Trehalose-Enhanced Isolation of Neuronal Sub-Types from Adult Mouse Brain

Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles

Subramanian, A., Tamayo, P., Mootha, V. K., Mukherjee, S., Ebert, B. L., Gillette, M. A., Paulovich, A., Pomeroy, S. L., Golub, T. R., Lander, E. S., et al. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0506580102 · Cited by 53,625 · see citing works

PGC-1α-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes

Mootha, V. K., Lindgren, C. M., Eriksson, K.-F., Subramanian, A., Sihag, S., Lehar, J., Puigserver, P., Carlsson, E., Ridderstråle, M., Laurila, E., et al. (2003) · Nature Genetics · doi:10.1038/ng1180 · Cited by 10,197 · see citing works

mRNA-Seq whole-transcriptome analysis of a single cell

Tang, F., Barbacioru, C., Wang, Y., Nordman, E., Lee, C., Xu, N., Wang, X., Bodeau, J., Tuch, B. B., Siddiqui, A., et al. (2009) · Nature Methods · doi:10.1038/nmeth.1315 · Cited by 3,969 · see citing works

Imaging Neuronal Subsets in Transgenic Mice Expressing Multiple Spectral Variants of GFP

Feng, G., Mellor, R. H., Bernstein, M., Keller-Peck, C., Nguyen, Q. T., Wallace, M., Nerbonne, J. M., Lichtman, J. W., & Sanes, J. R. (2000) · Neuron · doi:10.1016/s0896-6273(00)00084-2 · Cited by 3,042 · see citing works

Neuronal Subtype-Specific Genes that Control Corticospinal Motor Neuron Development In Vivo

Arlotta, P., Molyneaux, B. J., Chen, J., Inoue, J., Kominami, R., & Macklis, J. D. (2005) · Neuron · doi:10.1016/j.neuron.2004.12.036 · Cited by 1,157 · see citing works

Trehalose, a Novel mTOR-independent Autophagy Enhancer, Accelerates the Clearance of Mutant Huntingtin and α-Synuclein

Sarkar, S., Davies, J. E., Huang, Z., Tunnacliffe, A., & Rubinsztein, D. C. (2007) · Journal of Biological Chemistry · doi:10.1074/jbc.m609532200 · Cited by 1,142 · see citing works

Purification of a pluripotent neural stem cell from the adult mouse brain

Rietze, R. L., Valcanis, H., Brooker, G. J. F., Thomas, T., Voss, A. K., & Bartlett, P. F. (2001) · Nature · doi:10.1038/35089085 · Cited by 665 · see citing works

Intracellular trehalose improves the survival of cryopreserved mammalian cells

Eroğlu, A., Russo, M. J., Bieganski, R. M., Fowler, A., Cheley, S., Bayley, H., & Toner, M. (2000) · Nature Biotechnology · doi:10.1038/72608 · Cited by 521 · see citing works

Molecular taxonomy of major neuronal classes in the adult mouse forebrain

Sugino, K., Hempel, C. M., Miller, M. N., Hattox, A. M., Shapiro, P., Wu, C., Huang, Z. J., & Nelson, S. B. (2006) · Nature Neuroscience · doi:10.1038/nn1618 · Cited by 521 · see citing works

Isolation and culture of adult neurons and neurospheres

Brewer, G. J., & Torricelli, J. R. (2007) · Nature Protocols · doi:10.1038/nprot.2007.207 · Cited by 448 · see citing works

FACS-array profiling of striatal projection neuron subtypes in juvenile and adult mouse brains

Lobo, M. K., Karsten, S. L., Gray, M., Geschwind, D. H., & Yang, X. W. (2006) · Nature Neuroscience · doi:10.1038/nn1654 · Cited by 411 · see citing works

Simultaneous prospective purification of adult subventricular zone neural stem cells and their progeny

Pastrana, É., Cheng, L.-C., & Doetsch, F. K. (2009) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0810407106 · Cited by 381 · see citing works

Axonal mRNA in Uninjured and Regenerating Cortical Mammalian Axons

Taylor, A. M., Berchtold, N. C., Perreau, V. M., Tu, C. H., Jeon, N. L., & Cotman, C. W. (2009) · Journal of Neuroscience · doi:10.1523/jneurosci.6130-08.2009 · Cited by 328 · see citing works

In VivoLabeling of Parvalbumin-Positive Interneurons and Analysis of Electrical Coupling in Identified Neurons

Meyer, A. H., Katona, I., Blatow, M., Rozov, A. V., & Monyer, H. (2002) · Journal of Neuroscience · doi:10.1523/jneurosci.22-16-07055.2002 · Cited by 286 · see citing works

Single-Cell Transcriptional Analysis of Neuronal Progenitors

Tietjen, I., Rihel, J. M., Cao, Y., Koentges, G., Zakhary, L., & Dulac, C. (2003) · Neuron · doi:10.1016/s0896-6273(03)00229-0 · Cited by 260 · see citing works

Thermostabilization and thermoactivation of thermolabile enzymes by trehalose and its application for the synthesis of full length cDNA

Carninci, P., Nishiyama, Y., Westover, A., Itoh, M., Nagaoka, S., Sasaki, N., Okazaki, Y., Muramatsu, M., & Hayashizaki, Y. (1998) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.95.2.520 · Cited by 239 · see citing works

Protective role of trehalose during severe oxidative stress caused by hydrogen peroxide and the adaptive oxidative stress response in Candida albicans

Alvarez-Peral, F. J., Zaragoza, Ó., Pedreño, Y., & Argüelles, J. C. (2002) · Microbiology · doi:10.1099/00221287-148-8-2599 · Cited by 193 · see citing works

Trehalose Renders the Dauer Larva of Caenorhabditis elegans Resistant to Extreme Desiccation

Erkut, C., Penkov, S., Khesbak, H., Vorkel, D., Verbavatz, J., Fahmy, K., & Kurzchalia, T. V. (2011) · Current Biology · doi:10.1016/j.cub.2011.06.064 · Cited by 183 · see citing works

Cryopreservation of Stem Cells Using Trehalose: Evaluation of the Method Using a Human Hematopoietic Cell Line

Buchanan, S. S., Gross, S. A., Acker, J. P., Toner, M., Carpenter, J. F., & Pyatt, D. W. (2004) · Stem Cells and Development · doi:10.1089/154732804323099226 · Cited by 158 · see citing works

Linking promoters to functional transcripts in small samples with nanoCAGE and CAGEscan

Plessy, C., Bertin, N., Takahashi, H., Simone, R., Salimullah, M., Lassmann, T., Vitezic, M., Severin, J., Olivarius, S., Lazarević, D., et al. (2010) · Nature Methods · doi:10.1038/nmeth.1470 · Cited by 154 · see citing works

Embryonic Stem Cell-Derived Pitx3-Enhanced Green Fluorescent Protein Midbrain Dopamine Neurons Survive Enrichment by Fluorescence-Activated Cell Sorting and Function in an Animal Model of Parkinson's Disease

Hedlund, E., Pruszak, J., Lardaro, T., Ludwig, W. W., Viñuela, Á., Kim, K., & Ole Isacson, A. (2008) · Stem Cells · doi:10.1634/stemcells.2007-0996 · Cited by 139 · see citing works

FACS purification of immunolabeled cell types from adult rat brain

Guez‐Barber, D., Fanous, S., Harvey, B. K., Zhang, Y., Lehrmann, E., Becker, K. G., Picciotto, M. R., & Hope, B. T. (2011) · Journal of Neuroscience Methods · doi:10.1016/j.jneumeth.2011.08.045 · Cited by 134 · see citing works

A manual method for the purification of fluorescently labeled neurons from the mammalian brain

Hempel, C. M., Sugino, K., & Nelson, S. B. (2007) · Nature Protocols · doi:10.1038/nprot.2007.416 · Cited by 124 · see citing works

Flow cytometric analysis of neural stem cells in the developing and adult mouse brain

Murayama, A. Y., Matsuzaki, Y., Kawaguchi, A., Shimazaki, T., & Okano, H. (2002) · Journal of Neuroscience Research · doi:10.1002/jnr.10339 · Cited by 120 · see citing works

Distinct transcriptomes define rostral and caudal serotonin neurons

Wylie, C. J., Hendricks, T. J., Zhang, B., Wang, L., Lu, P., Leahy, P., Fox, S., Maeno, H., & Deneris, E. S. (2010) · The Journal of Neuroscience · doi:10.1523/jneurosci.4656-09.2010 · Cited by 104 · see citing works

FACS Identifies Unique Cocaine-Induced Gene Regulation in Selectively Activated Adult Striatal Neurons

Guez‐Barber, D., Fanous, S., Golden, S. A., Schrama, R., Koya, E., Stern, A. L., Bossert, J. M., Harvey, B. K., Picciotto, M. R., & Hope, B. T. (2011) · Journal of Neuroscience · doi:10.1523/jneurosci.6195-10.2011 · Cited by 85 · see citing works

Cryopreservation of fetal skin is improved by extracellular trehalose

Erdag, G., Eroğlu, A., Morgan, J. R., & Toner, M. (2002) · Cryobiology · doi:10.1016/s0011-2240(02)00023-8 · Cited by 81 · see citing works

Gene discovery in genetically labeled single dopaminergic neurons of the retina

Gustincich, S., Contini, M., Gariboldi, M., Puopolo, M., Kadota, K., Bono, H. U., LeMieux, J., Walsh, P. A., Carninci, P., Hayashizaki, Y., et al. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0400913101 · Cited by 75 · see citing works

Direct isolation of committed neuronal progenitor cells from transgenic mice coexpressing spectrally distinct fluorescent proteins regulated by stage‐specific neural promoters

Sawamoto, K., Yamamoto, A., Kawaguchi, A., Yamaguchi, M., Mori, K., Goldman, S. A., & Okano, H. (2001) · Journal of Neuroscience Research · doi:10.1002/jnr.1145 · Cited by 66 · see citing works

NanoCAGE: A High-Resolution Technique to Discover and Interrogate Cell TranscriptomesPreprint

Salimullah, M., Salimullah, M., Sakai, M., & Plessy, C. (2011) · Cold Spring Harbor Protocols · doi:10.1101/pdb.prot5559 · Cited by 63 · see citing works

Effect of Trehalose on a Phospholipid Membrane under Mechanical Stress

Pereira, C. S., & Hünenberger, P. H. (2008) · Biophysical Journal · doi:10.1529/biophysj.108.131656 · Cited by 57 · see citing works

Barotolerance is dependent on both trehalose and heat shock protein 104 but is essentially different from thermotolerance in Saccharomyces cerevisiae

Iwahashi, H., Obuchi, K., Fujii, S., & Komatsu, Y. (1997) · Letters in Applied Microbiology · doi:10.1046/j.1472-765x.1997.t01-1-00069.x · Cited by 48 · see citing works

Gene Expression Analysis of In Vivo Fluorescent Cells

Khodosevich, K. V., Inta, D., Seeburg, P. H., & Monyer, H. (2007) · PLoS ONE · doi:10.1371/journal.pone.0001151 · Cited by 44 · see citing works

Whole transcriptome analysis: what are we still missing?

Saxena, A., & Carninci, P. (2010) · WIREs Systems Biology and Medicine · doi:10.1002/wsbm.135 · Cited by 25 · see citing works

Embryonic Stem Cells with GFP Knocked into the Dopamine Transporter Yield Purified Dopamine Neurons In Vitro and from Knock-In Mice

Zhou, W., Lee, Y. M., Guy, V. C., & Freed, C. R. (2009) · Stem Cells · doi:10.1002/stem.216 · Cited by 22 · see citing works

Progress in Realizing the Promise of Microarrays in Systems Neurobiology

Dougherty, J. D., & Geschwind, D. H. (2005) · Neuron · doi:10.1016/j.neuron.2005.01.007 · Cited by 20 · see citing works

Highly Consistent, Fully Representative mRNA-Seq Libraries from ten Nanograms of Total RNA

Sengupta, S., Ruotti, V., Bolin, J. M., Elwell, A. L., Hernández, Á. G., Thomson, J. A., & Stewart, R. M. (2010) · BioTechniques · doi:10.2144/000113556 · Cited by 19 · see citing works

Laser capture microdissection and microarray analysis of dividing neural progenitor cells from the adult rat hippocampus

Gurok, U., Loebbert, R. W., Meyer, A. H., Mueller, R., Schoemaker, H., Groß, G., & Behl, B. (2007) · European Journal of Neuroscience · doi:10.1111/j.1460-9568.2007.05734.x · Cited by 17 · see citing works

A resource for transcriptomic analysis in the mouse brain

Plessy, C., Fagiolini, M., Wagatsuma, A., Harasawa, N., Kuji, T., Asaka-Oba, A., Kanzaki, Y., Fujishima, S., Waki, K., Nakahara, H., et al. (2008) · PLoS ONE · doi:10.1371/journal.pone.0003012 · Cited by 12 · see citing works

The Gene Expression Profiling in Murine Cortical Cells Undergoing Programmed Cell Death (PCD) Induced by Serum Deprivation

Yang, M.-H., Yoo, K. H., Yook, Y. J., Park, E.-Y., Jeon, J.-O., Choi, S.-H., Park, S., Woo, Y. M., Lee, M.-J., & Park, J. H. (2007) · BMB Reports · doi:10.5483/bmbrep.2007.40.2.277 · Cited by 9 · see citing works

A molecular census of arcuate hypothalamus and median eminence cell types

Campbell, J. N., Macosko, E. Z., Fenselau, H., Pers, T. H., Lyubetskaya, A., Tenen, D., Goldman, M., Verstegen, A. M. J., Resch, J. M., McCarroll, S. A., et al. (2017) · Nature Neuroscience · doi:10.1038/nn.4495 · Cited by 817 · see citing works

Epigenomic Signatures of Neuronal Diversity in the Mammalian Brain

Mo, A., Mukamel, E. A., Davis, F. P., Luo, C., Henry, G. L., Picard, S., Urich, M. A., Nery, J. R., Sejnowski, T. J., Lister, R., et al. (2015) · Neuron · doi:10.1016/j.neuron.2015.05.018 · Cited by 739 · see citing works

Single-cell transcriptomic profiling of the aging mouse brain

Ximerakis, M., Lipnick, S. L., Innes, B. T., Simmons, S. K., Adiconis, X., Dionne, D., Mayweather, B. A., Nguyen, L., Niziolek, Z., Ozek, C., et al. (2019) · Nature Neuroscience · doi:10.1038/s41593-019-0491-3 · Cited by 736 · see citing works

A neural basis for melanocortin-4 receptor–regulated appetite

Garfield, A. S., Li, C., Madara, J. C., Shah, B. P., Webber, E. S., Steger, J. S., Campbell, J. N., Gavrilova, O., Lee, C. E., Olson, D. P., et al. (2015) · Nature Neuroscience · doi:10.1038/nn.4011 · Cited by 438 · see citing works

Untangling the brain’s neuroinflammatory and neurodegenerative transcriptional responses

Srinivasan, K., Friedman, B. A., Larson, J. L., Lauffer, B. E., Goldstein, L. D., Appling, L. L., Borneo, J., Poon, C., Ho, T., Cai, F., et al. (2016) · Nature Communications · doi:10.1038/ncomms11295 · Cited by 336 · see citing works

Graded arrays of spinal and supraspinal V2a interneuron subtypes underlie forelimb and hindlimb motor control

Hayashi, M., Hinckley, C. A., Driscoll, S. P., Moore, N. J., Levine, A. J., Hilde, K. L., Sharma, K., & Pfaff, S. L. (2018) · Neuron · doi:10.1016/j.neuron.2018.01.023 · Cited by 188 · see citing works

Appetite controlled by a cholecystokinin nucleus of the solitary tract to hypothalamus neurocircuit

D'Agostino, G., Lyons, D. J., Cristiano, C., Burke, L. K., Madara, J. C., Campbell, J. N., Garcia, A. P., Land, B. B., Lowell, B. B., Dileone, R. J., et al. (2016) · eLife · doi:10.7554/elife.12225 · Cited by 193 · see citing works

Inhibitory circuit gating of auditory critical-period plasticity

Takesian, A. E., Bogart, L. J., Lichtman, J. W., & Hensch, T. K. (2018) · Nature Neuroscience · doi:10.1038/s41593-017-0064-2 · Cited by 173 · see citing works

Single-cell RNA-seq uncovers a robust transcriptional response to morphine by glia

Avey, D., Sankararaman, S., Yim, A. K. Y., Barve, R., Milbrandt, J., & Mitra, R. D. (2018) · Cell Reports · doi:10.1016/j.celrep.2018.08.080 · Cited by 143 · see citing works

Single-cell RNA-seq of mouse dopaminergic neurons informs candidate gene selection for sporadic Parkinson disease

Hook, P. W., McClymont, S. A., Cannon, G. H., Law, W. D., Morton, A. J., Goff, L. A., & McCallion, A. S. (2018) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2018.02.001 · Cited by 136 · see citing works

The BBSome Controls Energy Homeostasis by Mediating the Transport of the Leptin Receptor to the Plasma Membrane

Guo, D., Cui, H., Zhang, Q., Morgan, D. A., Thedens, D. R., Nishimura, D. Y., Grobe, J. L., Sheffield, V. C., & Rahmouni, K. (2016) · PLoS Genetics · doi:10.1371/journal.pgen.1005890 · Cited by 132 · see citing works

Conserved genetic signatures parcellate cardinal spinal neuron classes into local and projection subsets

Osseward, P. J., Amin, N. D., Moore, J. D., Temple, B. A., Barriga, B. K., Bachmann, L. C., Beltran, F., Gullo, M., Clark, R. C., Driscoll, S. P., et al. (2021) · Science · doi:10.1126/science.abe0690 · Cited by 115 · see citing works

Clock Genes Control Cortical Critical Period Timing

Kobayashi, Y., Ye, Z., & Hensch, T. K. (2015) · Neuron · doi:10.1016/j.neuron.2015.02.036 · Cited by 99 · see citing works

In vivo selection of a computationally designed SCHEMA AAV library yields a novel variant for infection of adult neural stem cells in the SVZ

Ojala, D. S., Sun, S., Santiago-Ortiz, J. L., Shapiro, M. G., Romero, P. A., & Schaffer, D. V. (2018) · Molecular Therapy · doi:10.1016/j.ymthe.2017.09.006 · Cited by 97 · see citing works

Self-Reporting Transposons Enable Simultaneous Readout of Gene Expression and Transcription Factor Binding in Single Cells

Moudgil, A., Wilkinson, M., Chen, X., He, J., Cammack, A. J., Vasek, M. J., Lagunas, T., Qi, Z., Lalli, M. A., Guo, C., et al. (2020) · Cell · doi:10.1016/j.cell.2020.06.037 · Cited by 80 · see citing works

Genetic Otx2 mis-localization delays critical period plasticity across brain regions

Lee, H. H. C., Bernard, C., Ye, Z., Acampora, D., Simeone, A., Prochiantz, A., Di Nardo, A. A., & Hensch, T. K. (2017) · Molecular Psychiatry · doi:10.1038/mp.2017.1 · Cited by 82 · see citing works

Variation in Activity State, Axonal Projection, and Position Define the Transcriptional Identity of Individual Neocortical Projection Neurons

Chevée, M., Robertson, J. D., Cannon, G. H., Brown, S. P., & Goff, L. A. (2018) · Cell Reports · doi:10.1016/j.celrep.2017.12.046 · Cited by 76 · see citing works

Molecularly targetable cell types in mouse visual cortex have distinguishable prediction error responses

O'Toole, S. M., Oyibo, H. K., & Keller, G. B. (2023) · Neuron · doi:10.1016/j.neuron.2023.08.015 · Cited by 78 · see citing works

Genome-Wide Analysis of Differential Gene Expression and Splicing in Excitatory Neurons and Interneuron Subtypes

Huntley, M. A., Srinivasan, K., Friedman, B. A., Wang, T.-M., Yee, A. X., Wang, Y., Kaminker, J. S., Sheng, M., Hansen, D. V., & Hanson, J. E. (2019) · Journal of Neuroscience · doi:10.1523/jneurosci.1615-19.2019 · Cited by 66 · see citing works

Parallel social information processing circuits are differentially impacted in autism

Lewis, E. M., Stein-O’Brien, G. L., Patino, A. V., Nardou, R., Grossman, C. D., Brown, M., Bangamwabo, B., Ndiaye, N., Giovinazzo, D., Dardani, I., et al. (2020) · Neuron · doi:10.1016/j.neuron.2020.10.002 · Cited by 72 · see citing works

In vivo epigenetic editing of Sema6a promoter reverses transcallosal dysconnectivity caused by C11orf46/Arl14ep risk gene

Peter, C. J., Saito, A., Hasegawa, Y., Tanaka, Y., Nagpal, M., Perez, G., Alway, E., Espeso‐Gil, S., Fayyad, T., Ratner, C., et al. (2019) · Nature Communications · doi:10.1038/s41467-019-12013-y · Cited by 58 · see citing works

Digital expression profiling of the compartmentalized translatome of Purkinje neuronsPreprint

Kratz, A., Béguin, P., Kaneko, M., Chimura, T., Suzuki, A. M., Matsunaga, A., Kato, S., Bertin, N., Lassmann, T., Vigot, R., et al. (2014) · Genome Research · doi:10.1101/gr.164095.113 · Cited by 56 · see citing works

Neurocytometry: Flow Cytometric Sorting of Specific Neuronal Populations from Human and Rodent Brain

Martin, D. A., Xu, J., Porretta, C., & Nichols, C. D. (2017) · ACS Chemical Neuroscience · doi:10.1021/acschemneuro.6b00374 · Cited by 50 · see citing works

The miR-124-AMPAR pathway connects polygenic risks with behavioral changes shared between schizophrenia and bipolar disorder

Namkung, H., Yukitake, H., Fukudome, D., Lee, B. J., Tian, M., Ursini, G., Saito, A., Lam, S., Kannan, S., Srivastava, R., et al. (2022) · Neuron · doi:10.1016/j.neuron.2022.10.031 · Cited by 48 · see citing works

SORCS1 and SORCS3 control energy balance and orexigenic peptide production

Subkhangulova, A., Malik, A. R., Hermey, G., Popp, O., Dittmar, G. A. G., Rathjen, T., Poy, M. N., Stumpf, A., Beed, P. S., Schmitz, D., et al. (2018) · EMBO Reports · doi:10.15252/embr.201744810 · Cited by 49 · see citing works

The claustrum-medial prefrontal cortex network controls attentional set-shiftingPreprint

Fodoulian, L., Gschwend, O., Huber, C., Mutel, S., Salazar, R. F., Leone, R., Renfer, J.-R., Ekundayo, K., Rodríguez, I., & Carleton, A. (2020) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2020.10.14.339259 · Cited by 49 · see citing works

An ependymal cell census identifies heterogeneous and ongoing cell maturation in the adult mouse spinal cord that changes dynamically on injury

Albors, A. R., Singer, G. A., Llorens-Bobadilla, E., Frisén, J., May, A. P., Ponting, C. P., & Storey, K. G. (2023) · Developmental Cell · doi:10.1016/j.devcel.2023.01.003 · Cited by 43 · see citing works

DNA Methylation-Mediated Modulation of Endocytosis as Potential Mechanism for Synaptic Function Regulation in Murine Inhibitory Cortical Interneurons

Pensold, D., Reichard, J., van Loo, K. M. J., Ciganok-Hückels, N., Hahn, A., Bayer, C., Liebmann, L., Groß, J., Tittelmeier, J., Lingner, T., et al. (2020) · Cerebral Cortex · doi:10.1093/cercor/bhaa009 · Cited by 43 · see citing works

DNA Methyltransferase 1 (DNMT1) Function Is Implicated in the Age-Related Loss of Cortical Interneurons

Hahn, A., Bayer, C., Pensold, D., Tittelmeier, J., Marx-Blümel, L., González-Bermúdez, L., Linde, J., Groß, J., Salinas, G., Lingner, T., et al. (2020) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2020.00639 · Cited by 34 · see citing works

Light affects the prefrontal cortex via intrinsically photosensitive retinal ganglion cells

Ospri, L. L., Zhan, J. J., Thomsen, M. B., Wang, H. M., Komal, R., Tang, Q., Messanvi, F., du Hoffmann, J., Cravedi, K., Chudasama, Y., et al. (2024) · Science Advances · doi:10.1126/sciadv.adh9251 · Cited by 34 · see citing works

GPRIN3 Controls Neuronal Excitability, Morphology, and Striatal-Dependent Behaviors in the Indirect Pathway of the Striatum

Karadurmus, D., Rial, D., Backer, J. D., Communi, D., d’Exaerde, A. D. K., & Schiffmann, S. N. (2019) · Journal of Neuroscience · doi:10.1523/jneurosci.2454-18.2019 · Cited by 30 · see citing works

Genome-Wide Target Analyses of Otx2 Homeoprotein in Postnatal Cortex

Sakai, A., Nakato, R., Ling, Y., Hou, X., Hara, N., Iijima, T., Yanagawa, Y., Kuwano, R., Okuda, S., Shirahige, K., et al. (2017) · Frontiers in Neuroscience · doi:10.3389/fnins.2017.00307 · Cited by 30 · see citing works

piRNAs Warrant Investigation in Rett Syndrome: An Omics Perspective

Saxena, A., Tang, D. T. P., & Carninci, P. (2012) · Disease Markers · doi:10.1155/2012/396737 · Cited by 27 · see citing works

Methyl CpG Binding Domain Ultra‐Sequencing: a novel method for identifying inter‐individual and cell‐type‐specific variation in DNA methylation

Li, X., Baker‐Andresen, D., Zhao, Q., Marshall, V. M., & Bredy, T. W. (2014) · Genes Brain & Behavior · doi:10.1111/gbb.12150 · Cited by 25 · see citing works

Large-Scale Generation and Characterization of Homogeneous Populations of Migratory Cortical Interneurons from Human Pluripotent Stem Cells

Ni, P., Noh, H., Shao, Z., Zhu, Q., Guan, Y., Park, J. J., Arif, F., Park, J. M., Abani, C. P., Beaudreault, C. P., et al. (2019) · Molecular Therapy — Methods & Clinical Development · doi:10.1016/j.omtm.2019.04.002 · Cited by 25 · see citing works

Elevated COUP-TFII expression in dopaminergic neurons accelerates the progression of Parkinson’s disease through mitochondrial dysfunction

Kao, C., Xu, M., Wang, L., Lin, S., Lee, H.-J., Duraine, L., Bellen, H. J., Goldstein, D. S., Tsai, S. Y., & Tsai, M. (2020) · PLoS Genetics · doi:10.1371/journal.pgen.1008868 · Cited by 25 · see citing works

Acan downregulation in parvalbumin GABAergic cells reduces spontaneous recovery of fear memories

Lavertu-Jolin, M., Chattopadhyaya, B., Chehrazi, P., Carrier, D., Wünnemann, F., Leclerc, S., Dumouchel, F., Robertson, D. N., Affia, H., Saba, K., et al. (2023) · Molecular Psychiatry · doi:10.1038/s41380-023-02085-0 · Cited by 25 · see citing works

Calcium-permeable AMPA receptors govern PV neuron feature selectivity

Hong, I., Kim, J., Hainmueller, T., Kim, D. W., Keijser, J., Johnson, R. C., Park, S. H., Limjunyawong, N., Yang, Z., Cheon, D., et al. (2024) · Nature · doi:10.1038/s41586-024-08027-2 · Cited by 25 · see citing works

A transcriptional constraint mechanism limits the homeostatic response to activity deprivation in mammalian neocortex

Valakh, V., Wise, D. L., Zhu, X. A., Sha, M., Fok, J., Hooser, S. D. V., Schectman, R., Cepeda, I., Kirk, R., O'Toole, S. M., et al. (2023) · eLife · doi:10.7554/elife.74899 · Cited by 22 · see citing works

hVGAT-mCherry: A novel molecular tool for analysis of GABAergic neurons derived from human pluripotent stem cells

DeRosa, B. A., Belle, K. C., Thomas, B. J., Cukier, H. N., Pericak‐Vance, M. A., Vance, J. M., & Dykxhoorn, D. M. (2015) · Molecular and Cellular Neuroscience · doi:10.1016/j.mcn.2015.08.007 · Cited by 23 · see citing works

Prediction error neurons in mouse cortex are molecularly targetable cell typesPreprint

O'Toole, S. M., Oyibo, H. K., & Keller, G. B. (2022) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2022.07.20.500837 · Cited by 21 · see citing works

Flow Cytometric Detection of PrPScin Neurons and Glial Cells from Prion-Infected Mouse Brains

Yamasaki, T., Suzuki, A., Hasebe, R., & Horiuchi, M. (2017) · Journal of Virology · doi:10.1128/jvi.01457-17 · Cited by 20 · see citing works

A spatial single-cell atlas of the claustro-insular region uncovers key regulators of neuronal identity and excitability

Fodoulian, L., Boillat, M., Moulinier, M., Carleton, A., & Rodríguez, I. (2025) · Nature Communications · doi:10.1038/s41467-025-63138-2 · Cited by 17 · see citing works

FIN-Seq: transcriptional profiling of specific cell types from frozen archived tissue of the human central nervous system

Amamoto, R., Zuccaro, E., Curry, N. C., Khurana, S., Chen, H.-H., Cepko, C., & Arlotta, P. (2019) · Nucleic Acids Research · doi:10.1093/nar/gkz968 · Cited by 5 · see citing works

Molecular Signatures of Psychosocial Stress and Cognition Are Modulated by Chronic Lithium Treatment

Brzózka, M. M., Havemann‐Reinecke, U., Wichert, S. P., Falkai, P., & Rossner, M. J. (2015) · Schizophrenia Bulletin · doi:10.1093/schbul/sbv194 · Cited by 14 · see citing works

Single-cell transcriptome atlas of Drosophila gastrula 2.0

Sakaguchi, S., Mizuno, S., Okochi, Y., Tanegashima, C., Nishimura, O., Uemura, T., Kadota, M., Naoki, H., & Kondo, T. (2023) · Cell Reports · doi:10.1016/j.celrep.2023.112707 · Cited by 13 · see citing works

Identification of AgRP cells in the murine hindbrain that drive feeding

Bachor, T. P., Hwang, E., Yulyaningsih, E., Attal, K., Mifsud, F., Pham, V. Q., Vagena, E., Huarcaya, R., Valdearcos, M., Vaisse, C., et al. (2024) · Molecular Metabolism · doi:10.1016/j.molmet.2024.101886 · Cited by 15 · see citing works

Identification of differentially expressed genes during development of the zebrafish pineal complex using RNA sequencing

Khuansuwan, S., & Gamse, J. T. (2014) · Developmental Biology · doi:10.1016/j.ydbio.2014.08.015 · Cited by 12 · see citing works

Single-cell profiling of glial cells from the mouse amygdala under opioid dependent and withdrawal states

Yan, Y., Truitt, B., Tao, J., Boyles, S. M., Antoine, D., Hulme, W. F., & Roy, S. (2023) · iScience · doi:10.1016/j.isci.2023.108166 · Cited by 13 · see citing works

Prostaglandin E2 Exerts Biphasic Dose Response on the PreBötzinger Complex Respiratory-Related Rhythm

Reising, J. P., Phillips, W. S., Ramadan, N., & Herlenius, E. (2022) · Frontiers in Neural Circuits · doi:10.3389/fncir.2022.826497 · Cited by 11 · see citing works

Clustering of vomeronasal receptor genes is required for transcriptional stability but not for choice

Dietschi, Q., Tuberosa, J., Fodoulian, L., Boillat, M., Kan, C., Codourey, J., Pauli, V., Feinstein, P. G., Carleton, A., & Rodríguez, I. (2022) · Science Advances · doi:10.1126/sciadv.abn7450 · Cited by 11 · see citing works

Characterization of mWake expression in the murine brain

Bell, B. J., Wang, A. A., Kim, D. W., Xiong, J., Blackshaw, S., & Wu, M. N. (2020) · The Journal of Comparative Neurology · doi:10.1002/cne.25066 · Cited by 11 · see citing works

Distinct sympathetic projections to brown fat regulate thermogenesis and glucose tolerance

Neri, D., Lee, S., FOHN, A., Chen, X., Bozec, D., Lafond, A., Lopatinsky, N. R., Souza, L. A. C., Nair, G. M., Ramos-Lobo, A. M., et al. (2026) · Nature Metabolism · doi:10.1038/s42255-025-01429-0 · Cited by 10 · see citing works

Trehalose can effectively protect sheep epididymis epithelial cells from oxidative stress

Luan, Z., Fan, X., Zhao, Y., Song, H., Du, W., Xu, J., Wang, Z., Zhang, W., & Zhang, J. (2021) · Archives animal breeding/Archiv für Tierzucht · doi:10.5194/aab-64-335-2021 · Cited by 10 · see citing works

Trehalose Maintains Vitality of Mouse Epididymal Epithelial Cells and Mediates Gene Transfer

Qu, B., Gu, Y., Shen, J., Qin, J., Bao, J., Hu, Y., Zeng, W., & Dong, W. (2014) · PLoS ONE · doi:10.1371/journal.pone.0092483 · Cited by 10 · see citing works

Cells and Molecules Underpinning Cannabis-Related Variations in Cortical Thickness during Adolescence

Navarri, X., Robertson, D. N., Charfi, I., Wünnemann, F., do Nascimento, A. S. F., Trottier, G., Leclerc, S., Andelfinger, G., Cristo, G. D., Richer, L., et al. (2024) · Journal of Neuroscience · doi:10.1523/jneurosci.2256-23.2024 · Cited by 9 · see citing works

Protocol for isolating young adult parvalbumin interneurons from the mouse brain for extraction of high-quality RNA

Joseph, D. J., von Deimling, M., Hasegawa, Y., Cristancho, A. G., Risbud, R. M., McCoy, A. J., & Marsh, E. D. (2021) · STAR Protocols · doi:10.1016/j.xpro.2021.100714 · Cited by 8 · see citing works

Minimizing the ex vivo confounds of cell-isolation techniques on transcriptomic -profiles of purified microgliaPreprint

Ocañas, S. R., Pham, K. D., Blankenship, H. E., Machalinski, A. H., Chucair‐Elliott, A. J., & Freeman, W. M. (2021) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2021.07.15.452509 · Cited by 8 · see citing works

Circular RNAs regulate neuron size and migration of midbrain dopamine neurons during development

Rybiczka-Tešulov, M., Garritsen, O., Venø, M. T., Wieg, L., van Dijk, R. E., Rahimi, K., Gomes‐Duarte, A., de Wit, M., van de Haar, L. L., Michels, L., et al. (2024) · Nature Communications · doi:10.1038/s41467-024-51041-1 · Cited by 7 · see citing works

High-Complexity Barcoded Rabies Virus for Scalable Circuit Mapping Using Single-Cell and Single-Nucleus SequencingPreprint

Shin, D., Urbanek, M. E., Larson, H. H., Moussa, A. J., Lee, K. Y., Baker, D. L., Standen-Bloom, E., Ramachandran, S., Bogdanoff, D., Cadwell, C. R., et al. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.10.01.616167 · Cited by 7 · see citing works

ATAC-seq on Sorted Adult Mouse Neurons

Clark, E., Shima, Y., & Nelson, S. B. (2019) · BIO-PROTOCOL · doi:10.21769/bioprotoc.3382 · Cited by 6 · see citing works

R-loop landscapes in the developing human brain are linked to neural differentiation and cell type-specific transcription

LaMarca, E. A., Saito, A., Plaza-Jennings, A. L., Espeso‐Gil, S., Hellmich, A., Fernando, M. B., Javidfar, B., Liao, W., Estill, M. S., Townsley, K. G., et al. (2026) · Translational Psychiatry · doi:10.1038/s41398-026-04009-2 · Cited by 5 · see citing works

Protocol to sequentially isolate mouse oligodendrocytes, microglia, endothelial cells, astrocytes, and neurons via magnetic cell sorting

Houmam, S., Siodłak, D., Pham, K. D., Salinas-Salinas, C., Ocañas, S. R., Freeman, W. M., & Rice, H. C. (2025) · STAR Protocols · doi:10.1016/j.xpro.2025.104139 · Cited by 4 · see citing works

A region-dependent allele-biased expression of Dopa decarboxylase in mouse brain

Sheng, K.-Y., Nakano, T., & Yamaguchi, S. (2022) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2022.1078927 · Cited by 3 · see citing works

Loss of postnatal Arx transcriptional activity in parvalbumin interneurons reveals non-cell autonomous disturbances in CA1 pyramidal cells

Joseph, D. J., von Deimling, M., Risbud, R. M., McCoy, A. J., & Marsh, E. D. (2024) · Neuroscience · doi:10.1016/j.neuroscience.2024.05.020 · Cited by 3 · see citing works

Expression of erythropoietin receptor protein in the mouse hippocampus in response to normobaric hypoxia

Fussing, F. H., Christensson, J., & Wörtwein, G. (2024) · Heliyon · doi:10.1016/j.heliyon.2024.e25051 · Cited by 2 · see citing works

Single Cell RNAseq Uncovers a Robust Transcriptional Response to Morphine by OligodendrocytesPreprint

Avey, D. R., Sankararaman, S., Yim, A. K., Barve, R. A., Mitra, R. D., & Milbrandt, J. (2018) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/306944 · Cited by 2 · see citing works

Transcriptomic profiling of mouse amygdala during opioid dependence and withdrawal by single-cell RNA sequencingPreprint

Yan, Y., Truitt, B., Boyles, S. M., Tao, J., Hulme, W. F., & Roy, S. (2022) · Research Square · doi:10.21203/rs.3.rs-1299708/v1 · Cited by 2 · see citing works

FACS-Based Neuronal Cell Type–Specific RNA Isolation and Alternative Splicing Analysis

Wei, Z., Qin, Y., Fishell, G., & Li, B. (2022) · Methods in molecular biology · doi:10.1007/978-1-0716-2521-7_4 · Cited by 1 · see citing works

Optimized Protocol for Proportionate CNS Cell Retrieval as a Versatile Platform for Cellular and Molecular Phenomapping in Aging and Neurodegeneration

Ain, Q., Schmeer, C. W., Wengerodt, D., Hofmann, Y., Witte, O. W., & Kretz, A. (2022) · International Journal of Molecular Sciences · doi:10.3390/ijms23063000 · Cited by 1 · see citing works

WITHDRAWN: Light affects the prefrontal cortex via intrinsically photosensitive retinal ganglion cellsPreprint

Ospri, L. L., Zhan, J. J., Thomsen, M. B., Wang, H., Messanvi, F., du Hoffmann, J., Cravedi, K., Komal, R., Chudasama, Y., Zhao, H., et al. (2023) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2023.09.22.556752 · Cited by 1 · see citing works

A flow cytometry-based method for gene expression profiling of CNS cell types

Luo, T. (2014) · DSpace@MIT (Massachusetts Institute of Technology)

Synaptic Specificity and Plasticity in Parvalbumin-Basket Cell Circuits

Bogart, L. J. (2015) · Digital Access to Scholarship at Harvard (DASH) (Harvard University)

Engineering a Hybrid Thymus to Unravel the Tolerogenic Properties of Vascularized Composite Allotransplants

Lin, J. (2020)

The multifunctional role of Semaphorin6A during brain development and disease

Verhagen, M. G. (2021) · doi:10.33540/671

Epigenomic and transcriptomic analysis of developing, adult and aging brain: mechanisms of brain folding, neuronal function and finding novel therapy for dementia

Sakib, M. S. (2021) · doi:10.53846/goediss-8870

Loss of Postnatal Arx Transcriptional Activity in Parvalbumin Interneurons Reveals Non-Cell Autonomous Disturbances in Ca1 Pyramidal CellsPreprint

Joseph, D. J., von Deimling, M., Risbud, R. M., McCoy, A. J., & Marsh, E. D. (2023) · SSRN Electronic Journal · doi:10.2139/ssrn.4524598

Protocol to isolate oligodendrocytes, microglia, endothelial cells, astrocytes, and neurons from a single mouse brain using magnetic-activated cell sortingPreprint

Houmam, S., Siodłak, D., Pham, K. D., Salinas-Salinas, C., Ocañas, S. R., Freeman, W. M., & Rice, H. C. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.08.08.666877

Synthetic analogue of adrenocorticotropic hormone, ACTH (4-7) PGP delays neurological manifestations in diseases of mucopolysaccharidosis III spectrum by reducing neuroinflammation and rescuing neurotransmission, synaptogenesis, and axonal demyelinationPreprint

Mooree, T., Dubot, P., Viana, G. M., Bose, P., Zhang, E., Nasseri, B., Pan, X., Robertson, D. N., Feulner, L., Taherzadeh, M., et al. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.02.20.707013

A validated FACS-based protocol for the isolation of neuronal and non-neuronal cells from frozen adult brain, suitable for integrated gene and protein analysis

Kolasa, M., Roman, A., Mielczarek, P., Solich, J., & Faron‐Górecka, A. (2026) · Pharmacological Reports · doi:10.1007/s43440-026-00854-6

Establishment and validation of the NEX-RiboTag system for profiling the excitatory neuronal translatome in the postnatal mouse forebrain

Zheng, K., Liu, M., Jin, B., Chai, G., Wang, S., Yang, Y., Li, K., Huang, H., Lu, C., Zhang, X., et al. (2026) · Neuroscience · doi:10.1016/j.neuroscience.2026.06.027

Adult primary whole-brain cultures from Thy1-aSyn mice (Line 61) retain Parkinson’s disease-relevant phenotypes

Zalpanow, D., Merten, A., Stelz, S., Ofner, A., Weiß, S., Richter, F., Lau, K., & Kotzur, R. (2026) · Neuroscience · doi:10.1016/j.neuroscience.2026.09.003

SST interneuron maturation extends beyond the second postnatal week and is driven by coordinated transcriptional and functional remodeling

Christodoulou, O., Diskos, K., Velli, A., Moulos, P., Sidiropoulou, K., & Denaxa, M. (2026) · Frontiers in Molecular Neuroscience · doi:10.3389/fnmol.2026.1892850

RNA Extraction from Sorted Neuronal Subtypes

Saxena, A., Wagatsuma, A., Noro, Y., Kuji, T., Asaka-Oba, A., Watahiki, A., Gurnot, C., Fagiolini, M., Hensch, T. K., & Carninci, P. (2017) · BioTechniques · doi:10.2144/000114499 · Cited by 1 · see citing works

Enrichment and isolation of neurons from adult mouse brain for ex vivo analysis

Berl, S., Karram, K., Scheller, A., Jungblut, M., Kirchhoff, F., & Waisman, A. (2017) · Journal of Neuroscience Methods · doi:10.1016/j.jneumeth.2017.03.015 · Cited by 16 · see citing works

FACS purification of immunolabeled cell types from adult rat brain

Guez‐Barber, D., Fanous, S., Harvey, B. K., Zhang, Y., Lehrmann, E., Becker, K. G., Picciotto, M. R., & Hope, B. T. (2011) · Journal of Neuroscience Methods · doi:10.1016/j.jneumeth.2011.08.045 · Cited by 134 · see citing works

A validated FACS-based protocol for the isolation of neuronal and non-neuronal cells from frozen adult brain, suitable for integrated gene and protein analysis

Kolasa, M., Roman, A., Mielczarek, P., Solich, J., & Faron‐Górecka, A. (2026) · Pharmacological Reports · doi:10.1007/s43440-026-00854-6

A manual method for the purification of fluorescently labeled neurons from the mammalian brain

Hempel, C. M., Sugino, K., & Nelson, S. B. (2007) · Nature Protocols · doi:10.1038/nprot.2007.416 · Cited by 124 · see citing works