequency of suicide attempts and acts of self-harm, number and duration of inpatient admissions, service utilization, and self-reported measures of depression, anxiety, general symptom distress, interpersonal functioning, and social adjustment.


RESULTS
Patients who completed the partial hospitalization program not only maintained their substantial gains but also showed a statistically significant continued improvement on most measures in contrast to the patients treated with standard psychiatric care, who showed only limited change during the same period.


CONCLUSIONS
The superiority of psychoanalytically oriented partial hospitalization over standard psychiatric treatment found in a previous randomized, controlled trial was maintained over an 18-month follow-up period. Continued improvement in social and interpersonal functioning suggests that longer-term changes were stimulated.