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In this white paper, we describe the founding of a new ELIXIR Community - the Systems Biology Community - and its proposed future contributions to both ELIXIR and the broader community of systems biologists in Europe and worldwide. The Community believes that the infrastructure aspects of systems biology - databases, (modelling) tools and standards development, as well as training and access to cloud infrastructure - are not only appropriate components of the ELIXIR infrastructure, but will prove key components of ELIXIR’s future support of advanced biological applications and personalised medicine. By way of a series of meetings, the Community identified seven key areas for its future activities, reflecting both future needs and previous and current activities within ELIXIR Platforms and Communities. These are: overcoming barriers to the wider uptake of systems biology; linking new and existing data to systems biology models; interoperability of systems biology resources; further development and embedding of systems medicine; provisioning of modelling as a service; building and coordinating capacity building and training resources; and supporting industrial embedding of systems biology. A set of objectives for the Community has been identified under four main headline areas: Standardisation and Interoperability, Technology, Capacity Building and Training, and Industrial Embedding. These are grouped into short-term (3-year), mid-term (6-year) and long-term (10-year) objectives.

In this white paper, we describe the founding of a new ELIXIR Community - the Systems Biology Community - and its proposed future contributions to both ELIXIR and the broader community of systems biologists in Europe and worldwide. The Community believes that the infrastructure aspects of systems biology - databases, (modelling) tools and standards development, as well as training and access to cloud infrastructure - are not only appropriate components of the ELIXIR infrastructure, but will prove key components of ELIXIR’s future support of advanced biological applications and personalised medicine. By way of a series of meetings, the Community identified seven key areas for its future activities, reflecting both future needs and previous and current activities within ELIXIR Platforms and Communities. These are: overcoming barriers to the wider uptake of systems biology; linking new and existing data to systems biology models; interoperability of systems biology resources; further development and embedding of systems medicine; provisioning of modelling as a service; building and coordinating capacity building and training resources; and supporting industrial embedding of systems biology. A set of objectives for the Community has been identified under four main headline areas: Standardisation and Interoperability, Technology, Capacity Building and Training, and Industrial Embedding. These are grouped into short-term (3-year), mid-term (6-year) and long-term (10-year) objectives.

En la década de 1920, racionalización es una palabra muy de moda en la Unión Soviética. Bajo la influencia del movimiento por la organización científica del trabajo, la industria trata de obtener un máximo de productividad y rentabilidad con un gasto mínimo de materiales. Durante estos años, este proceso de racionalización fue aplicado también al idioma ruso: varios textos de la década de 1920 sugirieron racionalizar el idioma ruso. El propósito era eliminar de la lengua todas las palabras inútiles e innecesarias, a efectos de ganar claridad y eficiencia. Pero tales textos parecen desaparecer en la década de 1930, a pesar de ser un período de gran racionalización industrial en la URSS. Este artículo tiene como objetivo proponer una explicación para esta paradoja, considerando la evolución en la concepción de lengua y Estado entre las décadas de 1920 y 1930.

Are the diacritical signs of Esperanto contrary to the interests and aspirations of the proletariat? In the early 1920s, Soviet supporters of Ido and Esperanto, two artificial languages with an international vocation, competed for a time about this kind of question. In this article, we intend to analyse the ideas of the linguist Nikolaj Vladimirovič Jušmanov, expressed in articles written in Russian, but also in Ido and Etem, an artificial language developed by Jušmanov himself. We will see that his ideas about the alphabets (which he believes must be precise, organised and rational) fit into the particular context of the ussr in the 1920s when intentions were to erase the past and create new forms

Deficiency in a principal epidermal barrier protein, filaggrin (FLG), is associated with multiple allergic manifestations, including atopic dermatitis and contact allergy to nickel. Toxicity caused by dermal and respiratory exposures of the general population to nickel-containing objects and particles is a deleterious side effect of modern technologies. Its molecular mechanism may include the peptide bond hydrolysis in X1-S/T-c/p-H-c-X2 motifs by released Ni2+ ions. The goal of the study was to analyse the distribution of such cleavable motifs in the human proteome and examine FLG vulnerability of nickel hydrolysis. We performed a general bioinformatic study followed by biochemical and biological analysis of a single case, the FLG protein. FLG model peptides, the recombinant monomer domain human keratinocytes in vitro and human epidermis ex vivo were used. We also investigated if the products of filaggrin Ni2+-hydrolysis affect the activation profile of Langerhans cells. We found X1-S/T-c/p-H-c-X2 motifs in 40% of human proteins, with the highest abundance in those involved in the epidermal barrier function, including FLG. We confirmed the hydrolytic vulnerability and pH-dependent Ni2+-assisted cleavage of FLG-derived peptides and FLG monomer, using in vitro cell culture and ex-vivo epidermal sheets; the hydrolysis contributed to the pronounced reduction in FLG in all of the models studied. We also postulated that Ni-hydrolysis might dysregulate important immune responses. Ni2+-assisted cleavage of barrier proteins, including FLG, may contribute to clinical disease associated with nickel exposure.

The data presented here is related to the article titled, “Using handwriting to infer a writer's country of origin for forensic intelligence purposes” (Agius et al., 2017) [1]. This article reports original writer, spatial and construction characteristic data for thirty-seven English Australian11 In this study, English writers were Australians whom had learnt to write in New South Wales (NSW). writers and thirty-seven Vietnamese writers. All of these characteristics were coded and recorded in Microsoft Excel 2013 (version 15.31). The construction characteristics coded were only extracted from seven characters, which were: ‘g’, ‘h’, ‘th’, ‘M’, ‘0’, ‘7’ and ‘9’. The coded format of the writer, spatial and construction characteristics is made available in this Data in Brief in order to allow others to perform statistical analyses and modelling to investigate whether there is a relationship between the handwriting features and the nationality of the writer, and whether the two nationalities can be differentiated. Furthermore, to employ mathematical techniques that are capable of characterising the extracted features from each participant.

The Estonian scholar Jakob Linzbach is primarily known for having published, in 1916, a Russian-language book with the title The Principles of Philosophical Language: An Attempt at Exact Linguistics. In this book, and in his other published and unpublished works, he aimed at creating a universal written language in which mathematics and images would mix. Linzbach’s ideas have raised awareness among people from different (scholarly) fields – semiotics, interlinguistics, philosophy, cinema theory, informatics, etc. However, not much has been published about Linzbach’s life. In one of his manuscripts kept in Tartu, there is a chapter that can be considered an autobiography and that provided, in the pencil of Linzbach himself, information about his life and work. This text is edited, translated into English and commented here for the first time.

Are the diacritical signs of Esperanto contrary to the interests and aspirations of the proletariat? In the early 1920s, Soviet supporters of Ido and Esperanto, two artificial languages with an international vocation, competed for a time about this kind of question. In.this article, we intend to analyse the ideas of the linguist Nikolaj Vladimirovič Jušmanov, expressed in articles written in Russian, but also in Ido and Etem, an artificial language developed by Jušmanov himself. We will see that his ideas about the alphabets (which he believes must be precise, organised and rational) fit into the particular context of the USSR in the 1920s when intentions were to erase the past and create new forms.

While resettlement is nowadays considered as a solution to be resorted to only in exceptional circumstances, in Southeast Asia resettlement has always been, and remains, the most important durable solution for refugees.

Developmental constraints have been postulated to limit the space of feasible phenotypes and thus shape animal evolution. These constraints have been suggested to be the strongest during either early or mid-embryogenesis, which corresponds to the early conservation model or the hourglass model, respectively. Conflicting results have been reported, but in recent studies of animal transcriptomes the hourglass model has been favored. Studies usually report descriptive statistics calculated for all genes over all developmental time points. This introduces dependencies between the sets of compared genes and may lead to biased results. Here we overcome this problem using an alternative modular analysis. We used the Iterative Signature Algorithm to identify distinct modules of genes co-expressed specifically in consecutive stages of zebrafish development. We then performed a detailed comparison of several gene properties between modules, allowing for a less biased and more powerful analysis. Notably, our analysis corroborated the hourglass pattern at the regulatory level, with sequences of regulatory regions being most conserved for genes expressed in mid-development but not at the level of gene sequence, age, or expression, in contrast to some previous studies. The early conservation model was supported with gene duplication and birth that were the most rare for genes expressed in early development. Finally, for all gene properties, we observed the least conservation for genes expressed in late development or adult, consistent with both models. Overall, with the modular approach, we showed that different levels of molecular evolution follow different patterns of developmental constraints. Thus both models are valid, but with respect to different genomic features.

Aquaporins (AQPs) are membrane channels belonging to the major intrinsic proteins family and are known for their ability to facilitate water movement. While in Populus trichocarpa, AQP proteins form a large family encompassing fifty-five genes, most of the experimental work focused on a few genes or subfamilies. The current work was undertaken to develop a comprehensive picture of the whole AQP gene family in Populus species by delineating gene expression domain and distinguishing responsiveness to developmental and environmental cues. Since duplication events amplified the poplar AQP family, we addressed the question of expression redundancy between gene duplicates. On these purposes, we carried a meta-analysis of all publicly available Affymetrix experiments. Our in-silico strategy controlled for previously identified biases in cross-species transcriptomics, a necessary step for any comparative transcriptomics based on multispecies design chips. Three poplar AQPs were not supported by any expression data, even in a large collection of situations (abiotic and biotic constraints, temporal oscillations and mutants). The expression of 11 AQPs was never or poorly regulated whatever the wideness of their expression domain and their expression level. Our work highlighted that PtTIP1;4 was the most responsive gene of the AQP family. A high functional divergence between gene duplicates was detected across species and in response to tested cues, except for the root-expressed PtTIP2;3/PtTIP2;4 pair exhibiting 80% convergent responses. Our meta-analysis assessed key features of aquaporin expression which had remained hidden in single experiments, such as expression wideness, response specificity and genotype and environment interactions. By consolidating expression profiles using independent experimental series, we showed that the large expansion of AQP family in poplar was accompanied with a strong divergence of gene expression, even if some cases of functional redundancy could be suspected.