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458 results on '"Hertzano, Ronna"'

1. Gene expression signatures in blood from a West African sepsis cohort define host response phenotypes

Author

Chenoweth, Josh G., Colantuoni, Carlo, Striegel, Deborah A., Genzor, Pavol, Brandsma, Joost, Blair, Paul W., Krishnan, Subramaniam, Chiyka, Elizabeth, Fazli, Mehran, Mehta, Rittal, Considine, Michael, Cope, Leslie, Knight, Audrey C., Elayadi, Anissa, Fox, Anne, Hertzano, Ronna, Letizia, Andrew G., Owusu-Ofori, Alex, Boakye, Isaac, Aduboffour, Albert A., Ansong, Daniel, Biney, Eno, Oduro, George, Schully, Kevin L., and Clark, Danielle V.

Published
2024
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2. A guide to the BRAIN Initiative Cell Census Network data ecosystem

Author

Hawrylycz, Michael, Martone, Maryann E, Ascoli, Giorgio A, Bjaalie, Jan G, Dong, Hong-Wei, Ghosh, Satrajit S, Gillis, Jesse, Hertzano, Ronna, Haynor, David R, Hof, Patrick R, Kim, Yongsoo, Lein, Ed, Liu, Yufeng, Miller, Jeremy A, Mitra, Partha P, Mukamel, Eran, Ng, Lydia, Osumi-Sutherland, David, Peng, Hanchuan, Ray, Patrick L, Sanchez, Raymond, Regev, Aviv, Ropelewski, Alex, Scheuermann, Richard H, Tan, Shawn Zheng Kai, Thompson, Carol L, Tickle, Timothy, Tilgner, Hagen, Varghese, Merina, Wester, Brock, White, Owen, Zeng, Hongkui, Aevermann, Brian, Allemang, David, Ament, Seth, Athey, Thomas L, Baker, Cody, Baker, Katherine S, Baker, Pamela M, Bandrowski, Anita, Banerjee, Samik, Bishwakarma, Prajal, Carr, Ambrose, Chen, Min, Choudhury, Roni, Cool, Jonah, Creasy, Heather, D’Orazi, Florence, Degatano, Kylee, Dichter, Benjamin, Ding, Song-Lin, Dolbeare, Tim, Ecker, Joseph R, Fang, Rongxin, Fillion-Robin, Jean-Christophe, Fliss, Timothy P, Gee, James, Gillespie, Tom, Gouwens, Nathan, Zhang, Guo-Qiang, Halchenko, Yaroslav O, Harris, Nomi L, Herb, Brian R, Hintiryan, Houri, Hood, Gregory, Horvath, Sam, Huo, Bingxing, Jarecka, Dorota, Jiang, Shengdian, Khajouei, Farzaneh, Kiernan, Elizabeth A, Kir, Huseyin, Kruse, Lauren, Lee, Changkyu, Lelieveldt, Boudewijn, Li, Yang, Liu, Hanqing, Liu, Lijuan, Markuhar, Anup, Mathews, James, Mathews, Kaylee L, Mezias, Chris, Miller, Michael I, Mollenkopf, Tyler, Mufti, Shoaib, Mungall, Christopher J, Orvis, Joshua, Puchades, Maja A, Qu, Lei, Receveur, Joseph P, Ren, Bing, Sjoquist, Nathan, Staats, Brian, Tward, Daniel, van Velthoven, Cindy TJ, Wang, Quanxin, Xie, Fangming, Xu, Hua, Yao, Zizhen, and Yun, Zhixi

Subjects
Biological Sciences, Genetics, Data Science, Neurosciences, Mental Health, 1.1 Normal biological development and functioning, Neurological, Animals, Humans, Mice, Brain, Ecosystem, Neurons, Agricultural and Veterinary Sciences, Medical and Health Sciences, Developmental Biology, Agricultural, veterinary and food sciences, Biological sciences, Biomedical and clinical sciences
Abstract

Characterizing cellular diversity at different levels of biological organization and across data modalities is a prerequisite to understanding the function of cell types in the brain. Classification of neurons is also essential to manipulate cell types in controlled ways and to understand their variation and vulnerability in brain disorders. The BRAIN Initiative Cell Census Network (BICCN) is an integrated network of data-generating centers, data archives, and data standards developers, with the goal of systematic multimodal brain cell type profiling and characterization. Emphasis of the BICCN is on the whole mouse brain with demonstration of prototype feasibility for human and nonhuman primate (NHP) brains. Here, we provide a guide to the cellular and spatial approaches employed by the BICCN, and to accessing and using these data and extensive resources, including the BRAIN Cell Data Center (BCDC), which serves to manage and integrate data across the ecosystem. We illustrate the power of the BICCN data ecosystem through vignettes highlighting several BICCN analysis and visualization tools. Finally, we present emerging standards that have been developed or adopted toward Findable, Accessible, Interoperable, and Reusable (FAIR) neuroscience. The combined BICCN ecosystem provides a comprehensive resource for the exploration and analysis of cell types in the brain.

Published
2023

3. A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex

Author

Yao, Zizhen, Liu, Hanqing, Xie, Fangming, Fischer, Stephan, Adkins, Ricky S, Aldridge, Andrew I, Ament, Seth A, Bartlett, Anna, Behrens, M Margarita, Van den Berge, Koen, Bertagnolli, Darren, de Bézieux, Hector Roux, Biancalani, Tommaso, Booeshaghi, A Sina, Bravo, Héctor Corrada, Casper, Tamara, Colantuoni, Carlo, Crabtree, Jonathan, Creasy, Heather, Crichton, Kirsten, Crow, Megan, Dee, Nick, Dougherty, Elizabeth L, Doyle, Wayne I, Dudoit, Sandrine, Fang, Rongxin, Felix, Victor, Fong, Olivia, Giglio, Michelle, Goldy, Jeff, Hawrylycz, Mike, Herb, Brian R, Hertzano, Ronna, Hou, Xiaomeng, Hu, Qiwen, Kancherla, Jayaram, Kroll, Matthew, Lathia, Kanan, Li, Yang Eric, Lucero, Jacinta D, Luo, Chongyuan, Mahurkar, Anup, McMillen, Delissa, Nadaf, Naeem M, Nery, Joseph R, Nguyen, Thuc Nghi, Niu, Sheng-Yong, Ntranos, Vasilis, Orvis, Joshua, Osteen, Julia K, Pham, Thanh, Pinto-Duarte, Antonio, Poirion, Olivier, Preissl, Sebastian, Purdom, Elizabeth, Rimorin, Christine, Risso, Davide, Rivkin, Angeline C, Smith, Kimberly, Street, Kelly, Sulc, Josef, Svensson, Valentine, Tieu, Michael, Torkelson, Amy, Tung, Herman, Vaishnav, Eeshit Dhaval, Vanderburg, Charles R, van Velthoven, Cindy, Wang, Xinxin, White, Owen R, Huang, Z Josh, Kharchenko, Peter V, Pachter, Lior, Ngai, John, Regev, Aviv, Tasic, Bosiljka, Welch, Joshua D, Gillis, Jesse, Macosko, Evan Z, Ren, Bing, Ecker, Joseph R, Zeng, Hongkui, and Mukamel, Eran A

Subjects
Human Genome, Neurosciences, Genetics, Bioengineering, Biotechnology, 1.1 Normal biological development and functioning, Underpinning research, Neurological, Animals, Atlases as Topic, Datasets as Topic, Epigenesis, Genetic, Epigenomics, Female, Gene Expression Profiling, Male, Mice, Motor Cortex, Neurons, Organ Specificity, Reproducibility of Results, Single-Cell Analysis, Transcriptome, General Science & Technology
Abstract

Single-cell transcriptomics can provide quantitative molecular signatures for large, unbiased samples of the diverse cell types in the brain1-3. With the proliferation of multi-omics datasets, a major challenge is to validate and integrate results into a biological understanding of cell-type organization. Here we generated transcriptomes and epigenomes from more than 500,000 individual cells in the mouse primary motor cortex, a structure that has an evolutionarily conserved role in locomotion. We developed computational and statistical methods to integrate multimodal data and quantitatively validate cell-type reproducibility. The resulting reference atlas-containing over 56 neuronal cell types that are highly replicable across analysis methods, sequencing technologies and modalities-is a comprehensive molecular and genomic account of the diverse neuronal and non-neuronal cell types in the mouse primary motor cortex. The atlas includes a population of excitatory neurons that resemble pyramidal cells in layer 4 in other cortical regions4. We further discovered thousands of concordant marker genes and gene regulatory elements for these cell types. Our results highlight the complex molecular regulation of cell types in the brain and will directly enable the design of reagents to target specific cell types in the mouse primary motor cortex for functional analysis.

Published
2021

4. Comparative cellular analysis of motor cortex in human, marmoset and mouse

Author

Bakken, Trygve E, Jorstad, Nikolas L, Hu, Qiwen, Lake, Blue B, Tian, Wei, Kalmbach, Brian E, Crow, Megan, Hodge, Rebecca D, Krienen, Fenna M, Sorensen, Staci A, Eggermont, Jeroen, Yao, Zizhen, Aevermann, Brian D, Aldridge, Andrew I, Bartlett, Anna, Bertagnolli, Darren, Casper, Tamara, Castanon, Rosa G, Crichton, Kirsten, Daigle, Tanya L, Dalley, Rachel, Dee, Nick, Dembrow, Nikolai, Diep, Dinh, Ding, Song-Lin, Dong, Weixiu, Fang, Rongxin, Fischer, Stephan, Goldman, Melissa, Goldy, Jeff, Graybuck, Lucas T, Herb, Brian R, Hou, Xiaomeng, Kancherla, Jayaram, Kroll, Matthew, Lathia, Kanan, van Lew, Baldur, Li, Yang Eric, Liu, Christine S, Liu, Hanqing, Lucero, Jacinta D, Mahurkar, Anup, McMillen, Delissa, Miller, Jeremy A, Moussa, Marmar, Nery, Joseph R, Nicovich, Philip R, Niu, Sheng-Yong, Orvis, Joshua, Osteen, Julia K, Owen, Scott, Palmer, Carter R, Pham, Thanh, Plongthongkum, Nongluk, Poirion, Olivier, Reed, Nora M, Rimorin, Christine, Rivkin, Angeline, Romanow, William J, Sedeño-Cortés, Adriana E, Siletti, Kimberly, Somasundaram, Saroja, Sulc, Josef, Tieu, Michael, Torkelson, Amy, Tung, Herman, Wang, Xinxin, Xie, Fangming, Yanny, Anna Marie, Zhang, Renee, Ament, Seth A, Behrens, M Margarita, Bravo, Hector Corrada, Chun, Jerold, Dobin, Alexander, Gillis, Jesse, Hertzano, Ronna, Hof, Patrick R, Höllt, Thomas, Horwitz, Gregory D, Keene, C Dirk, Kharchenko, Peter V, Ko, Andrew L, Lelieveldt, Boudewijn P, Luo, Chongyuan, Mukamel, Eran A, Pinto-Duarte, António, Preissl, Sebastian, Regev, Aviv, Ren, Bing, Scheuermann, Richard H, Smith, Kimberly, Spain, William J, White, Owen R, Koch, Christof, Hawrylycz, Michael, Tasic, Bosiljka, Macosko, Evan Z, McCarroll, Steven A, and Ting, Jonathan T

Subjects
Human Genome, Neurosciences, Genetics, Biotechnology, Underpinning research, 1.1 Normal biological development and functioning, Neurological, Animals, Atlases as Topic, Callithrix, Epigenesis, Genetic, Epigenomics, Female, GABAergic Neurons, Gene Expression Profiling, Glutamates, Humans, In Situ Hybridization, Fluorescence, Male, Mice, Middle Aged, Motor Cortex, Neurons, Organ Specificity, Phylogeny, Single-Cell Analysis, Species Specificity, Transcriptome, General Science & Technology
Abstract

The primary motor cortex (M1) is essential for voluntary fine-motor control and is functionally conserved across mammals1. Here, using high-throughput transcriptomic and epigenomic profiling of more than 450,000 single nuclei in humans, marmoset monkeys and mice, we demonstrate a broadly conserved cellular makeup of this region, with similarities that mirror evolutionary distance and are consistent between the transcriptome and epigenome. The core conserved molecular identities of neuronal and non-neuronal cell types allow us to generate a cross-species consensus classification of cell types, and to infer conserved properties of cell types across species. Despite the overall conservation, however, many species-dependent specializations are apparent, including differences in cell-type proportions, gene expression, DNA methylation and chromatin state. Few cell-type marker genes are conserved across species, revealing a short list of candidate genes and regulatory mechanisms that are responsible for conserved features of homologous cell types, such as the GABAergic chandelier cells. This consensus transcriptomic classification allows us to use patch-seq (a combination of whole-cell patch-clamp recordings, RNA sequencing and morphological characterization) to identify corticospinal Betz cells from layer 5 in non-human primates and humans, and to characterize their highly specialized physiology and anatomy. These findings highlight the robust molecular underpinnings of cell-type diversity in M1 across mammals, and point to the genes and regulatory pathways responsible for the functional identity of cell types and their species-specific adaptations.

Published
2021

5. A multimodal cell census and atlas of the mammalian primary motor cortex

Author

Callaway, Edward M, Dong, Hong-Wei, Ecker, Joseph R, Hawrylycz, Michael J, Huang, Z Josh, Lein, Ed S, Ngai, John, Osten, Pavel, Ren, Bing, Tolias, Andreas Savas, White, Owen, Zeng, Hongkui, Zhuang, Xiaowei, Ascoli, Giorgio A, Behrens, M Margarita, Chun, Jerold, Feng, Guoping, Gee, James C, Ghosh, Satrajit S, Halchenko, Yaroslav O, Hertzano, Ronna, Lim, Byung Kook, Martone, Maryann E, Ng, Lydia, Pachter, Lior, Ropelewski, Alexander J, Tickle, Timothy L, Yang, X William, Zhang, Kun, Bakken, Trygve E, Berens, Philipp, Daigle, Tanya L, Harris, Julie A, Jorstad, Nikolas L, Kalmbach, Brian E, Kobak, Dmitry, Li, Yang Eric, Liu, Hanqing, Matho, Katherine S, Mukamel, Eran A, Naeemi, Maitham, Scala, Federico, Tan, Pengcheng, Ting, Jonathan T, Xie, Fangming, Zhang, Meng, Zhang, Zhuzhu, Zhou, Jingtian, Zingg, Brian, Armand, Ethan, Yao, Zizhen, Bertagnolli, Darren, Casper, Tamara, Crichton, Kirsten, Dee, Nick, Diep, Dinh, Ding, Song-Lin, Dong, Weixiu, Dougherty, Elizabeth L, Fong, Olivia, Goldman, Melissa, Goldy, Jeff, Hodge, Rebecca D, Hu, Lijuan, Keene, C Dirk, Krienen, Fenna M, Kroll, Matthew, Lake, Blue B, Lathia, Kanan, Linnarsson, Sten, Liu, Christine S, Macosko, Evan Z, McCarroll, Steven A, McMillen, Delissa, Nadaf, Naeem M, Nguyen, Thuc Nghi, Palmer, Carter R, Pham, Thanh, Plongthongkum, Nongluk, Reed, Nora M, Regev, Aviv, Rimorin, Christine, Romanow, William J, Savoia, Steven, Siletti, Kimberly, Smith, Kimberly, Sulc, Josef, Tasic, Bosiljka, Tieu, Michael, Torkelson, Amy, Tung, Herman, van Velthoven, Cindy TJ, Vanderburg, Charles R, Yanny, Anna Marie, Fang, Rongxin, Hou, Xiaomeng, Lucero, Jacinta D, Osteen, Julia K, Pinto-Duarte, Antonio, and Poirion, Olivier

Subjects
Genetics, Neurosciences, Human Genome, Biotechnology, Underpinning research, 1.1 Normal biological development and functioning, Neurological, Animals, Atlases as Topic, Callithrix, Epigenomics, Female, Gene Expression Profiling, Glutamates, Humans, In Situ Hybridization, Fluorescence, Male, Mice, Motor Cortex, Neurons, Organ Specificity, Phylogeny, Single-Cell Analysis, Species Specificity, Transcriptome, BRAIN Initiative Cell Census Network, General Science & Technology
Abstract

Here we report the generation of a multimodal cell census and atlas of the mammalian primary motor cortex as the initial product of the BRAIN Initiative Cell Census Network (BICCN). This was achieved by coordinated large-scale analyses of single-cell transcriptomes, chromatin accessibility, DNA methylomes, spatially resolved single-cell transcriptomes, morphological and electrophysiological properties and cellular resolution input-output mapping, integrated through cross-modal computational analysis. Our results advance the collective knowledge and understanding of brain cell-type organization1-5. First, our study reveals a unified molecular genetic landscape of cortical cell types that integrates their transcriptome, open chromatin and DNA methylation maps. Second, cross-species analysis achieves a consensus taxonomy of transcriptomic types and their hierarchical organization that is conserved from mouse to marmoset and human. Third, in situ single-cell transcriptomics provides a spatially resolved cell-type atlas of the motor cortex. Fourth, cross-modal analysis provides compelling evidence for the transcriptomic, epigenomic and gene regulatory basis of neuronal phenotypes such as their physiological and anatomical properties, demonstrating the biological validity and genomic underpinning of neuron types. We further present an extensive genetic toolset for targeting glutamatergic neuron types towards linking their molecular and developmental identity to their circuit function. Together, our results establish a unifying and mechanistic framework of neuronal cell-type organization that integrates multi-layered molecular genetic and spatial information with multi-faceted phenotypic properties.

Published
2021

9. Genome-wide association meta-analysis identifies 48 risk variants and highlights the role of the stria vascularis in hearing loss

Author

Metspalu, Andres, Nelis, Mari, Mägi, Reedik, Esko, Tõnu, Trpchevska, Natalia, Freidin, Maxim B., Broer, Linda, Oosterloo, Berthe C., Yao, Shuyang, Zhou, Yitian, Vona, Barbara, Bishop, Charles, Bizaki-Vallaskangas, Argyro, Canlon, Barbara, Castellana, Fabio, Chasman, Daniel I., Cherny, Stacey, Christensen, Kaare, Concas, Maria Pina, Correa, Adolfo, Elkon, Ran, Mengel-From, Jonas, Gao, Yan, Giersch, Anne B.S., Girotto, Giorgia, Gudjonsson, Alexander, Gudnason, Vilmundur, Heard-Costa, Nancy L., Hertzano, Ronna, Hjelmborg, Jacob v.B., Hjerling-Leffler, Jens, Hoffman, Howard J., Kaprio, Jaakko, Kettunen, Johannes, Krebs, Kristi, Kähler, Anna K., Lallemend, Francois, Launer, Lenore J., Lee, I-Min, Leonard, Hampton, Li, Chuan-Ming, Lowenheim, Hubert, Magnusson, Patrik K.E., van Meurs, Joyce, Milani, Lili, Morton, Cynthia C., Mäkitie, Antti, Nalls, Mike A., Nardone, Giuseppe Giovanni, Nygaard, Marianne, Palviainen, Teemu, Pratt, Sheila, Quaranta, Nicola, Rämö, Joel, Saarentaus, Elmo, Sardone, Rodolfo, Satizabal, Claudia L., Schweinfurth, John M., Seshadri, Sudha, Shiroma, Eric, Shulman, Eldad, Simonsick, Eleanor, Spankovich, Christopher, Tropitzsch, Anke, Lauschke, Volker M., Sullivan, Patrick F., Goedegebure, Andre, Cederroth, Christopher R., Williams, Frances M.K., and Nagtegaal, Andries Paul

Published
2022
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13. in silicotranscriptome dissection of neocortical excitatory neurogenesis via joint matrix decomposition and transfer learning

Author

Sonthalia, Shreyash, primary, Li, Guangyan, additional, Blanco, Xoel Mato, additional, Casella, Alex, additional, Liu, Jinrui, additional, Stein-O’Brien, Genevieve, additional, Caffo, Brian, additional, Adkins, Ricky S., additional, Orvis, Joshua, additional, Hertzano, Ronna, additional, Mahurkar, Anup, additional, Gillis, Jesse, additional, Werner, Jonathan, additional, Ma, Shaojie, additional, Micali, Nicola, additional, Sestan, Nenad, additional, Rakic, Pasko, additional, Santpere, Gabriel, additional, Ament, Seth A., additional, and Colantuoni, Carlo, additional

Published
2024
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14. DeepFreeze 3D‐biofabrication for Bioengineering and Storage of Stem Cells in Thick and Large‐Scale Human Tissue Analogs

Author

Kumar, Alok, primary, Brown, Robert A., additional, Roufaeil, Daniel Benyamien, additional, Gupta, Aditi, additional, Lipford, Erika L., additional, Muthusamy, Divya, additional, Zalzman, Amihai, additional, Hertzano, Ronna, additional, Lowe, Tao, additional, Stains, Joseph P., additional, and Zalzman, Michal, additional

Published
2024
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18. Author Correction: Comparative cellular analysis of motor cortex in human, marmoset and mouse

Author

Bakken, Trygve E., Jorstad, Nikolas L., Hu, Qiwen, Lake, Blue B., Tian, Wei, Kalmbach, Brian E., Crow, Megan, Hodge, Rebecca D., Krienen, Fenna M., Sorensen, Staci A., Eggermont, Jeroen, Yao, Zizhen, Aevermann, Brian D., Aldridge, Andrew I., Bartlett, Anna, Bertagnolli, Darren, Casper, Tamara, Castanon, Rosa G., Crichton, Kirsten, Daigle, Tanya L., Dalley, Rachel, Dee, Nick, Dembrow, Nikolai, Diep, Dinh, Ding, Song-Lin, Dong, Weixiu, Fang, Rongxin, Fischer, Stephan, Goldman, Melissa, Goldy, Jeff, Graybuck, Lucas T., Herb, Brian R., Hou, Xiaomeng, Kancherla, Jayaram, Kroll, Matthew, Lathia, Kanan, van Lew, Baldur, Li, Yang Eric, Liu, Christine S., Liu, Hanqing, Lucero, Jacinta D., Mahurkar, Anup, McMillen, Delissa, Miller, Jeremy A., Moussa, Marmar, Nery, Joseph R., Nicovich, Philip R., Niu, Sheng-Yong, Orvis, Joshua, Osteen, Julia K., Owen, Scott, Palmer, Carter R., Pham, Thanh, Plongthongkum, Nongluk, Poirion, Olivier, Reed, Nora M., Rimorin, Christine, Rivkin, Angeline, Romanow, William J., Sedeño-Cortés, Adriana E., Siletti, Kimberly, Somasundaram, Saroja, Sulc, Josef, Tieu, Michael, Torkelson, Amy, Tung, Herman, Wang, Xinxin, Xie, Fangming, Yanny, Anna Marie, Zhang, Renee, Ament, Seth A., Behrens, M. Margarita, Bravo, Hector Corrada, Chun, Jerold, Dobin, Alexander, Gillis, Jesse, Hertzano, Ronna, Hof, Patrick R., Höllt, Thomas, Horwitz, Gregory D., Keene, C. Dirk, Kharchenko, Peter V., Ko, Andrew L., Lelieveldt, Boudewijn P., Luo, Chongyuan, Mukamel, Eran A., Pinto-Duarte, António, Preiss, Sebastian, Regev, Aviv, Ren, Bing, Scheuermann, Richard H., Smith, Kimberly, Spain, William J., White, Owen R., Koch, Christof, Hawrylycz, Michael, Tasic, Bosiljka, Macosko, Evan Z., McCarroll, Steven A., Ting, Jonathan T., Zeng, Hongkui, Zhang, Kun, Feng, Guoping, Ecker, Joseph R., Linnarsson, Sten, and Lein, Ed S.

Published
2022
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21. gEAR: Gene Expression Analysis Resource portal for community-driven, multi-omic data exploration

Author

Orvis, Joshua, Gottfried, Brian, Kancherla, Jayaram, Adkins, Ricky S., Song, Yang, Dror, Amiel A., Olley, Dustin, Rose, Kevin, Chrysostomou, Elena, Kelly, Michael C., Milon, Beatrice, Matern, Maggie S., Azaiez, Hela, Herb, Brian, Colantuoni, Carlo, Carter, Robert L., Ament, Seth A., Kelley, Matthew W., White, Owen, Bravo, Hector Corrada, Mahurkar, Anup, and Hertzano, Ronna

Published
2021
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22. Helios is a key transcriptional regulator of outer hair cell maturation

Author

Chessum, Lauren, Matern, Maggie S., Kelly, Michael C., Johnson, Stuart L., Ogawa, Yoko, Milon, Beatrice, McMurray, Mark, Driver, Elizabeth C., Parker, Andrew, Song, Yang, Codner, Gemma, Esapa, Christopher T., Prescott, Jack, Trent, Graham, Wells, Sara, Dragich, Abigail K., Frolenkov, Gregory I., Kelley, Matthew W., Marcotti, Walter, Brown, Steve D. M., Elkon, Ran, Bowl, Michael R., and Hertzano, Ronna

Published
2018
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29. Sex-Linked Biology and Gender-Related Research Is Essential to Advancing Hearing Health

Author

Reavis, Kelly M., primary, Bisgaard, Nikolai, additional, Canlon, Barbara, additional, Dubno, Judy R., additional, Frisina, Robert D., additional, Hertzano, Ronna, additional, Humes, Larry E., additional, Mick, Paul, additional, Phillips, Natalie A., additional, Pichora-Fuller, M. Kathleen, additional, Shuster, Benjamin, additional, and Singh, Gurjit, additional

Published
2022
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30. The Neuroscience Multi-Omic Archive: a BRAIN Initiative resource for single-cell transcriptomic and epigenomic data from the mammalian brain

Author

Ament, Seth A, primary, Adkins, Ricky S, additional, Carter, Robert, additional, Chrysostomou, Elena, additional, Colantuoni, Carlo, additional, Crabtree, Jonathan, additional, Creasy, Heather H, additional, Degatano, Kylee, additional, Felix, Victor, additional, Gandt, Peter, additional, Garden, Gwenn A, additional, Giglio, Michelle, additional, Herb, Brian R, additional, Khajouei, Farzaneh, additional, Kiernan, Elizabeth, additional, McCracken, Carrie, additional, McDaniel, Kennedy, additional, Nadendla, Suvarna, additional, Nickel, Lance, additional, Olley, Dustin, additional, Orvis, Joshua, additional, Receveur, Joseph P, additional, Schor, Mike, additional, Sonthalia, Shreyash, additional, Tickle, Timothy L, additional, Way, Jessica, additional, Hertzano, Ronna, additional, Mahurkar, Anup A, additional, and White, Owen R, additional

Published
2022
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33. The Neuroscience Multi-Omic Archive: A BRAIN Initiative resource for single-cell transcriptomic and epigenomic data from the mammalian brain

Author

Ament, Seth A., primary, Adkins, Ricky S., additional, Carter, Robert, additional, Chrysostomou, Elena, additional, Colantuoni, Carlo, additional, Crabtree, Jonathan, additional, Creasy, Heather H., additional, Degatano, Kylee, additional, Felix, Victor, additional, Gandt, Peter, additional, Garden, Gwenn A., additional, Giglio, Michelle, additional, Herb, Brian R., additional, Khajouei, Farzaneh, additional, Kiernan, Elizabeth, additional, McCracken, Carrie, additional, McDaniel, Kennedy, additional, Nadendla, Suvarna, additional, Nickel, Lance, additional, Olley, Dustin, additional, Orvis, Joshua, additional, Receveur, Joseph P., additional, Schor, Mike, additional, Tickle, Timothy L., additional, Way, Jessica, additional, Hertzano, Ronna, additional, Mahurkar, Anup A., additional, and White, Owen R, additional

Published
2022
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40. Genome-wide association meta-analysis identifies 48 risk variants and highlights the role of the stria vascularis in hearing loss

Author

Trpchevska, Natalia, primary, Freidin, Maxim B., additional, Broer, Linda, additional, Oosterloo, Berthe C., additional, Yao, Shuyang, additional, Zhou, Yitian, additional, Vona, Barbara, additional, Bishop, Charles, additional, Bizaki-Vallaskangas, Argyro, additional, Canlon, Barbara, additional, Castellana, Fabio, additional, Chasman, Daniel I., additional, Cherny, Stacey, additional, Christensen, Kaare, additional, Concas, Maria Pina, additional, Correa, Adolfo, additional, Elkon, Ran, additional, Mengel-From, Jonas, additional, Gao, Yan, additional, Giersch, Anne B.S., additional, Girotto, Giorgia, additional, Gudjonsson, Alexander, additional, Gudnason, Vilmundur, additional, Heard-Costa, Nancy L., additional, Hertzano, Ronna, additional, Hjelmborg, Jacob v.B., additional, Hjerling-Leffler, Jens, additional, Hoffman, Howard J., additional, Kaprio, Jaakko, additional, Kettunen, Johannes, additional, Krebs, Kristi, additional, Kähler, Anna K., additional, Lallemend, Francois, additional, Launer, Lenore J., additional, Lee, I-Min, additional, Leonard, Hampton, additional, Li, Chuan-Ming, additional, Lowenheim, Hubert, additional, Magnusson, Patrik K.E., additional, van Meurs, Joyce, additional, Milani, Lili, additional, Morton, Cynthia C., additional, Mäkitie, Antti, additional, Nalls, Mike A., additional, Nardone, Giuseppe Giovanni, additional, Nygaard, Marianne, additional, Palviainen, Teemu, additional, Pratt, Sheila, additional, Quaranta, Nicola, additional, Rämö, Joel, additional, Saarentaus, Elmo, additional, Sardone, Rodolfo, additional, Satizabal, Claudia L., additional, Schweinfurth, John M., additional, Seshadri, Sudha, additional, Shiroma, Eric, additional, Shulman, Eldad, additional, Simonsick, Eleanor, additional, Spankovich, Christopher, additional, Tropitzsch, Anke, additional, Lauschke, Volker M., additional, Sullivan, Patrick F., additional, Goedegebure, Andre, additional, Cederroth, Christopher R., additional, Williams, Frances M.K., additional, Nagtegaal, Andries Paul, additional, Metspalu, Andres, additional, Nelis, Mari, additional, Mägi, Reedik, additional, and Esko, Tõnu, additional

Published
2022
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42. A multimodal cell census and atlas of the mammalian primary motor cortex

Author

Callaway, Edward M., Dong, Hong-Wei, Ecker, Joseph R., Hawrylycz, Michael J., Huang, Z. Josh, Lein, Ed S., Ngai, John, Osten, Pavel, Ren, Bing, Tolias, Andreas Savas, White, Owen, Zeng, Hongkui, Zhuang, Xiaowei, Ascoli, Giorgio A., Behrens, M. Margarita, Chun, Jerold, Feng, Guoping, Gee, James C., Ghosh, Satrajit S., Halchenko, Yaroslav O., Hertzano, Ronna, Lim, Byung Kook, Martone, Maryann E., Ng, Lydia, Pachter, Lior, Ropelewski, Alexander J., Tickle, Timothy L., Yang, X. William, Zhang, Kun, Bakken, Trygve E., Berens, Philipp, Daigle, Tanya L., Harris, Julie A., Jorstad, Nikolas L., Kalmbach, Brian E., Kobak, Dmitry, Li, Yang Eric, Liu, Hanqing, Matho, Katherine S., Mukamel, Eran A., Naeemi, Maitham, Scala, Federico, Tan, Pengcheng, Ting, Jonathan T., Xie, Fangming, Zhang, Meng, Zhang, Zhuzhu, Zhou, Jingtian, Zingg, Brian, Armand, Ethan, Yao, Zizhen, Bertagnolli, Darren, Casper, Tamara, Crichton, Kirsten, Dee, Nick, Diep, Dinh, Ding, Song-Lin, Dong, Weixiu, Dougherty, Elizabeth L., Fong, Olivia, Goldman, Melissa, Goldy, Jeff, Hodge, Rebecca D., Hu, Lijuan, Keene, C. Dirk, Krienen, Fenna M., Kroll, Matthew, Lake, Blue B., Lathia, Kanan, Linnarsson, Sten, Liu, Christine S., Macosko, Evan Z., McCarroll, Steven A., McMillen, Delissa, Nadaf, Naeem M., Nguyen, Thuc Nghi, Palmer, Carter R., Pham, Thanh, Plongthongkum, Nongluk, Reed, Nora M., Regev, Aviv, Rimorin, Christine, Romanow, William J., Savoia, Steven, Siletti, Kimberly, Smith, Kimberly, Sulc, Josef, Tasic, Bosiljka, Tieu, Michael, Torkelson, Amy, Tung, Herman, van Velthoven, Cindy T. J., Vanderburg, Charles R., Yanny, Anna Marie, Fang, Rongxin, Hou, Xiaomeng, Lucero, Jacinta D., Osteen, Julia K., Pinto-Duarte, Antonio, Poirion, Olivier, Preissl, Sebastian, Wang, Xinxin, Aldridge, Andrew I., Bartlett, Anna, Boggeman, Lara, O’Connor, Carolyn, Castanon, Rosa G., Chen, Huaming, Fitzpatrick, Conor, Luo, Chongyuan, Nery, Joseph R., Nunn, Michael, Rivkin, Angeline C., Tian, Wei, Dominguez, Bertha, Ito-Cole, Tony, Jacobs, Matthew, Jin, Xin, Lee, Cheng-Ta, Lee, Kuo-Fen, Miyazaki, Paula Assakura, Pang, Yan, Rashid, Mohammad, Smith, Jared B., Vu, Minh, Williams, Elora, Biancalani, Tommaso, Booeshaghi, A. Sina, Crow, Megan, Dudoit, Sandrine, Fischer, Stephan, Gillis, Jesse, Hu, Qiwen, Kharchenko, Peter V., Niu, Sheng-Yong, Ntranos, Vasilis, Purdom, Elizabeth, Risso, Davide, de Bézieux, Hector Roux, Somasundaram, Saroja, Street, Kelly, Svensson, Valentine, Vaishnav, Eeshit Dhaval, Van den Berge, Koen, Welch, Joshua D., An, Xu, Bateup, Helen S., Bowman, Ian, Chance, Rebecca K., Foster, Nicholas N., Galbavy, William, Gong, Hui, Gou, Lin, Hatfield, Joshua T., Hintiryan, Houri, Hirokawa, Karla E., Kim, Gukhan, Kramer, Daniel J., Li, Anan, Li, Xiangning, Luo, Qingming, Muñoz-Castañeda, Rodrigo, Stafford, David A., Feng, Zhao, Jia, Xueyan, Jiang, Shengdian, Jiang, Tao, Kuang, Xiuli, Larsen, Rachael, Lesnar, Phil, Li, Yaoyao, Li, Yuanyuan, Liu, Lijuan, Peng, Hanchuan, Qu, Lei, Ren, Miao, Ruan, Zongcai, Shen, Elise, Song, Yuanyuan, Wakeman, Wayne, Wang, Peng, Wang, Yimin, Wang, Yun, Yin, Lulu, Yuan, Jing, Zhao, Sujun, Zhao, Xuan, Narasimhan, Arun, Palaniswamy, Ramesh, Banerjee, Samik, Ding, Liya, Huilgol, Dhananjay, Huo, Bingxing, Kuo, Hsien-Chi, Laturnus, Sophie, Li, Xu, Mitra, Partha P., Mizrachi, Judith, Wang, Quanxin, Xie, Peng, Xiong, Feng, Yu, Yang, Eichhorn, Stephen W., Berg, Jim, Bernabucci, Matteo, Bernaerts, Yves, Cadwell, Cathryn René, Castro, Jesus Ramon, Dalley, Rachel, Hartmanis, Leonard, Horwitz, Gregory D., Jiang, Xiaolong, Ko, Andrew L., Miranda, Elanine, Mulherkar, Shalaka, Nicovich, Philip R., Owen, Scott F., Sandberg, Rickard, Sorensen, Staci A., Tan, Zheng Huan, Allen, Shona, Hockemeyer, Dirk, Lee, Angus Y., Veldman, Matthew B., Adkins, Ricky S., Ament, Seth A., Bravo, Héctor Corrada, Carter, Robert, Chatterjee, Apaala, Colantuoni, Carlo, Crabtree, Jonathan, Creasy, Heather, Felix, Victor, Giglio, Michelle, Herb, Brian R., Kancherla, Jayaram, Mahurkar, Anup, McCracken, Carrie, Nickel, Lance, Olley, Dustin, Orvis, Joshua, Schor, Michael, Hood, Greg, Dichter, Benjamin, Grauer, Michael, Helba, Brian, Bandrowski, Anita, Barkas, Nikolaos, Carlin, Benjamin, D’Orazi, Florence D., Degatano, Kylee, Gillespie, Thomas H., Khajouei, Farzaneh, Konwar, Kishori, Thompson, Carol, Kelly, Kathleen, Mok, Stephanie, Sunkin, Susan, BRAIN Initiative Cell Census Network (BICCN) Corresponding authors, [missing], BICCN contributing principal investigators, [missing], Principal manuscript editors, [missing], Manuscript writing and figure generation, [missing], Analysis coordination, [missing], Integrated data analysis, [missing], scRNA-seq and snRNA-seq data generation and processing, [missing], ATAC-seq data generation and processing, [missing], Methylcytosine data production and analysis, [missing], Epi-retro-seq data generation and processing, [missing], ‘Omics data analysis, [missing], Tracing and connectivity data generation, [missing], Morphology data generation and reconstruction, [missing], OLST/STPT and other data generation, [missing], Morphology, connectivity and imaging analysis, [missing], Spatially resolved single-cell transcriptomics (MERFISH), [missing], Multimodal profiling (Patch-seq), [missing], Transgenic tools, [missing], NeMO archive and analytics, [missing], Brain Image Library (BIL) archive, [missing], DANDI archive, [missing], Brain Cell Data Center (BCDC), [missing], Project management, [missing], and BRAIN Initiative Cell Census Network (BICCN), [missing]

Subjects
Epigenomics, Male, INTERNEURONS, ORGANIZATION, MOUSE, Molecular neuroscience, Neural circuits, CLASSIFICATION, Article, Mice, Atlases as Topic, Glutamates, Species Specificity, Animals, Humans, TRANSCRIPTOMICS, SPECIFICATION, NEURONS, In Situ Hybridization, Fluorescence, Phylogeny, Neurons, Multidisciplinary, Gene Expression Profiling, Biology and Life Sciences, PATHWAYS, Brain, Callithrix, Censuses, Cellular neuroscience, Mathematics and Statistics, SINGLE, Organ Specificity, MORPHOLOGY, Motor cortex, Female, Single-Cell Analysis, Transcriptome
Abstract

Here we report the generation of a multimodal cell census and atlas of the mammalian primary motor cortex as the initial product of the BRAIN Initiative Cell Census Network (BICCN). This was achieved by coordinated large-scale analyses of single-cell transcriptomes, chromatin accessibility, DNA methylomes, spatially resolved single-cell transcriptomes, morphological and electrophysiological properties and cellular resolution input–output mapping, integrated through cross-modal computational analysis. Our results advance the collective knowledge and understanding of brain cell-type organization1–5. First, our study reveals a unified molecular genetic landscape of cortical cell types that integrates their transcriptome, open chromatin and DNA methylation maps. Second, cross-species analysis achieves a consensus taxonomy of transcriptomic types and their hierarchical organization that is conserved from mouse to marmoset and human. Third, in situ single-cell transcriptomics provides a spatially resolved cell-type atlas of the motor cortex. Fourth, cross-modal analysis provides compelling evidence for the transcriptomic, epigenomic and gene regulatory basis of neuronal phenotypes such as their physiological and anatomical properties, demonstrating the biological validity and genomic underpinning of neuron types. We further present an extensive genetic toolset for targeting glutamatergic neuron types towards linking their molecular and developmental identity to their circuit function. Together, our results establish a unifying and mechanistic framework of neuronal cell-type organization that integrates multi-layered molecular genetic and spatial information with multi-faceted phenotypic properties., The BRAIN Initiative Cell Census Network has constructed a multimodal cell census and atlas of the mammalian primary motor cortex in a landmark effort towards understanding brain cell-type diversity, neural circuit organization and brain function.

Published
2021

43. Estradiol Protects against Noise-Induced Hearing Loss and Modulates Auditory Physiology in Female Mice

Author

Shuster, Benjamin, primary, Casserly, Ryan, additional, Lipford, Erika, additional, Olszewski, Rafal, additional, Milon, Béatrice, additional, Viechweg, Shaun, additional, Davidson, Kanisa, additional, Enoch, Jennifer, additional, McMurray, Mark, additional, Rutherford, Mark A., additional, Ohlemiller, Kevin K., additional, Hoa, Michael, additional, Depireux, Didier A., additional, Mong, Jessica A., additional, and Hertzano, Ronna, additional

Published
2021
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44. Lineage-tracing and translatomic analysis of damage-inducible mitotic cochlear progenitors identifies candidate genes regulating regeneration

Author

Udagawa, Tomokatsu, primary, Atkinson, Patrick J., additional, Milon, Beatrice, additional, Abitbol, Julia M., additional, Song, Yang, additional, Sperber, Michal, additional, Huarcaya Najarro, Elvis, additional, Scheibinger, Mirko, additional, Elkon, Ran, additional, Hertzano, Ronna, additional, and Cheng, Alan G., additional

Published
2021
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45. Cochlear organoids reveal epigenetic and transcriptional programs of postnatal hair cell differentiation from supporting cells

Author

Kalra, Gurmannat, primary, Lenz, Danielle, additional, Abdul-Aziz, Dunia, additional, Hanna, Craig, additional, Herb, Brian, additional, Colantuoni, Carlo, additional, Milon, Beatrice, additional, Saxena, Madhurima, additional, Shetty, Amol C, additional, Hertzano, Ronna P, additional, Shivdasani, Ramesh, additional, Ament, Seth A, additional, and Edge, Albert SB, additional

Published
2021
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46. A cell-type-specific atlas of the inner ear transcriptional response to acoustic trauma

Author

Milon, Beatrice, primary, Shulman, Eldad D., additional, So, Kathy S., additional, Cederroth, Christopher R., additional, Lipford, Erika L., additional, Sperber, Michal, additional, Sellon, Jonathan B., additional, Sarlus, Heela, additional, Pregernig, Gabriela, additional, Shuster, Benjamin, additional, Song, Yang, additional, Mitra, Sunayana, additional, Orvis, Joshua, additional, Margulies, Zachary, additional, Ogawa, Yoko, additional, Shults, Christopher, additional, Depireux, Didier A., additional, Palermo, Adam T., additional, Canlon, Barbara, additional, Burns, Joe, additional, Elkon, Ran, additional, and Hertzano, Ronna, additional

Published
2021
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48. Cardiometabolic risk, Noninsulin agents, Older people, Pharmacists, Type 2 diabetes.

Author

Mansour, Daniel Z., Rickey, Jamie L., Trupp, Jenna N., Thomas, Olivia N., Hoover, Eric C., Hertzano, Ronna, and Brandt, Nicole J.

Subjects
HEARING aids, MEDICAL personnel, TYPE 2 diabetes, OLDER people, PHARMACISTS, AUDIOLOGISTS
Abstract

The purpose of this manuscript is to provide pharmacists with education on hearing loss that colleagues in audiology believe is most critical for pharmacists. As well as highlighting insightful interventions pharmacists can make in collaboration with hearing professionals, such as audiologists, otolaryngologists, and otologists, to improve patient care. This project was initiated by professional students at the University of Maryland in both Baltimore and College Park campuses, after completing the interprofessional elective course IPE Care in Geriatrics. Upon completion of the course, the authors performed an extensive literature search and reviewed publications pertaining to pharmacy, audiology, and their integration. Hearing loss can have a significant impact on a patient’s quality of life. Older people are at an increased risk for experiencing hearing impairment, but often do not seek help from health care providers. Collaboration between audiologists, otolaryngologists, and pharmacists has the potential to improve patients’ access to hearing health and break barriers for patients. Important interventions that pharmacists can make to better serve their patients with hearing loss include screening, enhancing communication, and hearing aid assistance. This article also provides guidance on identifying patients who would be candidates for overthe-counter hearing aids and patients who should be referred to a hearing professional. This skill will become increasingly relevant with the emergence of over-thecounter hearing aids. [ABSTRACT FROM AUTHOR]

Published
2022
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