Automatic discovery and optimization of chemical processes

This paper presents the first overview of recent developments in techniques and methods that enable closed-loop optimization, also sometimes called ‘self optimization’, as well as discovery in different areas of molecular sciences. The closed-loop experimental platforms offer tremendous new opportunities by significantly increasing productivity, as well as enabling completely new types of experiments to be performed. Such experiments involve three main enabling technology areas: automated experimental systems, analytical instruments connected to automated chemoinformatics software and optimization or decision-making algorithms. We review the most exciting developments concerning robotic experiments, 3D printed lab-ware, experimental systems with multiple analytical instruments and advanced optimization algorithms based on machine learning approaches. A range of different chemical problems is described, which show the breadth of potential applications of this emerging experimental approach.This work was in part funded by EPSRC project “Closed Loop Optimization for Sustainable Chemical Manufacture” [EP/L003309/1].This is the final version of the article. It first appeared from Elsevier via http://dx.doi.org/10.1016/j.coche.2015.07.00

LearningQ: a large-scale dataset for educational question generation

We present LearningQ, a challenging educational question generation dataset containing over 230K document-question pairs. It includes 7K instructor-designed questions assessing knowledge concepts being taught and 223K learner-generated questions seeking in-depth understanding of the taught concepts. We show that, compared to existing datasets that can be used to generate educational questions, LearningQ (i) covers a wide range of educational topics and (ii) contains long and cognitively demanding documents for which question generation requires reasoning over the relationships between sentences and paragraphs. As a result, a significant percentage of LearningQ questions (~30%) require higher-order cognitive skills to solve (such as applying, analyzing), in contrast to existing question-generation datasets that are designed mostly for the lowest cognitive skill level (i.e. remembering). To understand the effectiveness of existing question generation methods in producing educational questions, we evaluate both rule-based and deep neural network based methods on LearningQ. Extensive experiments show that state-of-the-art methods which perform well on existing datasets cannot generate useful educational questions. This implies that LearningQ is a challenging test bed for the generation of high-quality educational questions and worth further investigation. We open-source the dataset and our codes at https://dataverse.mpi-sws.org/dataverse/icwsm18

Feasibility of the Simultaneous Determination of Monomer Concentrations and Particle Size in Emulsion Polymerization Using in Situ Raman Spectroscopy.

An immersion Raman probe was used in emulsion copolymerization reactions to measure monomer concentrations and particle sizes. Quantitative determination of monomer concentrations is feasible in two-monomer copolymerizations, but only the overall conversion could be measured by Raman spectroscopy in a four-monomer copolymerization. The feasibility of measuring monomer conversion and particle size was established using partial least-squares (PLS) calibration models. A simplified theoretical framework for the measurement of particle sizes based on photon scattering is presented, based on the elastic-sphere-vibration and surface-tension models.The research leading to these results has received funding from the European Research Council under the European Union's Seventh Framework Programme (EC FP7) Grant Agreement n. [NMP2-SL-2012-280827] and Engineering and Physical Sciences Research Council under grant EP/L003309/1.This is the final version of the article. It first appeared from the American Chemical Society via http://dx.doi.org/10.1021/acs.iecr.5b0275

BRAFV600E mutations in malignant melanoma are associated with increased expressions of BAALC

<p>Abstract</p> <p>Bachground</p> <p>Activating <it>BRAF </it>mutations are present in approximately 50% of melanomas. Although different downstream target genes of the most common mutant V600E have been identified, the contribution of activating <it>BRAF </it>mutations to malignant transformation needs further clarification.</p> <p>Methods</p> <p>Microarray gene analysis was performed for human melanoma cell lines harboring BRAF^V600Emutations in comparison to cell lines without this mutation.</p> <p>Results</p> <p>This analysis revealed a more than two fold down-regulation of 43 and an increase of 39 gene products. <it>BAALC </it>(<it>Brain and acute Leukaemia, cytoplasmatic</it>) was most prominently regulated, since it was up-regulated in mutated cell lines by a mean of 11.45. Real time PCR analyses with RNA from melanoma cell lines (n = 30) confirmed the <it>BRAF</it>-activation dependent up-regulation of <it>BAALC</it>.</p> <p>Conclusion</p> <p><it>BAALC</it>, which has been associated with cell dedifferentiation and migration, may function as a downstream effector of activating <it>BRAF </it>mutations during melanomagenesis.</p

Migration Reframed? A multilingual analysis on the stance shift in Europe during the Ukrainian crisis

The war in Ukraine seems to have positively changed the attitude toward the critical societal topic of migration in Europe – at least towards refugees from Ukraine. We investigate whether this impression is substantiated by how the topic is reflected in online news and social media, thus linking the representation of the issue on the Web to its perception in society. For this purpose, we combine and adapt leading-edge automatic text processing for a novel multilingual stance detection approach. Starting from 5.5M Twitter posts published by 565 European news outlets in one year, beginning September 2021, plus replies, we perform a multilingual analysis of migration-related media coverage and associated social media interaction for Europe and selected European countries. The results of our analysis show that there is actually a reframing of the discussion illustrated by the terminology change, e.g., from “migrant” to “refugee”, often even accentuated with phrases such as “real refugees”. However, concerning a stance shift in public perception, the picture is more diverse than expected. All analyzed cases show a noticeable temporal stance shift around the start of the war in Ukraine. Still, there are apparent national differences in the size and stability of this shift

Prognostic value of immune cell infiltration, tertiary lymphoid structures and PD-L1 expression in Merkel cell carcinomas

Merkel cell carcinoma (MCC) is an aggressive, virus-associated, neuroendocrine tumor of the skin mainly affecting immunocompromised patients. Higher intratumoral infiltration with CD3 and CD8 positive T-cells is associated with a better prognosis, highlighting the relevance of the immune system for MCC development and progression. In this study 21 primary MCCs were stained with immune cell markers including CD3, CD4, CD8, CD68, CD20, and S100. Furthermore, tumor-infiltrating neutrophils, tertiary lymphoid structures and PD-L1 expression were analyzed and correlated with overall and recurrence free survival. All MCCs were Merkel Cell Polyomavirus positive. Overall and recurrence-free survival did not correlate with intra-and peritumoral CD3 and CD8 T-cell infiltration. In addition, no significant association regarding prognosis was found for tumor-associated neutrophils, tumor-associated macrophages or PD-L1 positivity in MCCs. Interestingly, the presence of tertiary lymphoid structures (TLS) in the tumor microenvironment significantly correlated with recurrence-free survival (P=0.025). In addition, TLS were significantly associated with a higher CD8/CD4 ratio in the tumor periphery (P=0.032), but not in the center of the tumor (P > 0.999). These results demonstrate for the first time that TLS, easily assessed in paraffin-embedded tissue in the tumor periphery of MCCs, may be a valuable prognostic factor indicating prolonged recurrence free survival

Absolut “copper catalyzation perfected”; robust living polymerization of NIPAM : Guinness is good for SET-LRP

The controlled polymerization of N-isopropyl acrylamide (NIPAM) is reported in a range of international beers, wine, ciders and spirits utilizing Cu(0)-mediated living radical polymerization (SET-LRP). Highly active Cu(0) is first formed in situ by the rapid disproportionation of [Cu(I)(Me6-Tren)Br] in the commercial water–alcohol mixtures. Rapid, yet highly controlled, radical polymerization follows (Đ values as low as 1.05) despite the numerous chemicals of diverse functionality present in these solvents e.g. alpha acids, sugars, phenols, terpenoids, flavonoids, tannins, metallo-complexes, anethole etc. The results herein demonstrate the robust nature of the aqueous SET-LRP protocol, underlining its ability to operate efficiently in a wide range of complex chemical environments

The carcinogenic potential of tacrolimus ointment beyond immune suppression: a hypothesis creating case report

BACKGROUND: Since tacrolimus ointment was approved by the U.S. Food and Drug Administration (FDA) as a promising treatment for atopic dermatitis, it has been approved in more than 30 additional countries, including numerous European Union member nations. Moreover, in the current clinical routine the use of this drug is no longer restricted to the approved indication, but has been extended to a wide variety of inflammatory skin diseases including some with the potential of malignant transformation. So far, the side-effects reported from the topical use of tacrolimus have been relatively minor (e.g. burning, pruritus, erythema). Recently, however, the FDA reviewed the safety of topical tacrolimus, which resulted in a warning that the use of calcineurin inhibitors may be associated with an increased risk of cancer. CASE PRESENTATION: Oral lichen planus (OLP) was diagnosed in a 56-year-old women in February 1999. After several ineffective local and systemic therapeutic measures an off-label treatment of this recalcitrant condition using Tacrolimus 0.1% ointment was initiated in May 2002. After a few weeks of treatment most of the lesions ameliorated, with the exception of the plaques on the sides of the tongue. Nevertheless, the patient became free of symptoms which, however, reoccurred once tacrolimus was weaned, as a consequence treatment was maintained. In April 2005, the plaques on the left side of the tongue appeared increasingly compact and a biopsy specimen confirmed the suspected diagnosis of an oral squamous cell carcinoma. CONCLUSION: The suspected causal relationship between topical use of tacrolimus and the development of a squamous cell carcinoma prompted us to test the notion that the carcinogenicity of tacrolimus may go beyond mere immune suppression. To this end, tacrolimus has been shown to have an impact on cancer signalling pathways such as the MAPK and the p53 pathway. In the given case, we were able to demonstrate that these pathways had also been altered subsequent to tacrolimus therapy

High-Level Expression of Wild-Type p53 in Melanoma Cells is Frequently Associated with Inactivity in p53 Reporter Gene Assays

Background: Inactivation of the p53 pathway that controls cell cycle progression, apoptosis and senescence, has been proposed to occur in virtually all human tumors and p53 is the protein most frequently mutated in human cancer. However, the mutational status of p53 in melanoma is still controversial; to clarify this notion we analysed the largest series of melanoma samples reported to date. Methodology/Principal Findings: Immunohistochemical analysis of more than 180 melanoma specimens demonstrated that high levels of p53 are expressed in the vast majority of cases. Subsequent sequencing of the p53 exons 5–8, however, revealed only in one case the presence of a mutation. Nevertheless, by means of two different p53 reporter constructs we demonstrate transcriptional inactivity of wild type p53 in 6 out of 10 melanoma cell lines; the 4 other p53 wild type melanoma cell lines exhibit p53 reporter gene activity, which can be blocked by shRNA knock down of p53. Conclusions/Significance: In melanomas expressing high levels of wild type p53 this tumor suppressor is frequently inactivated at transcriptional level