Miracle-dz/UniFAR-FTUs huggingface dataset:
How much really changes? A case study of firefox version evolution using a clone detector

This paper focuses on the applicability of clone detectors for system evolution understanding. Specifically, it is a case study of Firefox for which the development release cycle changed from a slow release cycle to a fast release cycle two years ago. Since the transition of the release cycle, three times more versions of the software were deployed. To understand whether or not the changes between the newer versions are as significant as the changes in the older versions, we measured the similarity between consecutive versions.We analyzed 82MLOC of C/C++ code to compute the overall change distribution between all existing major versions of Firefox. The results indicate a significant decrease in the overall difference between many versions in the fast release cycle. We discuss the results and highlight how differently the versions have evolved in their respective release cycle. We also relate our results with other results assessing potential changes in the quality of Firefox. We conclude the paper by raising questions on the impact of a fast release cycle.
Assessment, Treatment, and Relapse Prevention: Male Hypoactive Sexual Desire Disorder

There is a dearth of conceptual, clinical, and empirical work in the area of male hypoactive sexual desire disorder. Instead, the sexual medicine approach has focused on erectile dysfunction and premature ejaculation. This conceptual/clinical article focuses on a couple, integrative, psychobiosocial approach to understand, assess, treat, and relapse prevention of this very important problem. The hope is to generate conceptual, clinical, and research interest in this largely ignored dysfunction.
Isolation of the newly described species Mycobacterium celatum from AIDS patients

Mycobacterium celatum is a recently described species which, on the basis of conventional tests, may be misidentified as Mycobacterium xenopi or as belonging to the Mycobacterium avium complex. Only genomic sequencing or high-performance liquid chromatography of cell wall mycolic acids can presently allow a correct identification of this mycobacterium. Two cases of infection due to M. celatum, in AIDS patients, are described here. The quantitative susceptibility pattern of the isolates to a wide spectrum of drugs is also reported.
Adaptation of Artificial Neural Networks Avoiding Catastrophic Forgetting

In connectionist learning, one relevant problem is "catastrophic forgetting" that may occur when a network, trained with a large set of patterns, has to learn new input patterns, or has to be adapted to a different environment. The risk of catastrophic forgetting is particularly high when a network is adapted with new data that do not adequately represent the knowledge included in the original training data. Two original solutions are proposed to reduce the risk that the network focuses on new data only, loosing its generalization capability. The first one, conservative training, is a variant to the target assignment policy, while the second approach, support vector rehearsal, selects from the training set the patterns that lay near the borders of the classes not included in the adaptation set. These patterns are used as sentinels that try to keep unchanged the original boundaries of these classes. Moreover, we investigated the extension of the classical approach consisting in applying linear transformations not only to the input features, but also to the outputs of the internal layers. The motivation is that the outputs of an internal layer represent a projection of the input pattern into a space where it should be easier to learn the classification or transformation expected at the output of the network. We illustrate the problems using an artificial test-bed, and apply our techniques to a set of adaptation tasks in the domain of automatic speech recognition (ASR) based on artificial neural networks. Supervised ASR adaptation experiments with several corpora and for different adaptation types are described. We report on the adaptation potential of different techniques, and on the generalization capability of the adapted networks. The results show that the combination of the proposed approaches mitigates the catastrophic forgetting effects, and always outperforms the use of the classical transformations in the feature space.
Wi-Fi Radar: Recognizing Human Behavior with Commodity Wi-Fi

Wi-Fi, which enables convenient wireless access to Internet services, has become integral to our modern lives. With widely-deployed Wi-Fi infrastructure, modern people can enjoy a variety of online services such as web browsing, online shopping, social interaction, and e-commerce almost at any time and any place. Traditionally, the most significant functionality of Wi-Fi is to enable high-throughput data communication between terminal devices and the Internet. However, beyond that, we observe that a novel type of system based on commodity Wi-Fi is increasingly attracting intense academic interest. Without hardware modification and redeployment, researchers are exploiting channel state information output by commodity Wi-Fi and transforming existing Wi-Fi systems into radar-like ones that can recognize human behavior along with data communication. This fancy functionality is tremendously expanding the boundaries of Wi-Fi to a new realm and triggering revolutionary applications in the context of the Internet of Things. In this article, we provide a guide to and introduce the impressive landscape of this new realm.
Kolmogorov Complexity and Solovay Functions

Solovay proved that there exists a computable upper bound f of the prefix-free Kolmogorov complexity function K such that f (x) = K(x) for infinitely many x. In this paper, we consider the class of computable functions f such that K(x) <= f (x)+O(1) for all x and f (x) <= K(x) + O(1) for infinitely many x, which we call Solovay functions. We show that Solovay functions present interesting connections with randomness notions such as Martin-L\"of randomness and K-triviality.
Ultrafiltration in decompensated heart failure with cardiorenal syndrome.

BACKGROUND Ultrafiltration is an alternative strategy to diuretic therapy for the treatment of patients with acute decompensated heart failure. Little is known about the efficacy and safety of ultrafiltration in patients with acute decompensated heart failure complicated by persistent congestion and worsened renal function. METHODS We randomly assigned a total of 188 patients with acute decompensated heart failure, worsened renal function, and persistent congestion to a strategy of stepped pharmacologic therapy (94 patients) or ultrafiltration (94 patients). The primary end point was the bivariate change from baseline in the serum creatinine level and body weight, as assessed 96 hours after random assignment. Patients were followed for 60 days. RESULTS Ultrafiltration was inferior to pharmacologic therapy with respect to the bivariate end point of the change in the serum creatinine level and body weight 96 hours after enrollment (P=0.003), owing primarily to an increase in the creatinine level in the ultrafiltration group. At 96 hours, the mean change in the creatinine level was -0.04±0.53 mg per deciliter (-3.5±46.9 μmol per liter) in the pharmacologic-therapy group, as compared with +0.23±0.70 mg per deciliter (20.3±61.9 μmol per liter) in the ultrafiltration group (P=0.003). There was no significant difference in weight loss 96 hours after enrollment between patients in the pharmacologic-therapy group and those in the ultrafiltration group (a loss of 5.5±5.1 kg [12.1±11.3 lb] and 5.7±3.9 kg [12.6±8.5 lb], respectively; P=0.58). A higher percentage of patients in the ultrafiltration group than in the pharmacologic-therapy group had a serious adverse event (72% vs. 57%, P=0.03). CONCLUSIONS In a randomized trial involving patients hospitalized for acute decompensated heart failure, worsened renal function, and persistent congestion, the use of a stepped pharmacologic-therapy algorithm was superior to a strategy of ultrafiltration for the preservation of renal function at 96 hours, with a similar amount of weight loss with the two approaches. Ultrafiltration was associated with a higher rate of adverse events. (Funded by the National Heart, Lung, and Blood Institute; ClinicalTrials.gov number, NCT00608491.).
Overexpression of Wilms Tumor 1 Gene as a Negative Prognostic Indicator in Acute Myeloid Leukemia

Chromosomal aberrations are useful in assessing treatment options and clinical outcomes of acute myeloid leukemia (AML) patients. However, 40∼50% of the AML patients showed no chromosomal abnormalities, i.e., with normal cytogenetics aka the CN-AML patients. Testing of molecular aberrations such as FLT3 or NPM1 can help to define clinical outcomes in the CN-AML patients but with various successes. Goal of this study was to test the possibility of Wilms’ tumor 1 (WT1) gene overexpression as an additional molecular biomarker. A total of 103 CN-AML patients, among which 28% had overexpressed WT1, were studied over a period of 38 months. Patient’s response to induction chemotherapy as measured by the complete remission (CR) rate, disease-free survival (DFS) and overall survival (OS) were measured. Our data suggested that WT1 overexpression correlated negatively with the CR rate, DFS and OS. Consistent with previous reports, CN-AML patients can be divided into three different risk subgroups based on the status of known molecular abnormalities, i.e., the favorable (NPM1mt/no FLT3ITD), the unfavorable (FLT3ITD) and the intermediate risk subgroups. The WT1 overexpression significantly reduced the CR, DFS and OS in both the favorable and unfavorable groups. As the results, patients with normal WT1 gene expression in the favorable risk group showed the best clinical outcomes and all survived with complete remission and disease-free survival over the 37 month study period; in contrast, patients with WT1 overexpression in the unfavorable risk group displayed the worst clinical outcomes. WT1 overexpression by itself is an independent and negative indicator for predicting CR rate, DFS and OS of the CN-AML patients; moreover, it increases the statistical power of predicting the same clinical outcomes when it is combined with the NPM1 mt or the FLT3 ITD genotypes that are the good or poor prognostic markers of CN-AML.
Chitinophaga jiangningensis sp. nov., a mineral-weathering bacterium.

A Gram-stain-negative, rod-shaped bacterial strain, JN53(T), was isolated from the surfaces of weathered rock (potassic trachyte) from Nanjing, Jiangsu Province, PR China. Strain JN53(T) grew optimally at 30 °C, pH 7.0. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain JN53(T) belonged to the genus Chitinophaga in the family Chitinophagaceae. It was most closely related to Chitinophaga terrae KP01(T) (97.3 % 16S rRNA gene sequence similarity), Chitinophaga eiseniae YC6729(T) (96.3 %). Strain JN53(T) contained MK-7 as the major menaquinone and homospermidine as the major polyamine. The main fatty acids of strain JN53(T) were iso-C15 : 0, C16 : 1ω5c, C16 : 1ω7c and/or C16 : 1ω6c (summed feature 3), iso-C17 : 0 3-OH, C16 : 0, iso-C15 : 0 3-OH and C16 : 0 3-OH. The polar lipid profile contained phosphatidylethanolamine, unknown aminolipids and unknown lipids. The total DNA G+C content of strain JN53(T) was 49.7 mol%. The low level of DNA-DNA relatedness to other species of the genus Chitinophaga and the many phenotypic properties that distinguished strain JN53(T) from recognized species of this genus demonstrated that isolate JN53(T) should be classified as representing a novel species of the genus Chitinophaga, for which the name Chitinophaga jiangningensis sp. nov. is proposed. The type strain is JN53(T) ( = CCTCC AB 2013166(T) = JCM 19354(T)).
Knowledge Sharing in Russian Companies with Western Participation

This article conceptualizes some well-known difficulties on knowledge sharing in the example of Russia companies with Western participation. Given the highly complex nature of the phenomenon under investigation, this study is limited to exploring insights on sharing, in particular, managerial knowledge in an early stage of a foreign investment. On the basis of case study data, the article argues that some specific features of the Russian national and organizational culture reinforce many of the general problems of knowledge sharing. More specifically, the article focuses on a lack of incentives for knowledge sharing, department thinking and acting, and fear of admitting mistakes as distinctions of Russian knowledge transmitters.
Iron Status and Inflammation in Early Stages of Chronic Kidney Disease

Background/Aims: One of the most common causes of anemia of chronic disease (ACD) is chronic kidney disease. The main pathomechanism responsible for ACD is subclinical inflammation. The key element involved in iron metabolism is hepcidin, however, studies on new indices of iron status are in progress.The aim of the study was to assess the iron status in patients in early stages of chronic kidney disease, iron correlation with inflammation parameters and novel biomarkers of iron metabolism. Methods: The study included 69 patients. Standard laboratory measurements were used to measure the iron status, complete blood count, fibrinogen, prothrombin index, C-reactive protein concentration (CRP), creatinine, urea, uric acid. Commercially available kits were used to measure high-sensitivity CRP, interleukin 6 (IL-6), hepcidin-25, hemojuvelin, soluble transferrin receptor (sTfR), growth differentiation factor-15 (GDF-15) and zonulin. Results: Absolute iron deficiency was present in 17% of the patients, functional iron deficiency was present in 12% of the patients. Functional iron deficiency was associated with significantly higher serum levels of fibrinogen, ferritin, transferrin saturation, total iron binding capacity, hepcidin and older age relative to patients with absolute iron deficiency. In comparison with patients without iron deficiency, patients with functional iron deficiency were older, with lower prothrombin index, higher fibrinogen, CRP, hsCRP, sTfR, GDF-15, urea and lower eGFR. Hepcidin was predicted by markers of inflammation:ferritin, fibrinogen and IL-6. Conclusion: Inflammation is correlated with iron status. Novel biomarkers of iron metabolism might be useful to distinguish iron deficiency anemia connected with inflammation and absolute iron deficiency.
Neurological aspects of taste disorders.

The sense of taste is generally regarded as less important compared with vision and hearing. However, gustatory disorders considerably diminish the pleasures of life and can lead to work-related problems. At its worst, this deficit may become a life-threatening hazard. However, few studies are found in the medical literature on taste disorders, including authoritative textbooks of neurology and internal medicine. 1 One reason for this may be that gustatory functions are tied to the sense of smell, the somatosensory system, and the perception of pain (eg, when spicy food is eaten), which makes it difficult to examine sensations mediated through an individual system. In addition, gustatory dysfunction is rare, eg, compared with olfactory disorders. 2,3 Therefore, the scope of this review from a neurological viewpoint is to alert physicians to the problem of taste disorders and to help in the diagnosis.
PHARMACOKINETICS OF ATORVASTATIN AND ITS HYDROXY METABOLITES IN RATS AND THE EFFECTS OF CONCOMITANT RIFAMPICIN SINGLE DOSES: RELEVANCE OF FIRST-PASS EFFECT FROM HEPATIC UPTAKE TRANSPORTERS, AND INTESTINAL AND HEPATIC METABOLISM

Pharmacokinetic coadministration experiments with atorvastatin (ATV) and rifampicin (RIF) in rats were performed to investigate the potential involvement of hepatic uptake transporters, Oatps (organic anion-transporting polypeptides), during hepatic drug elimination, as an in vivo extension of our recently published cellular and isolated perfused liver studies. ATV was administered orally (10 mg/kg) and intravenously (2 mg/kg) to rats in the absence and presence of a single intravenous dose of RIF (20 mg/kg), and pharmacokinetic parameters were compared between control and RIF-treatment groups. RIF markedly increased the plasma concentrations of ATV and its metabolites when ATV was administered orally. The area under the plasma concentration-time curve (AUC0-∞) for ATV also increased significantly after intravenous dosing of ATV with RIF, but the extent was much less than that observed for oral ATV dosing. Significant increases in plasma levels were observed for both metabolites as well. The 7-fold higher AUC ratio of metabolites to parent drug following oral versus intravenous ATV dosing suggests that ATV undergoes extensive gut metabolism. Both hepatic and intestinal metabolism contribute to the low oral bioavailability of ATV in rats. In the presence of RIF, the liver metabolic extraction was significantly reduced, most likely because of RIF's inhibition on Oatp-mediated uptake, which leads to reduced hepatic amounts of parent drug for subsequent metabolism. Gut extraction was also significantly reduced, but we were unable to elucidate the mechanism of this effect because intravenous RIF caused gut changes in availability. These studies reinforce our hypothesis that hepatic uptake is a major contributor to the elimination of ATV and its metabolites in vivo.
Pressure ulcer prevention: evaluation of an education programme for Swedish nurses.

OBJECTIVE To investigate the effect of an education programme for 20 registered nurses on the following three areas: nurses' knowledge of pressure ulcer risk and prevention; nursing documentation of ulcer prevention; routine use of prevention strategies. METHOD The study had a quasi-experimental design. Data were collected immediately before and after the education programme and at eight-month follow-up. To measure knowledge of pressure ulcer management, a questionnaire was distributed to course participants (n = 19) pre- and post-education. Nursing documentation (n = 138) was audited pre- and post-education. To gain information on the routine use of prevention strategies, head nurses (n = 20) were interviewed and the patients' care environment (n = 21) was observed pre-education, while a nurse questionnaire was completed (n = 15) at the eight-month follow-up. RESULTS In relation to pressure ulcer prevention, nurses' knowledge, documentation and ward routines were unsatisfactory before the education programme. However, the eight-month follow-up showed that 11 nurses (55%) had implemented new ward routines. Documentation was still lacking after the programme, although it was more detailed. CONCLUSION The education programme succeeded in encouraging and empowering the nurses to change clinical practice.
AN ELECTRON MICROSCOPE STUDY OF THE EARLY ASSOCIATION BETWEEN TWO MAMMALIAN VIRUSES AND THEIR HOSTS

Early interaction between two animal viruses, vaccinia and adenovirus 7, which multiply readily in L strain and HeLa cells, respectively, was examined in both whole mount preparations and in thin sections. To observe the association at the surface, cells carrying adsorbed virus were swelled under controlled conditions and then "stained" with neutral phosphotungstate. Each particle of both virus types becomes attached to the cell by several capsomeres and is then ingested by phagocytosis. Within the cell, near the surface, single particles or small clumps of adenovirus are lodged within vesicles. Deeper in the cytoplasm this virus is packed in large, numerous inclusions, whereas very close to the nuclear envelope only free particles are found. Vaccinia, on the other hand, either free or in vesicles, is always found in the cytoplasm, at some distance from the nucleus (11). Adsorption and intracellular disposition of these two viruses is discussed in relation to the infectious process.
Mechanistic and Predictive Profiling of 5-Fluorouracil Resistance in Human Cancer Cells

Gene expression was analyzed in five pairs of 5-fluorouracil (5-FU) resistant and parental cancer cell lines on DNA microarrays. In unsupervised analysis, a prediction rule was built from the expression profiles of 29 genes, and 5-FU sensitivity class was predicted with 100% accuracy and high predictive strength. In supervised analysis of key 5-FU pathways, expression of 91 genes was associated with 5-FU sensitivity phenotype and segregated samples accordingly in hierarchical analysis. Key genes involved in 5-FU activation were significantly down-regulated (thymidine kinase, 2.9-fold; orotate phosphoribosyltransferase, 2.3-fold; uridine monophosphate kinase, 3.2-fold; pyrimidine nucleoside phosphorylase 3.6-fold) in resistant cells. Overexpression of thymidylate synthase and its adjacent gene, c-Yes, was detected in the resistant cell lines. The mRNA and protein overexpression of nuclear factor κB (NFκB) p65 and related antiapoptotic c-Flip gene was detected in resistant cells. The 5-FU-resistant cell lines also showed high NFκB DNA-binding activity. Cotransfection of NFκB p50 and p65 cDNA induced 5-FU resistance in MCF-7 cells. Both NFκB- and 5-FU-induced resistant cell lines manifested reduced expression of genes governing G1-S and S-phase transition. Expression of genes involved in DNA replication was also down-regulated in resistant cell lines. These findings were highly consistent with the slower growth rate, higher proportion of G1, and lower proportion of S-phase cells in the resistant cell lines. This phenotype may protect resistant cells from cell death induced by incorporation of 5-FU into DNA chains, by allowing time to repair 5-FU-induced damage. Our findings may provide novel targets for tackling 5-FU resistance.
Genetic Variants in MiRNA Processing Genes and Pre-MiRNAs Are Associated with the Risk of Chronic Lymphocytic Leukemia

Genome wide association studies (GWAS) have identified several low-penetrance susceptibility alleles in chronic lymphocytic leukemia (CLL). Nevertheless, these studies scarcely study regions that are implicated in non-coding molecules such as microRNAs (miRNAs). Abnormalities in miRNAs, as altered expression patterns and mutations, have been described in CLL, suggesting their implication in the development of the disease. Genetic variations in miRNAs can affect levels of miRNA expression if present in pre-miRNAs and in miRNA biogenesis genes or alter miRNA function if present in both target mRNA and miRNA sequences. Therefore, the present study aimed to evaluate whether polymorphisms in pre-miRNAs, and/or miRNA processing genes contribute to predisposition for CLL. A total of 91 SNPs in 107 CLL patients and 350 cancer-free controls were successfully analyzed using TaqMan Open Array technology. We found nine statistically significant associations with CLL risk after FDR correction, seven in miRNA processing genes (rs3805500 and rs6877842 in DROSHA, rs1057035 in DICER1, rs17676986 in SND1, rs9611280 in TNRC6B, rs784567 in TRBP and rs11866002 in CNOT1) and two in pre-miRNAs (rs11614913 in miR196a2 and rs2114358 in miR1206). These findings suggest that polymorphisms in genes involved in miRNAs biogenesis pathway as well as in pre-miRNAs contribute to the risk of CLL. Large-scale studies are needed to validate the current findings.