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Injectable bioorthogonal hydrogel (BIOGEL) accelerates tissue regeneration in degenerated intervertebral discs

Bioactive Materials 2023年第5期23卷 551-562页

作者： Jeffrey Luo Anjani Darai Thanapat Pongkulapa brian conley Letao Yang Inbo Han Ki-Bum Lee Department of Chemistry and Chemical Biology RutgersThe State University of New JerseyPiscatawayNJ08854USA Department of Neurosurgery CHA University School of MedicineCHA Bundang Medical Center59 Yaptap-roBundang-guSeongnam-siGyeonggi-do13496Republic of Korea

Intervertebral disc(IVD)degeneration is a leading cause of back pain and precursor to more severe conditions,including disc herniation and spinal *** traditional growth factor therapies(e.g.,TGFβ)are effective at transiently reversing degenerated disc by stimulation of matrix synthesis,it is increasingly accepted that bioscaffolds are required for sustained,complete IVD *** scaffolds(e.g.,metal/polymer composites,non-mammalian biopolymers)can be improved in one or more IVD regeneration demands:biodegradability,noninvasive injection,recapitulated healthy IVD biomechanics,predictable crosslinking,and matrix repair *** meet these demands,tetrazine-norbornene bioorthogonal ligation was combined with gelatin to create an injectable bioorthogonal hydrogel(BIOGEL).The liquid hydrogel precursors remain free-flowing across a wide range of temperatures and crosslink into a robust hydrogel after 5-10 min,allowing a human operator to easily inject the therapeutic constructs into degenerated ***,BIOGEL encapsulation of TGFβpotentiated histological repair(e.g.,tissue architecture and matrix synthesis)and functional recovery(e.g.,high water retention by promoting the matrix synthesis and reduced pain)in an in vivo rat IVD degeneration/nucleotomy *** BIOGEL procedure readily integrates into existing nucleotomy procedures,indicating that clinical adoption should proceed with minimal *** bioorthogonal crosslinking is essentially non-reactive towards biomolecules,our developed material platform can be extended to other payloads and degenerative injuries.

关键词： Bioorthogonal chemistry Growth factor Injectable hydrogel Intervertebral disc degeneration Tissue engineering

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High-Content Screening and Analysis of Stem Cell-Derived Neural Interfaces Using a Combinatorial Nanotechnology and Machine Learning Approach

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研究(英文) 2023年第1期2022卷 153-167页

作者： Letao Yang brian M.conley Jinho Yoon Christopher Rathnam Thanapat Pongkulapa Brandon Conklin Yannan Hou Ki-Bum Lee Department of Chemistry and Chemical Biology Rutgers UniversityThe State University of New JerseyPiscatawayNJ 08854USA

A systematic investigation of stem cell-derived neural interfaces can facilitate the discovery of the molecular mechanisms behind cell behavior in neurological disorders and accelerate the development of stem cell-based ***,high-throughput investigation of the cell-type-specific biophysical cues associated with stem cell-derived neural interfaces continues to be a significant obstacle to *** this end,we developed a combinatorial nanoarray-based method for high-throughput investigation of neural interface micro-/nanostructures(physical cues comprising geometrical,topographical,and mechanical aspects)and the effects of these complex physical cues on stem cell fate ***,by applying a machine learning(ML)-based analytical approach to a large number of stem cell-derived neural interfaces,we comprehensively mapped stem cell adhesion,differentiation,and proliferation,which allowed for the cell-type-specific design of biomaterials for neural interfacing,including both adult and human-induced pluripotent stem cells(hiPSCs)with varying genetic *** short,we successfully demonstrated how an innovative combinatorial nanoarray and ML-based platform technology can aid with the rational design of stem cell-derived neural interfaces,potentially facilitating precision,and personalized tissue engineering applications.

关键词： overcome neural rational

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Characterizing functional consequences of DNA copy number alterations in breast and ovarian tumors by spaceMap

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Journal of Genetics and Genomics 2018年第7期45卷 361-371页

作者： Christopher J.conley Umut Ozbek Pei Wang Jie Peng Department of Statistics University of California Davis Department of Population Health Science and Policy Icahn School of Medicine at Mount Sinai Department of Genetics and Genomic Sciences Icahn School of Medicine at Mount Sinai

We propose a novel conditional graphical model -- spaceMap -- to construct gene regulatory networks from multiple types of high dimensional omic profiles. A motivating application is to characterize the perturbation of DNA copy number alterations （CNAs） on downstream protein levels in tumors. Through a penalized multivariate regression framework, spaceMap jointly models high dimensional protein levels as responses and high dimensional CNAs as predictors. In this setup, spaceMap infers an undirected network among proteins together with a directed network encoding how CNAs perturb the protein network, spaceMap can be applied to learn other types of regulatory relationships from high dimensional molecular profiles, especially those exhibiting hub structures. Simulation studies show spaceMap has greater power in detecting regulatory relationships over competing methods. Additionally, spaceMap includes a network analysis toolkit for biological interpretation of inferred networks. We applies spaceMap to the CNAs, gene expression and proteomics data sets from CPTAC-TCGA breast （n = 77） and ovarian （n = 174） cancer studies. Each cancer exhibits disruption of＇ion transmembrane transport＇ and ＇regulation from RNA polymerase lI promoter＇ by CNA events unique to each cancer. Moreover, using protein levels as a response yields a more functionally-enriched network than using RNA expressions in both cancer types. The network results also help to pinpoint crucial cancer genes and provide insights on the functional consequences of important CNA in breast and ovarian cancers.

关键词： Integrative genomics Proteogenomics Conditional graphical models Network analysis

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一部地图小说：贝罗阿尔德·德·韦尔维勒的《幸运王子之旅》（英文）

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外国文学研究 2019年第4期41卷 24-41页

作者：汤姆·康雷哈佛大学

莫里斯·布格罗雇了盖布利尔·塔温尼尔托来帮他完成一幅为纳瓦赫亨利四世所设计、特备的地图册,该地图册将使各省、各个地区、城市、河流乃至整个国家的概貌展现在国王眼前。亨利将拥有一件任他支配的工具,这对于他形成用战术策动来制... 详细信息

莫里斯·布格罗雇了盖布利尔·塔温尼尔托来帮他完成一幅为纳瓦赫亨利四世所设计、特备的地图册,该地图册将使各省、各个地区、城市、河流乃至整个国家的概貌展现在国王眼前。亨利将拥有一件任他支配的工具,这对于他形成用战术策动来制约神圣联盟的庞大力量至关重要。假如他能赢得战争的胜利、荣登王座,这件东西就能帮他处理国内的征税、运作、商贸和治理。地图册会提醒其最先、也是最佳的读者其中展现的地图诞生于战争和纷争'区域',是政治工具。该地图册使人想起亚伯拉罕·奥特利乌斯以他奢华的世界地图来开启的百科全书项目,将向国王显示他王国的全部、要点和优势。为了加强并发布这本地图册,布格罗刻意亲自撰写序言,赞扬它的实质功能,并向地方官员和知名人士详尽说明它前所未有的价值。贝罗阿尔德·德·韦尔维勒是赞赏该地图册的作家之一,他的地图小说《幸运王子之旅》(1610),一部长达700多页的巨著,将是本文论述图像与文本相互关系的重点。

关键词：贝罗阿尔德·德·韦尔维勒地图小说图像文本

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从TOD到TAC：利用新公交系统重塑街道走廊

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城市规划学刊 2022年第1期 120-121页

作者： NEWMANP DAVIES-SLATES conley D 姚智远同济大学建筑与城市规划学院

1研究背景目前围绕轨道站点进行公共交通导向开发（Transit-Oriented Development简称TOD）的模式已被广泛接受和采纳，并且逐渐成为城市交通更新和发展的重要手段。另一个交通和土地使用领域的当前术语是公共交通邻近地区开发（Transit...

1研究背景目前围绕轨道站点进行公共交通导向开发（Transit-Oriented Development简称TOD）的模式已被广泛接受和采纳，并且逐渐成为城市交通更新和发展的重要手段。另一个交通和土地使用领域的当前术语是公共交通邻近地区开发（Transit-Adjacent Development简称TAD），它被《重新连接美国》（Reconnecting America）认为是“变坏了的TOD”。还有一个公共交通联合开发（Transit-Joint Development简称TJD）的概念，是指将必要的公共和私营部门的发展机会结合在一起。

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Prot-Class: A bioinformatics tool for protein classification based on amino acid signatures

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Natural Science 2012年第12期4卷 1161-1164页

作者： Jens Lichtenberg brian D. Keppler Thomas conley Dazhang Gu Paul Burns Lonnie R. Welch Allan M. Showalter Biomedical Engineering Program Ohio University Athens USA Department of Environmental and Plant Biology College of Arts and Sciences Ohio University Athens USA Molecular and Cellular Biology Program Ohio University Athens USA School of Electrical Engineering and Computer Science Russ College of Engineering Ohio University Athens USA

Knowledge about characteristics shared across known members of a protein family enables their identification within the complete set of proteins in an organism. Shared features are usually expressed through motifs, which can incorporate specific patterns and even amino acid (AA) biases. Based on a set of classification patterns and biases it can be determined which additional proteins may belong to a specific family and share its functionality. A bioinformatics tool (Prot-Class) was implemented to examine protein sequences and characterize them based upon user-defined AA composition percentages and user defined AA patterns. In addition the tool allows for the identification of repeated AA patterns, biased AA compositions within windows of user-defined length, and the characteristics of putative signal peptides and glycosylphosphatidylinositol (GPI) lipid anchors. ProtClass is general purpose and can be applied to analyze protein sequences from any organism. The Prot-Class source code is available through the GNU General Public License v3 and can be accessed via the Google Code Repository: http://***/p/prot-class/.

关键词： Bioinformatics Protein Classification Arabidopsis

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The Trackless Tram: Is It the Transit and City Shaping Catalyst We Have Been Waiting for?

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Journal of Transportation Technologies 2019年第1期9卷 31-55页

作者： Peter Newman Karlson Hargroves Sebastian Davies-Slate Daniel conley Marie Verschuer Mike Mouritz Dorji Yangka Curtin University Sustainability Policy Institute (CUSP) Curtin University Perth Australia Entrepreneurship Commercialisation and Innovation Centre (ECIC) and the School of Civil Environmental and Mining Engineering University of Adelaide Adelaide Australia Bodhi Alliance Perth Australia

Recent innovations in transport technology are now providing mobility that is cheaper, autonomous, electric, and with improved ride quality. While much of the world’s attention has been on how this can be applied to cars, there have been rapid adoption of these and other technologies in High Speed Rail and Metro Rail systems that run between and across cities. This paper shows how such innovations have now been applied to create the next generation of urban transit system called a Trackless Tram. Trackless Trams are effectively the same as traditional light rail except they run on rubber tyres avoiding disruption from construction for Light Rail, but they retain the electric propulsion (with batteries) and have high ride quality due to rail-type bogies, stabilization technologies and precision tracking from the autonomous optical guidance systems—with infrastructure costs reduced to as low as one tenth of a Light Rail system. As with Light Rail, a Trackless Tram System provides a rapid transit option that can harness the fixed route assurance necessary to unlock new land value appreciation that can be leveraged to contribute to construction and running costs whilst creating urban regeneration. The paper considers the niche for Trackless Trams in cities along with its potential for city shaping through the creation of urban re-development along corridors. The paper suggests that the adoption of Trackless Tram Systems is likely to grow rapidly as a genuine alternative to car and bus systems, supplementing and extending the niche occupied by Light Rail Transit (LRT). This appears to be feasible in any medium-sized or larger city, especially in emerging and developing economies, and case studies are outlined for Perth and Thimpu to illustrate its potential.