Miracle-dz/UniFAR-FTUs huggingface dataset:
Low incidence of secondary neoplasia after autotransplantation for lymphoproliferative disease: the role of pre‐transplant therapy

Abstract: To asses the real contribution of pre‐transplantation treatment in the incidence of secondary neoplasia after autologous transplant for lymphoproliferative disorders, we used stringent inclusion/exclusion criteria. One hundred and forty‐two patients out of 323 that underwent autologous transplantation for lymphoproliferative disorders were studied. The risk factors that were evaluated with univariate and multivariate analysis included: gender, sex, age, diagnosis, radiotherapy, and chemotherapy prior to conditioning regimen, disease status at peripheral blood stem‐cell transplantation (PBSCT) and type of harvest. Three patients developed secondary myelodysplastic syndrome/acute myeloid leukemia (sMDS/AML) and three patients developed solid neoplasia. By univariate analysis diagnosis chronic lymphocytic leukemia and use of fludarabine and monoclonal antibodies were the only variables significantly associated with the development of sMDS/AML. By multivariate analysis, the variables associated with sMDS/AML were the use of fludarabine and disease status at PBSCT. By univariate analysis, we found that radiotherapy and the use of monoclonal antibodies were significantly associated with the development of secondary solid neoplasia. Multivariate analysis confirmed that the only two variables significantly associated with new cancers were radiotherapy and prior treatment with monoclonal antibodies. We report the lowest incidence of sMDS/AML after autologous stem‐cell transplantation for lymphoproliferative malignancies. Major reasons could be ascribed to the stringent inclusion/exclusion criteria used to establish the real incidence of sMDS/AML because of chemo‐radiotherapy used before transplant procedure. The low incidence of secondary solid tumors could be caused by the absence of total body irradiation as part of the conditioning regimen or the short follow‐up.
A Novel Severe Acute Respiratory Syndrome Coronavirus Protein, U274, Is Transported to the Cell Surface and Undergoes Endocytosis

ABSTRACT The severe acute respiratory syndrome coronavirus (SARS-CoV) genome contains open reading frames (ORFs) that encode for several genes that are homologous to proteins found in all known coronaviruses. These are the replicase gene 1a/1b and the four structural proteins, nucleocapsid (N), spike (S), membrane (M), and envelope (E), and these proteins are expected to be essential for the replication of the virus. In addition, this genome also contains nine other potential ORFs varying in length from 39 to 274 amino acids. The largest among these is the first ORF of the second longest subgenomic RNA, and this protein (termed U274 in the present study) consists of 274 amino acids and contains three putative transmembrane domains. Using antibody specific for the C terminus of U274, we show U274 to be expressed in SARS-CoV-infected Vero E6 cells and, in addition to the full-length protein, two other processed forms were also detected. By indirect immunofluorescence, U274 was localized to the perinuclear region, as well as to the plasma membrane, in both transfected and infected cells. Using an N terminus myc-tagged U274, the topology of U274 and its expression on the cell surface were confirmed. Deletion of a cytoplasmic domain of U274, which contains Yxxφ and diacidic motifs, abolished its transport to the cell surface. In addition, U274 expressed on the cell surface can internalize antibodies from the culture medium into the cells. Coimmunoprecipitation experiments also showed that U274 could interact specifically with the M, E, and S structural proteins, as well as with U122, another protein that is unique to SARS-CoV.
Isolation and characterization of an anaerobic chlorophenol-transforming bacterium

An obligately anaerobic bacterium which transforms several chlorinated phenols was isolated. Dechlorination of the substituents ortho to the phenolic OH group was preferred, while removal of a meta-substituted chlorine was observed only with 3,5-dichlorophenol. The bacterium was a gram-positive, endospore-forming, motile, slightly curved rod. Sulfate was not reduced. Nitrate was reduced via nitrite to ammonium. The bacterium is related to the genus Clostridium. The highest growth rate was obtained in a medium containing pyruvate and yeast extract. Pyruvate supported growth as the sole source of carbon, and the fermentation of pyruvate produced almost equimolar amounts of acetate.
Topological complexity of collision free motion planning algorithms in the presence of multiple moving obstacles

We study motion planning algorithms for collision free control of multiple objects in the presence of moving obstacles. We compute the topological complexity of algorithms solving this problem. We apply topological tools and use information about cohomology algebras of configuration spaces. The results of the paper may potentially be used in systems of automatic traffic control.
Associations of Infant Feeding and Timing of Weight Gain and Linear Growth during Early Life with Childhood Blood Pressure: Findings from a Prospective Population Based Cohort Study

Objective Small birth size and rapid postnatal growth have been associated with higher future blood pressure. The timing of these effects, the relative importance of weight gain and linear growth and the role of infant feeding need to be clarified. Methods We assessed how blood pressure relates to birth weight, infant and childhood growth and infant feeding (duration of exclusive breastfeeding and timing of introduction of complementary feeding) in 2227 children aged 5 years from a prospective cohort study (Amsterdam Born Children and their Development). Postnatal growth was represented by statistically independent measures of relative weight gain (weight gain independent of height) and linear growth in four age periods during infancy (0–1 month; 1–3 months; 3–6 months; 6–12 months) and from 12 months to 5 years. Results Lower birth weight was associated with higher childhood diastolic blood pressure (-0.38 mm Hg.SD-1; P = 0.007). Faster relative weight gain and linear growth after 1 month were positively associated with systolic and diastolic blood pressure. Associations of linear growth with systolic blood pressure ranged from 0.47 to 1.49 mm Hg.SD-1; P<0.01 for all. Coefficients were similar for different periods of infancy and also for relative weight gain and linear growth. Compared to breastfeeding <1 month, breastfeeding >1 month was associated with lower blood pressure (e.g. >6 months -1.56 mm Hg systolic blood pressure; P<0.001). Compared to >6 months, introduction of complementary feeding <6 months was associated with higher blood pressure (e.g. 4–6 months 0.91 mm Hg systolic blood pressure; P = 0.004). Conclusions After the age of one month faster growth in either weight or height is associated with higher childhood blood pressure. It is unknown whether faster weight gain and linear growth carry the same risk for adult hypertension and cardiovascular morbidity. Longer breastfeeding and delayed introduction of complementary feeding may be associated with lower adult blood pressure.
Journal of Software Maintenance and Evolution: Research and Practice Mining Temporal Rules for Software Maintenance

SUMMARY Software evolution incurs difficulties in program comprehension and software verification, and hence it increases the cost of software maintenance. In this study, we propose a novel technique to mine from program execution traces a sound and complete set of statistically significant temporal rules of arbitrary lengths. The extracted temporal rules reveal invariants that the program observes, and will consequently guide developers to understand the program behaviors, and facilitate all downstream applications such as verification and debugging. Different from previous studies that were restricted to mining two-event rules (e.g., lock→→unlock), our algorithm discovers rules of arbitrary lengths. In order to facilitate downstream applications, we represent the mined rules as temporal logic expressions, so that existing model checkers or other formal analysis toolkit can readily consume our mining results. Performance studies on benchmark data sets and a case study on an industrial system have been performed to show the scalability and utility of our approach. We performed case studies on JBoss application server and a buggy concurrent versions system application, and the result clearly demonstrates the usefulness of our technique in recovering underlying program designs and detecting bugs.
A comparative evaluation on tree visualization methods for hierarchical structures with large fan-outs

Hierarchical structures with large fan-outs are hard to browse and understand. In the conventional node-link tree visualization, the screen quickly becomes overcrowded as users open nodes that have too many child nodes to fit in one screen. To address this problem, we propose two extensions to the conventional node-link tree visualization: a list view with a scrollbar and a multi-column interface. We compared them against the conventional tree visualization interface in a user study. Results show that users are able to browse and understand the tree structure faster with the multi-column interface than the other two interfaces. Overall, they also liked the multi-column better than others.
Quaternary beach deposits in Mallorca: paleontological and geomorphological data

Many researchers have worked on the Quaternary deposits scattered along the littoral zones of Mallorca Island. As a consequence, there are a significant number of publications on this topic, being almost impossible to assemble a comprehensive review in a general chapter like this one. Therefore, the present paper exclusively provides a historical background on the knowledge of Mallorcan Quaternary shorelines, along with their paleontological remains and chronology.
Abundance, relative gelation activity, and distribution of the 95,000- dalton actin-binding protein from Dictyostelium discoideum

We have studied the abundance, relative gelation activity, and distribution of the 95,000-dalton actin-binding protein in Dictyostelium discoideum amoebae. The 95,000-dalton protein was a prominent polypeptide as assessed using quantitative densitometry and radioimmunoassay. We estimated that this protein comprised approximately 1.2% of the protein in a soluble extract of amoebae. The molar ratio of the dimeric 95,000-dalton protein to actin in the soluble extract was 1:30. The apparent viscosities of actin mixtures with either the purified 95,000-dalton protein or the soluble extract were measured by falling ball viscometry in an attempt to assess the contribution of the 95,000-dalton protein to gelation of the soluble extract. The gelation of the soluble extract was significantly less than that expected from the contribution of the 95,000-dalton protein alone. Consequently, we questioned the validity of quantitative analyses of the contributions of specific actin-binding proteins to the gelation of cell extracts. The apparent distribution of the 95,000- dalton protein was observed in chemically fixed and extracted cells by immunofluorescence microscopy and compared with the distribution of cytoplasm and organelles visible using light microscopy. The 95,000- dalton protein was dispersed throughout the cytoplasm of fixed cells, was apparently excluded from prominent organelles, and displayed brightest fluorescence in regions of hyaline cytoplasm. These regions of hyaline cytoplasm that exhibited the brightest fluorescence were observed in the cortical region of rounded cells and in pseudopods of polarized cells. Thus, cell shape and polarity may also have influenced the apparent distribution of the 95,000-dalton protein observed by immunofluorescence microscopy. Study of the distribution of fluorescein- labeled ovalbumin injected into living cells supported the interpretation that the thickness of the cell and the distribution of organelles contributed to the apparent distribution of the 95,000- dalton protein observed in fixed cells using immunofluorescence microscopy. We suggest that the 95,000-dalton protein contributes to modulation of the consistency and contractility of the cytoplasm of D. discoideum amoebae, since it could cross-link actin filaments in vitro in a reversible process that was regulated by changes in the concentration of calcium and of protons, and since it was present in large quantity in the cytoplasm of these cells.
HI 21 cm imaging of a nearby damped Lyman-alpha system

We present Giant Metrewave Radio Telescope (GMRT) HI 21 cm emission images of the z =0 :009 damped Lyman- (DLA) absorber towards the QSO HS 1543+5921. The DLA has been earlier identied as a low surface brightness galaxy SBS 1543+593 (Reimers & Hagen 1998; Bowen et al. 2001a) with small (400 pc) impact parameter to the QSO line of sight. The extremely low redshift of the absorber allows us to make, for the rst time, spatially resolved images of the 21 cm emission; besides the HI mass, this also enables us to determine the velocity eld of the galaxy and, hence, to estimate its dynamical mass. We obtain a total HI mass of1:4 10 9 M, considerably smaller than the value of M HI determined from blind 21 cm emission surveys. This continues the trend of low HI mass in all low redshift DLAs for which HI emission observations have been attempted. We also nd that the QSO lies behind a region of low local HI column density in the foreground galaxy. This is interesting in view of suggestions that DLA samples are biased against high HI column density systems. Finally, the dynamical mass of the galaxy is found to be Mdyn 5 10 9 M.
The Quasi-Periodic Reversible Hopf bifurcation

We consider the perturbed quasi-periodic dynamics of a family of reversible systems with normally 1:1 resonant invariant tori. We focus on the generic quasi-periodic reversible Hopf bifurcation and address the persistence problem for integrable quasi-periodic tori near the bifurcation point. Using KAM theory, we describe how the resulting invariant tori of maximal and lower dimensions are parameterized by Cantor sets.
Mechanisms of recoverable prevalence and extinction of viruses on linearly growing scale-free networks

We investigate mechanisms of the typically observed recoverable prevalence in epidemic spreading. Assuming the time-independent connectivity correlations, we analyze the dynamics of spreading on linearly growing scale-free (SF) networks, and derive the extinction condition related to the rates of network growth, infection, and immunization of viruses. The behavior is consistent with the previous results for SF networks by a mean-field approximation without connectivity correlations. In particular, it is suggested that the growing must be stopped to prevent the spreading of infection. This insight helps to understand the spreading phenomena on communication or social networks.
The evolution of brittle and ductile structures at the surface of a partly debris‐covered, rapidly thinning and slowly moving glacier in 1998–2012 (Pasterze Glacier, Austria)

Many glaciers in alpine regions are currently rapidly receding and thinning at historically unobserved rates causing changes in the velocity field and in normal and shear stresses affecting the surface expression of structures within the ice. We studied the distribution of brittle and ductile structures at the surface of Pasterze Glacier during a 14‐year period by analysing orthophotos and digital elevation models of five stages (1998, 2003, 2006, 2009 and 2012). A structural glaciological mapping key was applied. Normal faults, strike‐slip faults, en échelon structures (systematic stepping of fractures), thrust faults, and band ogives were distinguished. Results indicate substantial deceleration and glacier thinning in 1998–2012. Glacier thinning was not homogenous over time related to the uneven distribution of supraglacial debris causing differential ablation or the selective ablation effects of subglacial water channels. Peculiar supraglacial features observed are circular collapse structures with concentric crevasses which form when the ice between the surface and the roof of water channels decreases. The total length of brittle structures increased from 38.4 km to 56.9 km whereas the extent of the glacier tongue decreased by 25%. The fracture density doubled from 0.009 to 0.018 m/m2. Areas of the glacier tongue which were up to 100 m away from the nearest brittle structure increased by 16%. The visual appearance of thrust faults shifted upglacier due to decreasing glacier velocity causing horizontal shortening or due to exhumation of faults that did not previously extend to the surface. A large number of brittle structures are progressively independent from glacier motion. Our study suggests that glacier tongues which are in a state of rapid decay and thinning are prone to fracturing due to normal fault formation and glacier disintegration. Water further increases ablation rates substantially if rather large amounts drain through supra‐, en‐ or subglacial water channels. © 2018 The Authors. Earth Surface Processes and Landforms published by John Wiley & Sons Ltd.
Serial evaluation of fatty acid metabolism in rats with myocardial infarction by pinhole SPECT

BackgroundIodine 123-labeled 15-(p-iodophenyl)-3-(R,S)-methylpentadecanoic acid (BMIPP) is mainly trapped in the myocardium as triglyceride, depending on the adenosine triphosphate level. Ten percent to 20% of it is metabolized through α-oxidation after β-oxidation; however, the precise mechanism of the regulatory pathways of BMIPP is yet to be clarified.Methods and ResultsA brief left coronary artery occlusion (10-30 minutes) was performed in 28 male Wistar-Kyoto rats. Dual single photon emission computed tomography images of BMIPP and thallium 201 were obtained 3 days and 24 days after the operation. The activities of 3-hydroxyacyl-coenzyme A dehydrogenase (HAD), citrate synthase (CS), and a-glycerol-phosphate dehydrogenase (GPD) were then measured in both ischemic and nonischemic regions. BMIPP and Tl-201 chloride severity scores were also evaluated conventionally. CS and HAD levels were significantly lower in the ischemic region than in the nonischemic region in the chronic group (CS, 102.9 ± 28.1 vs 138.7 ± 33.7 μmol/g/min, respectively, P = .0051; HAD, 54.7 ± 20.1 vs 78.6 ± 18.7 μmol/g/min, respectively, P = .0031). There was no difference in GPD between the ischemic and nonischemic regions. The BMIPP severity score had closer inverse relations with HAD (acute, r = -0.82; chronic, r = -0.80) and CS (acute, r = -0.87; chronic, r = -0.81), but not with GPD, than did Tl-201 chloride severity score.ConclusionsBMIPP imaging correlates well with the activities of HAD and CS, suggesting that a decrease in BMIPP uptake reflects deterioration of both fatty acid metabolism and citrate cycle and shows information other than regional myocardial perfusion.
Land cover and forest mapping in boreal zone using polarimetric and interferometric SAR data

Aalto University, P.O. Box 11000, FI-00076 Aalto www.aalto. fi Author Oleg Antropov Name of the doctoral dissertation Land cover and forest mapping in boreal zone using polarimetric and interferometric SAR data Publisher School of Electrical Engineering Unit Department of Radio Science and Engineering Series Aalto University publication series DOCTORAL DISSERTATIONS 3/2014 Field of research Space technology Manuscript submitted 12 August 2013 Date of the defence 14 January 2014 Permission to publish granted (date) 17 December 2013 Language English Monograph Article dissertation (summary + original articles)
A Quantitative Survey of Local Adaptation and Fitness Trade‐Offs

The long history of reciprocal transplant studies testing the hypothesis of local adaptation has shown that populations are often adapted to their local environments. Yet many studies have not demonstrated local adaptation, suggesting that sometimes native populations are no better adapted than are genotypes from foreign environments. Local adaptation may also lead to trade‐offs, in which adaptation to one environment comes at a cost of adaptation to another environment. I conducted a survey of published studies of local adaptation to quantify its frequency and magnitude and the costs associated with local adaptation. I also quantified the relationship between local adaptation and environmental differences and the relationship between local adaptation and phenotypic divergence. The overall frequency of local adaptation was 0.71, and the magnitude of the native population advantage in relative fitness was 45%. Divergence between home site environments was positively associated with the magnitude of local adaptation, but phenotypic divergence was not. I found a small negative correlation between a population’s relative fitness in its native environment and its fitness in a foreign environment, indicating weak trade‐offs associated with local adaptation. These results suggest that populations are often locally adapted but stochastic processes such as genetic drift may limit the efficacy of divergent selection.
Conjectures and Questions Regarding Near Frattini Subgroups of Generalized Free Products of Groups

Let G = A ∗H B be the generalized free product of the groups A and B with the amalgamated subgroup H. Also, let λ(G), μ(G), ψ(G), K(G,H), and Tor H represent the lower near Frattini subgroup of G, the upper near Frattini subgroup of G, the near Frattini subgroup of G, the core of H in G, and the torsion subgroup of H, respectively. Since 1990 a series of papers have been published by the author dealing with the location of λ(G) and ψ(G). We state the main results from these papers for the cases where ψ(G) = 1, ψ(G) ≤ H, ψ(G) ≤ K(G,H), ψ(G) = Tor H, λ(G) = 1, λ(G) ≤ H, λ(G) ≤ K(G,H), or λ(G) = K(G,H). Also, we state the results obtained by Allenby since 1999 for the cases where μ(G) ≤ H, ψ(G) = K(G,H), or ψ(G) = H. The main goal of this paper is to state four conjectures and to pose sixteen related questions for the reader. Mathematics Subject Classification: Primary 20E06, 20E28; Secondary 22, 55
How well do Computers Solve Math Word Problems? Large-Scale Dataset Construction and Evaluation

Recently a few systems for automatically solving math word problems have reported promising results. However, the datasets used for evaluation have limitations in both scale and diversity. In this paper, we build a large-scale dataset which is more than 9 times the size of previous ones, and contains many more problem types. Problems in the dataset are semi-automatically obtained from community question-answering (CQA) web pages. A ranking SVM model is trained to automatically extract problem answers from the answer text provided by CQA users, which signiﬁcantly reduces human annotation cost. Experiments conducted on the new dataset lead to interesting and surprising results.
New Built-In Self-Test Scheme for SoC Interconnect

Interconnect testing in a SoC environment is a new area of research. It represents a further development of traditional board-level testing with respect to the new interconnect paradigm, new fault models, and required high level of autonomy. This article analyzes available interconnect self-test solutions and comes up with a new BIST scheme for at-speed testing of SoC interconnect. We adapt a recently proposed very efficient architecture of test pattern generation and response analysis hardware and demonstrate advantages of this new testing paradigm over other known methods. It is shown that this brings a high level of universality, scalability, and configuration independence into at-speed testing and diagnosis of SoC interconnects. The framework allows detection and precise diagnosis of both static and dynamic faults.