An extensible multilingual open source lemmatizer

We present GATE DictLemmatizer, a multilingual open source lemmatizer for the GATE NLP framework that currently supports English, German, Italian, French, Dutch, and Spanish, and is easily extensible to other languages. The software is freely available under the LGPL license. The lemmatization is based on the Helsinki Finite-State Transducer Technology (HFST) and lemma dictionaries automatically created from Wiktionary. We evaluate the performance of the lemmatizers against TreeTagger, which is only freely available for research purposes. Our evaluation shows that DictLemmatizer achieves similar or even better results than TreeTagger for languages where there is support from HFST. The performance drops when there is no support from HFST and the entire lemmatization process is based on lemma dictionaries. However, the results are still satisfactory given the fact that DictLemmatizer isopen-source and can be easily extended to other languages. The software for extending the lemmatizer by creating word lists from Wiktionary dictionaries is also freely available as open-source software

A deep neural network sentence level classification method with context information

In the sentence classification task, context formed from sentences adjacent to the sentence being classified can provide important information for classification. This context is, however, often ignored. Where methods do make use of context, only small amounts are considered, making it difficult to scale. We present a new method for sentence classification, Context-LSTM-CNN, that makes use of potentially large contexts. The method also utilizes long-range dependencies within the sentence being classified, using an LSTM, and short-span features, using a stacked CNN. Our experiments demonstrate that this approach consistently improves over previous methods on two different datasets

Benign asbestos pleural effusion

Unatoč sve češćoj pojavi slučajeva pleuralne i plućne azbestoze malen je do danas objavljen broj slučajeva benignog azbestnog pleuralnog izljeva. Razlog tome je prije svega općenito malo poznati kauzalni odnos između ekspozicije azbestu i pleuralnog izljeva pa tako može i etiologija ponekog »banalnog« slučaja izljeva ostati nerazjašnjena naročito kada nema drugih znakova pleuropulmonalne azbestoze. S druge strane, zbog oskudice simptoma kod malih izljeva ta manifestacija azbestoze se vrlo lako može previdjeti. Međutim, smatra se da je benigni pleuralni izljev, za razliku od malignog, jedan od najranijih kliničkih učinaka azbestoze koji se pojavljuje 10 ili manje godina nakon početka kontinuirane pa čak i intermitentne ekspozicije a zato i u mlađoj dobi. Od pet prikazanih bolesnika s benignim pleuralnim izljevom dva su bila mlađa od 35 godina, dva su bila u 41. godini a samo jedan u 48. godini. Svi su bili brodogradilišni radnici, i to tri brodostolari, jedan termoizolater a jedan varilac. Intersticijalna parenhimna fibroza razvila se kod četvorice: kod jednog je nađena istodobno s izljevom, kod trojice naknadno (3, 10 i 16 godina kasnije) a kod jednog se nije pojavila uopće u 5 godina kontrolnog promatranja. Koliko su autori mogli provjeriti ovo je prvo kazuističko proučavanje benignog azbestnog pleuralnog izljeva u Jugoslaviji.Despite an ever-increasing incidence of pleural and pulmonary asbestosis the number of cases of benign asbestos pleural effusion reported to date has been small. This is due primarily to the fact that the causal relationship between asbestos exposure and pleural effusion has not been widely recognized and thus the aetiology of a few cases of »banal« effusion may remain obscure, particularly when other signs of pleuro-pulmonary asbestosis are lacking. On the other hand, due to the sparsity of symptoms in small effusions this manifestation of asbestosis may be very easily overlooked. However, a benign pleural effusion, contrary to a malignant one, is considered to be one of the earliest clinical effects of asbestosis appearing 10 years or less after the beginning of continuous or even intermittent exposure, and in younger age groups. Out of five patients with benign asbestos effusion reported here, two were less than 35 years of age, two were 40 years and only one was 48. They were all dockyard workers: three of them were ship-fitters, one an insulator and one a welder. Interstitial parenchymal fibrosis developed in four of them: in one it was found simultaneously, in three it followed later (3, 10 and 16 years later), and in one it did not appear during the follow-up period (5 years) at all. As far as the authors have been able to ascertain, this is the first case study of benign asbestos pleural effusion in Yugoslavia

Phyllosticta citricarpa and sister species of global importance to Citrus.

Several Phyllosticta species are known as pathogens of Citrus spp., and are responsible for various disease symptoms including leaf and fruit spots. One of the most important species is P. citricarpa, which causes a foliar and fruit disease called citrus black spot. The Phyllosticta species occurring on citrus can most effectively be distinguished from P. citricarpa by means of multilocus DNA sequence data. Recent studies also demonstrated P. citricarpa to be heterothallic, and reported successful mating in the laboratory. Since the domestication of citrus, different clones of P. citricarpa have escaped Asia to other continents via trade routes, with obvious disease management consequences. This pathogen profile represents a comprehensive literature review of this pathogen and allied taxa associated with citrus, focusing on identification, distribution, genomics, epidemiology and disease management. This review also considers the knowledge emerging from seven genomes of Phyllosticta spp., demonstrating unknown aspects of these species, including their mating behaviour.TaxonomyPhyllosticta citricarpa (McAlpine) Aa, 1973. Kingdom Fungi, Phylum Ascomycota, Class Dothideomycetes, Order Botryosphaeriales, Family Phyllostictaceae, Genus Phyllosticta, Species citricarpa.Host rangeConfirmed on more than 12 Citrus species, Phyllosticta citricarpa has only been found on plant species in the Rutaceae.Disease symptomsP. citricarpa causes diverse symptoms such as hard spot, virulent spot, false melanose and freckle spot on fruit, and necrotic lesions on leaves and twigs.Useful websitesDOE Joint Genome Institute MycoCosm portals for the Phyllosticta capitalensis (https://genome.jgi.doe.gov/Phycap1), P. citriasiana (https://genome.jgi.doe.gov/Phycit1), P. citribraziliensis (https://genome.jgi.doe.gov/Phcit1), P. citrichinaensis (https://genome.jgi.doe.gov/Phcitr1), P. citricarpa (https://genome.jgi.doe.gov/Phycitr1, https://genome.jgi.doe.gov/Phycpc1), P. paracitricarpa (https://genome.jgi.doe.gov/Phy27169) genomes. All available Phyllosticta genomes on MycoCosm can be viewed at https://genome.jgi.doe.gov/Phyllosticta

A Study of Time-Dependent CP-Violating Asymmetries and Flavor Oscillations in Neutral B Decays at the Upsilon(4S)

We present a measurement of time-dependent CP-violating asymmetries in neutral B meson decays collected with the BABAR detector at the PEP-II asymmetric-energy B Factory at the Stanford Linear Accelerator Center. The data sample consists of 29.7 ${\rm fb}^{-1}$ recorded at the $\Upsilon(4S)$ resonance and 3.9 ${\rm fb}^{-1}$ off-resonance. One of the neutral B mesons, which are produced in pairs at the $\Upsilon(4S)$, is fully reconstructed in the CP decay modes $J/\psi K^0_S$, $\psi(2S) K^0_S$, $\chi_{c1} K^0_S$, $J/\psi K^{*0}$ ($K^{*0}\to K^0_S\pi^0$) and $J/\psi K^0_L$, or in flavor-eigenstate modes involving $D^{(*)}\pi/\rho/a_1$ and $J/\psi K^{*0}$ ($K^{*0}\to K^+\pi^-$). The flavor of the other neutral B meson is tagged at the time of its decay, mainly with the charge of identified leptons and kaons. The proper time elapsed between the decays is determined by measuring the distance between the decay vertices. A maximum-likelihood fit to this flavor eigenstate sample finds $\Delta m_d = 0.516\pm 0.016 {\rm (stat)} \pm 0.010 {\rm (syst)} {\rm ps}^{-1}$. The value of the asymmetry amplitude $\sin2\beta$ is determined from a simultaneous maximum-likelihood fit to the time-difference distribution of the flavor-eigenstate sample and about 642 tagged $B^0$ decays in the CP-eigenstate modes. We find $\sin2\beta=0.59\pm 0.14 {\rm (stat)} \pm 0.05 {\rm (syst)}$, demonstrating that CP violation exists in the neutral B meson system. (abridged)Comment: 58 pages, 35 figures, submitted to Physical Review

Pleosporales

One hundred and five generic types of Pleosporales are described and illustrated. A brief introduction and detailed history with short notes on morphology, molecular phylogeny as well as a general conclusion of each genus are provided. For those genera where the type or a representative specimen is unavailable, a brief note is given. Altogether 174 genera of Pleosporales are treated. Phaeotrichaceae as well as Kriegeriella, Zeuctomorpha and Muroia are excluded from Pleosporales. Based on the multigene phylogenetic analysis, the suborder Massarineae is emended to accommodate five families, viz. Lentitheciaceae, Massarinaceae, Montagnulaceae, Morosphaeriaceae and Trematosphaeriaceae

Measurement of the Branching Fraction for B- --> D0 K*-

We present a measurement of the branching fraction for the decay B- --> D0 K*- using a sample of approximately 86 million BBbar pairs collected by the BaBar detector from e+e- collisions near the Y(4S) resonance. The D0 is detected through its decays to K- pi+, K- pi+ pi0 and K- pi+ pi- pi+, and the K*- through its decay to K0S pi-. We measure the branching fraction to be B.F.(B- --> D0 K*-)= (6.3 +/- 0.7(stat.) +/- 0.5(syst.)) x 10^{-4}.Comment: 7 pages, 1 postscript figure, submitted to Phys. Rev. D (Rapid Communications

Study of e+e- --> pi+ pi- pi0 process using initial state radiation with BABAR

The process e+e- --> pi+ pi- pi0 gamma has been studied at a center-of-mass energy near the Y(4S) resonance using a 89.3 fb-1 data sample collected with the BaBar detector at the PEP-II collider. From the measured 3pi mass spectrum we have obtained the products of branching fractions for the omega and phi mesons, B(omega --> e+e-)B(omega --> 3pi)=(6.70 +/- 0.06 +/- 0.27)10-5 and B(phi --> e+e-)B(phi --> 3pi)=(4.30 +/- 0.08 +/- 0.21)10-5, and evaluated the e+e- --> pi+ pi- pi0 cross section for the e+e- center-of-mass energy range 1.05 to 3.00 GeV. About 900 e+e- --> J/psi gamma --> pi+ pi- pi0 gamma events have been selected and the branching fraction B(J/psi --> pi+ pi- pi0)=(2.18 +/- 0.19)% has been measured.Comment: 21 pages, 37 postscript figues, submitted to Phys. Rev.

Evidence for the Rare Decay B -> K*ll and Measurement of the B -> Kll Branching Fraction

We present evidence for the flavor-changing neutral current decay $B\to K^*\ell^+\ell^-$ and a measurement of the branching fraction for the related process $B\to K\ell^+\ell^-$, where $\ell^+\ell^-$ is either an $e^+e^-$ or $\mu^+\mu^-$ pair. These decays are highly suppressed in the Standard Model, and they are sensitive to contributions from new particles in the intermediate state. The data sample comprises $123\times 10^6$ $\Upsilon(4S)\to B\bar{B}$ decays collected with the Babar detector at the PEP-II $e^+e^-$ storage ring. Averaging over $K^{(*)}$ isospin and lepton flavor, we obtain the branching fractions ${\mathcal B}(B\to K\ell^+\ell^-)=(0.65^{+0.14}_{-0.13}\pm 0.04)\times 10^{-6}$ and ${\mathcal B}(B\to K^*\ell^+\ell^-)=(0.88^{+0.33}_{-0.29}\pm 0.10)\times 10^{-6}$, where the uncertainties are statistical and systematic, respectively. The significance of the $B\to K\ell^+\ell^-$ signal is over $8\sigma$, while for $B\to K^*\ell^+\ell^-$ it is $3.3\sigma$.Comment: 7 pages, 2 postscript figues, submitted to Phys. Rev. Let