bluuebunny/crossref_metadata_2025_split huggingface dataset:
The transition from discovery by genome-wide association studies to validation of clinical risk models: Where are we, what will it take, and when can we expect to be there?
Authors: Chanock Stephen J. 
Published: May 2015

Abstract
Genome-wide association studies (GWAS) have emerged as an important tool for discovering regions of the genome that harbor genetic variants that confer risk for different types of cancers. The success of GWAS has been a consequence of the convergence of new technologies that can genotype hundreds of thousands of common single nucleotide polymorphism (SNP) markers together with comprehensive annotation of genetic variation. This approach has provided the opportunity to scan across the genome in a sufficiently set of cases and controls without a set of prior hypotheses in search of susceptibility alleles with low effect sizes. So far, susceptibility alleles discovered thus far are common, namely, with a frequency in one or more population of greater than 5% and each allele confers a small contribution to the overall risk for the disease. In prostate cancer, there could be more than 35 distinct regions harboring common susceptibility alleles identified by GWAS whereas in lung cancer, a disease strongly driven by exposure to tobacco products, so far, only three regions have been conclusively established. To date, over 125 regions have been conclusively associated in over a dozen different cancers, yet no more than six regions have been associated with more than one distinct cancer type. GWAS are an important discovery tool that require extensive follow-up to map each region, investigate the biological mechanism underpinning the association and eventually test the optimal markers for assessing risk for a disease or its outcome, such as in pharmacogenomics. The early fruits of success employed by GWAS have opened new horizons for applying genetic variation to the early diagnosis, treatment and perhaps prevention of different types of cancers. At the same time, it has become apparent that the complex genomic architecture of disease susceptibility will require further discovery of uncommon and rare variants using next generation sequence technologies that contribute to different cancers before we can expect to establish robust tests of germline DNA to be clinically useful. To reach this goal, new studies will need to be designed to validate the utility of known genetic variants in assessing risk for cancer.
Prediction of drug response using genomic signatures from the Cancer Cell Line Encyclopedia
Authors: Venkatesan Kavitha , Stransky Nicolas , Margolin Adam , Reddy Anupama , Raman Pichai , Sonkin Dmitriy , Jones Michael , Wilson Christopher , Kim Sungjoon , Warmuth Markus , Sellers William , Lehar Joseph , Barretina Jordi , Caponigro Giordano , Garraway Levi , Morrissey Michael 
Published: May 2015

Abstract
Accurate prediction of patient drug response is required for successful personalized medicine. Cancer is a disease resulting from myriad genetic alterations. Accordingly, it should be possible to predict drug response of specific cancers using genetic and molecular signatures. To aid this effort, an ongoing collaboration established between Novartis and the Broad Institute called the Cancer Cell Line Encyclopedia (CCLE) has (i) comprehensively characterized genome-scale mRNA expression, copy number alteration and mutation profiles for nearly 1000 cancer cell line models spanning many tumor types and (ii) profiled ~500 of these cell lines against ~1000 anticancer compounds. Using these data, we are developing a scalable, extensible predictive modeling framework based on various supervised learning methods that include both categorical classification and linear regression approaches to predict compound sensitivity. By cross-validation of the generated models against test data sets, we quantitatively estimated model performance. Our initial results validate several preexisting genetic predictors of sensitivity. In addition, our models reported 70% or higher sensitivity and specificity for a number of compounds and yielded interesting potentially novel predictive features that, in some cases, outperform previously existing genetic predictors of sensitivity. Our integrative approach demonstrates that pharmacological profiling of large, genomically annotated cancer model systems, coupled with systematic predictive modeling, can uncover novel predictors of drug response and may ultimately aid patient stratification.
This talk is also presented as Poster A4.
First description of the female of the spider Savignia zero Eskov, 1988 (Araneae: Linyphiidae)
Authors: LASUT LIANA , MARUSIK YURI M. , FRICK HOLGER 
Published: May 2015

Savignia is a relatively large and well defined Holarctic spider genus (see Eskov 1988). It includes 23 species, of which seven are known by males only (Platnick 2009). Thirteen species, including many endemics, have been recorded from the Far East Palaearctic (Eskov 1991).
An Application of a Physical Vegetation Model to Estimate Climate Change Impacts on Rice Leaf Wetness
Authors: Yoshida Ryuhei , Onodera Yumi , Tojo Takamasa , Yamazaki Takeshi , Kanno Hiromitsu , Takayabu Izuru , Suzuki-Parker Asuka 
Published: May 2015

AbstractA physical vegetation model [the Two-Layer Model (2LM)] was applied to estimate the climate change impacts on rice leaf wetness (LW) as a potential indicator of rice blast occurrence. Japan was used as an example. Dynamically downscaled data at 20-km-mesh resolution from three global climate models (CCSM4, MIROC5, and MRI-CGCM3) were utilized for present (1981–2000) and future (2081–2100) climates under the representative concentration pathway 4.5 scenario. To evaluate the performance of the 2LM, the LW and other meteorological variables were observed for 108 days during the summer of 2013 at three sites on the Pacific Ocean side of Japan. The derived correct estimation rate was 77.4%, which is similar to that observed in previous studies. Using the downscaled dataset, the changes in several precipitation indices were calculated. The regionally averaged ensemble mean precipitation increased by 6%, although large intermodel differences were found. By defining a wet day as any day in which the daily precipitation was ≥ 1 mm day−1, it was found that the precipitation frequency decreased by 6% and the precipitation intensity increased by 11% for the entire area. The leaf surface environment was estimated to be dry; leaf wetness, wet frequency, and wet times all decreased. It was found that a decrease in water trap opportunities due to reduced precipitation frequency was the primary contributor to the LW decrease. For blast fungus, an increased precipitation intensity was expected to enhance the washout effect on the leaf surface. In the present case, the infection risk was estimated to decrease for Japan.
A Particle Batch Smoother Approach to Snow Water Equivalent Estimation
Authors: Margulis Steven A. , Girotto Manuela , Cortés Gonzalo , Durand Michael 
Published: May 2015

AbstractThis paper presents a newly proposed data assimilation method for historical snow water equivalent SWE estimation using remotely sensed fractional snow-covered area fSCA. The newly proposed approach consists of a particle batch smoother (PBS), which is compared to a previously applied Kalman-based ensemble batch smoother (EnBS) approach. The methods were applied over the 27-yr Landsat 5 record at snow pillow and snow course in situ verification sites in the American River basin in the Sierra Nevada (United States). This basin is more densely vegetated and thus more challenging for SWE estimation than the previous applications of the EnBS. Both data assimilation methods provided significant improvement over the prior (modeling only) estimates, with both able to significantly reduce prior SWE biases. The prior RMSE values at the snow pillow and snow course sites were reduced by 68%–82% and 60%–68%, respectively, when applying the data assimilation methods. This result is encouraging for a basin like the American where the moderate to high forest cover will necessarily obscure more of the snow-covered ground surface than in previously examined, less-vegetated basins. The PBS generally outperformed the EnBS: for snow pillows the PBS RMSE was ~54% of that seen in the EnBS, while for snow courses the PBS RMSE was ~79% of the EnBS. Sensitivity tests show relative insensitivity for both the PBS and EnBS results to ensemble size and fSCA measurement error, but a higher sensitivity for the EnBS to the mean prior precipitation input, especially in the case where significant prior biases exist.
[RESENHA] Reconsiderando os arquivos pessoais: COX, Richard. Personal Archives and a New Archival Calling: Readings, Reflections and Ruminations. Duluth (MN), Litwin Books, 2008. xviii, 418 p.
Authors: Bellotto Heloísa Liberalli 
Published: May 2015

Reconsiderando os arquivos pessoais COX, Richard. Personal Archives and a New Archival Calling: Readings, Reflections and Ruminations. Duluth (MN), Litwin Books, 2008. xviii, 418 p.
A Imprensa da Universidade de Coimbra: estrutura orgânico funcional e análise do contexto de produção e fluxo documental e informacional durante a administração do Doutor Joaquim de Carvalho (1921-1934)
Authors: Nogueira Cristina Luísa Tavares , Ázar Ana Lúcia Silva 
Published: May 2015

A Imprensa da Universidade de Coimbra foi fundada em 1772 e extinta em 1934, durante o regime do Estado Novo. Agregada à Universidade de Coimbra, teve um papel fundamental na produção tipográfica, editorial e na difusão de obras de carácter literário e científico. O presente estudo de caso aborda de uma forma geral a instituição, incidindo em termos de amostra sobre o período de 1921 a 1934, correspondente à administração do Doutor Joaquim de Carvalho. Apresenta, de forma introdutória, a caraterização daquela instituição, do ponto de vista histórico, orgânico-funcional, custodial e arquivístico, e, particularmente, o contexto de produção e o fluxo documental e informacional. Reforça a importância deste género de estudos para a Arquivística e Ciência da Informação, sobretudo pela pertinência, quer no tratamento intelectual de documentação desta natureza, quer na compreensão da estrutura orgânico-funcional e do fluxo informacional deste tipo de organizações. Entre os principais resultados destacam-se: a análise do fluxo documental no período estudado revelou uma instituição bastante burocrática onde quase todos os procedimentos e atividades resultavam na produção de documentos, e um fluxo informacional bastante controlado em virtude da necessidade de contabilização de custos e receitas inerentes às edições produzidas.
New Chorological Data for Rare Vascular Plants from Romania
Authors: Anastasiu Paulina 
Published: May 2015

Abstract
New chorological data about seven rare vascular plant taxa are reported in the present paper: Conringia austriaca, Jurinea multiflora, Linaria arvensis, Nonea pallens, Ophrys apifera, Ophrys scolopax subsp. cornuta, Saponaria officinalis. For Linaria arvensis, previously considered doubtful in the absence of the herbarium material, we confirm its presence in Romania. The report of Nonea pallens is the first for Dobrogea, while the report of Jurinea multiflora is the first for Muntenia region of Romania.
A Reliable Method of Completing and Compensating the Results of Measurements of Flow Parameters in a Network of Headings / O Pewnej Metodzie Uzupełniania I Wyrównywania Wyników Pomiarów Parametrów Przepływu W Sieci Wyrobisk Górniczych
Authors: Dziurzyński Wacław , Krach Andrzej , Pałka Teresa 
Published: May 2015

Abstract
Forecasting a ventilation process is based on two factors: using a validated software (Dziurzyński et al., 2011; Pritchard, 2010) and a properly prepared database encompassing the parameters describing the flow of air and gases, compatible with the adopted mathematical model of the VentGraph software (Dziurzyński, 2002). With a body of measurement data and a mathematical model for computer calculations and air flow simulation at our disposal, we proceed to develop a numerical model for a chosen network of mine headings. Preparing a numerical model of a ventilation network of a given mine requires providing a collection of data regarding the structure of the network and the physical properties of its elements, such as headings, fans, or stoppings. In the case of fire simulations, it is also necessary to specify the parameters describing the seat of a fire and the properties of the rocks of which the rock mass is comprised. The methods which are currently applied to this task involve manual ventilation measurements performed in headings; the results obtained in the course of these measurements constitute a basis for determining physical parameters, such as the aerodynamic resistance of a heading, density of the flow of air, or natural depression. Experience shows that - due to difficulties regarding accessibility of headings, as well as the considerable lengths of the latter - there are some nodes and headings in mines where such measurements are not performed. Thus, an attempt was made to develop a new methodology that would provide the missing data on the basis of some other available information concerning - for example - the air density, the geometry of headings and elevations. The adopted methodology suggests that one should start with balancing the air mass fluxes within the structure of a network of headings. The next step is to compile a database concerning the pressure values in the network nodes, based on the measurement results - and provide the missing pressure values on the basis of the available results of measurements carried out in adjacent nodes, as well as the pressure value calculated on the basis of the heading geometry and the given volumetric flow rate. The present paper discusses the methodology of compensating and balancing the volumetric air flow rates within a network of headings (Chapter 2) and the methodology of determining pressure values (Chapter 3) in the nodes of the network. The developed calculation algorithms - verified by means of sample calculations performed for a selected area of a mine ventilation network - were introduced into the VentGraph software system. The calculation results were presented in tabular form. The Summary section discusses the minuses and pluses of the adopted methodology.
Follow-Up Chain Tension in an Armoured Face Conveyor / Nadążne Napinanie Łańcucha Zgrzebłowego W Przenośniku Ścianowym
Authors: Dolipski Marian , Cheluszka Piotr , Remiorz Eryk , Sobota Piotr 
Published: May 2015

Abstract
Initial chain tension in armoured face conveyors, in which operating conditions vary constantly, should be adjusted automatically to adapt it to the needs arising. The manufacturers of such conveyors are now offering a possibility of equipping a conveyor with a drive with a telescopic trough enabling stepless change of the scraper chain contour by shifting the drive frame. The work presents the outcomes of computer investigations performed using an own mathematical model of an armoured face conveyor with a main and auxiliary drive equipped with a telescopic trough and an automatic initial chain tension adjustment system with the ASTEN algorithm. The ASTEN algorithm is responding to changes in scraper chain elongation caused by changes to conveyor configuration and also by a varying mined coal load resulting from interworking with a mining machine.
Application of Multidimensional Data Visualization by Means of Self-Organizing Kohonen Maps to Evaluate Classification Possibilities of Various Coal Types / Zastosowanie Wizualizacji Wielowymiarowych Danych Za Pomocą Sieci Kohonena Do Oceny Możliwości Klasyfikacji Różnych Typów Węgla
Authors: Jamróz Dariusz , Niedoba Tomasz 
Published: May 2015

Abstract
Multidimensional data visualization methods are a modern tool allowing to classify some analysed objects. In the case of grained materials e.g. coal, many characteristics have an influence on the material quality. The paper presents the possibility of applying visualization techniques for coal type identification and determination of significant differences between various types of coal. To achieve this purpose, the method of Kohonen maps was applied by means of which three types of coal - 31, 34.2 and 35 (according to Polish classification of coal types) were investigated. It was stated that the applied methodology allows to identify certain coal types efficiently and can be used as a qualitative criterion for grained materials.
Simulation-Assisted Evaluation of Grinding Circuit Flowsheet Design Alternatives: Aghdarreh Gold Ore Processing Plant / Ocena Alternatywnych Schematów Technologicznych Procesu Rozdrabniania W Zakładach Przeróbki Rud Złota W Aghdarreh, Z Wykorzystaniem Metod Symulacji
Authors: Farzanegan A. , Ghalaei A. Ebtedaei 
Published: May 2015

Abstract
The run of mine ore from Aghdarreh gold mine must be comminuted to achieve the desired degree of liberation of gold particles. Currently, comminution circuits include a single-stage crushing using a jaw crusher and a single-stage grinding using a Semi-Autogenous Grinding (SAG) mill in closed circuit with a hydrocyclone package. The gold extraction is done by leaching process using cyanidation method through a series of stirred tanks. In this research, an optimization study of Aghdarreh plant grinding circuit performance was done to lower the product particle size (P80) from 70 μm to approximately 40 μm by maintaining current throughput using modeling and simulation approach. After two sampling campaigns from grinding circuit, particle size distribution data were balanced using NorBal software. The first and second data sets obtained from the two sampling campaigns were used to calibrate necessary models and validate them prior to performing simulation trials using MODSIM software.
Computer simulations were performed to assess performance of two proposed new circuit flowsheets. The first proposed flowsheet consists of existing SAG mill circuit and a new proposed ball mill in closed circuit with a new second hydrocyclone package. The second proposed flowsheet consists of existing SAG mill circuit followed by a new proposed ball mill in closed circuit with the existing hydrocyclone package. In all simulations, SAGT, CYCL and MILL models were selected to simulate SAG mill, Hydrocyclone packages and ball mill units. SAGT and MILL models both are based on population balance model of grinding process. CYCL model is based on Plitt’s empirical model of classification process in hydrocyclone units. It was shown that P80 can be reduced to about 40 μm and 42 μm for the first and second proposed circuits, respectively. Based on capital and operational costs, it can be concluded that the second proposed circuit is a more suitable option for plant grinding flowsheet modification.
Laboratory Method for Evaluating the Characteristics of Expansion Rock Bolts Subjected to Axial Tension / Laboratoryjna Metoda Badania Charakterystyk Kotew Rozprężnych Poddanych Rozciąganiu Osiowemu
Authors: Korzeniowski Waldemar , Skrzypkowski Krzysztof , Herezy Łukasz 
Published: May 2015

Abstract
Rock bolts have long been used in Poland, above all in the ore mining. Worldwide experience (Australia, Chile, Canada, South Africa, Sweden, and USA) provides evidence of rock bolt supports being used for loads under both static and dynamic conditions. There are new construction designs dedicated to the more extreme operating conditions, particularly in mining but also in tunneling. Appreciating the role and significance of the rock bolt support and its use in Polish conditions amounting to millions of units per year, this article describes a new laboratory test facility which enables rock bolt testing under static load conditions. Measuring equipment used as well as the possibilities of the test facility were characterized. Tests were conducted on expansion rock bolt supports installed inside a block simulating rock mass with compression strength of 80 MPa, which was loaded statically as determined by taking account of the load in order to maintain the desired axial tension, which was statically burdened in accordance with determined program load taking into consideration the maintenance of set axial tension strength at specified time intervals until capacity was exceeded. As an experiment the stress-strain characteristics of the rock bolt support were removed showing detailed dependence between its geometrical parameters as well as actual rock bolt deformation and its percentage share in total displacement and deformation resulting from the deformation of the bolt support elements (washer, thread). Two characteristic exchange parts with varying intensity of deformation /displacement per unit were highlighted with an increase in axial force static rock bolt supports installed in the rock mass.
Development of Load Exerted on the Lining of the Shaft After its Liquidation / Kształtowanie Się Obciążeń Obudowy Szybu Po Jego Likwidacji
Authors: Konior Janusz 
Published: May 2015

Abstract
This article applies to forecasting of the shaft stability after its liquidation on the basis of the probable, current load of its lining. The stability of the shaft after its liquidation is affected by many factors: that have occurred in the past, during its operation, e.g.: the degree of technical wear and liquidation method, that presently exist such as: changes in the parameters of backfill and the level of shaft backfilling, or may occur in the future: changes of hydrogeological conditions, the influences of present mining extraction, the effect of vibrations, etc. The variability of these conditions over time may consequently lead to arising of discontinuous deformations in the area surrounding the shaft and, as an consequence, to construction disaster.
Parametric Factors for the Tangential-Rotary Picks Quality Assessment / Wskaźniki Parametryczne Oceny Jakości Noży Styczno-Obrotowych
Authors: Krauze Krzysztof , Bołoz Łukasz , Wydro Tomasz 
Published: May 2015

Abstract
Procedure of the quality assessment of tangential-rotary picks used in various types of mining machines, has been described in the present study. Authorial method of the quality assessment of tangential- -rotary picks based on examination of geometrical and material factors, including pick wear rate, has been discussed. The method is based on parametrical factors and the described examinations tailored to determined conditions of the machine operations, including user requirements. Testing results collected in form of measurement cards allow selection of the optimal pick, including the influence of chosen parameters into the pick wear rate.
Selection of Most Proper Blasting Pattern in Mines Using Linear Assignment Method: Sungun Copper Mine / Wybór Najodpowiedniejszego Schematu Prowadzenia Prac Strzałowych W Kopalni Miedzi Sungun Z Użyciem Metody Przyporządkowania Liniowego
Authors: Yari Mojtaba , Bagherpour Raheb , Jamali Saeed , Asadi Fatemeh 
Published: May 2015

Abstract
One of the most important operations in mining is blasting. Improper design of blasting pattern will cause technical and safety problems. Considering impact of results of blasting on next steps of mining, correct pattern selection needs a great cautiousness. In selecting of blasting pattern, technical, economical and safety aspects should be considered. Thus, most appropriate pattern selection can be defined as a Multi Attribute Decision Making (MADM) problem.
Linear assignment method is one of the very applicable methods in decision making problems. In this paper, this method was used for the first time to evaluate blasting patterns in mine. In this ranking, safety and technical parameters have been considered to evaluate blasting patterns. Finally, blasting pattern with burden of 3.5 m, spacing of 4.5 m, stemming of 3.8 m and hole length of 12.1 m has been presented as the most suitable pattern obtained from linear assignment model for Sungun Copper Mine.