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| 1 | FAIR Principles:Interpretations and Implementation Considerations显示文摘The FAIR principles have been widely cited,endorsed and adopted by a broad range of stakeholders since their publication in 2016.By intention,the 15 FAIR guiding principles do not dictate specific technological implementations,but provide guidance for improving Findability,Accessibility,Interoperability and Reusability of digital resources.This has likely contributed to the broad adoption of the FAIR principles,because individual stakeholder communities can implement their own FAIR solutions.However,it has also resulted in inconsistent interpretations that carry the risk of leading to incompatible implementations.Thus,while the FAIR principles are formulated on a high level and may be interpreted and implemented in different ways,for true interoperability we need to support convergence in implementation choices that are widely accessible and(re)-usable.We introduce the concept of FAIR implementation considerations to assist accelerated global participation and convergence towards accessible,robust,widespread and consistent FAIR implementations.Any self-identified stakeholder community may either choose to reuse solutions from existing implementations,or when they spot a gap,accept the challenge to create the needed solution,which,ideally,can be used again by other communities in the future.Here,we provide interpretations and implementation considerations(choices and challenges)for each FAIR principle. | Annika Jacobsen Ricardo de Miranda Azevedo Nick Juty Dominique Batista Simon Coles Ronald Cornet Melanie Courtot Merce Crosas Michel Dumontier Chris T.Evelo Carole Goble Giancarlo Guizzardi Karsten Kryger Hansen Ali Hasnain Kristina Hettne Jaap Heringa Rob W.W.Hooft Melanie Imming Keith G.Jeffery Rajaram Kaliyaperumal Martijn GKersloot Christine R.Kirkpatrick Tobias Kuhn Ignasi Labastida Barbara Magagna PeterMcQuilton Natalie Meyers Annalisa Montesanti Mirjam van Reisen Philippe Rocca-Serra Robert Pergl Susanna-Assunta Sansone Luiz Olavo Bonino da Silva Santos Juliane Schneider George Strawn Mark Thompson Andra Waagmeester Tobias Weigel Mark D.Wilkinson Egon L.Willighagen Peter Wittenburg Marco Roos Barend Mons Erik Schultes | 2020 | Data Intelligence2020，2，1： | 26 |
| 2 | Evidence of endometrial amino acid metabolism and transport modulation by peri-ovulatory endocrine profiles driving uterine receptivity显示文摘Background: In beef cattle, changes in the periovulatory endocrine milieu are associated with fertility and conceptus growth. A large preovulatory follicle(POF) and the resulting elevated concentrations of progesterone(P4) during diestrus positively affect pregnancy rates. Amino acids(AA) are important components of maternally derived secretions that are crucial for embryonic survival before implantation. The hypothesis is that the size of the POF and the concentration of P4 in early diestrus modulate the endometrial abundance of SLC transcripts related to AA transport and metabolism and subsequently impact luminal concentrations of AA. The follicle growth of Nelore cows was manipulated to produce two experimental groups: large POF and CL(LF-LCL group) and small POF and CL(SF-SCL group). On Day 4(D4; Experiment 1) and Day 7(D7; Experiment 2) after Gn RH-induced ovulation(Gn RH treatment = D0), the animals were slaughtered and uterine tissues and uterine washings were collected. q RT-PCR was used to evaluate the expression levels of AA transporters in D4 and D7 endometrial tissues.The concentrations of AA were quantified in D4 and D7 uterine washings by HPLC.Results: Transcript results show that, on D4, SLC6 A6, SLC7 A4, SLC17 A5, SLC38 A1, SLC38 A7 and SCLY and on D7 SLC1 A4, SLC6 A1, SLC6 A14, SLC7 A4, SLC7 A7, SLC7 A8, SLC17 A5, SLC38 A1, SLC38 A7, SLC43 A2 and DDO were more abundant in the endometria of cows from the LF-LCL group(P < 0.05). In addition, concentrations of AA in the uterine lumen were influenced by the endocrine profiles of the mother. In this context, D4 uterine washings revealed that greater concentrations of taurine, alanine and α-aminobutyric acid were present in SF-SCL(P < 0.05).In contrast, lower concentrations of valine and cystathionine were quantified on D7 uterine washings from SF-SCL cows(P < 0.05).Conclusion: The present study revealed an association between the abundance of transcripts related to AA transport and metabolism in the endometrium and specific periovulatory endocrine profiles related to the receptive status of the mother. Such insights suggest that AAs are involved in uterine function to support embryo development. | Moana Rodrigues Franca Maressa Izabel Santos da Silva Guilherme Pugliesi Veerle Van Hoeck Mario Binelli | 2017 | Journal of Animal Science and Biotechnology2017，8，4： | 4 |
| 3 | The Need of Industry to Go FAIR显示文摘The industry sector is a very large producer and consumer of data,and many companies traditionally focused on production or manufacturing are now relying on the analysis of large amounts of data to develop new products and services.As many of the data sources needed are distributed and outside the company,FAIR data will have a major impact,both by reducing the existing internal data silos and by enabling the efficient integration with external(public and commercial)data.Many companies are still in the early phases of internal data”FAIRification”,providing opportunities for SMEs and academics to apply and develop their expertise on FAIR data in collaborations and public-private partnerships.For a global Internet of FAIR Data&Services to thrive,also involving industry,professional tools and services are essential.FAIR metrics and certifications on individuals,data,organizations,and software,must ensure that data producers and consumers have independent quality metrics on their data.In this opinion article we reflect on some industry specific challenges of FAIR implementation to be dealt with when choices are made regarding”Industry GOing FAIR”. | Herman van Vlijmen Albert Mons Arne Waalkens Wouter Franke Arie Baak Gerbrand Ruiter Christine Kirkpatrick Luiz Olavo Bonino da Silva Santos Bert Meerman Renger Jellema Derk Arts Martijn Kersloot Sebastiaan Knijnenburg Scott Lusher Rudi Verbeeck Jean-Marc Neefs | 2020 | Data Intelligence2020，2，1： | 4 |
| 4 | Toxoplasmosis among pregnant women:High seroprevalence and risk factors in Kinshasa,Democratic Republic of Congo显示文摘Objective:To determine the seroprevalence of toxoplasmosis in pregnant women,as well as the proportion of acutely infected and risk factors in the Democratic Republic of Congo.Methods:Thirty maternities in Kinshasa were randomly selected and women attending antenatal consultation were invited to participate.They were interviewed with a structured questionnaire about known risk factors(age,meat consumption,contact with soil,and presence of cat)and a venous blood sample was taken.Sera were analysed for total immunoglobulins(Ig)by VIDAS Toxo Competition using Enzyme Linked Fluorescent Assay.IgM was determined by VIDIA Toxo IgM and IgG avidity by VIDAS Toxo IgG avidity.Results:A total of 781 women were included.Median age was 28 years old(IQR:8.S).And 627women(80.3%;95%CI:77.5-83.1)were found to be positive to total Ig and 17 out of 387(4.4%;95%CI:2.3-6.4)were positive to IgM.IgC avidity was low for 2(11.8%)women,intermediate for 2(11.8%)and high for 13 women(76.4%).There was no statistically significant association between Toxoplasma gondii infection and any risk factors assessed.Conclusion:In Kinshasa,toxoplasmosis endemicity is highly prevalent.One woman out of twenty five had a recent toxoplasmosis infection and 20%were not protected against primoinfection,indicating a need for measures to prevent and control toxoplasmosis during pregnancy. | Doudou Yobi Renaud Piarroux Coralie L'Ollivier Jacqueline Franck Hypolite Situakibanza Hypolite Muhindo Patrick Mitashi Raquel Andreia Inocencio da Luz Marc Van Sprundel Marleen Boelaert Jean-Pierre Van Geertruyden Pascal Lutumba | 2014 | Asian Pacific Journal of Tropical Biomedicine2014，4，1： | 2 |
| 5 | A critical review of biochar-based nitrogen fertilizers and their effects on crop production and the environment显示文摘Globally,nitrogen(N)fertilizer demand is expected to reach 112 million tonnes to support food production for about 8 billion people.However,more than half of the N fertilizer is lost to the environment with impacts on air,water and soil quality,and biodiversity.Importantly,N loss to the environment contributes to greenhouse gas emissions and climate change.Nevertheless,where N fertilizer application is limited,severe depletion of soil fertility has become a major constraint to sustainable agriculture.To address the issues of low fertilizer N use efficiency(NUE),biochar-based N fertilizers(BBNFs)have been developed to reduce off-site loss and maximize crop N uptake.These products are generally made through physical mixing of biochar and N fertilizer or via coating chemical N fertilizers such as prilled urea with biochar.This review aims to describe the manufacturing processes of BBNFs,and to critically assess the effects of the products on soil properties,crop yield and N loss pathways. | Yurong Gao Zheng Fang Lukas Van Zwieten Nanthi Bolan Da Dong Bert F.Quin Jun Meng Fangbai Li Fengchang Wu Hailong Wang Wenfu Chen | 2022 | Biochar2022，4，1： | 2 |
| 6 | RosBREED:bridging the chasm between discovery and application to enable DNA-informed breeding in rosaceous crops显示文摘The Rosaceae crop family(including almond,apple,apricot,blackberry,peach,pear,plum,raspberry,rose,strawberry,sweet cherry,and sour cherry)provides vital contributions to human well-being and is economically significant across the U.S.In 2003,industry stakeholder initiatives prioritized the utilization of genomics,genetics,and breeding to develop new cultivars exhibiting both disease resistance and superior horticultural quality.However,rosaceous crop breeders lacked certain knowledge and tools to fully implement DNA-informed breeding—a“chasm”existed between existing genomics and genetic information and the application of this knowledge in breeding.The RosBREED project(“Ros”signifying a Rosaceae genomics,genetics,and breeding community initiative,and“BREED”,indicating the core focus on breeding programs),addressed this challenge through a comprehensive and coordinated 10-year effort funded by the USDA-NIFA Specialty Crop Research Initiative.RosBREED was designed to enable the routine application of modern genomics and genetics technologies in U.S.rosaceous crop breeding programs,thereby enhancing their efficiency and effectiveness in delivering cultivars with producer-required disease resistances and market-essential horticultural quality.This review presents a synopsis of the approach,deliverables,and impacts of RosBREED,highlighting synergistic global collaborations and future needs.Enabling technologies and tools developed are described,including genome-wide scanning platforms and DNA diagnostic tests.Examples of DNA-informed breeding use by project participants are presented for all breeding stages,including pre-breeding for disease resistance,parental and seedling selection,and elite selection advancement.The chasm is now bridged,accelerating rosaceous crop genetic improvement. | Amy F.Iezzoni Jim McFerson James Luby Ksenija Gasic Vance Whitaker Nahla Bassil Chengyan Yue Karina Gallardo Vicki McCracken Michael Coe Craig Hardner Jason D.Zurn Stan Hokanson Eric van de Weg Sook Jung Dorrie Main Cassia da Silva Linge Stijn Vanderzande Thomas M.Davis Lise L.Mahoney Chad Finn Cameron Peace | 2020 | Horticulture Research2020，7，1： | 2 |
| 7 | Staged multidisciplinary step‐up management for necrotizing pancreatitis显示文摘 | D. W. da Costa D. Boerma H. C. van Santvoort K. D. Horvath J. Werner C. R. Carter T. L. Bollen H. G. Gooszen M. G. Besselink O. J. Bakker | 2014 | Br J Surg2014，，1： | 2 |
| 8 | Distributed Analytics on Sensitive Medical Data:The Personal Health Train显示文摘In recent years,as newer technologies have evolved around the healthcare ecosystem,more and more data have been generated.Advanced analytics could power the data collected from numerous sources,both from healthcare institutions,or generated by individuals themselves via apps and devices,and lead to innovations in treatment and diagnosis of diseases;improve the care given to the patient;and empower citizens to participate in the decision-making process regarding their own health and well-being.However,the sensitive nature of the health data prohibits healthcare organizations from sharing the data.The Personal Health Train(PHT)is a novel approach,aiming to establish a distributed data analytics infrastructure enabling the(re)use of distributed healthcare data,while data owners stay in control of their own data.The main principle of the PHT is that data remain in their original location,and analytical tasks visit data sources and execute the tasks.The PHT provides a distributed,flexible approach to use data in a network of participants,incorporating the FAIR principles.It facilitates the responsible use of sensitive and/or personal data by adopting international principles and regulations.This paper presents the concepts and main components of the PHT and demonstrates how it complies with FAIR principles. | Oya Beyan Ananya Choudhury Johan van Soest Oliver Kohlbacher Lukas Zimmermann Holger Stenzhorn Md.Rezaul Karim Michel Dumontier Stefan Decker Luiz Olavo Bonino da Silva Santos Andre Dekker | 2020 | Data Intelligence2020，2，1： | 1 |
| 9 | A prospective randomized EORTC intergroup phase 3 study comparing the complications of elective nephron-sparing surgery and radical nephrectomy for low-stage renal cell carcinoma 显示文摘 | Van Poppel H Da Pozzo L Albrecht W | 2007 | Eur Urol2007，51，6： | 1 |
| 10 | Genetic polymorphisms of the CYP3A4,CYP3A5,and MDR21 genes and pharmacokinetics of the calcineurin inhibitors cyclosporine and tacrolimus显示文摘 | Hesselink DA van Schaik RH van der Heiden IP | 2003 | Clin Pharmacol Ther2003，74，3： | 1 |
| 11 | Cytokines in vitreous humor:interleukin-6 is elevated in proliferative vitreoretinopathy显示文摘 | Kauffmann DJ van Meurs JC Mertens DA | 1994 | Invest Ophthalmol Vis Sci1994，35，3： | 1 |
| 12 | Defective E-cadherin/ eatenincomplexes inhunmancancer 显示文摘 | van Aken E de Wever O da Roeha AS | 2001 | Virchows Arch2001，439，： | 1 |
| 13 | Anorectal physiology and testing显示文摘 | Van Koughnett JA da Silva G | 2013 | Gastroenterol Clin North Am2013，42，4： | 1 |
| 14 | Prognostic index for adult patients with acute myeloid leukemia in first relapse显示文摘 | Breems DA Van Putten WL Huijgens PC | | 0，，： | 1 |
| 15 | Bone marrow stromal cells as targets for gene therapy显示文摘 | Van DA Vanden DT Collen D | 2002 | Curr Gene Ther2002，2，： | 1 |
| 16 | LSelectin is required for the development of airway hyperresponsiveness but not airway inflammation in a murine model of asthma显示文摘 | Fiscus LC Van Herpen J Steeber DA Tedder TF Tang ML | 2001 | J Allergy Clin Immunol2001，107，6： | 1 |
| 17 | Concerns about the implantable cardioverter defibrillator: a determinant of anxiety and depressive symptoms independent of experienced shocks 显示文摘 | Pedersen SS van Domburg RT Theuns DA | 2005 | Am Heart J2005，149，4： | 1 |
| 18 | When neurogenesis encounters aging and disease 显示文摘 | Lazarov O Mattson MP Peterson DA Pimplikar SW van Praag H | 2010 | Trends Neurosci2010，33，： | 1 |
| 19 | A pro- spective randomized EORTC inter-group phase 3 study comparing the complications of elective nephron-sparing surgery and radical nephrectomy for low-stage renal cell carcinoma显示文摘 | Van Poppel H Da Pozzo L Albrecht W | 2007 | Eur Urol2007，51，16： | 1 |
| 20 | Iatrogenic ureteral lesions and repair: A review forgynecologists 显示文摘 | DE CICCO C RET DA VALOS M L VAN CLEYNENBREUGEL B | 2007 | J Minim Invasive Gynecol2007，14，4： | 1 |
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