{"id":14,"date":"2017-07-28T14:22:02","date_gmt":"2017-07-28T18:22:02","guid":{"rendered":"https:\/\/health.uconn.edu\/yu-lab\/?page_id=14"},"modified":"2023-09-07T17:20:28","modified_gmt":"2023-09-07T21:20:28","slug":"publications","status":"publish","type":"page","link":"https:\/\/health.uconn.edu\/yu-lab\/publications\/","title":{"rendered":"Publications"},"content":{"rendered":"

Original Journal Papers<\/h3>\n

Ji Yu
\nPoint-supervised Single-cell Segmentation via Collaborative Knowledge Sharing
\nIEEE Transactions on Medical Imaging, in press, DOI: 10.1109\/TMI.2023.3312988<\/span><\/p>\n

Shrestha, Prem; Kuang, Nicholas; Yu, Ji
\nEfficient end-to-end learning for cell segmentation with machine generated weak annotations.<\/a>
\nCommunications biology 6:232, (2023)<\/p>\n

Din, Nizam Ud; Yu, Ji
\nTraining a deep learning model for single-cell segmentation without manual annotation.<\/a>
\nScientific reports 11:23995 (2021)<\/p>\n

Yu J, Elmokadem A.
\nSingle-molecule localization microscopy as nonlinear inverse problem.<\/a>
\nPNAS pii: 201912634 (2019)<\/p>\n

Zhang, Ke; Lyu, Wanqing; Yu, Ji; Koleske, Anthony J
\nAbl2 is recruited to ventral actin waves through cytoskeletal interactions to promote lamellipodium extension.<\/a>
\nMolecular biology of the cell 29:2863-2873 (2018)<\/p>\n

Alapin, Jessica M; Dines, Monica; Vassiliev, Maria; Tamir, Tal; Ram, Alon; Locke, Clifford; Yu, Ji; Lamprecht, Raphael
\nActivation of EphB2 Forward Signaling Enhances Memory Consolidation.<\/a>
\nCell reports 23(7):2014-2025 (2018)<\/p>\n

Locke, Clifford; Machida, Kazuya; Wu, Yi; Yu, Ji
\nOptogenetic activation of EphB2 receptor in dendrites induced actin polymerization by activating Arg kinase.<\/a>
\nBiology open 6:1820-1830 (2017)<\/p>\n

Marchenko, Olena O; Das, Sulagna; Yu, Ji; Novak, Igor L; Rodionov, Vladimir I; Efimova, Nadia; Svitkina, Tatyana; Wolgemuth, Charles W; Loew, Leslie M
\nA minimal actomyosin-based model predicts the dynamics of filopodia on neuronal dendrites<\/a>.
\nMolecular biology of the cell 28(8):1021-1033 (2017)<\/p>\n

Jadwin, JA*; Oh, D*; Curran, TG; Ogiue-Ikeda, M; Jia, L; White, FM; Machida, K; Yu, J; Mayer, B
\nTime-resolved multimodal analysis of Src Homology 2 (SH2) domain binding in signaling by receptor tyrosine kinases.<\/a>
\neLife 5:e11835 (2016)<\/p>\n

Rezaul, K; Gupta, D; Semenova, I; Ikeda, K; Kraikivski, P; Yu, J; Cowan, A; Zaliapin, I; Rodionov, V
\nEngineered tug-of-war between kinesin and dynein controls direction of microtubule transport in vivo.<\/a>
\nTraffic 17(5):475-86 (2016)<\/p>\n

Elmokadem A, Yu J
\nOptimal Drift Correction for Super-resolution Localization Microscopy with Bayesian Inference.<\/a>
\nBiophys J. 109(9), 1772 (2015)<\/p>\n

Das S, Yin T, Yang, Q,Zhang J, Wu YI, Yu J
\nSingle-molecule tracking of small GTPase Rac1 uncovers spatial regulation of membrane translocation and mechanism for polarized signaling.<\/a>
\nPNAS\u00a0112(3), E267 (2015)<\/p>\n

Troiano AJ Jr, Zhang J, Cowan AE, Yu J, Setlow P
\nAnalysis of the dynamics of a Bacillus subtilis spore germination protein complex during spore germination and outgrowth.<\/a>
\nJ Bacteriol.\u00a0(2014)<\/p>\n

Zhang JQ, Griffiths KK, Cowan A, Setlow P and Yu J.
\nExpression Level of Bacillus subtilis Germinant Receptor Determines the Average Rate but not the Heterogeneity of Spore Germination.<\/a>
\nJ Bacteriol.\u00a0195(8):1735-40 (2013)<\/p>\n

Oh D, Ogiue-Ikeda M, Jadwin JA, Machida K, Mayer BJ and Yu J.
\nFast rebinding increases dwell-time of Src Homology 2 (SH2) containing proteins near plasma membrane.<\/a>
\nPNAS\u00a0109(35):14024-9 (2012)<\/p>\n

Tatavarty V, Das S, Yu J.
\nPolarization of actin cytoskeleton is reduced in dendritic protrusions during early spine development in hippocampal neuron.<\/a>
\nMol Biol Cell.\u00a023(16):3167-77(2012)<\/p>\n

Tatavarty V, Ifrim MF, Levin M, Korza G, Barbarese E, Yu J, Carson JH.
\nSingle-molecule imaging of translational output from individual RNA granules in neurons.<\/a>
\nMol Biol Cell.\u00a023(5):918-29 (2012)<\/p>\n

Zhang J, Garner W, Setlow P, Yu J.
\nQuantitative Analysis of Spatial-Temporal Correlations during Germination of Spores of Bacillus Species.<\/a>
\nJ Bacteriol.\u00a0193(15):3765-72 (2011)<\/p>\n

Griffiths KK, Zhang J, Cowan AE, Yu J, Setlow P.
\nGermination proteins in the inner membrane of dormant Bacillus subtilis spores colocalize in a discrete cluster.<\/a>
\nMol Microbiol.\u00a081(4) 1061 (2011)<\/p>\n

Pengfei Zhang, Will Garner, Xuan Yi, Ji Yu, Yong-qing Li and Peter Setlow
\nFactors Affecting Variability in Time between Addition of Nutrient Germinants and Rapid Dipicolinic Acid Release during Germination of Spores of Bacillus Species.<\/a>
\nJ Bacteriol.\u00a0192(14), p3608-3619 (2010)<\/p>\n

Vedakumar Tatavarty, Eun-Ji Kim, Vladimir Rodionov, Ji Yu
\nInvestigating sub-spine actin dynamics in rat hippocampal neurons with super-resolution optical imaging.<\/a>
\nPlos One\u00a04(11):e7724 (2009)<\/p>\n

Lili Niu and Ji Yu
\nInvestigating Intracellular Dynamics of FtsZ Cytoskeleton with Photo-activation Single-molecule Tracking.<\/a>
\nBiophy. J\u00a095(4), 2009-16 (2008)<\/p>\n

Reviews, Comments, and Book Chapters<\/h3>\n

Mayer BJ, Yu J.
\nProtein Clusters in Phosphotyrosine Signal Transduction.<\/a>
\nJ Mol Biol. (2018)<\/p>\n

Yu J.
\nSingle-Molecule Studies in Live Cells.<\/a>
\nAnnual review of physical chemistry (2016)<\/p>\n

Yu J.
\nTo unscramble an egg.
\nNature Methods\u00a020(3):208-9 (2013)<\/p>\n

Vats P, Yu J, Rothfield L.
\nThe dynamic nature of the bacterial cytoskeleton.
\nCell Mol Life Sci.\u00a066(20):3353-62(2009)<\/p>\n<\/div><\/div><\/div><\/div><\/div>","protected":false},"excerpt":{"rendered":"

Original Journal Papers Ji Yu Point-supervised Single-cell Segmentation via Collaborative Knowledge Sharing IEEE Transactions on Medical Imaging, in press, DOI: 10.1109\/TMI.2023.3312988 Shrestha, Prem; Kuang, Nicholas; Yu, Ji Efficient end-to-end learning for cell segmentation with machine generated weak annotations. Communications biology 6:232, (2023) Din, Nizam Ud; Yu, Ji Training a deep learning model for single-cell segmentation […]<\/p>\n","protected":false},"author":38,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_acf_changed":false,"footnotes":""},"acf":[],"publishpress_future_action":{"enabled":false,"date":"2026-04-14 12:32:48","action":"change-status","newStatus":"draft","terms":[],"taxonomy":""},"_links":{"self":[{"href":"https:\/\/health.uconn.edu\/yu-lab\/wp-json\/wp\/v2\/pages\/14"}],"collection":[{"href":"https:\/\/health.uconn.edu\/yu-lab\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/health.uconn.edu\/yu-lab\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/health.uconn.edu\/yu-lab\/wp-json\/wp\/v2\/users\/38"}],"replies":[{"embeddable":true,"href":"https:\/\/health.uconn.edu\/yu-lab\/wp-json\/wp\/v2\/comments?post=14"}],"version-history":[{"count":5,"href":"https:\/\/health.uconn.edu\/yu-lab\/wp-json\/wp\/v2\/pages\/14\/revisions"}],"predecessor-version":[{"id":73,"href":"https:\/\/health.uconn.edu\/yu-lab\/wp-json\/wp\/v2\/pages\/14\/revisions\/73"}],"wp:attachment":[{"href":"https:\/\/health.uconn.edu\/yu-lab\/wp-json\/wp\/v2\/media?parent=14"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}