Identifier Results
| Field | Value |
|---|---|
| Identifier | nemo:dat-vccmgkw |
| Dataset Name | Enhancer AAVs for targeting spinal motor neurons and descending motor pathways in rodents and macaque |
| Version | NA |
| Release Date | NA |
| DOI | NA |
| Source Data URL | |
| Dataset Collection URL | https://data.nemoarchive.org/publication_release/Kussick_Daigle_Spinal_Cord_Enhancers-bag-2024-3-14.tgz |
| Description | Experimental access to cell types within the mammalian spinal cord is severely limited by the availability of genetic tools. To enable access to lower motor neurons (LMNs) and LMN subtypes, we generated single cell multiome datasets from mouse and macaque spinal cords and discovered putative enhancers for each neuronal population. We cloned these enhancers into adeno-associated viral vectors (AAVs) driving a reporter fluorophore and functionally screened them in mouse. The most promising candidate enhancers were extensively characterized in rat and macaque and an optimized pan LMN enhancer virus was made. Additionally, derivative viruses expressing Cre297T recombinase or ChR2-EYFP for labeling and functional studies and a single vector with combined enhancer elements to achieve simultaneous labeling of layer 5 extratelencephalic projecting (ET) neurons and LMNs were generated. This unprecedented LMN toolkit will enable future investigations of cell type function across species and potential therapeutic interventions for human neurodegenerative diseases. |
| Keywords | scRNA, 10X multiome, 10X, spinal cord, AAV, tools, enhancers |
| Total Files in Collection | 52 |
| Total Size in Collection (in GB) | 3188.9 |
| Authors | Emily Kussick, Nelson Johansen, Naz Taskin, Ananya Chowdhury, Meagan A. Quinlan, Alex Fraser, Andrew G. Clark, Brooke Wynalda, Refugio Martinez, Erin L. Groce, Melissa Reding, Elizabeth Liang, Lyudmila Shulga, Cindy Huang, Tamara Casper, Michael Clark, Windy Ho, Yuan Gao, Cindy T.J. van Velthoven, Cassandra Sobieski, Rebecca Ferrer, Melissa R. Berg, Britni C. Curtis, Chris English, Jesse C. Day, Michal Fortuna, Nicholas Donadio, Dakota Newman, Shenqin Yao, Anish Bhaswanth Chakka, Jeff Goldy, Amy Torkelson, Junitta B. Guzman, Rushil Chakrabarty, Beagen Nguy, Nathan Guilford, Trangthanh H. Pham, Vonn Wright, Kara Ronellenfitch,Robyn Naidoo, Jaimie Kenney, Ali Williford, Charu Ramakrishnan, Antonia Drinnenberg, Kathryn Gudsnuk, Bargavi Thyagarajan, Kimberly A. Smith, Nick Dee, Karl Deisseroth, Hongkui Zeng, Zizhen Yao, Bosiljka Tasic, Boaz P. Levi, Rebecca Hodge,Trygve E. Bakken, Ed S. Lein, Jonathan T. Ting, Tanya L. Daigle |
| Organization | Allen Institute for Brain Science |
| Contact Person | Nelson Johansen; Tanya Daigle |
| Contact E-Mail | nelson.johansen@alleninstitute.org; tanyaD@alleninstitute.org |
| External Identifier | https://doi.org/10.1101/2024.07.30.605864 |
| Grant Name | U19MH114830; Allen Internal funds; P510D010425; U420D011123 |
| Consortium | BICCN |
| Data Repository | NeMO |
| Data Repository RRID | RRID:SCR_016152 |
| Data License | Public data available under CC BY 4.0 |
| Data Access | https://alleninstitute.org/terms-of-use/ |
| Community Standards | https://biccn.org/standards |
| Study Organism | Mus musculus, Macaca mulatta, Macaca nemestrina |
| Protocol ID | dx.doi.org/10.17504/protocols.io.q26g7b52klwz/v9; dx.doi.org/10.17504/protocols.io.dm6gpwd8jlzp/v3; dx.doi.org/10.17504/protocols.io.4r3l22n5pl1y/v1 |
| Field | Value |
|---|---|
| Identifier | nemo:dat-6hd5phc |
| Description | Raw snATACseq data from spinal cords of mouse associated with the following publication: Kussick E, Johansen N, Taskin N, et al. Enhancer AAVs for targeting spinal motor neurons and descending motor pathways in rodents and macaque. Preprint. bioRxiv. 2024;2024.07.30.605864. Published 2024 Jul 31. doi:10.1101/2024.07.30.605864 |
| Source Data URL | https://data.nemoarchive.org/biccn/grant/u19_zeng/zeng/multimodal/sncell/10xMultiome_ATACseq/mouse/raw/ |
| Field | Value |
|---|---|
| Identifier | nemo:dat-nicauhh |
| Description | Raw snRNAseq data from spinal cords of macaque associated with the following publication: Kussick E, Johansen N, Taskin N, et al. Enhancer AAVs for targeting spinal motor neurons and descending motor pathways in rodents and macaque. Preprint. bioRxiv. 2024;2024.07.30.605864. Published 2024 Jul 31. doi:10.1101/2024.07.30.605864 |
| Source Data URL | https://data.nemoarchive.org/other/grant/aibs_internal/lein/multimodal/sncell/10xMultiome_RNAseq/macaque/raw/ |
| Field | Value |
|---|---|
| Identifier | nemo:dat-rdnhkzt |
| Description | Raw snATACseq data from spinal cords of macaque associated with the following publication: Kussick E, Johansen N, Taskin N, et al. Enhancer AAVs for targeting spinal motor neurons and descending motor pathways in rodents and macaque. Preprint. bioRxiv. 2024;2024.07.30.605864. Published 2024 Jul 31. doi:10.1101/2024.07.30.605864 |
| Source Data URL | https://data.nemoarchive.org/other/grant/aibs_internal/lein/multimodal/sncell/10xMultiome_ATACseq/macaque/raw/ |
| Field | Value |
|---|---|
| Identifier | nemo:dat-yj1pmez |
| Description | Raw snRNAseq data from spinal cords of mouse associated with the following publication: Kussick E, Johansen N, Taskin N, et al. Enhancer AAVs for targeting spinal motor neurons and descending motor pathways in rodents and macaque. Preprint. bioRxiv. 2024;2024.07.30.605864. Published 2024 Jul 31. doi:10.1101/2024.07.30.605864 |
| Source Data URL | https://data.nemoarchive.org/biccn/grant/u19_zeng/zeng/multimodal/sncell/10xMultiome_RNAseq/mouse/raw/ |
This identifier does not have sub-identifiers with "analysis" data associated