Wang, J.; Qiao, G.; Tan, H.; Li, M.; Wang, K.; Xu, J.; Janowski, M.; Fu, T.-M.; Walczak, P.; Liang, Y*. Intravital Multimodal Imaging of Human Cortical Organoids for Chronic Stroke Treatment in Mice. bioRxiv July 6, 2025, p 2025.07.05.663297. (*Corresponding author)
Fu, T.-M.; Liu, G.; Milkie, D. E.; Ruan, X.; Gorlitz, F.; Shi, Y.; Ferro, V.; Divekar, N. S.; Wang, W.; York, H. M.; Kilic, V.; Mueller, M.; Liang, Y.; Daugird, T. A.; Gacha-Garay, M. J.; Larkin, K. A.; Adikes, R. C.; Harrison, N.; Shirazinejad, C.; Williams, S.; Nourse, J. L.; Sheu, S.-H.; Gao, L.; Li, T.; Mondal, C.; Achour, K.; Hercule, W.; Stabley, D.; Emmerich, K.; Dong, P.; Drubin, D.; Liu, Z. J.; Clapham, D.; Mumm, J. S.; Koyama, M.; Killilea, A.; Bravo-Cordero, J. J.; Keene, C. D.; Luo, L.; Kirchhausen, T.; Pathak, M. M.; Arumugam, S.; Nunez, J. K.; Gao, R. G.; Matus, D. Q.; Martin, B. L.; Swinburne, I. A.; Betzig, E.; Legant, W. R.; Upadhyayula, S. A Multimodal Adaptive Optical Microscope For In Vivo Imaging from Molecules to Organisms. bioRxiv June 16, 2025, p 2025.06.02.657494. https://doi.org/10.1101/2025.06.02.657494.
Wang, J.; Russell, C.; Walczak, M.; Gao, D.; Qiao, G.; Fan, X.; Chu, C.; Janowski, M.; Walczak, P.; Liang, Y*., OPTRACE: Optical Imaging Guided Transplantation and Tracking of Cells in the Mouse Brain. bioRxiv 2025, 2025.05.24.655973. (*Corresponding author)
Chu C, Qiao G, Madan S, Fadon-Padilla L, Wang J, Salemdawod A, Sharma S, Gulisashvili D, McDougall L, Liang Y, Janowski M, Walczak P. Multi-modality imaging for precise intra-arterial delivery of mRNA, AAVs, and antibodies to the head and neck area in mice. J Control Release. 2025 May 24;384:113880. doi: 10.1016/j.jconrel.2025.113880. Epub ahead of print. PMID: 40418990.
Farrants H, Shuai Y, Lemon WC, Monroy Hernandez C, Zhang D, Yang S, Patel R, Qiao G, Frei MS, Plutkis SE, Grimm JB, Hanson TL, Tomaska F, Turner GC, Stringer C, Keller PJ, Beyene AG, Chen Y, Liang Y, Lavis LD, Schreiter ER. A modular chemigenetic calcium indicator for multiplexed in vivo functional imaging. Nat Methods. 2024 Sep 20. doi: 10.1038/s41592-024-02411-6.
Wang K, Huang J, Ju L, Xu S, Gullapalli RP, Liang Y, Rogers J, Li Y, van Zijl PCM, Weiss RG, Chan KWY, Xu J. Creatine mapping of the brain at 3T by CEST MRI. Magn Reson Med. 2024 Jan;91(1):51-60. doi: 10.1002/mrm.29876. Epub 2023 Oct 9. PMID: 37814487; PMCID: PMC10843037.
Sarker S, Wang J, Shah SA, Jewell CM, Rand-Yadin K, Janowski M, Walczak P, Liang Y, Sochol RD. GEOMETRIC DETERMINANTS OF CELL VIABILITY FOR 3D-PRINTED HOLLOW MICRONEEDLE ARRAY-MEDIATED DELIVERY. Proc IEEE Int Conf Micro Electro Mech Syst. 2024 Jan;2024:429-432. doi: 10.1109/mems58180.2024.10439381. Epub 2024 Feb 22. PMID: 38476775; PMCID: PMC10932570.
Liu J, van Beusekom H, Bu XL, Chen G, Henrique Rosado de Castro P, Chen X, Chen X, Clarkson AN, Farr TD, Fu Y, Jia J, Jolkkonen J, Kim WS, Korhonen P, Li S, Liang Y, Liu GH, Liu G, Liu YH, Malm T, Mao X, Oliveira JM, Modo MM, Ramos-Cabrer P, Ruscher K, Song W, Wang J, Wang X, Wang Y, Wu H, Xiong L, Yang Y, Ye K, Yu JT, Zhou XF, Zille M, Masters CL, Walczak P, Boltze J, Ji X, Wang YJ. Preserving cognitive function in patients with Alzheimer's disease: The Alzheimer's disease neuroprotection research initiative (ADNRI). Neuroprotection. 2023 Dec;1(2):84-98. doi: 10.1002/nep3.23. Epub 2023 Sep 21. PMID: 38223913; PMCID: PMC10783281.
Zhang Y, Rózsa M, Liang Y, Bushey D, Wei Z, Zheng J, Reep D, Broussard GJ, Tsang A, Tsegaye G, Narayan S, Obara CJ, Lim JX, Patel R, Zhang R, Ahrens MB, Turner GC, Wang SS, Korff WL, Schreiter ER, Svoboda K, Hasseman JP, Kolb I, Looger LL. Fast and sensitive GCaMP calcium indicators for imaging neural populations. Nature. 2023 Mar;615(7954):884-891. doi: 10.1038/s41586-023-05828-9. Epub 2023 Mar 15. PMID: 36922596; PMCID: PMC10060165.
Qiao G, Gulisashvili D, Jablonska A, Zhao G, Janowski M, Walczak P, Liang Y. 3D printing-based frugal manufacturing of glass pipettes for minimally invasive delivery of therapeutics to the brain. Neuroprotection. 2023 Sep;1(1):58-65. doi: 10.1002/nep3.20. Epub 2023 Jun 19. PMID: 37771648; PMCID: PMC10538625.
Ji X, Walczak P, van Beusekom HMM, Casas AI, Clarkson A, Farr T, Jolkkonen J, Liang Y, Modo MM, Rosado-de-Castro PH, Ruscher K, Wang YJ, Wu H, Zille M, Li S, Boltze J. Join us on an amazing journey towards next-generation treatments for CNS disorders: Launch of Neuroprotection, a new high-quality journal in translational neuroscience. Neuroprotection. 2023 Sep;1(1):5-8. doi: 10.1002/nep3.8. Epub 2022 Sep 3. PMID: 37701815; PMCID: PMC10494522.
Liang Y, Lu R, Borges K, Ji N. Stimulus edges induce orientation tuning in superior colliculus. Nat Commun. 2023 Aug 8;14(1):4756. doi: 10.1038/s41467-023-40444-1. PMID: 37553352; PMCID: PMC10409754.
Sarker S, Colton A, Wen Z, Xu X, Erdi M, Jones A, Kofinas P, Tubaldi E, Walczak P, Janowski M, Liang Y, Sochol RD. 3D-Printed Microinjection Needle Arrays via a Hybrid DLP-Direct Laser Writing Strategy. Adv Mater Technol. 2023 Mar 10;8(5):2201641. doi: 10.1002/admt.202201641. Epub 2023 Feb 5. PMID: 37064271; PMCID: PMC10104452.
Chu C, Jablonska A, Gao Y, Lan X, Lesniak WG, Liang Y, Liu G, Li S, Magnus T, Pearl M, Janowski M, Walczak P. Hyperosmolar blood-brain barrier opening using intra-arterial injection of hyperosmotic mannitol in mice under real-time MRI guidance. Nat Protoc. 2022 Jan;17(1):76-94. doi: 10.1038/s41596-021-00634-x. Epub 2021 Dec 13. PMID: 34903870; PMCID: PMC9844550.
Liang Y, de la Prida LM. Optical and genetic tools for in vivo single cell tracking. J Neurosci Methods. 2021 Jul 1;358:109192. doi: 10.1016/j.jneumeth.2021.109192. Epub 2021 Apr 10. PMID: 33848560.
Liang Y, Walczak P. Long term intravital single cell tracking under multiphoton microscopy. J Neurosci Methods. 2021 Feb 1;349:109042. doi: 10.1016/j.jneumeth.2020.109042. Epub 2020 Dec 16. PMID: 33340557.
Rodríguez C, Chen A, Rivera JA, Mohr MA, Liang Y, Natan RG, Sun W, Milkie DE, Bifano TG, Chen X, Ji N. An adaptive optics module for deep tissue multiphoton imaging in vivo. Nat Methods. 2021 Oct;18(10):1259-1264. doi: 10.1038/s41592-021-01279-0. Epub 2021 Oct 4. PMID: 34608309; PMCID: PMC9090585.
Liang Y, Fan JL, Sun W, Lu R, Chen M, Ji N. A Distinct Population of L6 Neurons in Mouse V1 Mediate Cross-Callosal Communication. Cereb Cortex. 2021 Jul 29;31(9):4259-4273. doi: 10.1093/cercor/bhab084. PMID: 33987642; PMCID: PMC8328214.
Li S, Rao JH, Lan XY, Li X, Chu CY, Liang Y, Janowski M, Zhang HT, Walczak P. White matter demyelination predates axonal injury after ischemic stroke in cynomolgus monkeys. Exp Neurol. 2021 Jun;340:113655. doi: 10.1016/j.expneurol.2021.113655. Epub 2021 Feb 19. PMID: 33617887.
Wang R, Chu C, Wei Z, Chen L, Xu J, Liang Y, Janowski M, Stevens RD, Walczak P. Traumatic brain injury does not disrupt costimulatory blockade-induced immunological tolerance to glial-restricted progenitor allografts. J Neuroinflammation. 2021 Apr 30;18(1):104. doi: 10.1186/s12974-021-02152-9. PMID: 33931070; PMCID: PMC8088005.
Lu R*, Liang Y*, Meng G*, Zhou P, Svoboda K, Paninski L and Ji N. Rapid mesoscale volumetric imaging of neural activity with synaptic resolution. Nature Methods. 2020 Mar;17(3):291-294. *Equal contribution.
Wu J, Liang Y, Chen S, Hsu CL, Chavarha M, Evans SW, Shi D, Lin MZ, Tsia KK, Ji N. Kilohertz two-photon fluorescence microscopy imaging of neural activity in vivo. Nat Methods. 2020 Mar;17(3):287-290. doi: 10.1038/s41592-020-0762-7. Epub 2020 Mar 2. PMID: 32123392; PMCID: PMC7199528.
Lan X, Kedziorek DA, Chu C, Jablonska A, Li S, Kai M, Liang Y, Janowski M, Walczak P. Modeling human pediatric and adult gliomas in immunocompetent mice through costimulatory blockade. Oncoimmunology. 2020 Jun 5;9(1):1776577. doi: 10.1080/2162402X.2020.1776577. PMID: 32923139; PMCID: PMC7458632.
Liang Y, Garaschuk O. Labeling Microglia with Genetically Encoded Calcium Indicators. Methods Mol Biol. 2019;2034:243-265. doi: 10.1007/978-1-4939-9658-2_18. PMID: 31392690.
Turcotte R, Liang Y, Tanimoto M, Zhang Q, Li Z, Koyama M, Betzig E, Ji N. Dynamic super-resolution structured illumination imaging in the living brain. Proc Natl Acad Sci U S A. 2019 May 7;116(19):9586-9591. doi: 10.1073/pnas.1819965116. Epub 2019 Apr 26. PMID: 31028150; PMCID: PMC6511017.
Meng G, Liang Y, Sarsfield S, Jiang WC, Lu R, Dudman JT, Aponte Y, Ji N. High-throughput synapse-resolving two-photon fluorescence microendoscopy for deep-brain volumetric imaging in vivo. Elife. 2019 Jan 4;8:e40805. doi: 10.7554/eLife.40805. PMID: 30604680; PMCID: PMC6338462.
Broussard GJ, Liang Y, Fridman M, Unger EK, Meng G, Xiao X, Ji N, Petreanu L, Tian L. In vivo measurement of afferent activity with axon-specific calcium imaging. Nat Neurosci. 2018 Sep;21(9):1272-1280. doi: 10.1038/s41593-018-0211-4. Epub 2018 Aug 20. PMID: 30127424; PMCID: PMC6697169.
Rodríguez C, Liang Y, Lu R, Ji N. Three-photon fluorescence microscopy with an axially elongated Bessel focus. Opt Lett. 2018 Apr 15;43(8):1914-1917. doi: 10.1364/OL.43.001914. PMID: 29652397; PMCID: PMC5986555.
Liang Y, Zhang J, Walczak P, Bulte JWM. Quantification of motor neuron loss and muscular atrophy in ricin-induced focal nerve injury. J Neurosci Methods. 2018 Oct 1;308:142-150. doi: 10.1016/j.jneumeth.2018.07.014. Epub 2018 Jul 26. PMID: 30056087; PMCID: PMC6251705.
Lu R, Sun W, Liang Y, Kerlin A, Bierfeld J, Seelig JD, Wilson DE, Scholl B, Mohar B, Tanimoto M, Koyama M, Fitzpatrick D, Orger MB, Ji N. Video-rate volumetric functional imaging of the brain at synaptic resolution. Nat Neurosci. 2017 Apr;20(4):620-628. doi: 10.1038/nn.4516. Epub 2017 Feb 27. PMID: 28250408; PMCID: PMC5374000.
Turcotte R, Liang Y, Ji N. Adaptive optical versus spherical aberration corrections for in vivo brain imaging. Biomed Opt Express. 2017 Jul 31;8(8):3891-3902. doi: 10.1364/BOE.8.003891. PMID: 28856058; PMCID: PMC5560849.
Askew K, Li K, Olmos-Alonso A, Garcia-Moreno F, Liang Y, Richardson P, Tipton T, Chapman MA, Riecken K, Beccari S, Sierra A, Molnár Z, Cragg MS, Garaschuk O, Perry VH, Gomez-Nicola D. Coupled Proliferation and Apoptosis Maintain the Rapid Turnover of Microglia in the Adult Brain. Cell Rep. 2017 Jan 10;18(2):391-405. doi: 10.1016/j.celrep.2016.12.041. PMID: 28076784; PMCID: PMC5263237.
Liang Y, Li K, Riecken K, Maslyukov A, Gomez-Nicola D, Kovalchuk Y, Fehse B, Garaschuk O. Long-term in vivo single-cell tracking reveals the switch of migration patterns in adult-born juxtaglomerular cells of the mouse olfactory bulb. Cell Res. 2016 Jul;26(7):805-21. doi: 10.1038/cr.2016.55. Epub 2016 May 13. PMID: 27174051; PMCID: PMC5129877.
Liang Y, Bar-Shir A, Song X, Gilad AA, Walczak P, Bulte JW. Label-free imaging of gelatin-containing hydrogel scaffolds. Biomaterials. 2015 Feb;42:144-50. doi: 10.1016/j.biomaterials.2014.11.050. Epub 2014 Dec 16. PMID: 25542802; PMCID: PMC4279110.
Kovalchuk Y, Homma R, Liang Y, Maslyukov A, Hermes M, Thestrup T, Griesbeck O, Ninkovic J, Cohen LB, Garaschuk O. In vivo odourant response properties of migrating adult-born neurons in the mouse olfactory bulb. Nat Commun. 2015 Feb 19;6:6349. doi: 10.1038/ncomms7349. PMID: 25695931.
Bar-Shir A, Liang Y, Chan KW, Gilad AA, Bulte JW. Supercharged green fluorescent proteins as bimodal reporter genes for CEST MRI and optical imaging. Chem Commun (Camb). 2015 Mar 21;51(23):4869-71. doi: 10.1039/c4cc10195b. PMID: 25697683; PMCID: PMC4485562.
Brawek B, Schwendele B, Riester K, Kohsaka S, Lerdkrai C, Liang Y, Garaschuk O. Impairment of in vivo calcium signaling in amyloid plaque-associated microglia. Acta Neuropathol. 2014 Apr;127(4):495-505. doi: 10.1007/s00401-013-1242-2. Epub 2014 Jan 10. PMID: 24407428.
Thestrup T, Litzlbauer J, Bartholomäus I, Mues M, Russo L, Dana H, Kovalchuk Y, Liang Y, Kalamakis G, Laukat Y, Becker S, Witte G, Geiger A, Allen T, Rome LC, Chen TW, Kim DS, Garaschuk O, Griesinger C, Griesbeck O. Optimized ratiometric calcium sensors for functional in vivo imaging of neurons and T lymphocytes. Nat Methods. 2014 Feb;11(2):175-82. doi: 10.1038/nmeth.2773. Epub 2014 Jan 5. PMID: 24390440.
Bar-Shir A, Liu G, Liang Y, Yadav NN, McMahon MT, Walczak P, Nimmagadda S, Pomper MG, Tallman KA, Greenberg MM, van Zijl PC, Bulte JW, Gilad AA. Transforming thymidine into a magnetic resonance imaging probe for monitoring gene expression. J Am Chem Soc. 2013 Jan 30;135(4):1617-24. doi: 10.1021/ja312353e. Epub 2013 Jan 16. PMID: 23289583; PMCID: PMC3560322.
Liang Y, Ågren L, Lyczek A, Walczak P, Bulte JW. Neural progenitor cell survival in mouse brain can be improved by co-transplantation of helper cells expressing bFGF under doxycycline control. Exp Neurol. 2013 Sep;247:73-9. doi: 10.1016/j.expneurol.2013.04.001. Epub 2013 Apr 6. PMID: 23570903; PMCID: PMC3742733.
Lin S, Liang Y, Zhang J, Bian C, Zhou H, Guo Q, Xiong Y, Li S, Su B. Microglial TIR-domain-containing adapter-inducing interferon-β (TRIF) deficiency promotes retinal ganglion cell survival and axon regeneration via nuclear factor-κB. J Neuroinflammation. 2012 Feb 24;9:39. doi: 10.1186/1742-2094-9-39. Erratum in: J Neuroinflammation. 2013;10:48. PMID: 22361049; PMCID: PMC3471332.
Liang Y, Walczak P, Bulte JW. Comparison of red-shifted firefly luciferase Ppy RE9 and conventional Luc2 as bioluminescence imaging reporter genes for in vivo imaging of stem cells. J Biomed Opt. 2012 Jan;17(1):016004. doi: 10.1117/1.JBO.17.1.016004. PMID: 22352654; PMCID: PMC3380811.
Liang Y, Lin S, Zou L, Zhou H, Zhang J, Su B, Wan Y. Expression profiling of Rab GTPases reveals the involvement of Rab20 and Rab32 in acute brain inflammation in mice. Neurosci Lett. 2012 Oct 11;527(2):110-4. doi: 10.1016/j.neulet.2012.08.039. Epub 2012 Aug 29. PMID: 22960262.
Song X, Gilad AA, Joel S, Liu G, Bar-Shir A, Liang Y, Gorelik M, Pekar JJ, van Zijl PC, Bulte JW, McMahon MT. CEST phase mapping using a length and offset varied saturation (LOVARS) scheme. Magn Reson Med. 2012 Oct;68(4):1074-86. doi: 10.1002/mrm.23312. Epub 2012 Jan 13. PMID: 22246684; PMCID: PMC3336046.
Liu G, Liang Y, Bar-Shir A, Chan KW, Galpoththawela CS, Bernard SM, Tse T, Yadav NN, Walczak P, McMahon MT, Bulte JW, van Zijl PC, Gilad AA. Monitoring enzyme activity using a diamagnetic chemical exchange saturation transfer magnetic resonance imaging contrast agent. J Am Chem Soc. 2011 Oct 19;133(41):16326-9. doi: 10.1021/ja204701x. Epub 2011 Sep 23. PMID: 21919523; PMCID: PMC3201833.
Guo Q, Li S, Liang Y, Zhang Y, Zhang J, Wen C, Lin S, Wang H, Su B. Effects of C3 deficiency on inflammation and regeneration following spinal cord injury in mice. Neurosci Lett. 2010 Nov 12;485(1):32-6. doi: 10.1016/j.neulet.2010.08.056. Epub 2010 Aug 26. PMID: 20800648.
Zhang Y, Li S, Liang Y, Wen C, Guo Q, Su B. Potential mechanisms of neuroprotection induced by low dose total-body gamma-irradiation in C57 mice administered with 1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine (MPTP). Neurosci Lett. 2009 Jan 30;450(2):106-10. doi: 10.1016/j.neulet.2008.11.040. Epub 2008 Nov 21. PMID: 19041369.
Liang Y, Li S, Wen C, Zhang Y, Guo Q, Wang H, Su B. Intrastriatal injection of colchicine induces striatonigral degeneration in mice. J Neurochem. 2008 Aug;106(4):1815-27. doi: 10.1111/j.1471-4159.2008.05526.x. Epub 2008 Jun 28. PMID: 18564367.
Wen C, Li S, Wang H, Zhang J, Liang Y, Guo Q, Zhang Y, Xiao C, Su B. Hybrid synapse formation between spinal motoneurons and superior cervical ganglion neurons in vitro: a study of the functional reconstruction of visceral organs. Auton Neurosci. 2008 Dec 15;144(1-2):83-8. doi: 10.1016/j.autneu.2008.09.004. Epub 2008 Oct 26. PMID: 18955021.
Liang Y, Li S, Guo Q, Zhang Y, Wen C, Zou Q, Su B. Complement 3-deficient mice are not protected against MPTP-induced dopaminergic neurotoxicity. Brain Res. 2007 Oct 31;1178:132-40. doi: 10.1016/j.brainres.2007.08.033. Epub 2007 Aug 23. Erratum in: Brain Res. 2008 Feb 21;1195:139. Zhang, Yanliang [corrected to Zhang, Yanling]. PMID: 17900537.
Liang Y, Li S, Zou Q, Su B. Potential neuroprotective effect of low dose whole-body gamma-irradiation against 1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine (MPTP)-induced dopaminergic toxicity in C57 mice. Neurosci Lett. 2006 Jun 12;400(3):213-7. doi: 10.1016/j.neulet.2006.02.061. Epub 2006 Mar 15. PMID: 16540245.