bluuebunny/crossref_metadata_2025_split huggingface dataset:
Imidazoline and imidazolidine nitroxides as controlling agents in nitroxide-mediated pseudoliving radical polymerization
Authors: Edeleva Mariya V. , Marque Sylvain R. A. , Bagryanskaya Elena G. 
Published: December 2017

Controlled, or pseudoliving, radical polymerization provides unique opportunities for the synthesis of structurally diverse polymers with a narrow molecular-weight distribution. These reactions occur under relatively mild conditions with broad tolerance to functional groups in the monomers. The nitroxide-mediated pseudoliving radical polymerization is of particular interest for the synthesis of polymers for biomedical applications. This review briefly describes one of the mechanisms of controlled radical polymerization. The studies dealing with the use of imidazoline and imidazolidine nitroxides as controlling agents for nitroxide-mediated pseudoliving radical polymerization of various monomers are summarized and analyzed. The publications addressing the key steps of the controlled radical polymerization in the presence of imidazoline and imidazolidine nitroxides and new approaches to nitroxide-mediated polymerization based on protonation of both nitroxides and monomers are considered.
The bibliography includes 154 references.
Salicylaldehydes as privileged synthons in multicomponent reactions
Authors: Heravi Majid Momahed , Zadsirjan Vahideh , Mollaiye Malihe , Heydari Masumeh , Koshvandi Afsaneh Taheri Kal 
Published: December 2017

Salicylaldehyde (2-hydroxybenzaldehyde) bearing two different active functional groups, namely, a hydroxy group and an aldehyde group, finds wide application as a key chemical in a variety of industrial processes, especially in the large-scale production of pharmaceuticals. Salicylaldehyde and most of its derivatives are commercially available or readily accessible, and hence are ideal starting materials for multicomponent reactions (MCRs), mostly in pseudo-three and four-component ones, giving rise to a plethora of heterocyclic systems. The importance of salicylaldehyde and an impressive amount of studies concerning its applications in MCRs prompted us to highlight in this review the important role of this compound as a privileged synthon in the synthesis of heterocycles.
The bibliography includes 276 references.
Arbidol: a quarter-century after. Past, present and future of the original Russian antiviral
Authors: Balakin Konstantin V. , Filosa Rosanna , Lavrenov Sergey N. , Mkrtchyan Arthur S. , Nawrozkij Maxim B. , Novakov Ivan A. 
Published: December 2017

The present review is concerned with the synthesis and structure–activity relationship studies of Arbidol and its structural analogues. The latter are roughly divided into several unequal parts: indole- and benzofuran-based compounds, benzimidazole and imidazopyridine bioisosteres and ring-expanded quinoline derivatives. Much attention is focused on various types of antiviral activity of the above-mentioned Arbidol congeners, as well as of the parent compound itself. Features of Arbidol synthesis and metabolic changes are also discussed.
The bibliography includes 166 references.
Histone demethylase LSD1 regulates hematopoietic stem cells homeostasis and protects from death by endotoxic shock
Authors: Wang Jianxun , Saijo Kaoru , Skola Dylan , Jin Chunyu , Ma Qi , Merkurjev Daria , Glass Christopher K. , Rosenfeld Michael G. 
Published: December 2017

Significance
The histone demethylase LSD1, a critical regulator of mammalian hematopoiesis, serves as an important suppressor of endotoxic shock. Inflammation-induced deletion of LSD1 results in failure to generate all mature hematopoietic cells, and induces acute expansion of a pathological population of hyperproliferative and hyperinflammatory myeloid progenitors that cause “cytokine storm” and acute lethality. LSD1 proves to be a downstream target of Toll-like/cytokine receptors in HSCs during endotoxic shock, with its down-regulation caused by a cohort of inflammation-induced microRNAs. The resultant acute expansion of a population of pathological myeloid progenitors in bone marrow causes a septic shock phenotype. Inhibitors of these inflammation-induced microRNAs block the down-regulation of LSD1 and prevent LPS-induced mortality, suggesting a potential therapeutic approach for treatment of septic shock.
APMP comparison on luminous flux units (APMP.PR-K4)
Authors: Liu H , Lin Y D , Yang C Z , Yu J 
Published: December 2017

During the 18th APMP meeting in 2004, TCPR agreed that the luminous flux should be one of the several regional comparisons to be conducted in the field of photometry and radiometry, and the project was named as APMP.PR-K4. Nine laboratories took part in this comparison. A group of LF 200W lamps (no less than three) was used as transfer artifacts by each participant. The National Institute of Metrology (NIM, China) acted as the pilot laboratory. Presented in this report are the detailed procedures and results of the work.

Main text

To reach the main text of this paper, click on Final Report. Note that this text is that which appears in Appendix B of the BIPM key comparison database kcdb.bipm.org/.
The final report has been peer-reviewed and approved for publication by the CCPR, according to the provisions of the CIPM Mutual Recognition Arrangement (CIPM MRA).
Final report of AFRIMETS.M.M-S6: supplementary comparison of 100 mg, 100 g 500 g, 1 kg and 5 kg stainless steel mass standards
Authors: Mautjana R T , Molefe P T , Mayindu N F , Armah M N , Ramasawmy V , Albasini G L , Matali S , Richmond H , Rusimbi V , Kiwanuka J , Mutale D M , Mutsimba F 
Published: December 2017

This report summarizes the results of AFRIMETS.M.M-S6 mass standards comparison conducted between eleven participating laboratories/countries. Two sets of five weights with nominal values 100 mg, 100 g, 500 g, 1 kg and 5 kg were used as the traveling standards. These nominal values were decided from the needs of participating laboratories submitted to the pilot laboratory through a questionnaire and agreed upon by all participants. The traveling standards were hand carried between laboratories starting from February 2014 and were received from the last participants in October 2014. The programme was coordinated by National Metrology Institute of South Africa (NMISA), who provided the travelling standards and reference values for the comparison. The corrections to the BIPM as-maintained mass unit [5] have insignificant influence on the results of this comparison.

Main text

To reach the main text of this paper, click on Final Report. Note that this text is that which appears in Appendix B of the BIPM key comparison database kcdb.bipm.org/.
The final report has been peer-reviewed and approved for publication by the CCM, according to the provisions of the CIPM Mutual Recognition Arrangement (CIPM MRA).
Final report of the SIM.QM-S7 supplementary comparison, trace metals in drinking water
Authors: Yang Lu , Nadeau Kenny , Pihillagawa Indu Gedara , Meija Juris , Grinberg Patricia , Mester Zoltan , Moya Edith Valle , Solís González Faviola Alejandra , Torres María del Rocio Arvizu , Yañez Muñoz Oscar , Lara-Manzano Judith Velina , Mazzitello Gisela , Prina Pedro , Acosta Osvaldo , Napoli Romina , Pérez Zambra Ramiro , Ferreira Elizabeth , Dobrovolskiy Vladimir , Aprelev Aleksei , Stakheev Aleksei , Frolov Dmitriy , Gusev Leonid , Ivanova Veronika , Näykki Teemu , Sara-Aho Timo , Padilla Jimmy Venegas , Acuña Cubillo Carlos , Bremmer Dwyte , Freemantle Ruel , Taebunpakul Sutthinun , Tangpaisarnkul Nongluck , Rodruangthum Patumporn , Kaewkhomdee Nattikarn , Thiengmanee Usana , Tangjit Tararat , Buzoianu Mirella , Forigua Diego Alejandro Ahumada , Gamba Johanna Paola Abella , Medina Luis Alfredo Chavarro , Sobina Egor , Tabatchikova Tatyana , Alexopoulos Charalambos , Kakoulides Elias , Delgado Mabel , Flores Liliana , Knox Saira , Siewlal Kester , Maharaj Avinash 
Published: December 2017

SIM.QM-S7 was performed to assess the analytical capabilities of National Metrology Institutes (NMIs) and Designated Institutes (DIs) of SIM members (or other regions) for the accurate determination of trace metals in drinking water. The study was proposed by the coordinating laboratories National Research Council Canada (NRC) and Centro Nacional de Metrologia (CENAM) as an activity of Inorganic Analysis Working Group (IAWG) of Consultative Committee for Amount of Substance - Metrology in Chemistry and Biology (CCQM). Participants included 16 NMIs/DIs from 15 countries. No measurement method was prescribed by the coordinating laboratories. Therefore, NMIs used measurement methods of their choice. However, the majority of NMIs/DIs used ICP-MS.
This SIM.QM-S7 Supplementary Comparison provides NMIs/DIs with the needed evidence for CMC claims for trace elements in fresh waters and similar matrices.

Main text

To reach the main text of this paper, click on Final Report. Note that this text is that which appears in Appendix B of the BIPM key comparison database kcdb.bipm.org/.
The final report has been peer-reviewed and approved for publication by the CCQM, according to the provisions of the CIPM Mutual Recognition Arrangement (CIPM MRA).
From Page to Stage to Screen: The Live Theatre Broadcast as a New Medium
Authors: Hitchman Lauren 
Published: December 2017

AbstractThe live theatre broadcast has witnessed a phenomenal rise in both popularity and profile over the past decade. This article considers the live theatre broadcast as both a new medium and a form of adaptation. It examines how the medium is ontologically, economically, and culturally positioned between theatre and film, and the extent to which it is, as John Wyver puts it, a ‘hybrid form’. Analyzing the medium in terms of Walter Benjamin’s ‘The Work of Art in the Age of Mechanical Reproduction’, I question how the live theatre broadcast challenges the ‘here’ and the ‘now’ that Benjamin sees as vital to the ‘aura’ of the work of art. I investigate how the live theatre broadcast’s lack of ‘here’ affects audience perception, and how liveness might be seen as a condition of perception rather than of transmission. Exploring Benjamin’s suggestion that film’s celebrization of the actor acts as compensation for the actor’s lack of physical presence, I ask how this concept might inform our understanding of actors in the live theatre broadcast. Finally, the article assesses the extent to which the live theatre broadcast directs the perception of the viewer, and how this direction removes the autonomy of viewing that theatre affords.
Examining Household Food Waste Decisions: A Vignette Approach
Authors: Ellison Brenna , Lusk Jayson L 
Published: December 2017

AbstractAlthough food waste is increasingly recognized as an environmental and food security problem, there remains uncertainty over its primary contributors. Some food waste analyses seem to treat household food waste as a “mistake” or careless decision; however, consumer decisions to waste also likely reflect trade‐offs and economic incentives. These issues were explored in large surveys of U.S. food consumers using both within‐ and between‐subject designs, where we study consumers’ decisions to discard food in different scenarios that vary safety, price, and opportunity costs. We find that food waste is a function of consumers’ demographic characteristics, and that decisions to discard food vary with contextual factors.
The Economic Status of Rural America in the President Trump Era and beyond
Authors: Goetz Stephan J , Partridge Mark D , Stephens Heather M 
Published: December 2017

AbstractTo set the stage for future research aimed at developing public policies that support economic prosperity in rural areas, we review the current economic conditions of rural America and the current literature. Rural America is often characterized as a uniform, distressed place where agriculture dominates. In fact, rural America is diverse, with many regions doing well economically. In some areas, labor‐saving technologies have reduced the workforce in manufacturing and resource‐dependent industries. However, integration with urban areas has weakened the economic divide between urban and some rural areas, while natural amenities have boosted the fortunes of others. There is also evidence that homegrown enterprises can support growth even in the most remote, distressed regions. To support economic growth, policies should recognize the unique features of each place or region and balance the farm sector with the larger nonfarm rural economy. Economists are well‐positioned to provide research‐based evidence of what works, as well as rigorous evaluation of new polices.
Real World Home Blood Pressure Variability in Over 56,000 Individuals With Nearly 17 Million Measurements
Authors: Kim Kwang-il , Nikzad Nima , Quer Giorgio , Wineinger Nathan E , Vegreville Matthieu , Normand Alexis , Schmidt Nicolas , Topol Eric J , Steinhubl Steven 
Published: December 2017

Abstract

BACKGROUND
Using the data from 56,365 individuals, from 185 countries, and a Nokia Health Wireless blood pressure (BP) monitor, we investigated real-world characteristics of BP variability (BPV).

METHODS
All included individuals self-measured and uploaded their BP using Bluetooth at least 20 times over a period of ≥1 month at a frequency and duration of their choosing. In total, 16,904,844 BP measurements were analyzed, with a median of 146 measurements per person (interquartile range [IQR] 73–321) over a median of 14 months (IQR 7–31). SD, coefficient of variation, maximum BP, and maximum minus minimum BP difference were all calculated as measures of BPV.

RESULTS
BPV showed a distinct pattern, influenced by season of year, day of week, and time of day. BPV index was higher in females compared with males (P &lt; 0.001) and increased with age (P &lt; 0.001). Compared to the weekend, the weekday BPV index was significantly higher, and this finding was more prominent in females (P = 0.001). In multivariate analysis, BPV index were significantly associated with age, gender, geographic location, and mean BP values.

CONCLUSION
Using the largest BP data set we are aware of, with the benefits and limitations of real-world measurement, we could show the pattern of BPV and provide reference values that may be helpful in understanding the nature of BPV as self-measurement at home becomes more common, and help guide individualized management.
PINE-SPARKY.2 for automated NMR-based protein structure research
Authors: Lee Woonghee , Markley John L 
Published: December 2017

Abstract

Summary
Nuclear magnetic resonance (NMR) spectroscopy, along with X-ray crystallography and cryoelectron microscopy, is one of the three major tools that enable the determination of atomic-level structural models of biological macromolecules. Of these, NMR has the unique ability to follow important processes in solution, including conformational changes, internal dynamics and protein–ligand interactions. As a means for facilitating the handling and analysis of spectra involved in these types of NMR studies, we have developed PINE-SPARKY.2, a software package that integrates and automates discrete tasks that previously required interaction with separate software packages. The graphical user interface of PINE-SPARKY.2 simplifies chemical shift assignment and verification, automated detection of secondary structural elements, predictions of flexibility and hydrophobic cores, and calculation of three-dimensional structural models.

Availability and implementation
PINE-SPARKY.2 is available in the latest version of NMRFAM-SPARKY from the National Magnetic Resonance Facility at Madison (http://pine.nmrfam.wisc.edu/download_packages.html), the NMRbox Project (https://nmrbox.org) and to subscribers to the SBGrid (https://sbgrid.org). For a detailed description of the program, see http://www.nmrfam.wisc.edu/pine-sparky2.htm.

Supplementary information
Supplementary data are available at Bioinformatics online.
A high-resolution map of the human small non-coding transcriptome
Authors: Fehlmann Tobias , Backes Christina , Alles Julia , Fischer Ulrike , Hart Martin , Kern Fabian , Langseth Hilde , Rounge Trine , Umu Sinan Ugur , Kahraman Mustafa , Laufer Thomas , Haas Jan , Staehler Cord , Ludwig Nicole , Hübenthal Matthias , Meder Benjamin , Franke Andre , Lenhof Hans-Peter , Meese Eckart , Keller Andreas 
Published: December 2017

AbstractMotivationAlthough the amount of small non-coding RNA-sequencing data is continuously increasing, it is still unclear to which extent small RNAs are represented in the human genome.ResultsIn this study we analyzed 303 billion sequencing reads from nearly 25 000 datasets to answer this question. We determined that 0.8% of the human genome are reliably covered by 874 123 regions with an average length of 31 nt. On the basis of these regions, we found that among the known small non-coding RNA classes, microRNAs were the most prevalent. In subsequent steps, we characterized variations of miRNAs and performed a staged validation of 11 877 candidate miRNAs. Of these, many were actually expressed and significantly dysregulated in lung cancer. Selected candidates were finally validated by northern blots. Although isolated miRNAs could still be present in the human genome, our presented set likely contains the largest fraction of human miRNAs.Supplementary informationSupplementary data are available at Bioinformatics online.
Computational identification of binding energy hot spots in protein–RNA complexes using an ensemble approach
Authors: Pan Yuliang , Wang Zixiang , Zhan Weihua , Deng Lei 
Published: December 2017

Abstract

Motivation
Identifying RNA-binding residues, especially energetically favored hot spots, can provide valuable clues for understanding the mechanisms and functional importance of protein–RNA interactions. Yet, limited availability of experimentally recognized energy hot spots in protein–RNA crystal structures leads to the difficulties in developing empirical identification approaches. Computational prediction of RNA-binding hot spot residues is still in its infant stage.

Results
Here, we describe a computational method, PrabHot (Prediction of protein–RNA binding hot spots), that can effectively detect hot spot residues on protein–RNA binding interfaces using an ensemble of conceptually different machine learning classifiers. Residue interaction network features and new solvent exposure characteristics are combined together and selected for classification with the Boruta algorithm. In particular, two new reference datasets (benchmark and independent) have been generated containing 107 hot spots from 47 known protein–RNA complex structures. In 10-fold cross-validation on the training dataset, PrabHot achieves promising performances with an AUC score of 0.86 and a sensitivity of 0.78, which are significantly better than that of the pioneer RNA-binding hot spot prediction method HotSPRing. We also demonstrate the capability of our proposed method on the independent test dataset and gain a competitive advantage as a result.

Availability and implementation
The PrabHot webserver is freely available at http://denglab.org/PrabHot/.

Supplementary information
Supplementary data are available at Bioinformatics online.
DPMIND: degradome-based plant miRNA–target interaction and network database
Authors: Fei Yuhan , Wang Rui , Li Haoyuan , Liu Shu , Zhang Hongsheng , Huang Ji 
Published: December 2017

Abstract

Motivation
MicroRNAs (miRNAs) play essential roles in plant growth, development and stress responses through post-transcriptionally regulating the expression levels of their target mRNAs. Although some tools and databases were developed for predicting the relationships between miRNAs and their targets (miR-Tar), most of them were dependent on computational methods without experimental validations. With the development of degradome sequencing techniques, researchers can identify potential interactions based on degradome sequencing data. The validations with specific degradome data are useful to identify the miR-Tar interactions (MTIs) occurring in/under some specific tissues or treatments. Degradome-based plant miRNA–target interaction and network database (DPMIND) collected almost all available plant degradome data and built a retrieval and analysis platform of miRNA–target interactions and miRNA regulatory networks (MRNs).

Results
DPMIND contains the recently updated 3794 miRNAs and 28 666 verified MTIs with 69 degradomes from 10 plant species. Not only the verified MTIs but also the degradome-based MRNs can be retrieved from DPMIND. Users can search for the verified MTIs and build degradome-based MRNs for the specific miRNAs or targets. DPMIND can build the MRNs based on all degradomes or specific degradomes, which helps to identify all possible connections among specific miR-Tar and compare the miRNA-mediated networks among various tissues or treatments. It can also build the networks mediated by all known miRNAs based on specific degradomes. Furthermore, DPMIND can be used to study the conservation and specificity of MTIs and sub-networks across different plant tissues or species.

Availability and implementation
http://202.195.246.60/DPMIND/.

Supplementary information
Supplementary data are available at Bioinformatics online.
CRNET: an efficient sampling approach to infer functional regulatory networks by integrating large-scale ChIP-seq and time-course RNA-seq data
Authors: Chen Xi , Gu Jinghua , Wang Xiao , Jung Jin-Gyoung , Wang Tian-Li , Hilakivi-Clarke Leena , Clarke Robert , Xuan Jianhua 
Published: December 2017

Abstract

Motivation
NGS techniques have been widely applied in genetic and epigenetic studies. Multiple ChIP-seq and RNA-seq profiles can now be jointly used to infer functional regulatory networks (FRNs). However, existing methods suffer from either oversimplified assumption on transcription factor (TF) regulation or slow convergence of sampling for FRN inference from large-scale ChIP-seq and time-course RNA-seq data.

Results
We developed an efficient Bayesian integration method (CRNET) for FRN inference using a two-stage Gibbs sampler to estimate iteratively hidden TF activities and the posterior probabilities of binding events. A novel statistic measure that jointly considers regulation strength and regression error enables the sampling process of CRNET to converge quickly, thus making CRNET very efficient for large-scale FRN inference. Experiments on synthetic and benchmark data showed a significantly improved performance of CRNET when compared with existing methods. CRNET was applied to breast cancer data to identify FRNs functional at promoter or enhancer regions in breast cancer MCF-7 cells. Transcription factor MYC is predicted as a key functional factor in both promoter and enhancer FRNs. We experimentally validated the regulation effects of MYC on CRNET-predicted target genes using appropriate RNAi approaches in MCF-7 cells.

Availability and implementation
R scripts of CRNET are available at http://www.cbil.ece.vt.edu/software.htm.

Supplementary information
Supplementary data are available at Bioinformatics online.