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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Günter Blöschl; Julia Hall; Alberto Viglione; Rui A. P. Perdigão; +43 Authors

    Climate change has led to concerns about increasing river floods resulting from the greater water-holding capacity of a warmer atmosphere1. These concerns are reinforced by evidence of increasing economic losses associated with flooding in many parts of the world, including Europe2. Any changes in river floods would have lasting implications for the design of flood protection measures and flood risk zoning. However, existing studies have been unable to identify a consistent continental-scale climatic-change signal in flood discharge observations in Europe3, because of the limited spatial coverage and number of hydrometric stations. Here we demonstrate clear regional patterns of both increases and decreases in observed river flood discharges in the past five decades in Europe, which are manifestations of a changing climate. Our results—arising from the most complete database of European flooding so far—suggest that: increasing autumn and winter rainfall has resulted in increasing floods in northwestern Europe; decreasing precipitation and increasing evaporation have led to decreasing floods in medium and large catchments in southern Europe; and decreasing snow cover and snowmelt, resulting from warmer temperatures, have led to decreasing floods in eastern Europe. Regional flood discharge trends in Europe range from an increase of about 11 per cent per decade to a decrease of 23 per cent. Notwithstanding the spatial and temporal heterogeneity of the observational record, the flood changes identified here are broadly consistent with climate model projections for the next century4,5, suggesting that climate-driven changes are already happening and supporting calls for the consideration of climate change in flood risk management. Analysis of a comprehensive European flood dataset reveals regional changes in river flood discharges in the past five decades that are consistent with models suggesting that climate-driven changes are already happening.

    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ Archivio istituziona...arrow_drop_down
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    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
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    Nature
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    image/svg+xml Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao Closed Access logo, derived from PLoS Open Access logo. This version with transparent background. http://commons.wikimedia.org/wiki/File:Closed_Access_logo_transparent.svg Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao
    image/svg+xml Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao Closed Access logo, derived from PLoS Open Access logo. This version with transparent background. http://commons.wikimedia.org/wiki/File:Closed_Access_logo_transparent.svg Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao
    image/svg+xml Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao Closed Access logo, derived from PLoS Open Access logo. This version with transparent background. http://commons.wikimedia.org/wiki/File:Closed_Access_logo_transparent.svg Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao
    Nature
    Article . 2018
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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Roberto Theron; Eveline Wandl-Vogt; Michelle Doran; Alejandro Benito-Santos; +1 Authors

    The capture, modelling and visualisation of uncertainty has become a hot topic in many areas of science, such as the digital humanities (DH). Fuelled by critical voices among the DH community, DH scholars are becoming more aware of the intrinsic advantages that incorporating the notion of uncertainty into their workflows may bring. Additionally, the increasing availability of ubiquitous, web-based technologies has given rise to many collaborative tools that aim to support DH scholars in performing remote work alongside distant peers from other parts of the world. In this context, this paper describes two user studies seeking to evaluate a taxonomy of textual uncertainty aimed at enabling remote collaborations on digital humanities (DH) research objects in a digital medium. Our study focuses on the task of free annotation of uncertainty in texts in two different scenarios, seeking to establish the requirements of the underlying data and uncertainty models that would be needed to implement a hypothetical collaborative annotation system (CAS) that uses information visualisation and visual analytics techniques to leverage the cognitive effort implied by these tasks. To identify user needs and other requirements, we held two user-driven design experiences with DH experts and lay users, focusing on the annotation of uncertainty in historical recipes and literary texts. The lessons learned from these experiments are gathered in a series of insights and observations on how these different user groups collaborated to adapt an uncertainty taxonomy to solve the proposed exercises. Furthermore, we extract a series of recommendations and future lines of work that we share with the community in an attempt to establish a common agenda of DH research that focuses on collaboration around the idea of uncertainty.

    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ Information; OpenAPC...arrow_drop_down
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    Information; OpenAPC Global Initiative
    Article . Conference object . 2021 . Peer-reviewed
    License: CC BY
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      Article . Conference object . 2021 . Peer-reviewed
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      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
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    Authors: Md. Facihul Azam; Md. Facihul Azam; Aliyu Musa; Aliyu Musa; +8 Authors

    Prostate cancer is the most common cancer type in men in Finland and second worldwide. In this paper, we analyze almost 150, 000 published papers about prostate cancer, authored by ten thousands of scientists worldwide, with an integrated text mining and computational network theory approach. We demonstrate how to integrate text mining with network analysis investigating research contributions of countries and collaborations within and between countries. Furthermore, we study the time evolution of individually and collectively studied genes. Finally, we investigate a collaboration network of Finland and compare studied genes with globally studied genes in prostate cancer genetics. Overall, our results provide a global overview of prostate cancer research in genetics. In addition, we present a specific discussion for Finland. Our results shed light on trends within the last 30 years and are useful for translational researchers within the full range from genetics to public health management and health policy.

    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ DOAJarrow_drop_down
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    Article . 2019
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    Frontiers in Genetics
    Article . 2019
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      Article . 2019
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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Stifter, David;

    In a keynote address at the XI. Fachtagung der Indogermanischen Gesellschaft, about possible non-Indo-European influence on the Celtic languages, Kim McCone drew attention to the similarity between the Insular Celtic, e.g. OIr fannall, W gwennol, and the Basque,i.e. enara, ain(h)- ara, words for 'swallow' (Lat hirundo). McCone reconstructs *waNilri or *weNrilri as preforms for the Insular Celtic words, and *(w)aiNala for Pre- Basque (McCone 2005,408-9).l This suggestion looks very attractive and suggestive and, if correct, would shed rare light on prehistoric linguistic relationships in Western Europe. In this article, I will examine the equation more closely and add a number of observations.

    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ Maynooth University ...arrow_drop_down
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    ÉRIU
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    Article . 2010 . Peer-reviewed
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    ÉRIU
    Article . 2010 . Peer-reviewed
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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Kozak, Michał; Rodríguez, Alejandro; Benito-Santos, Alejandro; Therón, Roberto; +5 Authors

    The underlying uncertainty in digital humanities research data affects decision-making and persists during a project’s lifecycle. This uncertainty is inevitable since most empirical claims cannot be assessed against an absolute truth (Drucker 2011; Binder et al. 2014). This situation has been previously recognized together with the need to report the degrees of uncertainty that accompany such claims (Blau 2011). Although TEI makes it possible to annotate text with notions of certainty or precision, examples of actual projects taking advantage of this are scarce. There are many possible explanations for uncertainty’s lack of visibility in computationally supported humanities research; among them, the need for tools specifically designed to address the goal of defining and managing uncertainty stands out. Thus, efforts to provide technical support for humanities research should focus on managing and making uncertainty more transparent, rather than removing it. Another challenge is the fact that there is no agreement on a generic taxonomy for the different types of uncertainty that researchers may face. Various researchers across disciplines, working on varying projects and data sets, can use different categories to classify the uncertainties present in a particular case. In this paper, we introduce a collaborative platform for collective annotation of TEI data sets. We briefly present the flexible taxonomy of uncertainty used in the platform and describe two data sets used for its testing. Then we describe use cases of annotations available on the platform, and how they translate into TEI annotations. Creating and interpreting annotations with and without uncertainty should now be easier, especially for researchers who do not know TEI markup.

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    OpenEdition
    Article . 2022
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    Journal of the Text Encoding Initiative
    Article . 2021 . Peer-reviewed
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      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ Journal of the Text ...arrow_drop_down
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      Journal of the Text Encoding Initiative
      Article . 2021 . Peer-reviewed
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    Authors: Yang, Zhen; Dehmer, Matthias; Yli-Harja, Olli; Emmert-Streib, Frank;

    AbstractArtificial intelligence provides the opportunity to reveal important information buried in large amounts of complex data. Electronic health records (eHRs) are a source of such big data that provide a multitude of health related clinical information about patients. However, text data from eHRs, e.g., discharge summary notes, are challenging in their analysis because these notes are free-form texts and the writing formats and styles vary considerably between different records. For this reason, in this paper we study deep learning neural networks in combination with natural language processing to analyze text data from clinical discharge summaries. We provide a detail analysis of patient phenotyping, i.e., the automatic prediction of ten patient disorders, by investigating the influence of network architectures, sample sizes and information content of tokens. Importantly, for patients suffering from Chronic Pain, the disorder that is the most difficult one to classify, we find the largest performance gain for a combined word- and sentence-level input convolutional neural network (ws-CNN). As a general result, we find that the combination of data quality and data quantity of the text data is playing a crucial role for using more complex network architectures that improve significantly beyond a word-level input CNN model. From our investigations of learning curves and token selection mechanisms, we conclude that for such a transition one requires larger sample sizes because the amount of information per sample is quite small and only carried by few tokens and token categories. Interestingly, we found that the token frequency in the eHRs follow a Zipf law and we utilized this behavior to investigate the information content of tokens by defining a token selection mechanism. The latter addresses also issues of explainable AI.

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    Scientific Reports
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    Authors: Azam, Md. Facihul; Musa, Aliyu; Dehmer, Matthias; Yli-Harja, Olli; +1 Authors

    Prostate cancer is the most common cancer type in men in Finland and second worldwide. In this paper, we analyze almost 150, 000 published papers about prostate cancer, authored by ten thousands of scientists worldwide, with an integrated text mining and computational network theory approach. We demonstrate how to integrate text mining with network analysis investigating research contributions of countries and collaborations within and between countries. Furthermore, we study the time evolution of individually and collectively studied genes. Finally, we investigate a collaboration network of Finland and compare studied genes with globally studied genes in prostate cancer genetics. Overall, our results provide a global overview of prostate cancer research in genetics. In addition, we present a specific discussion for Finland. Our results shed light on trends within the last 30 years and are useful for translational researchers within the full range from genetics to public health management and health policy. Peer reviewed

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    Authors: Jin Zhang; Depei Zhang; Maolong Zhang; Daikun Zheng; +5 Authors

    A tunable microwave-pulse-generation scheme is proposed and demonstrated by employing an actively mode-locked optoelectronic oscillator (OEO) based on a microwave photonic filter (MPF). The MPF mainly consists of a phase-shifted fiber Bragg grating (PS-FBG) and a phase modulator. The microwave pulse trains with variable repetition rates are achieved by injecting an external signal, of which the frequencies are equal to an integer multiple of the free spectrum range (FSR) of the OEO. The multi-mode oscillation mechanism is discussed in detail theoretically and experimentally. A microwave pulse train with a central frequency of 9.25 GHz and repetition rate of 1.68 MHz is demonstrated by setting the injecting signal frequency to be the same with the FSR of the OEO. A tunable center frequency of the microwave pulses from 5.47 GHz to 18.91 GHz can be easily generated by tuning the laser frequency benefit from adopting the MPF. Furthermore, the microwave pulses with different pulse periods of 297.62 ns, 198.69 ns, and 148.81 ns are also realized by harmonic mode-locking. The proposed tunable microwave-pulse-generation method has potential applications in the pulse Doppler radar and communications.

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    Photonics
    Article . 2022
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    Photonics
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    Authors: Wüntrang Dhondrup; Dungkar Tso; Rigdzin Wangyal; Gönpo Dhondrup; +4 Authors

    This article shares the comprehensive dataset and five visualized examples of disease categories in Tibetan medicine, or Sowa Rigpa (Tib. Gso ba rig pa), translated as the “knowledge field of healing.” Sowa Rigpa is a scholarly Asian traditional medical system rigorously transmitted through canonical texts and oral teachings originating in Tibet with an extensive pharmacopeia, comprehensive treatment repertoire, and nuanced etiological explications of its nosology of diseases. This medical tradition is practiced across a broad region of Asia, particularly in Tibetan regions of China, Himalayan regions of India (Ladakh, Sikkim, Himachal Pradesh), Nepal, Bhutan, Mongolia, Russia, and recently in Europe and North America. The data herein depicts disease classifications listed in the encyclopedic compendium “Oral Instructions Treatise” (Man ngag rgyud) of the Tibetan medical classic, the Four Medical Treatises (Rgyud bzhi), compiled in written form during the twelfth century CE. Visualized examples depict etiological relations among diseases in five of the fifteen major categories of disease: rLung Illnesses, Béken Illneses, Pediatric Conditions, Eye Conditions and Tropical Infectious Diseases. Disease names were entered into spreadsheet format and categorized by etiological hierarchical structure. Data are written in Unicode Tibetan font to retain fidelity to entries in the classical text, with parallel columns in standard Wylie transliteration. Subsets of the data are visually depicted through a graphic platform called Interactive Tree of Life to demonstrate etiological associations. This dataset is the first publicly available enumeration of the specific diseases, classifications and etiological relationships from the Tibetan medical classic. The data are linked to the article entitled “Tibetan Medical Informatics: An Emerging Field in Sowa Rigpa Pharmacological & Clinical Research” (Dhondrup et al., 2020). Keywords: Disease classification, Tibetan medicine, Sowa rigpa, Etiology, Four medical treatises, Rgyud bzhi, Visualized graphics

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    Authors: Hannes A. Fellner; Nathan W. Hill;

    Abstract Linguists researching the Trans-Himalayan family do not have a self-perception as working outside the mainstream of historical linguistics, but ‘word families’ and ‘allofams’ are important elements in their thinking despite the absence of these terms in the wider discipline. A close examination of the practice of historical linguistics in Indo-European and Trans-Himalayan leads to the conclusion that those phenomena treated as word families admit superior analyses in more traditional terms.

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    Cahiers de linguistique - Asie orientale
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    Authors: Günter Blöschl; Julia Hall; Alberto Viglione; Rui A. P. Perdigão; +43 Authors

    Climate change has led to concerns about increasing river floods resulting from the greater water-holding capacity of a warmer atmosphere1. These concerns are reinforced by evidence of increasing economic losses associated with flooding in many parts of the world, including Europe2. Any changes in river floods would have lasting implications for the design of flood protection measures and flood risk zoning. However, existing studies have been unable to identify a consistent continental-scale climatic-change signal in flood discharge observations in Europe3, because of the limited spatial coverage and number of hydrometric stations. Here we demonstrate clear regional patterns of both increases and decreases in observed river flood discharges in the past five decades in Europe, which are manifestations of a changing climate. Our results—arising from the most complete database of European flooding so far—suggest that: increasing autumn and winter rainfall has resulted in increasing floods in northwestern Europe; decreasing precipitation and increasing evaporation have led to decreasing floods in medium and large catchments in southern Europe; and decreasing snow cover and snowmelt, resulting from warmer temperatures, have led to decreasing floods in eastern Europe. Regional flood discharge trends in Europe range from an increase of about 11 per cent per decade to a decrease of 23 per cent. Notwithstanding the spatial and temporal heterogeneity of the observational record, the flood changes identified here are broadly consistent with climate model projections for the next century4,5, suggesting that climate-driven changes are already happening and supporting calls for the consideration of climate change in flood risk management. Analysis of a comprehensive European flood dataset reveals regional changes in river flood discharges in the past five decades that are consistent with models suggesting that climate-driven changes are already happening.

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    Nature
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    Nature
    Article . 2018
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    Authors: Roberto Theron; Eveline Wandl-Vogt; Michelle Doran; Alejandro Benito-Santos; +1 Authors

    The capture, modelling and visualisation of uncertainty has become a hot topic in many areas of science, such as the digital humanities (DH). Fuelled by critical voices among the DH community, DH scholars are becoming more aware of the intrinsic advantages that incorporating the notion of uncertainty into their workflows may bring. Additionally, the increasing availability of ubiquitous, web-based technologies has given rise to many collaborative tools that aim to support DH scholars in performing remote work alongside distant peers from other parts of the world. In this context, this paper describes two user studies seeking to evaluate a taxonomy of textual uncertainty aimed at enabling remote collaborations on digital humanities (DH) research objects in a digital medium. Our study focuses on the task of free annotation of uncertainty in texts in two different scenarios, seeking to establish the requirements of the underlying data and uncertainty models that would be needed to implement a hypothetical collaborative annotation system (CAS) that uses information visualisation and visual analytics techniques to leverage the cognitive effort implied by these tasks. To identify user needs and other requirements, we held two user-driven design experiences with DH experts and lay users, focusing on the annotation of uncertainty in historical recipes and literary texts. The lessons learned from these experiments are gathered in a series of insights and observations on how these different user groups collaborated to adapt an uncertainty taxonomy to solve the proposed exercises. Furthermore, we extract a series of recommendations and future lines of work that we share with the community in an attempt to establish a common agenda of DH research that focuses on collaboration around the idea of uncertainty.

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    Information; OpenAPC Global Initiative
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    Authors: Md. Facihul Azam; Md. Facihul Azam; Aliyu Musa; Aliyu Musa; +8 Authors

    Prostate cancer is the most common cancer type in men in Finland and second worldwide. In this paper, we analyze almost 150, 000 published papers about prostate cancer, authored by ten thousands of scientists worldwide, with an integrated text mining and computational network theory approach. We demonstrate how to integrate text mining with network analysis investigating research contributions of countries and collaborations within and between countries. Furthermore, we study the time evolution of individually and collectively studied genes. Finally, we investigate a collaboration network of Finland and compare studied genes with globally studied genes in prostate cancer genetics. Overall, our results provide a global overview of prostate cancer research in genetics. In addition, we present a specific discussion for Finland. Our results shed light on trends within the last 30 years and are useful for translational researchers within the full range from genetics to public health management and health policy.

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    Authors: Stifter, David;

    In a keynote address at the XI. Fachtagung der Indogermanischen Gesellschaft, about possible non-Indo-European influence on the Celtic languages, Kim McCone drew attention to the similarity between the Insular Celtic, e.g. OIr fannall, W gwennol, and the Basque,i.e. enara, ain(h)- ara, words for 'swallow' (Lat hirundo). McCone reconstructs *waNilri or *weNrilri as preforms for the Insular Celtic words, and *(w)aiNala for Pre- Basque (McCone 2005,408-9).l This suggestion looks very attractive and suggestive and, if correct, would shed rare light on prehistoric linguistic relationships in Western Europe. In this article, I will examine the equation more closely and add a number of observations.

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    Authors: Kozak, Michał; Rodríguez, Alejandro; Benito-Santos, Alejandro; Therón, Roberto; +5 Authors

    The underlying uncertainty in digital humanities research data affects decision-making and persists during a project’s lifecycle. This uncertainty is inevitable since most empirical claims cannot be assessed against an absolute truth (Drucker 2011; Binder et al. 2014). This situation has been previously recognized together with the need to report the degrees of uncertainty that accompany such claims (Blau 2011). Although TEI makes it possible to annotate text with notions of certainty or precision, examples of actual projects taking advantage of this are scarce. There are many possible explanations for uncertainty’s lack of visibility in computationally supported humanities research; among them, the need for tools specifically designed to address the goal of defining and managing uncertainty stands out. Thus, efforts to provide technical support for humanities research should focus on managing and making uncertainty more transparent, rather than removing it. Another challenge is the fact that there is no agreement on a generic taxonomy for the different types of uncertainty that researchers may face. Various researchers across disciplines, working on varying projects and data sets, can use different categories to classify the uncertainties present in a particular case. In this paper, we introduce a collaborative platform for collective annotation of TEI data sets. We briefly present the flexible taxonomy of uncertainty used in the platform and describe two data sets used for its testing. Then we describe use cases of annotations available on the platform, and how they translate into TEI annotations. Creating and interpreting annotations with and without uncertainty should now be easier, especially for researchers who do not know TEI markup.

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    Journal of the Text Encoding Initiative
    Article . 2021 . Peer-reviewed
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      Journal of the Text Encoding Initiative
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    Authors: Yang, Zhen; Dehmer, Matthias; Yli-Harja, Olli; Emmert-Streib, Frank;

    AbstractArtificial intelligence provides the opportunity to reveal important information buried in large amounts of complex data. Electronic health records (eHRs) are a source of such big data that provide a multitude of health related clinical information about patients. However, text data from eHRs, e.g., discharge summary notes, are challenging in their analysis because these notes are free-form texts and the writing formats and styles vary considerably between different records. For this reason, in this paper we study deep learning neural networks in combination with natural language processing to analyze text data from clinical discharge summaries. We provide a detail analysis of patient phenotyping, i.e., the automatic prediction of ten patient disorders, by investigating the influence of network architectures, sample sizes and information content of tokens. Importantly, for patients suffering from Chronic Pain, the disorder that is the most difficult one to classify, we find the largest performance gain for a combined word- and sentence-level input convolutional neural network (ws-CNN). As a general result, we find that the combination of data quality and data quantity of the text data is playing a crucial role for using more complex network architectures that improve significantly beyond a word-level input CNN model. From our investigations of learning curves and token selection mechanisms, we conclude that for such a transition one requires larger sample sizes because the amount of information per sample is quite small and only carried by few tokens and token categories. Interestingly, we found that the token frequency in the eHRs follow a Zipf law and we utilized this behavior to investigate the information content of tokens by defining a token selection mechanism. The latter addresses also issues of explainable AI.

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    Scientific Reports
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    Authors: Azam, Md. Facihul; Musa, Aliyu; Dehmer, Matthias; Yli-Harja, Olli; +1 Authors

    Prostate cancer is the most common cancer type in men in Finland and second worldwide. In this paper, we analyze almost 150, 000 published papers about prostate cancer, authored by ten thousands of scientists worldwide, with an integrated text mining and computational network theory approach. We demonstrate how to integrate text mining with network analysis investigating research contributions of countries and collaborations within and between countries. Furthermore, we study the time evolution of individually and collectively studied genes. Finally, we investigate a collaboration network of Finland and compare studied genes with globally studied genes in prostate cancer genetics. Overall, our results provide a global overview of prostate cancer research in genetics. In addition, we present a specific discussion for Finland. Our results shed light on trends within the last 30 years and are useful for translational researchers within the full range from genetics to public health management and health policy. Peer reviewed

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    Authors: Jin Zhang; Depei Zhang; Maolong Zhang; Daikun Zheng; +5 Authors

    A tunable microwave-pulse-generation scheme is proposed and demonstrated by employing an actively mode-locked optoelectronic oscillator (OEO) based on a microwave photonic filter (MPF). The MPF mainly consists of a phase-shifted fiber Bragg grating (PS-FBG) and a phase modulator. The microwave pulse trains with variable repetition rates are achieved by injecting an external signal, of which the frequencies are equal to an integer multiple of the free spectrum range (FSR) of the OEO. The multi-mode oscillation mechanism is discussed in detail theoretically and experimentally. A microwave pulse train with a central frequency of 9.25 GHz and repetition rate of 1.68 MHz is demonstrated by setting the injecting signal frequency to be the same with the FSR of the OEO. A tunable center frequency of the microwave pulses from 5.47 GHz to 18.91 GHz can be easily generated by tuning the laser frequency benefit from adopting the MPF. Furthermore, the microwave pulses with different pulse periods of 297.62 ns, 198.69 ns, and 148.81 ns are also realized by harmonic mode-locking. The proposed tunable microwave-pulse-generation method has potential applications in the pulse Doppler radar and communications.

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    Photonics
    Article . 2022
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    Photonics
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    Authors: Wüntrang Dhondrup; Dungkar Tso; Rigdzin Wangyal; Gönpo Dhondrup; +4 Authors

    This article shares the comprehensive dataset and five visualized examples of disease categories in Tibetan medicine, or Sowa Rigpa (Tib. Gso ba rig pa), translated as the “knowledge field of healing.” Sowa Rigpa is a scholarly Asian traditional medical system rigorously transmitted through canonical texts and oral teachings originating in Tibet with an extensive pharmacopeia, comprehensive treatment repertoire, and nuanced etiological explications of its nosology of diseases. This medical tradition is practiced across a broad region of Asia, particularly in Tibetan regions of China, Himalayan regions of India (Ladakh, Sikkim, Himachal Pradesh), Nepal, Bhutan, Mongolia, Russia, and recently in Europe and North America. The data herein depicts disease classifications listed in the encyclopedic compendium “Oral Instructions Treatise” (Man ngag rgyud) of the Tibetan medical classic, the Four Medical Treatises (Rgyud bzhi), compiled in written form during the twelfth century CE. Visualized examples depict etiological relations among diseases in five of the fifteen major categories of disease: rLung Illnesses, Béken Illneses, Pediatric Conditions, Eye Conditions and Tropical Infectious Diseases. Disease names were entered into spreadsheet format and categorized by etiological hierarchical structure. Data are written in Unicode Tibetan font to retain fidelity to entries in the classical text, with parallel columns in standard Wylie transliteration. Subsets of the data are visually depicted through a graphic platform called Interactive Tree of Life to demonstrate etiological associations. This dataset is the first publicly available enumeration of the specific diseases, classifications and etiological relationships from the Tibetan medical classic. The data are linked to the article entitled “Tibetan Medical Informatics: An Emerging Field in Sowa Rigpa Pharmacological & Clinical Research” (Dhondrup et al., 2020). Keywords: Disease classification, Tibetan medicine, Sowa rigpa, Etiology, Four medical treatises, Rgyud bzhi, Visualized graphics

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    Data in Brief
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    Authors: Hannes A. Fellner; Nathan W. Hill;

    Abstract Linguists researching the Trans-Himalayan family do not have a self-perception as working outside the mainstream of historical linguistics, but ‘word families’ and ‘allofams’ are important elements in their thinking despite the absence of these terms in the wider discipline. A close examination of the practice of historical linguistics in Indo-European and Trans-Himalayan leads to the conclusion that those phenomena treated as word families admit superior analyses in more traditional terms.

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    Cahiers de linguistique - Asie orientale
    Article . 2019 . Peer-reviewed
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      Cahiers de linguistique - Asie orientale
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