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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 | Carbon Turnover in a Crop Rotation Under Free Air CO_2 Enrichment (FACE)显示文摘. Mostly based on assumptions derived from controlled-environment studies, predicted future atmospheric CO2 concen- trations [CO2] are expected to have considerable impacts on carbon (C) turnover in agro-ecosystems. In order to allow the in situ examination of C-transformations in the plant-soil system of arable crop rotations under future [CO2], a free air carbon dioxide enrichment (FACE) experiment (550 μmol mol-1 CO2) was started at Braunschweig, Germany in 1999. The crop rotation under investigation comprised winter barley, a cover crop (ryegrass), sugar beets and winter wheat. Assessments of CO2 effects included the determination of above- and belowground biomass production, measurements of canopy CO2- and H2O- fluxes, soil microbial biomass and in situ soil respiration. The results obtained during the 1st crop rotation cycle (3 years) showed that for the selected crops elevated [CO2] entailed significant positive effects (P < 0.05) on aboveground (6%-14% stimulation) and belowground biomass production (up to 90% stimulation), while canopy evapotranspiration was reduced. This resulted in increased soil water content. Also, depending on crop type and season, high CO2 stimulated in situ soil respiration (up to 30%), while soil microbial biomass did not show significant responses to elevated [CO2] during the first rotation cycle. | H. J. WEIGEL A. PACHOLSKI S. BURKART M. HELAL O. HEINEMEYER B. KLEIKAMP R. MANDERSCHEID C. FRüHAUF G. F. HENDREY K. LEWIN J. NAGY | 2005 | Pedosphere2005，15，6： | 12 |
| 3 | Paradoxical roles of TGF-β signaling in suppressing and promoting squamous cell carcinoma显示文摘也发信号的转变生长因素(TGF-) 包括有鳞的细胞癌(SCC ) 支持或禁止肿瘤形成或许多癌症类型的前进。发信号的正规 TGF- 被很多下游的蛋白质包括 Smad 家庭蛋白质调停。在发信号的 TGF- 或 Smad 的改变能影响癌症。例如,在 TGF- 的缺点打字我和类型 II 受体(TGF-RI 和 TGF-RII ) 并且在 Smad2/3/4 能支持肿瘤开发。相反地,增加了 TGF-1 和激活的 TGF-RI 和 Smad3 都被显示了在人和老鼠 SCC 的试验性的系统有支持肿瘤的效果。在 TGF-/Smad 发信号之中,仅仅在老鼠上皮的 TGF-RII 或 Smad4 删除在老鼠模型引起自发的 SCC,加亮在肿瘤抑制的 TGF-RII 和 Smad4 的关键角色。此处,我们考察在 SCC 表明小径和相关机制的 TGF-/Smad 的双角色,加亮 TGF-/Smad-targeted 治疗的潜在的好处和挑战。 | Fanglong Wu Kelsey J. Weigel Hongmei Zhou Xiao-Jing Wang | 2018 | Acta Biochimica et Biophysica Sinica2018，50，1： | 10 |
| 4 | Mutants, Overexpressors, and Interactors of Arabidopsis Plastocyanin Isoforms: Revised Roles of Plastocyanin in Photosynthetic Electron Flow and Thylakoid Redox State显示文摘二相应 plastocyanin isoforms 被基因 PETE1 和 PETE2 编码为 Arabidopsis thaliana 的原子染色体。PETE2 抄本被表示在更加高水平和 PETE2 蛋白质是更丰富的 isoform。在 PETE 基因的空变化导致了植物,指明的 pete1 和 pete2,与减少的 plastocyanin 内容。尽管有在超过 90% 减少 plastocyanin 层次,而 pete1 大美人种,然而,它的自己上的一个 pete2 0 变化仅仅稍微影响光合作用和生长的率,与大约 6080% 野类型的 plastocyanin 水平,没显示出任何改变。因此, plastocyanin 集中不在最佳的生长条件下面为光合的电子流动正在限制,也许为蛋白质暗示另外的可能的生理的角色。确实, plastocyanin 以前被建议了在 thylakoid 氧化还原作用反应与细胞色素 c6A (Cyt c6A ) 合作,但是我们不为在二蛋白质之间的一个物理相互作用发现证据,用在酵母的相互作用试金。我们在酵母相互作用试金观察了 Cyt c6A 的 homodimerization,而且 Cyt c6A homodimers 没能与 plastocyanin 交往。而且, atc6-1 pete1 的 phenotypic 分析和 atc6-1 pete2 加倍异种,每缺乏的 Cyt c6A 并且二编码 plastocyanin 基因之一,没能揭示任何基因相互作用。在 pete1 pete2 的 PETE1 或 PETE2 的 Overexpression 在实质上野类型的光合的性能的两倍猛烈变异的背景结果,排除二 plastocyanin isoforms 能在 thylakoid 有不同函数的可能性电子流动。 | Paolo Pesaresi Michael Scharfenberg Martin Weigel Irene Granlund Wolfgang R Schroder Giovanni Finazzi Fabrice Rappaport Simona Masiero Antonella Furini Peter Jahns Dario Leister | 2009 | Molecular Plant2009，2，2： | 7 |
| 5 | HASTY modulates miRNA biogenesis by linking pri-miRNA transcription and processing显示文摘Post-transcriptional gene silencing mediated by microRNAs(miRNAs)modulates numerous developmental and stress response pathways.For the last two decades,HASTY(HST),the ortholog of human EXPORTIN 5,was considered to be a candidate protein that exports plant miRNAs from the nucleus to the cytoplasm.Here,we report that HST functions in the miRNA pathway independent of its cargo-exporting activity in Arabidopsis.We found that Arabidopsis mutants with impaired HST shuttling exhibit normal subcellular distribution of miRNAs.Interestingly,protein-protein interaction and microscopy assays showed that HST directly interacts with the microprocessor core component DCL1 through its N-terminal domain.Moreover,mass spectrometry analysis revealed that HST also interacts independently of its N-terminal domain with the mediator complex subunit MED37.Further experiments revealed that HST could act as a scaffold to facilitate the recruitment of DCL1 to genomic MIRNA loci by stabilizing the DCL1-MED37 complex,which in turn promotes the transcription and proper processing of primary miRNA transcripts(primiRNAs).Taken together,these results suggest that HST is likely associated with the formation of the miRNA biogenesis complex at MIRNA genes,promoting the transcription and processing of primiRNAs rather than the direct export of processed miRNAs from the nucleus. | Damian A.Cambiagno Axel J.Giudicatti Agustin L.Arce Delfina Gagliardi Lei Li Wei Yuan Derek S.Lundberg Detlef Weigel Pablo A.Manavella | 2021 | Molecular Plant2021，14，3： | 5 |
| 6 | 从附睾到卵子:CRISP蛋白在哺乳动物受精过程中的作用显示文摘哺乳动物的受精过程涉及精卵结合的很多步骤,是一个非常复杂的过程,其分了机制亟待阐明。此篇综述主要论述了CRISP(富含半胱氨酸的分泌蛋白)作为模型分子在哺乳动物受精过程中的价值。大量的体外实验和基因敲出模型研究显示,附睾内的CRISP1以两种不同的亲和力结合于精子表面,参与精子获能、精子-透明带结合、精卵融合的调控。这些研究成果可以延伸至人类。我们住研究中发现,人类具有与啮齿类同源的CRISP(hCRISP1),同样参与受精过样。CRISP家族的其他成员(睾丸内CRISP2、附挈内CRISP3—4、射精时的CRISP3)也参与了精卵结合的过程,提示同源分子间的相互协同有助于受精的成功。另外,我们的研究显示,CRISP蛋白伴随精子穿越男性及女性生殖管道的全过程。我们推测CRISP不仅参与了受精过程,而且可能成为不育和避孕研究的新靶点。 | Vanina G Da Ros Mariana Weigel Munoz Maria A Battistone Nicolas G Brukman Guillermo Carvajal Ludmila Curci Matlas D Gomez-Elias Debora J Cohen Patricia S Cuasnicu | 2015 | Asian Journal of Andrology2015，17，5： | 5 |
| 7 | Dissection of miRNA Pathways Using Arabidopsis Mesophyll Protoplasts显示文摘主要, post-transcriptionally,由指导,抄本劈开或互补 mRNA 的翻译压抑指向的 MicroRNAs (miRNAs ) 控制基因表示,从而调整的发展进程和压力回答。尽管有这块地的显著扩大,位于 miRNA 活动下面的机制充分没被理解。在这篇文章,我们在 Arabidopsis 叶肉原物描述一个短暂表达式系统,它为 miRNA 小径的解剖是高度顺从的。我们显示出那由短暂地主要 miRNAs 和目标模仿的 overexpressing,我们能操作 miRNA 层次并且因而影响他们的目标。而且,我们为确定开发了一套基于酶的传感器 miRNA 活动对明确地作出回应内长并且 overexpressed miRNAs 和目标模仿。我们证明这些 miRNA 传感器能被用来在特定的变化的 miRNA 活动,以及影响测试 miRNA 小径的通常认为的部件的影响,由 overexpression 或从相应异种的原物的使用。我们进一步证明我们的 miRNA 传感器能被用于在 miRNA 活动调查化学药品的效果。我们的基于房间的短暂表示系统快、容易建立,并且产生量的结果,是为 assaying miRNA 活动在的一个强大的工具 ? vivo。 | Claudia Martinho Ana Confraria Carlos Alexandre Elias Pierre Crozet Ignacio Rubio-Somoza Detlef Weigel Elena Baena-Gonzalez | 2015 | Molecular Plant2015，8，2： | 3 |
| 8 | Making Data and Workflows Findable for Machines显示文摘Research data currently face a huge increase of data objects with an increasing variety of types(data types,formats)and variety of workflows by which objects need to be managed across their lifecycle by data infrastructures.Researchers desire to shorten the workflows from data generation to analysis and publication,and the full workflow needs to become transparent to multiple stakeholders,including research administrators and funders.This poses challenges for research infrastructures and user-oriented data services in terms of not only making data and workflows findable,accessible,interoperable and reusable,but also doing so in a way that leverages machine support for better efficiency.One primary need to be addressed is that of findability,and achieving better findability has benefits for other aspects of data and workflow management.In this article,we describe how machine capabilities can be extended to make workflows more findable,in particular by leveraging the Digital Object Architecture,common object operations and machine learning techniques. | Tobias Weigel Ulrich Schwardmann Jens Klump Sofiane Bendoukha Robert Quick | 2020 | Data Intelligence2020，2，1： | 3 |
| 9 | Requirement of Homeobox Gene STIMPY / WOX9 for Arabidopsis Meristem Growth and Maintenance显示文摘 | Xuelin Wu Tsegaye Dabi Detlef Weigel | 2005 | Current Biology2005，，5： | 2 |
| 10 | Understanding the physiological functions of the host xenobiotic-sensing nuclear receptors PXR and CAR on the gut microbiome using genetically modified mice显示文摘Pharmacological activation of the xenobiotic-sensing nuclear receptors pregnane X receptor(PXR) and constitutive androstane receptor(CAR) is well-known to increase drug metabolism and reduce inflammation. Little is known regarding their physiological functions on the gut microbiome. In this study, we discovered bivalent hormetic functions of PXR/CAR modulating the richness of the gut microbiome using genetically engineered mice. The absence of PXR or CAR increased microbial richness, and absence of both receptors synergistically increased microbial richness. PXR and CAR deficiency increased the pro-inflammatory bacteria Helicobacteraceae and Helicobacter. Deficiency in both PXR and CAR increased the relative abundance of Lactobacillus, which has bile salt hydrolase activity, corresponding to decreased primary taurine-conjugated bile acids(BAs) in feces, which may lead to higher internal burden of taurine and unconjugated BAs, both of which are linked to inflammation, oxidative stress, and cytotoxicity. The basal effect of PXR/CAR on the gut microbiome was distinct from pharmacological and toxicological activation of these receptors. Common PXR/CAR-targeted bacteria were identified, the majority of which were suppressed by these receptors. h PXR-TG mice had a distinct microbial profile as compared to wild-type mice. This study is the first to unveil the basal functions of PXR and CAR on the gut microbiome. | Mallory Little Moumita Dutta Hao Li Adam Matson Xiaojian Shi Gabby Mascarinas Bruk Molla Kris Weigel Haiwei Gu Sridhar Mani Julia Yue Cui | 2022 | Acta Pharmaceutica Sinica B2022，12，2： | 2 |
| 11 | The ABCs of floral homeotic genes显示文摘 | WEIGEL D MEYEROWITZ E M | 1994 | Cell1994，78，： | 1 |
| 12 | Inhibition of photosynthetic reactions of isolated intact chloroplasts by cadmium显示文摘 | Weigel H J | 1985 | Plant Physiol1985，119，： | 1 |
| 13 | Three prochlorococcus cyanophage genomes:signature features and ecological interpretations显示文摘 | Sullivan M B Coleman M Weigele P | 2005 | PLoS Biology2005，3，5： | 1 |
| 14 | Results of a produc er survey regarding crossbreeding on US dairy farms 显示文摘 | WEIGEL K A BARLASS K A | 2003 | J Dairy Sci2003，86，： | 1 |
| 15 | 1alpha, 25-dihydroxyvitamin D3 induced growth inhibition of PC-3 prostate cancer cells requires an active transforming growth factor beta signaling pathway 显示文摘 | Murthy S Weigel NL | 2004 | Prostate2004，59，3： | 1 |
| 16 | Differences in the effects of HMG-CoA reductase inhibitors on proliferation and viability of smooth muscle cells in culture显示文摘 | Sindermann JR Fan L Weigel KA | 2000 | Atherosclerosis2000，150，2： | 1 |
| 17 | Diffusion tensor imaging and white matter tractography in patients with brainstem lesions 显示文摘 | Chert X Weigel D Ganslandt O | 2007 | Acta Neurochir (Wien)2007，149，11： | 1 |
| 18 | Simultaneous solid-phase extraction of acidic,neutral and basic pharmaceuticals fromaqueous samples at ambient ( neutral) pH and their determinationby gas chromatography-mass spectrometry 显示文摘 | Weigel S Kallenbom R Hdhnerfuss H | 2004 | Journal ofChromatography A2004，1023，2： | 1 |
| 19 | Independent regulation of flowering by phytochrome B and gibberellins in Arabidopsis显示文摘 | Blazquez M A Weigel D | 1999 | Plant Physiol1999，120，： | 1 |
| 20 | Whole-body diffusion-weighted imaging with a continuously moving table acquisition method: preliminary results显示文摘 | Han Y Weigel M Huff S | 2011 | Magn Reson Med2011，65，： | 1 |
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