Journal Articles

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*[https://www.nature.com/articles/s41598-017-05614-4?WT.feed_name=subjects_neurochemistry Pathways to clincial CLARITY: volumetric analysis of irregular, soft, and heterogeneous tissues in development and disease] B Hsueh, VM Burns, P Pauerstein, K Holzem, L Ye, K Engberg, A-C Wang, X Gu, H Chakravarthy, HE Arda, G Charville, H Vogel, IR Efimov, S Kim, and K Deisseroth. ''Scientific Reports'' 2017, 7: 5899.
 
*[https://www.nature.com/articles/s41598-017-05614-4?WT.feed_name=subjects_neurochemistry Pathways to clincial CLARITY: volumetric analysis of irregular, soft, and heterogeneous tissues in development and disease] B Hsueh, VM Burns, P Pauerstein, K Holzem, L Ye, K Engberg, A-C Wang, X Gu, H Chakravarthy, HE Arda, G Charville, H Vogel, IR Efimov, S Kim, and K Deisseroth. ''Scientific Reports'' 2017, 7: 5899.
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*[https://link.springer.com/article/10.1007%2Fs00429-017-1583-z Quantitative validation of immunofluorescence and lectin staining using reduced CLARITY acrylamide formulations] DM Krolewski, V Kumar, B Martin, R Tomer, K Deisseroth, RM Myers, AF Schatzberg, FS Lee, JD Barchas, WE Bunney, H Akil, and SJ Watson Jr. ''Brain Structure and Function'' 2017, doi: 10.1007/s00429-017-1583-z
   
 
==ETC Technology==
 
==ETC Technology==
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*[http://pubs.acs.org/doi/abs/10.1021/jacs.7b04022 Three-dimensional imaging of transparent tissues via metal nanoparticle labeling] AM Syed, S Sindhwani, S Wilhelm, BR Kingston, DSW Lee, JL Gommerman, and WCW Chan. ''Journal of the American Chemical Society'' 2017, 139: 9961-9971.
 
*[http://pubs.acs.org/doi/abs/10.1021/jacs.7b04022 Three-dimensional imaging of transparent tissues via metal nanoparticle labeling] AM Syed, S Sindhwani, S Wilhelm, BR Kingston, DSW Lee, JL Gommerman, and WCW Chan. ''Journal of the American Chemical Society'' 2017, 139: 9961-9971.
   
==Analysis Using CLARITY==
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==Neural Analysis Using CLARITY==
 
*[http://clarityresourcecenter.org/pdfs/spence.pdf Bringing CLARITY to gray matter atrophy] RD Spence, F Kurth, N Itoh, CRL Mongerson, SH Wailes, MS Peng, and AJ MacKenzie-Graham. ''NeuroImage'' 2014, 101: 625-632.
 
*[http://clarityresourcecenter.org/pdfs/spence.pdf Bringing CLARITY to gray matter atrophy] RD Spence, F Kurth, N Itoh, CRL Mongerson, SH Wailes, MS Peng, and AJ MacKenzie-Graham. ''NeuroImage'' 2014, 101: 625-632.
   
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*[http://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.2001392 Chrna2-Martinotti cells synchronize layer 5 type A pyramidal cells via rebound excitation] MM Hilscher, RN Leao, SJ Edwards, KE Leao, and K Kullander. ''PLoS Biology'' 2017, 15(2): e2001392.
 
*[http://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.2001392 Chrna2-Martinotti cells synchronize layer 5 type A pyramidal cells via rebound excitation] MM Hilscher, RN Leao, SJ Edwards, KE Leao, and K Kullander. ''PLoS Biology'' 2017, 15(2): e2001392.
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*[https://www.jci.org/articles/view/92300 Enhanced astrocytic D-serine underlies synaptic damage after traumatic brain injury] EJ Perez, SA Tapanes, ZB Loris, DT Balu, TJ Sick, JT Coyle, and DJ Liebl. ''Journal of Clinical Investigation'' 2017, 127(8):3114–3125.
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*[https://www.frontiersin.org/articles/10.3389/fimmu.2019.02675/full Orthopedic surgery triggers attention deficits in a delirium-like mouse model] R Velagapudi, S Subramaniyan, C Xiong, F Porkka, RM Rodriguiz, WC Wetsel, and N Terrando. ''Frontiers in Immunology'' 2019, 10(2675).
   
 
==CLARITY of rat tissue==
 
==CLARITY of rat tissue==
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==CLARITY of the pancreas==
 
==CLARITY of the pancreas==
 
*[http://www.nature.com/articles/ncomms12685 Clonal dynamics following p53 loss of heterozygosity in ''Kras''-driven cancers] MD Muzumdar, KJ Dorans, KM Chung, R Robbins, T Tammela, V Gocheva, CM-C Li, and T Jacks. ''Nature Communications'' 2016, 7: 12685.
 
*[http://www.nature.com/articles/ncomms12685 Clonal dynamics following p53 loss of heterozygosity in ''Kras''-driven cancers] MD Muzumdar, KJ Dorans, KM Chung, R Robbins, T Tammela, V Gocheva, CM-C Li, and T Jacks. ''Nature Communications'' 2016, 7: 12685.
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==CLARITY of the spleen==
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*[http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0182416 Neuroanatomy of the spleen: mapping the relationship between sympathetic neurons and lymphocytes] K Murray, DR Godinez, I Brust-Mascher, EN Miller, MG Gareau, C Reardon. ''PLoS One'' 2017, 12(7): e0182416.
   
 
==CLARITY of mammary glands==
 
==CLARITY of mammary glands==
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*[http://www.nature.com/npp/journal/v42/n3/full/npp2016156a.html CYP3A5 mediates effects of cocaine on human neocorticogenesis: studies using an ''in vitro'' 3D self-organized hPSC model with a single cortex-like unit] C-T Lee, J Chen, AA Kindberg, RM Bendriem, CE Spivak, MP Williams, CT Richie, A Handreck, BS Mallon, CR Lupica, D-T Lin, BK Harvey, DC Mash, and WJ Freed. ''Neuropsychopharmacology'' 2017, 42: 774-784.
 
*[http://www.nature.com/npp/journal/v42/n3/full/npp2016156a.html CYP3A5 mediates effects of cocaine on human neocorticogenesis: studies using an ''in vitro'' 3D self-organized hPSC model with a single cortex-like unit] C-T Lee, J Chen, AA Kindberg, RM Bendriem, CE Spivak, MP Williams, CT Richie, A Handreck, BS Mallon, CR Lupica, D-T Lin, BK Harvey, DC Mash, and WJ Freed. ''Neuropsychopharmacology'' 2017, 42: 774-784.
   
==CLARITY extensions, variations, and new directions==
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==CLARITY Extensions and Variations: Hydrogel-Tissue Chemistry Techniques==
*[http://www.nature.com/neuro/journal/v16/n8/full/nn.3447.html SeeDB: a simple and morphology-preserving optical clearing agent for neuronal circuit reconstruction] M-T Ke, S Fujimoto, and T Imai. ''Nature Neuroscience'' 2013, 16: 1154-1161.
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*[http://clarityresourcecenter.org/pdfs/gr.pdf Single-cell phenotyping within transparent intact tissue through whole-body clearing] B Yang, JB Treweek, RP Kulkarni, BE Deverman, C-K Chen, E Lubeck, S Shah, L Cai, and V Gradinaru. ''Cell'' 2014, 158: 945-958.
   
*[http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0084321 Structural stabilization of tissue for embryo phenotyping using micro-CT with iodine staining] MD Wong, S Spring, and RM Henkelman. ''PLoS One'' 2013, 8(12): e84321.
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*[http://science.sciencemag.org/content/347/6221/543 Expansion microscopy] F Chen, PW Tillberg, ES Boyden. ''Science'' 2015, 347: 543-548.
   
*[http://clarityresourcecenter.org/pdfs/gr.pdf Single-cell phenotyping within transparent intact tissue through whole-body clearing] B Yang, JB Treweek, RP Kulkarni, BE Deverman, C-K Chen, E Lubeck, S Shah, L Cai, and V Gradinaru. ''Cell'' 2014, 158: 945-958.
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*[http://www.cell.com/cell/abstract/S0092-8674(15)01505-6 Simple, scalable proteomic imaging for high-dimensional profiling of intact systems] E Murray, JH Cho, D Goodwin, T Ku, J Swaney, S-Y Kim, H Choi, Y-G Park, J-Y Park, A Hubbert, M McCue, S Vassallo, N Bakh, MP Frosch, VJ Wedeen, HS Seung, and K Chung. ''Cell'' 2015, 163: 1500-1514.
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*[http://www.nature.com/nprot/journal/v10/n11/full/nprot.2015.122.html Whole-body tissue stabilization and selective extractions via tissue-hydrogel hybrids for high-resolution intact circuit mapping and phenotyping] JB Treweek, KY Chan, NC Flytzanis, B Yang, BE Deverman, A Greenbaum, A Lignell, C Xiao, L Cai, MS Ladinsky, PJ Bjorkman, CC Fowlkes, and V Gradinaru. ''Nature Protocols'' 2015, 10: 1860-1896.
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*[http://www.pnas.org/content/113/52/14915 Clarifying intact 3D tissues on a microfluidic chip for high-throughput structural analysis] YY Chen, PN Silva, AM Syed, S Sindhwani, JV Rocheleau, and WCW Chan. ''PNAS'' 2016, 113: 14915-14920.
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*[https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5192069/ Optimization of the optical transparency of rodent tissues by modified PACT-based passive clearing] J Woo, M Lee, JM Seo, HS Park, and YE Cho. ''Experimental & Molecular Medicine'' 2016, 48(12): e274.
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*[http://www.nature.com/nbt/journal/v34/n9/full/nbt.3641.html?foxtrotcallback=true Multiplexed and scalable super-resolution imaging of three-dimensional protein localization in size-adjustable tissues] T Ku, J Swaney, J-Y Park, A Albanese, E Murray, JH Cho, Y-G Park, V Mangena, J Chen, and K Chung. ''Nature Biotechnology'' 2016, 34(9): 973-981.
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*[http://www.nature.com/articles/srep38848 Elevated-temperature-induced acceleration of PACT clearing process of mouse brain tissue] T Yu, Y Qi, J Zhu, J Xu, H Gong, Q Luo, and D Zhu. ''Scientific Reports'' 2017, 7: 38848.
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==Other Tissue Clearing Techniques==
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*[http://www.nature.com/neuro/journal/v16/n8/full/nn.3447.html SeeDB: a simple and morphology-preserving optical clearing agent for neuronal circuit reconstruction] M-T Ke, S Fujimoto, and T Imai. ''Nature Neuroscience'' 2013, 16: 1154-1161.
   
 
*[http://clarityresourcecenter.org/pdfs/cubic.pdf Whole-brain imaging with single-cell resolution using chemical cocktails and computational analysis] EA Susaki, K Tainaka, D Perrin, F Kishino, T Tawara, TM Watanabe, C Yokoyama, H Onoe, M Eguchi, S Yamaguchi, T Abe, H Kiyonari, Y Shimizu, A Miyawaki, H Yokota, and HR Ueda. ''Cell'' 2014, 157: 726-739.
 
*[http://clarityresourcecenter.org/pdfs/cubic.pdf Whole-brain imaging with single-cell resolution using chemical cocktails and computational analysis] EA Susaki, K Tainaka, D Perrin, F Kishino, T Tawara, TM Watanabe, C Yokoyama, H Onoe, M Eguchi, S Yamaguchi, T Abe, H Kiyonari, Y Shimizu, A Miyawaki, H Yokota, and HR Ueda. ''Cell'' 2014, 157: 726-739.
   
 
*[http://www.cell.com/abstract/S0092-8674(14)01297-5 iDISCO: A simple, rapid method to immunolabel large tissue samples for volume imaging] N Renier, Z Wu, DJ Simon, J Yang, P Ariel, M Tessier-Lavigne. ''Cell'' 2014, 159: 896-910.
 
*[http://www.cell.com/abstract/S0092-8674(14)01297-5 iDISCO: A simple, rapid method to immunolabel large tissue samples for volume imaging] N Renier, Z Wu, DJ Simon, J Yang, P Ariel, M Tessier-Lavigne. ''Cell'' 2014, 159: 896-910.
 
*[http://science.sciencemag.org/content/347/6221/543 Expansion microscopy] F Chen, PW Tillberg, ES Boyden. ''Science'' 2015, 347: 543-548.
 
   
 
*[http://clarityresourcecenter.org/pdfs/Constantini2015.pdf A versatile clearing agent for multi-modal brain imaging] I Costantini, J-P Ghobril, AP Di Giovanna, ALA Mascaro, L Silvestri, MC Mullenbroich, L Onofri, V Conti, F Vanzi, L Sacconi, R Guerrini, H Markram, G Iannello, and FS Pavone. ''Scientific Reports'' 2015, 5: 9808
 
*[http://clarityresourcecenter.org/pdfs/Constantini2015.pdf A versatile clearing agent for multi-modal brain imaging] I Costantini, J-P Ghobril, AP Di Giovanna, ALA Mascaro, L Silvestri, MC Mullenbroich, L Onofri, V Conti, F Vanzi, L Sacconi, R Guerrini, H Markram, G Iannello, and FS Pavone. ''Scientific Reports'' 2015, 5: 9808
   
 
*[http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0116280 A rapid optical clearing protocol using 2,2'-thiodiethanol for microscopic observation of fixed mouse brain] Y Aoyagi, R Kawakami, H Osanai, T Hibi, and T Nemoto. ''PLoS One'' 2015, 10(1): e0116280.
 
*[http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0116280 A rapid optical clearing protocol using 2,2'-thiodiethanol for microscopic observation of fixed mouse brain] Y Aoyagi, R Kawakami, H Osanai, T Hibi, and T Nemoto. ''PLoS One'' 2015, 10(1): e0116280.
 
*[http://www.cell.com/cell/abstract/S0092-8674(15)01505-6 Simple, scalable proteomic imaging for high-dimensional profiling of intact systems] E Murray, JH Cho, D Goodwin, T Ku, J Swaney, S-Y Kim, H Choi, Y-G Park, J-Y Park, A Hubbert, M McCue, S Vassallo, N Bakh, MP Frosch, VJ Wedeen, HS Seung, and K Chung. ''Cell'' 2015, 163: 1500-1514.
 
   
 
*[https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4338786/ Scalable and Dil-compatible optical clearance of the mammalian brain] B Hou, D Zhang, S Zhao, M Wei, Z Yang, S Wang, J Wang, X Zhang, B Liu, L Fan, Y Li, Z Qiu, C Zhang, and T Jiang. ''Frontiers in Neuroanatomy'' 2015, 9: 19.
 
*[https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4338786/ Scalable and Dil-compatible optical clearance of the mammalian brain] B Hou, D Zhang, S Zhao, M Wei, Z Yang, S Wang, J Wang, X Zhang, B Liu, L Fan, Y Li, Z Qiu, C Zhang, and T Jiang. ''Frontiers in Neuroanatomy'' 2015, 9: 19.
   
 
*[http://dev.biologists.org/content/142/23/4168 ClearSee: A rapid optical clearing reagent for whole-plant fluorescence imaging] D Kurihara, Y Mizuta, Y Sato, and T Higashiyama. ''Development'' 2015, 142: 4168-4179.
 
*[http://dev.biologists.org/content/142/23/4168 ClearSee: A rapid optical clearing reagent for whole-plant fluorescence imaging] D Kurihara, Y Mizuta, Y Sato, and T Higashiyama. ''Development'' 2015, 142: 4168-4179.
 
*[http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0142974 A novel procedure for rapid imaging of adult mouse brains with MicroCT using iodine-based contrast] R Anderson and A Murat Maga. ''PLoS One'' 2015, 10(11): e0142974.
 
   
 
*[http://www.nature.com/neuro/journal/v18/n10/full/nn.4107.html Sca''l''eS: An optical clearing palette for biological imaging] H Hama, H Hioki, K Namiki, T Hoshida, H Kurokawa, F Ishidate, T Kaneko, T Akagi, T Saito, T Saido, and A Miyawaki. ''Nature Neuroscience'' 2015, 18: 1518-1529.
 
*[http://www.nature.com/neuro/journal/v18/n10/full/nn.4107.html Sca''l''eS: An optical clearing palette for biological imaging] H Hama, H Hioki, K Namiki, T Hoshida, H Kurokawa, F Ishidate, T Kaneko, T Akagi, T Saito, T Saido, and A Miyawaki. ''Nature Neuroscience'' 2015, 18: 1518-1529.
 
*[http://www.nature.com/nprot/journal/v10/n11/full/nprot.2015.122.html Whole-body tissue stabilization and selective extractions via tissue-hydrogel hybrids for high-resolution intact circuit mapping and phenotyping] JB Treweek, KY Chan, NC Flytzanis, B Yang, BE Deverman, A Greenbaum, A Lignell, C Xiao, L Cai, MS Ladinsky, PJ Bjorkman, CC Fowlkes, and V Gradinaru. ''Nature Protocols'' 2015, 10: 1860-1896.
 
   
 
*[http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0124650 Fluorescent-protein stabilization and high-resolution imaging of cleared, intact mouse brains] MK Schwarz, A Scherbarth, R Sprengel, J Engelhardt, P Theer, G Giese. ''PLoS One'' 2015, 10(5): e0124650.
 
*[http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0124650 Fluorescent-protein stabilization and high-resolution imaging of cleared, intact mouse brains] MK Schwarz, A Scherbarth, R Sprengel, J Engelhardt, P Theer, G Giese. ''PLoS One'' 2015, 10(5): e0124650.
 
*[http://www.pnas.org/content/113/52/14915 Clarifying intact 3D tissues on a microfluidic chip for high-throughput structural analysis] YY Chen, PN Silva, AM Syed, S Sindhwani, JV Rocheleau, and WCW Chan. ''PNAS'' 2016, 113: 14915-14920.
 
   
 
*[http://www.nature.com/articles/srep30736 Simplified three-dimensional tissue clearing and incorporation of colorimetric phenotyping] K Sung, Y Ding, J Ma, H Chen, V Huang, M Cheng, CF Yang, JT Kim, D Eguchi, D Di Carlo, TK Hsiai, A Nakano, and RP Kulkarni. ''Scientific Reports'' 2016, 6: 30736.
 
*[http://www.nature.com/articles/srep30736 Simplified three-dimensional tissue clearing and incorporation of colorimetric phenotyping] K Sung, Y Ding, J Ma, H Chen, V Huang, M Cheng, CF Yang, JT Kim, D Eguchi, D Di Carlo, TK Hsiai, A Nakano, and RP Kulkarni. ''Scientific Reports'' 2016, 6: 30736.
   
 
*[https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4928791/ Rationalisation and validation of an acrylamide-free procedure in three-dimensional histological imaging] HM Lai, AKL Liu, W-L Ng, J DeFelice, WS Lee, H Li, W Li, HM Ng, RC-C Chang, B Lin, W Wu, and SM Gentleman. ''PLoS One'' 2016, 11(6): e0158628.
 
*[https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4928791/ Rationalisation and validation of an acrylamide-free procedure in three-dimensional histological imaging] HM Lai, AKL Liu, W-L Ng, J DeFelice, WS Lee, H Li, W Li, HM Ng, RC-C Chang, B Lin, W Wu, and SM Gentleman. ''PLoS One'' 2016, 11(6): e0158628.
 
*[https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5192069/ Optimization of the optical transparency of rodent tissues by modified PACT-based passive clearing] J Woo, M Lee, JM Seo, HS Park, and YE Cho. ''Experimental & Molecular Medicine'' 2016, 48(12): e274.
 
   
 
*[http://www.nature.com/articles/srep35606 A combined method for correlative 3D imaging of biological samples from macro to nano scale] M Kellner, M Heidrich, R-A Lorbeer, GC Antonopoulos, L Knudsen, C Wrede, N Izykowski, R Grothausmann, D Jonigk, M Ochs, T Ripken, MP Kuhnel, and H Meyer. ''Scientific Reports'' 2016, 6: 35606.
 
*[http://www.nature.com/articles/srep35606 A combined method for correlative 3D imaging of biological samples from macro to nano scale] M Kellner, M Heidrich, R-A Lorbeer, GC Antonopoulos, L Knudsen, C Wrede, N Izykowski, R Grothausmann, D Jonigk, M Ochs, T Ripken, MP Kuhnel, and H Meyer. ''Scientific Reports'' 2016, 6: 35606.
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*[http://pubs.acs.org/doi/full/10.1021/acsnano.6b00142 Optical clearing delivers ultrasensitive hyperspectral dark-field imaging for single-cell evaluation] Y Cui, X Wang, W Ren, J Liu, and J Irudayaraj. ''ACS Nano'' 2016, 10: 3132-3143.
 
*[http://pubs.acs.org/doi/full/10.1021/acsnano.6b00142 Optical clearing delivers ultrasensitive hyperspectral dark-field imaging for single-cell evaluation] Y Cui, X Wang, W Ren, J Liu, and J Irudayaraj. ''ACS Nano'' 2016, 10: 3132-3143.
 
*[http://www.nature.com/nbt/journal/v34/n9/full/nbt.3641.html?foxtrotcallback=true Multiplexed and scalable super-resolution imaging of three-dimensional protein localization in size-adjustable tissues] T Ku, J Swaney, J-Y Park, A Albanese, E Murray, JH Cho, Y-G Park, V Mangena, J Chen, and K Chung. ''Nature Biotechnology'' 2016, 34(9): 973-981.
 
 
*[http://www.nature.com/articles/srep38848 Elevated-temperature-induced acceleration of PACT clearing process of mouse brain tissue] T Yu, Y Qi, J Zhu, J Xu, H Gong, Q Luo, and D Zhu. ''Scientific Reports'' 2017, 7: 38848.
 
   
 
*[http://onlinelibrary.wiley.com/doi/10.1111/nan.12361/abstract Free of acrylamide sodium dodecyl sulphate (SDS)-based tissue clearing (FASTClear): a novel protocol of tissue clearing for three-dimensional visualization of human brain tissues] AKL Liu, HM Lai, RC-C Chang, and SM Gentleman. ''Neuropathology and Applied Neurobiology'' 2017, 43(4): 346-351.
 
*[http://onlinelibrary.wiley.com/doi/10.1111/nan.12361/abstract Free of acrylamide sodium dodecyl sulphate (SDS)-based tissue clearing (FASTClear): a novel protocol of tissue clearing for three-dimensional visualization of human brain tissues] AKL Liu, HM Lai, RC-C Chang, and SM Gentleman. ''Neuropathology and Applied Neurobiology'' 2017, 43(4): 346-351.
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*[https://www.osapublishing.org/boe/fulltext.cfm?uri=boe-8-8-3583&id=369101 Plastic embedding immunolabeled large-volume samples for three-dimensional high-resolution imaging] Y Gang, X Liu, X Wang, Q Zhang, H Zhou, R Chen, L Liu, Y Jia, F Yin, G Rao, J Chen, and S Zeng. ''Biomedical Optics Express'' 2017, 8(8): 3583-3596.
 
*[https://www.osapublishing.org/boe/fulltext.cfm?uri=boe-8-8-3583&id=369101 Plastic embedding immunolabeled large-volume samples for three-dimensional high-resolution imaging] Y Gang, X Liu, X Wang, Q Zhang, H Zhou, R Chen, L Liu, Y Jia, F Yin, G Rao, J Chen, and S Zeng. ''Biomedical Optics Express'' 2017, 8(8): 3583-3596.
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*[https://www.nature.com/articles/s41598-017-10204-5 Fast free-of-acrylamide clearing tissue (FACT) - an optimized new protocol for rapid, high-resolution imaging of three-dimensional brain tissue] N Xu, A Tamadon, Y Liu, T Ma, RK Leak, J Chen, Y Gao, and Y Feng. ''Scientific Reports'' 2017, 7: 9895.
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*[http://www.pnas.org/content/114/35/E7321.full Multiplex, quantitative cellular analysis in large tissue volumes with clearing-enhanced 3D microscopy (Ce3D)] W Li, RN Germain, and MY Gerner. ''PNAS'' 2017, 114(35): E7321-E7330.
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==Combined CLARITY and MicroCT Imaging==
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*[http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0084321 Structural stabilization of tissue for embryo phenotyping using micro-CT with iodine staining] MD Wong, S Spring, and RM Henkelman. ''PLoS One'' 2013, 8(12): e84321.
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*[http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0142974 A novel procedure for rapid imaging of adult mouse brains with MicroCT using iodine-based contrast] R Anderson and A Murat Maga. ''PLoS One'' 2015, 10(11): e0142974.
   
 
==Combined CLARITY and MRI/diffusion tensor imaging==
 
==Combined CLARITY and MRI/diffusion tensor imaging==
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*[http://journal.frontiersin.org/article/10.3389/fninf.2017.00036/full A manual segmentation tool for three-dimensional neuron datasets] C Magliaro, AL Callara, N Vanello, and A Ahluwalia. ''Frontiers in Neuroinformatics'' 2017, 11: 36.
 
*[http://journal.frontiersin.org/article/10.3389/fninf.2017.00036/full A manual segmentation tool for three-dimensional neuron datasets] C Magliaro, AL Callara, N Vanello, and A Ahluwalia. ''Frontiers in Neuroinformatics'' 2017, 11: 36.
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*[https://www.nature.com/articles/s41593-017-0027-7 An interactive framework for whole-brain maps at cellular resolution] D Furth, T Vaissiere, O Tzortzi, Y Xuan, A Martin, I Lazaridis, G Spigolon, G Fisone, R Tomer, K Deisseroth, M Carlen, CA Miller, G Rumbaugh, and K Meletis. ''Nature Neuroscience'' 2017, 21: 139-149.
   
 
==Tissue clearing review articles==
 
==Tissue clearing review articles==
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*[http://www.molcells.org/journal/view.html?doi=10.14348/molcells.2016.0088&sort=&scale=10&key=&keyword=&s_v=39&s_n=6&pn=vol&TG=vol&year=2016 Clearing and labeling techniques for large-scale biological tissues] J Seo, M Choe, and S-Y Kim. ''Molecules and Cells'' 2016, 39(6): 439-446.
 
*[http://www.molcells.org/journal/view.html?doi=10.14348/molcells.2016.0088&sort=&scale=10&key=&keyword=&s_v=39&s_n=6&pn=vol&TG=vol&year=2016 Clearing and labeling techniques for large-scale biological tissues] J Seo, M Choe, and S-Y Kim. ''Molecules and Cells'' 2016, 39(6): 439-446.
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*[https://www.sciencedirect.com/science/article/pii/S0891061817300984 Advances and perspectives in tissue clearing using CLARITY] KHR Jensen and RW Berg. ''Journal of Chemical Neuroanatomy'' 2017, 86: 19-34.

Latest revision as of 20:09, 22 November 2019

Contents

[edit] CLARITY Technique

[edit] ETC Technology

[edit] RNA detection with CLARITY

[edit] Nanoparticle detection with CLARITY

[edit] Neural Analysis Using CLARITY

  • Manipulating a "cocaine engram" in mice H-L Hsiang, JR Epp, MC van den Oever, C Yan, AJ Rashid, N Insel, L Ye, Y Niibori, K Deisseroth, PW Frankland, and SA Josselyn. The Journal of Neuroscience 2014, 34(42): 14115-14127.

[edit] CLARITY of rat tissue

[edit] CLARITY of spinal cord

[edit] CLARITY of lung tissue

[edit] CLARITY of heart tissue

[edit] CLARITY of liver tissue

[edit] CLARITY of kidney tissue

[edit] CLARITY of intestines

[edit] CLARITY of the pancreas

[edit] CLARITY of the spleen

[edit] CLARITY of mammary glands

[edit] CLARITY of ovarian tissue

[edit] CLARITY of skeletal muscle

[edit] CLARITY of bone tissue

[edit] CLARITY of eye tissue

[edit] CLARITY of mouse limbs

[edit] CLARITY of mouse skin tissue

[edit] CLARITY of embryonic tissue

[edit] CLARITY of human brain tissue

[edit] CLARITY of zebrafish

[edit] CLARITY of sea lamprey tissue

[edit] CLARITY of plants

[edit] CLARITY of organoids

[edit] CLARITY Extensions and Variations: Hydrogel-Tissue Chemistry Techniques

[edit] Other Tissue Clearing Techniques

[edit] Combined CLARITY and MicroCT Imaging

[edit] Combined CLARITY and MRI/diffusion tensor imaging

[edit] Microscopy

[edit] Data Analysis Tools

[edit] Tissue clearing review articles