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| 1 | Three-dimensional bioprinted glioblastoma microenvironments model cellular dependencies and immune interactions显示文摘Brain tumors are dynamic complex ecosystems with multiple cell types.To model the brain tumor microenvironment in a reproducible and scalable system,we developed a rapid three-dimensional(3D)bioprinting method to construct clinically relevant biomimetic tissue models.In recurrent glioblastoma,macrophages/microglia prominently contribute to the tumor mass.To parse the function of macrophages in 3D,we compared the growth of glioblastoma stem cells(GSCs)alone or with astrocytes and neural precursor cells in a hyaluronic acid-rich hydrogel,with or without macrophage.Bioprinted constructs integrating macrophage recapitulate patient-derived transcriptional profiles predictive of patient survival,maintenance of stemness,invasion,and drug resistance.Whole-genome CRISPR screening with bioprinted complex systems identified unique molecular dependencies in GSCs,relative to sphere culture.Multicellular bioprinted models serve as a scalable and physiologic platform to interrogate drug sensitivity,cellular crosstalk,invasion,context-specific functional dependencies,as well as immunologic interactions in a species-matched neural environment. | Min Tang Qi Xie Ryan C.Gimple Zheng Zhong Trevor Tam Jing Tian Reilly L.Kidwell Qiulian Wu Briana C.Prager Zhixin Qiu Aaron Yu Zhe Zhu Pinar Mesci Hui Jing Jacob Schimelman Pengrui Wang Derrick Lee Michael H.Lorenzini Deobrat Dixit Linjie Zhao Shruti B.hargava Tyler E.Miller Xueyi Wan Jing Tang Bingjie Sun Benjamin F.Cravatt Alysson R.Muotri Shaochen Chen Jeremy N.Rich | 2020 | Cell Research2020，30，10： | 6 |
| 2 | An Epigenetic Role for Disrupted Paternal Gene Expression in Postzygotic Seed Abortion in Arabidopsis Interspecific Hybrids显示文摘种间的混血儿经常增加杂合现象和混合活力的层次,而是一些种间的混合种子立即在授精以后被放弃。在这 postzygotic 种子流产后面的机制糟糕被理解。这里,我们在在在 Arabidopsis thaliana (关口, Ler,或 C24 ) 和 Arabidopsis arenosa 之间的三个 F1 种间的十字开发 siliques 和种子报导突变而产生之遗传的表示变化的染色体宽的分析。似母亲的多数表示了基因(MEG ) 而 272 父亲一般地表示的基因(木钉) 的 ∼90% 仅仅在一或二个 F1 十字被发现,在所有三个 F1 种间的十字之中被分享,在在不同十字变化的种子流产为破坏父亲的基因表示建议一个角色。与这个观点一致,在不肥沃的种间的混血儿的 12 个木钉在肥沃的 intraspecific 混血儿匹配 MEG。在种间的混血儿的木钉的这混乱与在在一位双母亲和一位 hexaploid 父亲之间的父亲过量的 interploidy 十字(2X6 ) 的基因的 upregulation 一致,导致种子流产。而且,在种间的十字的木钉的一个子集也是在 intraspecific 混血儿 met1XWT 或 meaXWT 的 upregulated,在哪个 MET1 (DNA METHYLTRANSFERASE1 ) 的异种或美狄亚, Polycomb 压抑的 Complex2gene,被用作母亲的父母。这些数据建议母亲的 epigenetic 因素和父亲的基因表示在种间的混血儿或 neo-allopolyploids 在 postzygotic 种子流产起重要作用。 | Ryan C. Kirkbride Helen Hong Yu Gyoungju Nah Changqing Zhang Xiaoli Shi Z. Jeffrey Chen | 2015 | Molecular Plant2015，8，12： | 5 |
| 3 | Synchrotron micro-scale measurement of metal distributions in Phragmites australis and Typha latifolia root tissue from an urban brownfield site显示文摘Liberty State Park in New Jersey,USA,is a 'brownfield' site containing various levels of contaminants.To investigate metal uptake and distributions in plants on the brownfield site,Phragmites australis and Typha latifolia were collected in Liberty State Park during the growing season(May–September)in 2011 at two sites with the high and low metal loads,respectively.The objective of this study was to understand the metal(Fe,Mn,Cu,Pb and Zn)concentration and spatial distributions in P.australis and T.latifolia root systems with micro-meter scale resolution using synchrotron X-ray microfluorescence(μXRF)and synchrotron X-ray computed microtomography(μCMT)techniques.The root structure measurement by synchrotron μCMT showed that high X-ray attenuation substance appeared in the epidermis.Synchrotron μXRF measurement showed that metal concentrations and distributions in the root cross-section between epidermis and vascular tissue were statistically different.Significant correlations were found between metals(Cu,Mn,Pb and Zn)and Fe in the epidermis,implying that metals were scavenged by Fe oxides.The results from this study suggest that the expression of metal transport and accumulation within the root systems may be element specific.The information derived from this study can improve our current knowledge of the wetland plant ecological function in brownfield remediation. | Huan Feng Yu Qian Frank J.Gallagher Weiguo Zhang Lizhong Yu Changjun Liu Keith W.Jones Ryan Tappero | 2016 | Journal of Environmental Sciences2016，28，3： | 3 |
| 4 | Autonomic responses to blast overpressure can be elicited by exclusively exposing the ear in rats显示文摘Blast overpressure has become an increasing cause of brain injuries in both military and civilian populations. Though blast's direct effects on the cochlea and vestibular organs are active areas of study, little attention has been given to the ear's contribution to the overall spectrum of blast injury. Acute autonomic responses to blast exposure, including bradycardia and hypotension, can cause hypoxia and contribute to blast-induced neurotrauma. Existing literature suggests that these autonomic responses are elicited through blast impacting the thorax and lungs. We hypothesize that the unprotected ear also provides a vulnerable locus for blast to cause autonomic responses. We designed a blast generator that delivers controlled overpressure waves into the ear canal without impacting surrounding tissues in order to study the ear's specific contribution to blast injury. Anesthetized adult rats' left ears were exposed to a single blast wave ranging from 0 to 110 PSI(0-758 kPa). Blast exposed rats exhibited decreased heart rates and blood pressures with increased blast intensity, similar to results gathered using shock tubes and whole-body exposure in the literature. While rats exposed to blasts below 50 PSI(345 kPa) exhibited increased respiratory rate with increased blast intensity, some rats exposed to blasts higher than 50 PSI(345 kPa) stopped breathing immediately and ultimately died. These autonomic responses were significantly reduced in vagally denervated rats, again similar to whole-body exposure literature. These results support the hypothesis that the unprotected ear contributes to the autonomic responses to blast. | David S.Sandlin Yue Yu Jun Huang Chunming Zhang Alberto A.Arteaga John K.Lippincott Erin O.H.Peeden Ryan R.Guyton Lan Chen Laura L.S.Beneke Jerome C.Allison Hong Zhu Wu Zhou | 2018 | Journal of Otology2018，13，2： | 2 |
| 5 | Influence of bactibilia after preoperative biliary stenting on postoperative infectious complications显示文摘 | Thomas J. Howard M.D. Jian Yu M.S. Ryan B. Greene M.D. Virgilio George M.D. George M. Wairiuko M.D. Seth A. Moore M.S. James A. Madura M.D | 2006 | Journal of Gastrointestinal Surgery2006，，4： | 2 |
| 6 | MicroRNA-184 antagonizes microRNA-205 to maintain SHIP2 levels in epithelia显示文摘 | Yu J Ryan D G Getsios S | 2008 | Proc Natl Acad Sci USA2008，105，19： | 1 |
| 7 | Effects of Nb and Zr alloying additions on the activation behavior of Ti in hydrochloric acid显示文摘 | YU S Y BRODRICK C W RYAN M P | | 0，，12： | 1 |
| 8 | Arginine and omithine kinetics in severely burned patients: increased rate of arginine disposal 显示文摘 | Yu YM Ryan CM Castillo L | 2001 | Am J Physiol Endocrinol Metab2001，280，： | 1 |
| 9 | Elevated tumor necrosis factor-alpha in skeletal muscle after stroke显示文摘 | Hafer-Macko CE Yu S Ryan AS | 2005 | Stroke2005，36，9： | 1 |
| 10 | Lactated Ringer’s Solution Reduces Systemic Inflammation Compared With Saline in Patients With Acute Pancreatitis显示文摘 | Bechien U. Wu James Q. Hwang Timothy H. Gardner Kathryn Repas Ryan Delee Song Yu Benjamin Smith Peter A. Banks Darwin L. Conwell | 2011 | Clinical Gastroenterology and Hepatology2011，，8： | 1 |
| 11 | The metabolic basis of the increase in energy expenditure in severely burned patients显示文摘 | Yu YM Tompkins GRG Ryan C | 1999 | JPEN1999，23，3： | 1 |
| 12 | MieroRNA- 184 antagonizes nieroRNA -205 to maintain SHIP2 levels in epithelia显示文摘 | Yu J Ryan DG Getsios S | 2008 | Proe latl Aead Sei USA2008，105，19： | 1 |
| 13 | A Multi-Flow Information Flow Tracking Approach for Proving Quantitative Hardware Security Properties显示文摘Information Flow Tracking(IFT)is an established formal method for proving security properties related to confidentiality,integrity,and isolation.It has seen promise in identifying security vulnerabilities resulting from design flaws,timing channels,and hardware Trojans for secure hardware design.However,existing IFT methods tend to take a qualitative approach and only enforce binary security properties,requiring strict non-interference for the properties to hold while real systems usually allow a small amount of information flows to enable desirable interactions.Consequently,existing methods are inadequate for reasoning about quantitative security properties or measuring the security of a design in order to assess the severity of a security vulnerability.In this work,we propose two multi-flow solutions—multiple verifications for replicating existing IFT model and multi-flow IFT method.The proposed multi-flow IFT method provides more insight into simultaneous information flow behaviors and allows for proof of quantitative information flow security properties,such as diffusion,randomization,and boundaries on the amount of simultaneous information flows.Experimental results show that our method can be used to prove a new type of information flow security property with verification performance benefits. | Yu Tai Wei Hu Lu Zhang Dejun Mu Ryan Kastner | 2021 | Tsinghua Science and Technology2021，26，1： | 1 |
| 14 | 加拿大艾伯塔省福克斯克里克附近潜在水压致裂诱发地震的震源分析显示文摘2015年6月13日,在加拿大西部艾伯塔省中部发生了4.4级(M_L)地震,这是2015年福克斯克里克附近页岩气勘探区发生的第三次有感地震事件。我们对该区域宽频带数据进行地震矩张量反演得到的结果显示为近垂直于断层走向的强走滑机制解。地震矩张量解的分解绝大多数是双力偶,而补偿线性向量偶极作用甚微(约20%)。此次地震的震源深度是3~4km,靠近沉积层底部,其矩震级(M=3.9)远小于最初报道的M_L值。震源位置、深度和震源机制有利于证明此次地震与迪韦奈页岩区域水压致裂作业之间存在潜在联系。 | Ruijia Wang Yu Jeffrey Gu Ryan Schultz Ahyi Kim Gail Atkinson 邹长桥(译) 朱玉萍(校) | 2017 | 世界地震译丛2017，48，3： | 1 |
| 15 | Arginine and ornithine kineticsin severely burned patients:increased rate of arginine disposal 显示文摘 | Yu Y M Ryan C M Castillo L | 2001 | Am J Physiol2001，280，： | 1 |
| 16 | Elevated tumor necro- sis factor-alpha in skeletal muscle after stroke 显示文摘 | Hafer-Macko CE Yu S Ryan AS | 2005 | Stroke2005，36，9： | 1 |
| 17 | MicroRNA-184 antagonizes microRNA-205 to maintain SHIP2 levels in epithelia显示文摘 | Yu J Ryan DG Getsios S | 2008 | Proc Natl Acad Sci USA2008，105，19： | 1 |
| 18 | Bayesian inference for additive mixed quantile regression models显示文摘 | Yu Ryan Yue Havard Rue | 2011 | Computational Statistics and Data Analysis2011，，55： | 1 |
| 19 | Maintenance of species boundaries in three sympatric Ligularia(Senecioneae,Asteraceae)species显示文摘The key process in speciation concerns the formation and maintenance of reproductive isolating barriers between diverging lineages.Although species boundaries are frequently investigated between two species across many taxa,reproductive isolating barriers among multiple species(>2)that would represent the most common phenomenon in nature,remain to be clarified.Here,we use double digest restriction-site associated DNA(ddRAD)sequencing to examine patterns of hybridization at a sympatric site where three Ligularia species grow together and verify whether those patterns contribute to the maintenance of boundaries among species.The results based on the RAD SNP datasets indicated hybridization Ligularia cyathiceps?L.duciformis and L.duciformis?L.yunnanensis were both restricted to F1s plus a few first-generation backcrosses and no gene introgression were identified,giving rise to strong reproductive isolation among hybridizing species.Moreover,hybrid swarm simulation,using HYBRIDLAB,indicated the RAD SNP datasets had sufficient discriminatory power for accurate hybrid detection.We conclude that parental species show strong reproductive isolation and they still maintain species boundaries,which may be the key mechanism to maintain species diversity of Ligualria in the eastern Qinghai-Tibetan Plateau and adjacent areas.Moreover,this study highlights the effectiveness of RAD sequencing in hybridization studies. | Ningning Zhang Yongpeng Ma Ryan A.Folk Jiaojun Yu Yuezhi Pan Xun Gong | 2018 | Journal of Integrative Plant Biology2018，60，10： | 1 |
| 20 | MicroRNA-184 antagonizes microRNA-205 to main- tain SHIP2 levels in epithelia显示文摘 | Yu J Ryan DG Getsios S Oliveira-Fernandes M Fatima A Lavker RM | 2008 | Proc Natl Acad Sci USA2008，105，19： | 1 |
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