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Current Protocols

How to Prepare Neuroanatomical Image Data (an Update)

29 July 2024
O’Connor, N. J., Angstman, P. J., Blaisdell, J. O., Farnsworth, C. D., Gerfen, C. S., & Glaser, J. R.
New England Journal of Medicine

Chronic Traumatic Encephalopathy in the Brains of Military Personnel

09 June 2022
Priemer, D. S., D. Iacono, et al.
Frontiers in Physiology

The SPARC DRC: Building a Resource for the Autonomic Nervous System Community

24 June 2021
Osanlouy, M., A. Bandrowski, et al.

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O’Connor, N. J., Angstman, P. J., Blaisdell, J. O., Farnsworth, C. D., Gerfen, C. S., & Glaser, J. R. (2024). How to prepare neuroanatomical image data (an update). Current Protocols, 4(7), e1066. https://doi.org/10.1002/cpz1.1066

Achanta, S., J. Gorky, et al. (2020). "A Comprehensive Integrated Anatomical and Molecular Atlas of Rat Intrinsic Cardiac Nervous System." iScience 23(6): 101140. https://doi.org/10.1016/j.isci.2020.101140

Alt, E., R. Rothoerl, et al. First immunohistochemical evidence of human tendon repair following stem cell injection: A case report and review of literature, World J Stem Cells. 2021 Jul 26;13(7):944-970. doi: 10.4252/wjsc.v13.i7.944. https://pubmed.ncbi.nlm.nih.gov/34367486/

Benjamini, D., D. Iacono, et al. (2021). "Diffuse axonal injury has a characteristic multidimensional MRI signature in the human brain." Brain 144(3): 800-816. https://pubmed.ncbi.nlm.nih.gov/33739417/

Chen, C.-C., C. M. Winkler, et al. (2013). "Molecular profiling of the developing avian telencephalon: Regional timing and brain subdivision continuities." Journal of Comparative Neurology 521(16): 3666-3701. https://doi.org/10.1002/cne.23406

Chin, A.-L., C.-Y. Lin, et al. (2014). "Diversity and wiring variability of visual local neurons in the Drosophila medulla M6 stratum." Journal of Comparative Neurology 522(17): 3795-3816. https://pubmed.ncbi.nlm.nih.gov/24782245/

Condro, M. C., A. Matynia, et al. (2016). "High-resolution characterization of a PACAP-EGFP transgenic mouse model for mapping PACAP-expressing neurons." Journal of Comparative Neurology 524(18): 3827-3848. https://pubmed.ncbi.nlm.nih.gov/27197019/

Gaillard, F., H. J. Karten, et al. (2013). "Retinorecipient areas in the diurnal murine rodent Arvicanthis niloticus: A disproportionally large superior colliculus." Journal of Comparative Neurology 521(8): 1699-1726. https://pubmed.ncbi.nlm.nih.gov/23559407/

Gerfen, Charles R., R. Paletzki, et al. (2013). "GENSAT BAC Cre-Recombinase Driver Lines to Study the Functional Organization of Cerebral Cortical and Basal Ganglia Circuits." Neuron 80(6): 1368-1383. https://pubmed.ncbi.nlm.nih.gov/24360541/

Haeussner, E., B. Aschauer, et al. (2015). "Does 2D-Histologic identification of villous types of human placentas at birth enable sensitive and reliable interpretation of 3D structure?" Placenta 36(12): 1425-1432. https://pubmed.ncbi.nlm.nih.gov/26494606/

Hof, P. R. (2014). "Passages 2014." Journal of Comparative Neurology 522(1): 1-5. https://doi.org/10.1002/cne.23474

Hooks, B. M., A. E. Papale, et al. (2018). "Topographic precision in sensory and motor corticostriatal projections varies across cell type and cortical area." Nature Communications 9(1): 3549. https://pubmed.ncbi.nlm.nih.gov/30177709/

Hoops, D., E. Desfilis, et al. (2018). "A 3D MRI-based atlas of a lizard brain." Journal of Comparative Neurology 526(16): 2511-2547. https://doi.org/10.1002/cne.24480

Iacono, D., P. Lee, et al. (2019). "Early-Onset Dementia in War Veterans: Brain Polypathology and Clinicopathologic Complexity." Journal of Neuropathology & Experimental Neurology 79(2): 144-162.Iacono, D., E. K. Murphy, et al. (2021). "Reduction of pTau and APP levels in mammalian brain after low-dose radiation." Scientific Reports 11(1): 2215. https://pubmed.ncbi.nlm.nih.gov/31851313/

Jarvis, E. D., J. Yu, et al. (2013). "Global view of the functional molecular organization of the avian cerebrum: Mirror images and functional columns." Journal of Comparative Neurology 521(16): 3614-3665. https://doi.org/10.1002/cne.23404

Karten, H. J., J. R. Glaser, et al. (2013). "An important landmark in scientific publishing." Journal of Comparative Neurology 521(8): 1697-1698. https://doi.org/10.1002/cne.23329

Lipovich, L., Z.-C. Hou, et al. (2016). "High-throughput RNA sequencing reveals structural differences of orthologous brain-expressed genes between western lowland gorillas and humans." Journal of Comparative Neurology 524(2): 288-308. https://pubmed.ncbi.nlm.nih.gov/26132897/

Montiel, J. F. and Z. Molnár (2013). "The impact of gene expression analysis on evolving views of avian brain organization." Journal of Comparative Neurology 521(16): 3604-3613. https://pubmed.ncbi.nlm.nih.gov/23818089/

Osanlouy, M., A. Bandrowski, et al. (2021). "The SPARC DRC: Building a Resource for the Autonomic Nervous System Community." Frontiers in Physiology 12. https://pubmed.ncbi.nlm.nih.gov/34248680/

Pastrana, E. (2014). "A genetic handle on brain circuits." Nature Methods 11(2): 128-128. https://doi.org/10.1038/nmeth.2829

Priemer, D. S., D. Iacono, et al. (2022). "Chronic Traumatic Encephalopathy in the Brains of Military Personnel." New England Journal of Medicine 386(23): 2169-2177. https://pubmed.ncbi.nlm.nih.gov/35675177/

Sakano, H., D. A. R. Zorio, et al. (2017). "Proteomic analyses of nucleus laminaris identified candidate targets of the fragile X mental retardation protein." Journal of Comparative Neurology 525(15): 3341-3359. https://pubmed.ncbi.nlm.nih.gov/28685837/

Sean, M. K., R. Ricardo, et al. (2019). "Multipotent radial glia progenitors and fate-restricted intermediate progenitors sequentially generate diverse cortical interneuron types." bioRxiv: 735019. https://doi.org/10.1101/735019

Karten, H. J., Glaser, J. R., & Hof, P. R. (2013). An important landmark in scientific publishing. Journal of Comparative Neurology, 521(8), 1697-1698. doi: 10.1002/cne.23329. http://dx.doi.org/10.1002/cne.23329

Haeussner, E., Aschauer, B., Burton, G. J., Huppertz, B., Edler von Koch, F., Müller-Starck, J., . . . Frank, H.-G. (2015). Does 2D-Histologic identification of villous types of human placentas at birth enable sensitive and reliable interpretation of 3D structure? Placenta. doi: http://dx.doi.org/10.1016/j.placenta.2015.10.003. http://www.sciencedirect.com/science/article/pii/S0143400415300631

Hannibal, J., Christiansen, A. T., Heegaard, S., Fahrenkrug, J., & Kiilgaard, J. F. (2017). Melanopsin expressing human retinal ganglion cells: Subtypes, distribution and intraretinal connectivity. Journal of Comparative Neurology, n/a-n/a. doi: 10.1002/cne.24181. http://dx.doi.org/10.1002/cne.24181

Castro, A., Becerra, M., Jesús Manso, M., & Anadón, R. (2015). Neuronal organization of the brain in the adult amphioxus (Branchiostoma lanceolatum): A study with acetylated tubulin immunohistochemistry. Journal of Comparative Neurology, n/a-n/a. doi: 10.1002/cne.23785. http://dx.doi.org/10.1002/cne.23785

O'Connor, N., Tappan, S., & Glaser, J. (2014). How to Prepare Neuroanatomical Image Data Current Protocols in Neuroscience (Vol. 69): John Wiley & Sons, Inc. https://doi.org/10.1002/0471142301.ns0121s69

Samal, N., & Prakash, R. V. K. (2019). Randomized cross-over study and a qualitative analysis comparing virtual microscopy and light microscopy for learning undergraduate histopathology. Indian Journal of Pathology and Microbiology, 62(1), 84. https://doi.org/10.4103/IJPM.IJPM_241_18

Hooks, B. M., Papale, A. E., Paletzki, R. F., Feroze, M. W., Eastwood, B. S., Couey, J. J., . . . Gerfen, C. R. (2018). Topographic precision in sensory and motor corticostriatal projections varies across cell type and cortical area. Nature Communications, 9(1), 3549. doi: 10.1038/s41467-018-05780-7. https://doi.org/10.1038/s41467-018-05780-7

Gerfen, Charles R., Paletzki, R., & Heintz, N. (2013). GENSAT BAC Cre-Recombinase Driver Lines to Study the Functional Organization of Cerebral Cortical and Basal Ganglia Circuits. Neuron, 80(6), 1368-1383. doi: http://dx.doi.org/10.1016/j.neuron.2013.10.016

Hooks, B. M., A. E. Papale, et al. (2018). "Cell type-specific variation of somatotopic precision across corticostriatal projections." bioRxiv: 261446. 10.1101/261446 https://doi.org/10.1101/261446

Sandra, U. O., U. G. Roman, et al. (2022). "Organization of Cortical and Thalamic Input to Inhibitory Neurons in Mouse Motor Cortex." The Journal of Neuroscience 42(43): 8095. https://doi.org/10.1523/JNEUROSCI.0950-22.2022

Sakano, H., Zorio, D. A. R., Wang, X., Ting, Y. S., Noble, W. S., MacCoss, M. J., . . . Wang, Y. (2017). Proteomic analyses of nucleus laminaris identified candidate targets of the fragile X mental retardation protein. Journal of Comparative Neurology, n/a-n/a. doi: 10.1002/cne.24281. http://dx.doi.org/10.1002/cne.24281

Paletzki, R. and C. R. Gerfen (2015). "Whole Mouse Brain Image Reconstruction from Serial Coronal Sections Using FIJI (ImageJ)." Current Protocols in Neuroscience 73(1): 1.25.21-21.25.21. https://doi.org/10.1002/0471142301.ns0125s73

Iacono, D., Lee, P., Edlow, B. L., Gray, N., Fischl, B., Kenney, K., . . . Perl, D. P. (2019). Early-Onset Dementia in War Veterans: Brain Polypathology and Clinicopathologic Complexity. Journal of Neuropathology & Experimental Neurology. doi: 10.1093/jnen/nlz122. https://doi.org/10.1093/jnen/nlz122

Faten A Taki, X. P., Baohong Zhang. (2013). Nicotine Exposure Caused Significant Transgenerational Heritable Behavioral Changes In Caenorhabditis Elegans. EXCLI Journal, 12, 793-806. doi. http://www.researchgate.net/publication/256496981_NICOTINE_EXPOSURE_CAUS...