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Yi Shen - Publications

Affiliations: 
University of Alberta, Edmonton, Alberta, Canada 
Area:
Protein Engineering, Fluorescent Protein, Directed Evolution, Genetically Encoded Biosensor
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39 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Aggarwal A, Sunil S, Bendifallah I, Moon M, Drobizhev M, Zarowny L, Zheng J, Wu SY, Lohman AW, Tebo AG, Emiliani V, Podgorski K, Shen Y, Campbell RE. Blue-shifted genetically encoded Ca indicator with enhanced two-photon absorption. Neurophotonics. 11: 024207. PMID 38577628 DOI: 10.1117/1.NPh.11.2.024207  0.361
2023 Ejike JO, Sadoine M, Shen Y, Ishikawa Y, Sunal E, Hänsch S, Hamacher AB, Frommer WB, Wudick MM, Campbell RE, Kleist TJ. A Monochromatically Excitable Green-Red Dual-Fluorophore Fusion Incorporating a New Large Stokes Shift Fluorescent Protein. Biochemistry. 63: 171-180. PMID 38113455 DOI: 10.1021/acs.biochem.3c00451  0.522
2023 Aggarwal A, Sunil S, Bendifallah I, Moon M, Drobizhev M, Zarowny L, Zheng J, Wu SY, Lohman AW, Tebo AG, Emiliani V, Podgorski K, Shen Y, Campbell RE. A blue-shifted genetically encoded Ca indicator with enhanced two-photon absorption. Biorxiv : the Preprint Server For Biology. PMID 37905143 DOI: 10.1101/2023.10.12.562058  0.55
2023 Shen Y, Wen Y, Sposini S, Vishwanath AA, Abdelfattah AS, Schreiter ER, Lemieux MJ, de Juan-Sanz J, Perrais D, Campbell RE. Rational Engineering of an Improved Genetically Encoded pH Sensor Based on Superecliptic pHluorin. Acs Sensors. PMID 37481776 DOI: 10.1021/acssensors.3c00484  0.549
2023 Bierbuesse F, Bourges AC, Gielen V, Mönkemöller V, Vandenberg W, Shen Y, Hofkens J, Vanden Berghe P, Campbell RE, Moeyaert B, Dedecker P. Author Correction: Absolute measurement of cellular activities using photochromic single-fluorophore biosensors and intermittent quantification. Nature Communications. 14: 2189. PMID 37069163 DOI: 10.1038/s41467-023-37856-4  0.44
2023 Gohil K, Wu SY, Takahashi-Yamashiro K, Shen Y, Campbell RE. Biosensor Optimization Using a Förster Resonance Energy Transfer Pair Based on mScarlet Red Fluorescent Protein and an mScarlet-Derived Green Fluorescent Protein. Acs Sensors. PMID 36693235 DOI: 10.1021/acssensors.2c01730  0.656
2023 Fang Y, Chang AY, Verma D, Miyashita SI, Eszterhas S, Lee PG, Shen Y, Davis LR, Dong M, Bailey-Kellogg C, Griswold KE. Functional Deimmunization of Botulinum Neurotoxin Protease Domain via Computationally Driven Library Design and Ultrahigh-Throughput Screening. Acs Synthetic Biology. PMID 36623275 DOI: 10.1021/acssynbio.2c00426  0.461
2022 Zhao Y, Takahashi-Yamashiro K, Shen Y, Campbell RE. Quantification of Intracellular Citrate Concentrations with Genetically Encoded Biosensors. Methods in Molecular Biology (Clifton, N.J.). 2564: 247-258. PMID 36107346 DOI: 10.1007/978-1-0716-2667-2_12  0.557
2022 Wu SY, Wen Y, Serre NBC, Laursen CCH, Dietz AG, Taylor BR, Drobizhev M, Molina RS, Aggarwal A, Rancic V, Becker M, Ballanyi K, Podgorski K, Hirase H, Nedergaard M, ... ... Shen Y, et al. A sensitive and specific genetically-encoded potassium ion biosensor for in vivo applications across the tree of life. Plos Biology. 20: e3001772. PMID 36067248 DOI: 10.1371/journal.pbio.3001772  0.475
2022 Wu SY, Shen Y, Shkolnikov I, Campbell RE. Fluorescent Indicators For Biological Imaging of Monatomic Ions. Frontiers in Cell and Developmental Biology. 10: 885440. PMID 35573682 DOI: 10.3389/fcell.2022.885440  0.478
2022 Bierbuesse F, Bourges AC, Gielen V, Mönkemöller V, Vandenberg W, Shen Y, Hofkens J, Berghe PV, Campbell RE, Moeyaert B, Dedecker P. Absolute measurement of cellular activities using photochromic single-fluorophore biosensors and intermittent quantification. Nature Communications. 13: 1850. PMID 35387971 DOI: 10.1038/s41467-022-29508-w  0.586
2022 Raymond MH, Davidson AJ, Shen Y, Tudor DR, Lucas CD, Morioka S, Perry JSA, Krapivkina J, Perrais D, Schumacher LJ, Campbell RE, Wood W, Ravichandran KS. Live cell tracking of macrophage efferocytosis during embryo development in vivo. Science (New York, N.Y.). 375: 1182-1187. PMID 35271315 DOI: 10.1126/science.abl4430  0.479
2021 Khan SS, Shen Y, Fatmi MQ, Campbell RE, Bokhari H. Design and Prototyping of Genetically Encoded Arsenic Biosensors Based on Transcriptional Regulator AfArsR. Biomolecules. 11. PMID 34572489 DOI: 10.3390/biom11091276  0.57
2021 Lu X, Wen Y, Zhang S, Zhang W, Chen Y, Shen Y, Lemieux MJ, Campbell RE. Photocleavable proteins that undergo fast and efficient dissociation. Chemical Science. 12: 9658-9672. PMID 34349937 DOI: 10.1039/d1sc01059j  0.527
2021 Nasu Y, Shen Y, Kramer L, Campbell RE. Structure- and mechanism-guided design of single fluorescent protein-based biosensors. Nature Chemical Biology. PMID 33558715 DOI: 10.1038/s41589-020-00718-x  0.637
2020 Lu X, Shen Y, Campbell RE. Engineering Photosensory Modules of Non-Opsin-Based Optogenetic Actuators. International Journal of Molecular Sciences. 21. PMID 32906617 DOI: 10.3390/Ijms21186522  0.476
2020 Zhao Y, Shen Y, Wen Y, Campbell RE. High-Performance Intensiometric Direct- and Inverse-Response Genetically Encoded Biosensors for Citrate. Acs Central Science. 6: 1441-1450. PMID 32875085 DOI: 10.1021/Acscentsci.0C00518  0.472
2020 Shen Y, Campbell RE, Côté DC, Paquet ME. Challenges for Therapeutic Applications of Opsin-Based Optogenetic Tools in Humans. Frontiers in Neural Circuits. 14: 41. PMID 32760252 DOI: 10.3389/Fncir.2020.00041  0.399
2020 Shen Y, Nasu Y, Shkolnikov I, Kim A, Campbell RE. Engineering genetically encoded fluorescent indicators for imaging of neuronal activity: progress and prospects. Neuroscience Research. PMID 31991206 DOI: 10.1016/J.Neures.2020.01.011  0.519
2019 Shen Y, Dana H, Abdelfattah AS, Patel R, Shea J, Molina RS, Rawal B, Rancic V, Chang YF, Wu L, Chen Y, Qian Y, Wiens MD, Hambleton N, Ballanyi K, et al. Correction to: A genetically encoded Ca indicator based on circularly permutated sea anemone red fluorescent protein eqFP578. Bmc Biology. 17: 85. PMID 31666064 DOI: 10.1186/S12915-019-0707-8  0.601
2019 Molina RS, Qian Y, Wu J, Shen Y, Campbell RE, Drobizhev M, Hughes TE. Understanding the Fluorescence Change in Red Genetically Encoded Calcium Ion Indicators. Biophysical Journal. PMID 31054773 DOI: 10.1016/J.Bpj.2019.04.007  0.596
2019 Shen Y, Wu SY, Rancic V, Aggarwal A, Qian Y, Miyashita SI, Ballanyi K, Campbell RE, Dong M. Genetically encoded fluorescent indicators for imaging intracellular potassium ion concentration. Communications Biology. 2: 18. PMID 30652129 DOI: 10.1038/s42003-018-0269-2  0.648
2018 Garland M, Babin BM, Miyashita SI, Loscher S, Shen Y, Dong M, Bogyo M. Covalent modifiers of Botulinum neurotoxin counteract toxin persistence. Acs Chemical Biology. PMID 30571080 DOI: 10.1021/Acschembio.8B00937  0.42
2018 Wannier TM, Gillespie SK, Hutchins N, McIsaac RS, Wu SY, Shen Y, Campbell RE, Brown KS, Mayo SL. Monomerization of far-red fluorescent proteins. Proceedings of the National Academy of Sciences of the United States of America. PMID 30425172 DOI: 10.1073/Pnas.1807449115  0.575
2018 Wiens MD, Shen Y, Li X, Salem MA, Smisdom N, Zhang W, Brown A, Campbell RE. Corrigendum: A Tandem Green-Red Heterodimeric Fluorescent Protein with High FRET Efficiency. Chembiochem : a European Journal of Chemical Biology. 19: 647. PMID 29575468 DOI: 10.1002/Cbic.201600638  0.61
2018 Masuyer G, Zhang S, Barkho S, Shen Y, Henriksson L, Košenina S, Dong M, Stenmark P. Structural characterisation of the catalytic domain of botulinum neurotoxin X - high activity and unique substrate specificity. Scientific Reports. 8: 4518. PMID 29540745 DOI: 10.1038/S41598-018-22842-4  0.412
2018 Shen Y, Dana H, Abdelfattah AS, Patel R, Shea J, Molina RS, Rawal B, Rancic V, Chang YF, Wu L, Chen Y, Qian Y, Wiens MD, Hambleton N, Ballanyi K, et al. A genetically encoded Ca2+ indicator based on circularly permutated sea anemone red fluorescent protein eqFP578. Bmc Biology. 16: 9. PMID 29338710 DOI: 10.1186/S12915-018-0480-0  0.64
2018 Molina RS, Shen Y, Qian Y, Campbell R, Hughes TE, Drobizhev M. Two-Photon Absorption Analysis of Red Fluorescent Genetically-Encoded Calcium Ion Indicators Biophysical Journal. 114. DOI: 10.1016/J.Bpj.2017.11.3606  0.505
2017 Zhang S, Masuyer G, Zhang J, Shen Y, Lundin D, Henriksson L, Miyashita SI, Martínez-Carranza M, Dong M, Stenmark P. Identification and characterization of a novel botulinum neurotoxin. Nature Communications. 8: 14130. PMID 28770820 DOI: 10.1038/Ncomms14130  0.411
2017 Shen Y, Chen Y, Wu J, Shaner NC, Campbell RE. Engineering of mCherry variants with long Stokes shift, red-shifted fluorescence, and low cytotoxicity. Plos One. 12: e0171257. PMID 28241009 DOI: 10.1371/Journal.Pone.0171257  0.629
2016 Wiens M, Shen Y, Li X, Salem M, Smisdom N, Zhang W, Brown A, Campbell RE. A tandem green-red heterodimeric fluorescent protein with high FRET efficiency. Chembiochem : a European Journal of Chemical Biology. PMID 27781394 DOI: 10.1002/Cbic.201600492  0.622
2016 Long M, Deng H, Tian G, Song C, Liu H, Shen Y, Lv C. A novel detection of radon based on its decay product inducing conformational changes of an aptamer probe. Analytica Chimica Acta. 936: 202-7. PMID 27566356 DOI: 10.1016/j.aca.2016.06.025  0.319
2015 Shen Y, Lai T, Campbell RE. Red fluorescent proteins (RFPs) and RFP-based biosensors for neuronal imaging applications. Neurophotonics. 2: 031203. PMID 26158012 DOI: 10.1117/1.Nph.2.3.031203  0.626
2015 Ding Y, Li J, Enterina JR, Shen Y, Zhang I, Tewson PH, Mo GC, Zhang J, Quinn AM, Hughes TE, Maysinger D, Alford SC, Zhang Y, Campbell RE. Ratiometric biosensors based on dimerization-dependent fluorescent protein exchange. Nature Methods. 12: 195-8. PMID 25622108 DOI: 10.1038/Nmeth.3261  0.578
2014 Shen Y, Rosendale M, Campbell RE, Perrais D. pHuji, a pH-sensitive red fluorescent protein for imaging of exo- and endocytosis. The Journal of Cell Biology. 207: 419-32. PMID 25385186 DOI: 10.1085/Jgp.1446Oia52  0.6
2014 Wu J, Prole DL, Shen Y, Lin Z, Gnanasekaran A, Liu Y, Chen L, Zhou H, Chen SR, Usachev YM, Taylor CW, Campbell RE. Red fluorescent genetically encoded Ca2+ indicators for use in mitochondria and endoplasmic reticulum. The Biochemical Journal. 464: 13-22. PMID 25164254 DOI: 10.1042/Bj20140931  0.642
2014 Ai HW, Baird MA, Shen Y, Davidson MW, Campbell RE. Engineering and characterizing monomeric fluorescent proteins for live-cell imaging applications Nature Protocols. 9: 910-928. PMID 24651502 DOI: 10.1038/Nprot.2014.054  0.717
2014 Shen Y, Wiens MD, Campbell RE. A photochromic and thermochromic fluorescent protein Rsc Advances. 4: 56762-56765. DOI: 10.1039/C4Ra10107C  0.565
2012 Funes-Huacca M, Wu A, Szepesvari E, Rajendran P, Kwan-Wong N, Razgulin A, Shen Y, Kagira J, Campbell R, Derda R. Portable self-contained cultures for phage and bacteria made of paper and tape. Lab On a Chip. 12: 4269-78. PMID 22895550 DOI: 10.1039/C2Lc40391A  0.401
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