My Bibliography

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Hsieh HC, Han Q, Brenes D, Bishop KW, Wang R, Wang Y, Poudel C, Glaser AK, Freedman BS, Vaughan JC, Allbritton NL, Liu JTC. Imaging 3D cell cultures with optical microscopy. Nat Methods. 2025 Jun;22(6):1167-1190. doi: 10.1038/s41592-025-02647-w. Epub 2025 Apr 17. Review. PubMed PMID: 40247123; PubMed Central PMCID: PMC12402705.

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Gulieva RE, Ahmadvand P, Freedman BS. A novel rapalog shows improved safety vs. efficacy in a human organoid model of polycystic kidney disease. Stem Cell Reports. 2025 Feb 11;20(2):102395. doi: 10.1016/j.stemcr.2024.102395. Epub 2025 Jan 23. PubMed PMID: 39855202; PubMed Central PMCID: PMC11864154.

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Xu W, Tan X, Li ML, Xu H, Villegas J, Fu H. Von Willebrand factor and hematogenous cancer metastasis under flow. Front Cell Dev Biol. 2024;12:1435718. doi: 10.3389/fcell.2024.1435718. eCollection 2024. Review. PubMed PMID: 39282473; PubMed Central PMCID: PMC11401050.

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Juliar BA, Stanaway IB, Sano F, Fu H, Smith KD, Akilesh S, Scales SJ, El Saghir J, Bhatraju PK, Liu E, Yang J, Lin J, Eddy S, Kretzler M, Zheng Y, Himmelfarb J, Harder JL, Freedman BS. Interferon-γ induces combined pyroptotic angiopathy and APOL1 expression in human kidney disease. Cell Rep. 2024 Jun 25;43(6):114310. doi: 10.1016/j.celrep.2024.114310. Epub 2024 Jun 4. PubMed PMID: 38838223; PubMed Central PMCID: PMC11216883.

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Li SR, Gulieva RE, Helms L, Cruz NM, Vincent T, Fu H, Himmelfarb J, Freedman BS. Glucose absorption drives cystogenesis in a human organoid-on-chip model of polycystic kidney disease. Nat Commun. 2022 Dec 23;13(1):7918. doi: 10.1038/s41467-022-35537-2. PubMed PMID: 36564419; PubMed Central PMCID: PMC9789147.

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Ariëns RA, Hunt BJ, Agbani EO, Ahnström J, Ahrends R, Alikhan R, Assinger A, Bagoly Z, Balduini A, Barbon E, Barrett CD, Batty P, Carneiro JDA, Chan WS, de Maat M, de Wit K, Denis C, Ellis MH, Eslick R, Fu H, Hayward CPM, Ho-Tin-Noé B, Klok FA, Kumar R, Leiderman K, Litvinov RI, Mackman N, McQuilten Z, Neal MD, Parker WAE, Preston RJS, Rayes J, Rezaie AR, Roberts LN, Rocca B, Shapiro S, Siegal DM, Sousa LP, Suzuki-Inoue K, Zafar T, Zhou J. Illustrated State-of-the-Art Capsules of the ISTH 2022 Congress. Res Pract Thromb Haemost. 2022 Jul;6(5):e12747. doi: 10.1002/rth2.12747. eCollection 2022 Jul. Review. PubMed PMID: 35814801; PubMed Central PMCID: PMC9257378.

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Rayner SG, Scholl Z, Mandrycky CJ, Chen J, LaValley KN, Leary PJ, Altemeier WA, Liles WC, Chung DW, López JA, Fu H, Zheng Y. Endothelial-derived von Willebrand factor accelerates fibrin clotting within engineered microvessels. J Thromb Haemost. 2022 Jul;20(7):1627-1637. doi: 10.1111/jth.15714. Epub 2022 Apr 11. PubMed PMID: 35343037; PubMed Central PMCID: PMC10581744.

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Cruz NM, Reddy R, McFaline-Figueroa JL, Tran C, Fu H, Freedman BS. Modelling ciliopathy phenotypes in human tissues derived from pluripotent stem cells with genetically ablated cilia. Nat Biomed Eng. 2022 Apr;6(4):463-475. doi: 10.1038/s41551-022-00880-8. Epub 2022 Apr 27. PubMed PMID: 35478224; PubMed Central PMCID: PMC9228023.

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Fu H, Jiang Y, Wong WP, Springer TA. Single-molecule imaging of von Willebrand factor reveals tension-dependent self-association. Blood. 2021 Dec 9;138(23):2425-2434. doi: 10.1182/blood.2021012595. PubMed PMID: 34882208; PubMed Central PMCID: PMC8662069.

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Zhao X, Guo S, Lu C, Chen J, Le S, Fu H, Yan J. Single-molecule manipulation quantification of site-specific DNA binding. Curr Opin Chem Biol. 2019 Dec;53:106-117. doi: 10.1016/j.cbpa.2019.08.006. Epub 2019 Oct 31. Review. PubMed PMID: 31677535.

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Jiang Y, Fu H, Springer TA, Wong WP. Electrostatic Steering Enables Flow-Activated Von Willebrand Factor to Bind Platelet Glycoprotein, Revealed by Single-Molecule Stretching and Imaging. J Mol Biol. 2019 Mar 29;431(7):1380-1396. doi: 10.1016/j.jmb.2019.02.014. Epub 2019 Feb 22. PubMed PMID: 30797858; PubMed Central PMCID: PMC6936110.

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Czerniecki SM, Cruz NM, Harder JL, Menon R, Annis J, Otto EA, Gulieva RE, Islas LV, Kim YK, Tran LM, Martins TJ, Pippin JW, Fu H, Kretzler M, Shankland SJ, Himmelfarb J, Moon RT, Paragas N, Freedman BS. High-Throughput Screening Enhances Kidney Organoid Differentiation from Human Pluripotent Stem Cells and Enables Automated Multidimensional Phenotyping. Cell Stem Cell. 2018 Jun 1;22(6):929-940.e4. doi: 10.1016/j.stem.2018.04.022. Epub 2018 May 17. PubMed PMID: 29779890; PubMed Central PMCID: PMC5984728.

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Cruz NM, Song X, Czerniecki SM, Gulieva RE, Churchill AJ, Kim YK, Winston K, Tran LM, Diaz MA, Fu H, Finn LS, Pei Y, Himmelfarb J, Freedman BS. Organoid cystogenesis reveals a critical role of microenvironment in human polycystic kidney disease. Nat Mater. 2017 Nov;16(11):1112-1119. doi: 10.1038/nmat4994. Epub 2017 Oct 2. PubMed PMID: 28967916; PubMed Central PMCID: PMC5936694.

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Kim YK, Refaeli I, Brooks CR, Jing P, Gulieva RE, Hughes MR, Cruz NM, Liu Y, Churchill AJ, Wang Y, Fu H, Pippin JW, Lin LY, Shankland SJ, Vogl AW, McNagny KM, Freedman BS. Gene-Edited Human Kidney Organoids Reveal Mechanisms of Disease in Podocyte Development. Stem Cells. 2017 Dec;35(12):2366-2378. doi: 10.1002/stem.2707. Epub 2017 Sep 29. PubMed PMID: 28905451; PubMed Central PMCID: PMC5742857.

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Fu H, Jiang Y, Yang D, Scheiflinger F, Wong WP, Springer TA. Flow-induced elongation of von Willebrand factor precedes tension-dependent activation. Nat Commun. 2017 Aug 23;8(1):324. doi: 10.1038/s41467-017-00230-2. PubMed PMID: 28831047; PubMed Central PMCID: PMC5567343.

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Freedman BS, Brooks CR, Lam AQ, Fu H, Morizane R, Agrawal V, Saad AF, Li MK, Hughes MR, Werff RV, Peters DT, Lu J, Baccei A, Siedlecki AM, Valerius MT, Musunuru K, McNagny KM, Steinman TI, Zhou J, Lerou PH, Bonventre JV. Modelling kidney disease with CRISPR-mutant kidney organoids derived from human pluripotent epiblast spheroids. Nat Commun. 2015 Oct 23;6:8715. doi: 10.1038/ncomms9715. PubMed PMID: 26493500; PubMed Central PMCID: PMC4620584.

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Fu H, Le S, Muniyappa K, Yan J. Dynamics and Regulation of RecA Polymerization and De-Polymerization on Double-Stranded DNA. PLoS One. 2013;8(6):e66712. doi: 10.1371/journal.pone.0066712. Print 2013. PubMed PMID: 23825559; PubMed Central PMCID: PMC3688958.

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Fu H, Le S, Chen H, Muniyappa K, Yan J. Force and ATP hydrolysis dependent regulation of RecA nucleoprotein filament by single-stranded DNA binding protein. Nucleic Acids Res. 2013 Jan;41(2):924-32. doi: 10.1093/nar/gks1162. Epub 2012 Dec 4. PubMed PMID: 23221642; PubMed Central PMCID: PMC3553936.

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Zhang X, Chen H, Fu H, Doyle PS, Yan J. Two distinct overstretched DNA structures revealed by single-molecule thermodynamics measurements. Proc Natl Acad Sci U S A. 2012 May 22;109(21):8103-8. doi: 10.1073/pnas.1109824109. Epub 2012 Apr 24. PubMed PMID: 22532662; PubMed Central PMCID: PMC3361402.

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Chen H, Fu H, Zhu X, Cong P, Nakamura F, Yan J. Improved high-force magnetic tweezers for stretching and refolding of proteins and short DNA. Biophys J. 2011 Jan 19;100(2):517-23. doi: 10.1016/j.bpj.2010.12.3700. PubMed PMID: 21244848; PubMed Central PMCID: PMC3325116.

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Fu H, Freedman BS, Lim CT, Heald R, Yan J. Atomic force microscope imaging of chromatin assembled in Xenopus laevis egg extract. Chromosoma. 2011 Jun;120(3):245-54. doi: 10.1007/s00412-010-0307-4. Epub 2011 Jan 11. PubMed PMID: 21369955; PubMed Central PMCID: PMC3464096.

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Chen H, Fu H, Zhou Z, Yan J. Non-harmonic DNA bending elasticity is revealed by statistics of DNA minicircle shapes. International Journal of Modern Physics B. 2010; 24(28):5475-5485. doi: 10.1142/S0217979210056682.

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Fu H, Chen H, Zhang X, Qu Y, Marko JF, Yan J. Transition dynamics and selection of the distinct S-DNA and strand unpeeling modes of double helix overstretching. Nucleic Acids Res. 2011 Apr;39(8):3473-81. doi: 10.1093/nar/gkq1278. Epub 2010 Dec 21. PubMed PMID: 21177651; PubMed Central PMCID: PMC3082884.

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Mo X, Li Q, Yi Lui LW, Zheng B, Kang CH, Nugraha B, Yue Z, Jia RR, Fu HX, Choudhury D, Arooz T, Yan J, Lim CT, Shen S, Hong Tan C, Yu H. Rapid construction of mechanically- confined multi- cellular structures using dendrimeric intercellular linker. Biomaterials. 2010 Oct;31(29):7455-67. doi: 10.1016/j.biomaterials.2010.06.020. PubMed PMID: 20599265.

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Fu H, Chen H, Yan J, Lim C. Salt Solution Effects on Overstretching Transitions of DNA Molecules. Journal of computational and theoretical nanoscience. 2010 July; 7:1272-1278. doi: http://dx.doi.org/10.1166/jctn.2010.1480.

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Fu H, Chen H, Marko JF, Yan J. Two distinct overstretched DNA states. Nucleic Acids Res. 2010 Sep;38(16):5594-600. doi: 10.1093/nar/gkq309. Epub 2010 Apr 30. PubMed PMID: 20435680; PubMed Central PMCID: PMC2938222.

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Fu H, Chen H, Koh CG, Lim CT. Effects of magnesium salt concentrations on B-DNA overstretching transition. Eur Phys J E Soft Matter. 2009 May;29(1):45-9. doi: 10.1140/epje/i2009-10448-0. Epub 2009 May 1. PubMed PMID: 19408021.

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Chen H, Fu H, Koh C. Sequence-Dependent Unpeeling Dynamics of Stretched DNA Double Helix. Journal of computational and theoretical nanoscience. 2008 July; 5:1381-1386. doi: http://dx.doi.org/10.1166/jctn.2008.024.

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Lim C, Zhou E, Li A, Vedula S, Fu H. Experimental techniques for single cell and single molecule biomechanics. Materials Science and Engineering C: Biomimetic & Supramolecular Systems. 2006 September; 26(8):1278-1288. doi: doi:10.1016/j.msec.2005.08.022.

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Fu H, Ghee Koh C, Chen H. Ionic effects on overstretching transition of B-DNA. Eur Phys J E Soft Matter. 2005 Jun;17(2):231-5. doi: 10.1140/epje/i2004-10141-x. Epub 2005 May 27. PubMed PMID: 15920664.