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| Name | Authors | DOI | Group |
Summary |
Associated Publications |
RRIDs used | ||||||
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Multicolor adeno-associate virus labeling and 3D digital tracing of enteric plexus in mouse proximal colon Resource Report Resource Website |
Lixin Wang, Collin Challis, Honghui Liang, Songlin Li, Charless Fowlkes, Aidan Sullivan, Kumar SR, Yvette Taché | DOI:10.17504/protocols.io.bqavmse6 | SPARC | Using a multicolor adeno-associate virus system to label the colonic enteric nervous system for digital tracing of individual neurons and nerve fibers in microcircuits in three-dimensions (3D). The methods include viral vectors retro-orbital injection in mice, preparation of colon tissues, microscopy and 3D digital tracing. | University of California, Los Angeles, California Institute of Technology, University of California, Los Angeles, University of California, Los Angeles, University of California, Irvine, MBF, California Institute of Technology, University of California, Los Angeles | 1 | 2020 | Lixin Wang, Collin Challis, Honghui Liang, Songlin Li, Charless Fowlkes, Aidan Sullivan, Kumar SR, Yvette Taché 2020. Multicolor adeno-associate virus labeling and 3D digital tracing of enteric plexus in mouse proximal colon. protocols.io https://dx.doi.org/10.17504/protocols.io.bqavmse6 | 2021-04-15 09:15:27 | |||
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SPARC Retrograde Neuroanatomical Tracing of Phrenic Motor Neurons Using Intrapleural Injections of Cholera Toxin B Fragment Resource Report Resource Website |
Latoya Allen, Marissa Ciesla, Yasin Seven, Elisa Gonzalez-Rothi, Gordon Pool | DOI:10.17504/protocols.io.2kpgcvn | SPARC | This protocol describes the procedure for retrogradely labeling bilateral phrenic motor neuron pools in the cervical spinal cord using intrapleural injections of cholera toxin B fragment | University of Florida, University of Florida, University of Florida, University of Florida, University of Florida | 1 | 2019 | Latoya Allen, Marissa Ciesla, Yasin Seven, Elisa Gonzalez-Rothi, Gordon Pool 2019. SPARC Retrograde Neuroanatomical Tracing of Phrenic Motor Neurons Using Intrapleural Injections of Cholera Toxin B Fragment. protocols.io https://dx.doi.org/10.17504/protocols.io.2kpgcvn | 2021-04-15 09:15:28 | |||
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SPARC - Chronic implantation of gastrointestinal and vagus nerve electrodes in the ferret Resource Report Resource Website |
Charles Horn, Derek M. Miller, Stephanie Fulton, Bill J. Yates, Lee E. Fisher, Ameya C. Nanivadekar | DOI:10.17504/protocols.io.6crhav6 | SPARC | This protocol is used to surgically implant gastrointestinal planar electrodes and vagus nerve cuff electrodes for chronic electrophysiological recording and stimulaiton in the ferret. Electrode lead wiring is tunneled subcutaneously to a connector embedded in a headcap affixed to the cranium.Funding: This protocol was developed with funding from the NIH Common Fund’s Stimulating Peripheral Activity to Relieve Conditions (SPARC) program (Award U18TR002205). To learn more about the SPARC program, visit https://sparc.science. | Nanivadekar AC, Miller DM, Fulton S, Wong L, Ogren J, Chitnis G, McLaughlin B, Zhai S, Fisher LE, Yates BJ, Horn CC (2019) Machine learning prediction of emesis and gastrointestinal state in ferrets. PLoS ONE 14(10): e0223279. doi: 10.1371/journal.pone.0223279 | University of Pittsburgh, University of Pittsburgh, University of Pittsburgh, University of Pittsburgh, University of Pittsburgh, University of Pittsburgh | https://www.biorxiv.org/content/10.1101/607242v2 | 1 | 2019 | Charles Horn, Derek M. Miller, Stephanie Fulton, Bill J. Yates, Lee E. Fisher, Ameya C. Nanivadekar 2019. SPARC - Chronic implantation of gastrointestinal and vagus nerve electrodes in the ferret. protocols.io https://dx.doi.org/10.17504/protocols.io.6crhav6 | 2021-04-15 09:15:33 | |
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Morris USF Lab protocol Resource Report Resource Website |
Lauren Segers, Kendall Morris, Donald Bolser | DOI:10.17504/protocols.io.58vg9w6 | SPARC | University of South Florida, University of South Florida, University of South Florida | 1 | 2019 | Lauren Segers, Kendall Morris, Donald Bolser 2019. Morris USF Lab protocol. protocols.io https://dx.doi.org/10.17504/protocols.io.58vg9w6 | 2021-04-15 09:15:38 | ||||
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Pig- Heart Neuonal and Fiber Immunocytochemistry Resource Report Resource Website |
Pradeep Rajendran, John Tompkins, Kalyanam Shivkumar | DOI:10.17504/protocols.io.2n9gdh6 | SPARC | UCLA, UCLA, UCLA | 1 | 2019 | Pradeep Rajendran, John Tompkins, Kalyanam Shivkumar 2019. Pig- Heart Neuonal and Fiber Immunocytochemistry. protocols.io https://dx.doi.org/10.17504/protocols.io.2n9gdh6 | 2021-04-15 09:15:43 | ||||
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Pig ICN recording Resource Report Resource Website |
Jeffrey Ardell | DOI:10.17504/protocols.io.2jugcnw | SPARC | Yorshire pigs are anthesized for ICN/ neuromodulation recodings. Montior hemodynics A1mid-sternotomy | University of California, Los Angeles | 1 | 2019 | Jeffrey Ardell 2019. Pig ICN recording. protocols.io https://dx.doi.org/10.17504/protocols.io.2jugcnw | 2021-04-15 09:15:39 | |||
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Confocal microscopy and characterization of synaptic boutons associated with ganglion neurons Resource Report Resource Website |
Janet Keast, Peregrine Osborne | DOI:10.17504/protocols.io.bakdics6 | SPARC | This protocol describes confocal microscopy and image analysis procedures for characterizing neuronal cell bodies and their associated synaptic boutons in thick (50 µm) cryosections. The protocol has been applied to rat pelvic ganglia, where neuronal cell bodies have been identified using immunohistochemical markers of specific neuron populations and/or fluorescent retrograde tracer. | University of Melbourne, University of Melbourne | 1 | 2020 | Janet Keast, Peregrine Osborne 2020. Confocal microscopy and characterization of synaptic boutons associated with ganglion neurons. protocols.io https://dx.doi.org/10.17504/protocols.io.bakdics6 | 2021-04-15 09:15:39 | |||
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Electrophysiological recording of electrically-evoked compound action potentials Resource Report Resource Website |
James Fallon, Sophie Payne | DOI:10.17504/protocols.io.bfwyjpfw | SPARC | Recording electrically-evoked compound action potentials (ECAPs) is performed to confirm that the electrode array is appropriately placed along the nerve. Recording ECAPS also allows confirmation that electrical stimulation is above neural threshold i.e. that electrical stimulation activates neural activity. The procedure is performed under anesthesia (immediately post-surgery) or in awake animals, and the procedure should incorporate all local requirements for standards of animal experimentation. | Bionics Institute, Bionics Institute | 1 | 2020 | James Fallon, Sophie Payne 2020. Electrophysiological recording of electrically-evoked compound action potentials. protocols.io https://dx.doi.org/10.17504/protocols.io.bfwyjpfw | 2021-04-15 09:15:42 | |||
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SPARC Segmentation Conversion: Binary mask tracings to MBF XML Resource Report Resource Website |
Maci Heal, Susan Tappan | DOI:10.17504/protocols.io.bchjit4n | SPARC | Convert binary mask tracings from Nikon's NIS Elements software into MBF XML format. | MBF Bioscience, MAP-CORE, MBF Bioscience, MAP-CORE | 1 | 2020 | Maci Heal, Susan Tappan 2020. SPARC Segmentation Conversion: Binary mask tracings to MBF XML. protocols.io https://dx.doi.org/10.17504/protocols.io.bchjit4n | 2021-04-15 09:15:49 | |||
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IHC-Amplified Fluorescent Frozen Sections Resource Report Resource Website |
Elizabeth Smith | DOI:10.17504/protocols.io.8rmhv46 | SPARC | Immunohistochemistry protocol used for staining with fluorescent secondary antibodies to highlight specific tissue structures and amplify specific antibody signals. | RRID:AB_2336517 | East Tennessee State University | 1 | 2019 | Elizabeth Smith 2019. IHC-Amplified Fluorescent Frozen Sections. protocols.io https://dx.doi.org/10.17504/protocols.io.8rmhv46 | 2021-04-15 09:15:57 | ||
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Tache_Mulugeta_OT2OD024899_Colon tissue electrical stimulation and colonic motility measurements Resource Report Resource Website |
Muriel Larauche, Yushan Wang, Po-Min Wang, James Dunn, Wentai Liu, Mulugeta Million | DOI:10.17504/protocols.io.3rmgm46 | SPARC | This protocol describes a process for the measurement of acute electrical stimulation-induced effects on colonic motility in anesthetized young adult Yucatan minipigs. Signals recorded from manometry probes inserted into the proximal, transverse and distal colonic regions were used to measure the effect of stimulation by serosally placed electrodes opposed to the colonic tissue at multiple sites in an acute anesthetized preparation. The effect of stimulation was quantified as motility index assessments before, during and after stimulation, and the data was used to create a functional map of colonic motor response to localized colon stimulation. | University of California, Los Angeles, University of California, Los Angeles, University of California, Los Angeles, Stanford University, University of California, Los Angeles, University of California, Los Angeles | 1 | 2020 | Muriel Larauche, Yushan Wang, Po-Min Wang, James Dunn, Wentai Liu, Mulugeta Million 2020. Tache_Mulugeta_OT2OD024899_Colon tissue electrical stimulation and colonic motility measurements. protocols.io https://dx.doi.org/10.17504/protocols.io.3rmgm46 | 2021-04-15 09:15:57 | |||
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SPARC_Duke_PelotGrill_OT2-OD025340_HumanVagusNerve_Claudin1IHC_Morphology Resource Report Resource Website |
Nicole A. Pelot, J. Ashley Ezzell, Gabriel B. Goldhagen, Jake E. Cariello, Kara A. Clissold, Warren M. Grill | DOI:10.17504/protocols.io.bh4dj8s6 | SPARC | The protocol describes immunohistochemistry with anti-claudin-1, imaging, image segmentation, and image analysis methods to quantify human vagus nerve morphology. | Duke University, Duke University, Duke University, Duke University, Duke University, Duke University | 4 | 2020 | Nicole A. Pelot, J. Ashley Ezzell, Gabriel B. Goldhagen, Jake E. Cariello, Kara A. Clissold, Warren M. Grill 2020. SPARC_Duke_PelotGrill_OT2-OD025340_HumanVagusNerve_Claudin1IHC_Morphology. protocols.io https://dx.doi.org/10.17504/protocols.io.bh4dj8s6 | 2021-04-15 09:15:58 | |||
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Human Pancreas PACT Optical Clearing and High Resolution 3D Microscopy Resource Report Resource Website |
Elizabeth Butterworth, Wesley Dickerson, Vindhya Vijay, Kristina Weitzel, Julia Cooper, Eric W. Atkinson, Jason E. Coleman, Kevin Otto, Martha Campbell Thompson | DOI:10.17504/protocols.io.9gbh3sn | Human Cell Atlas Method Development Community, Optical Clearing of Tissue, SPARC | Using traditional histological methods, researchers are hampered in their ability to image whole tissues or organs in large-scale 3D. Histological sections are generally limited to 500 μm using traditional methods. In addition, light scatters from macromolecules within tissues, particularly lipids, prevents imaging to a depth >150 μm with most confocal microscopes. To reduce light scatter and to allow for deep tissue imaging using simple confocal microscopy, various optical clearing methods have been developed that are relevant for rodent and human tissue samples fixed by immersion. Several methods are related and use protein crosslinking with acrylamide and tissue clearing with sodium dodecyl sulfate (SDS). Other optical clearing techniques used various solvents though each modification had various advantages and disadvantages. Here, an optimized passive optical clearing method is described for studies of the human pancreas innervation and specifically for interrogation of the innervation of human islets. | University of Florida, University of Florida, University of Florida, University of Florida, University of Florida, University of Florida, University of Florida, University of Florida, University of Florida | http://doi:10.3791/56859 | 1 | 2020 | Elizabeth Butterworth, Wesley Dickerson, Vindhya Vijay, Kristina Weitzel, Julia Cooper, Eric W. Atkinson, Jason E. Coleman, Kevin Otto, Martha Campbell Thompson 2020. Human Pancreas PACT Optical Clearing and High Resolution 3D Microscopy. protocols.io https://dx.doi.org/10.17504/protocols.io.9gbh3sn | 2021-04-15 09:15:58 | ||
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Abdominal Emitter Implantation Resource Report Resource Website |
Nathan Lee | DOI:10.17504/protocols.io.bpzbmp2n | SPARC | Pennington Biomedical Research Center | 1 | 2020 | Nathan Lee 2020. Abdominal Emitter Implantation. protocols.io https://dx.doi.org/10.17504/protocols.io.bpzbmp2n | 2021-04-15 09:16:02 | ||||
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Morris USF Lab protocol DEMO Resource Report Resource Website |
Lauren Segers, Kendall Morris, Sarah Nuding | DOI:10.17504/protocols.io.5gbg3sn | SPARC | University of South Florida, University of South Florida, University of South Florida | 1 | 2019 | Lauren Segers, Kendall Morris, Sarah Nuding 2019. Morris USF Lab protocol DEMO. protocols.io https://dx.doi.org/10.17504/protocols.io.5gbg3sn | 2021-04-15 09:16:08 | ||||
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SPARC_Duke_Grill_OT2-OD025340_RatVagusNerveCollectionHistologyMicroscopy Resource Report Resource Website |
J. Ashley Ezzell, Nicole A. Pelot, Kara A. Clissold, Warren M. Grill | DOI:10.17504/protocols.io.ww3ffgn | SPARC | Protocol for collection, histological processing, and imaging of rat vagus nerves. | University of North Carolina, Duke University, University of North Carolina, Duke University | 1 | 2019 | J. Ashley Ezzell, Nicole A. Pelot, Kara A. Clissold, Warren M. Grill 2019. SPARC_Duke_Grill_OT2-OD025340_RatVagusNerveCollectionHistologyMicroscopy. protocols.io https://dx.doi.org/10.17504/protocols.io.ww3ffgn | 2021-04-15 09:16:09 | |||
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Image J Nerve Density Percentage Analysis Resource Report Resource Website |
Elizabeth Smith, Jacqui Potter | DOI:10.17504/protocols.io.beh4jb8w | SPARC | ImageJ Software can be used to find the percentage of nerve density in regions of interest. These regions of interest are imaged, and the nerve percentage is found by adjusting the image's histogram threshold. | [ETSU Research Lab Tech], [ETSU Research Lab Tech] | 1 | 2020 | Elizabeth Smith, Jacqui Potter 2020. Image J Nerve Density Percentage Analysis. protocols.io https://dx.doi.org/10.17504/protocols.io.beh4jb8w | 2021-04-15 09:16:14 | |||
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Use of tracer dyes to label neural projections to lower urinary tract organs Resource Report Resource Website |
Janet Keast, Peregrine Osborne | DOI:10.17504/protocols.io.w2xfgfn | SPARC | This protocol is used to visualise sensory and autonomic neurons innervating the bladder body (dome), bladder trigone or proximal urethra in an experimental adult male or female rat. The protocol is performed under anesthesia and should incorporate all local requirements for standards of animal experimentation, including methods of anesthesia, surgical environment, and post-operative monitoring and care. | University of Melbourne, University of Melbourne | 1 | 2020 | Janet Keast, Peregrine Osborne 2020. Use of tracer dyes to label neural projections to lower urinary tract organs. protocols.io https://dx.doi.org/10.17504/protocols.io.w2xfgfn | 2021-04-15 09:16:17 | |||
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Micro-CT imaging of rat stomach vasculature Resource Report Resource Website |
Deborah Jaffey, Logan Chesney, Terry Powley | DOI:10.17504/protocols.io.bafnibme | SPARC | This protocol describes how to prepare a rat stomach for micro-CT imaging of the vasculature. A lead-containing silicone-based curable material is injected into the heart at perfusion and flows through the vasculature and cures in place. Subsequent microCT imaging then provides a 3D description of the stomach vasculature. | Purdue University, Purdue University, Purdue University | 1 | 2020 | Deborah Jaffey, Logan Chesney, Terry Powley 2020. Micro-CT imaging of rat stomach vasculature. protocols.io https://dx.doi.org/10.17504/protocols.io.bafnibme | 2021-04-15 09:16:16 | |||
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SPARC_Duke_Grill_OT2-OD025340_VagusNerve_IHC_ChAT Resource Report Resource Website |
J. Ashley Ezzell, Nicole A. Pelot, Kara A. Clissold, Warren M. Grill | DOI:10.17504/protocols.io.bi9tkh6n | SPARC | The protocol describes immunohistochemistry with anti-choline acetyltransferase, as it has been applied to cervical and abdominal vagus nerve samples from rats, pigs, and humans. | Duke University, Duke University, Duke University, Duke University | 2 | 2020 | J. Ashley Ezzell, Nicole A. Pelot, Kara A. Clissold, Warren M. Grill 2020. SPARC_Duke_Grill_OT2-OD025340_VagusNerve_IHC_ChAT. protocols.io https://dx.doi.org/10.17504/protocols.io.bi9tkh6n | 2021-04-15 09:16:18 |
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