Search

Your search keyword '"Slaughterbeck, Cliff"' showing total 18 results
Start Over Author "Slaughterbeck, Cliff"
18 results on '"Slaughterbeck, Cliff"'

1. A high-resolution transcriptomic and spatial atlas of cell types in the whole mouse brain

Author

Yao, Zizhen, van Velthoven, Cindy T. J., Kunst, Michael, Zhang, Meng, McMillen, Delissa, Lee, Changkyu, Jung, Won, Goldy, Jeff, Abdelhak, Aliya, Aitken, Matthew, Baker, Katherine, Baker, Pamela, Barkan, Eliza, Bertagnolli, Darren, Bhandiwad, Ashwin, Bielstein, Cameron, Bishwakarma, Prajal, Campos, Jazmin, Carey, Daniel, Casper, Tamara, Chakka, Anish Bhaswanth, Chakrabarty, Rushil, Chavan, Sakshi, Chen, Min, Clark, Michael, Close, Jennie, Crichton, Kirsten, Daniel, Scott, DiValentin, Peter, Dolbeare, Tim, Ellingwood, Lauren, Fiabane, Elysha, Fliss, Timothy, Gee, James, Gerstenberger, James, Glandon, Alexandra, Gloe, Jessica, Gould, Joshua, Gray, James, Guilford, Nathan, Guzman, Junitta, Hirschstein, Daniel, Ho, Windy, Hooper, Marcus, Huang, Mike, Hupp, Madie, Jin, Kelly, Kroll, Matthew, Lathia, Kanan, Leon, Arielle, Li, Su, Long, Brian, Madigan, Zach, Malloy, Jessica, Malone, Jocelin, Maltzer, Zoe, Martin, Naomi, McCue, Rachel, McGinty, Ryan, Mei, Nicholas, Melchor, Jose, Meyerdierks, Emma, Mollenkopf, Tyler, Moonsman, Skyler, Nguyen, Thuc Nghi, Otto, Sven, Pham, Trangthanh, Rimorin, Christine, Ruiz, Augustin, Sanchez, Raymond, Sawyer, Lane, Shapovalova, Nadiya, Shepard, Noah, Slaughterbeck, Cliff, Sulc, Josef, Tieu, Michael, Torkelson, Amy, Tung, Herman, Valera Cuevas, Nasmil, Vance, Shane, Wadhwani, Katherine, Ward, Katelyn, Levi, Boaz, Farrell, Colin, Young, Rob, Staats, Brian, Wang, Ming-Qiang Michael, Thompson, Carol L., Mufti, Shoaib, Pagan, Chelsea M., Kruse, Lauren, Dee, Nick, Sunkin, Susan M., Esposito, Luke, Hawrylycz, Michael J., Waters, Jack, Ng, Lydia, Smith, Kimberly, Tasic, Bosiljka, Zhuang, Xiaowei, and Zeng, Hongkui

Published
2023
Full Text
View/download PDF

2. Integrative functional genomic analysis of human brain development and neuropsychiatric risks

Author

Li, Mingfeng, Santpere, Gabriel, Imamura Kawasawa, Yuka, Evgrafov, Oleg V, Gulden, Forrest O, Pochareddy, Sirisha, Sunkin, Susan M, Li, Zhen, Shin, Yurae, Zhu, Ying, Sousa, André MM, Werling, Donna M, Kitchen, Robert R, Kang, Hyo Jung, Pletikos, Mihovil, Choi, Jinmyung, Muchnik, Sydney, Xu, Xuming, Wang, Daifeng, Lorente-Galdos, Belen, Liu, Shuang, Giusti-Rodríguez, Paola, Won, Hyejung, de Leeuw, Christiaan A, Pardiñas, Antonio F, Hu, Ming, Jin, Fulai, Li, Yun, Owen, Michael J, O’Donovan, Michael C, Walters, James TR, Posthuma, Danielle, Reimers, Mark A, Levitt, Pat, Weinberger, Daniel R, Hyde, Thomas M, Kleinman, Joel E, Geschwind, Daniel H, Hawrylycz, Michael J, State, Matthew W, Sanders, Stephan J, Sullivan, Patrick F, Gerstein, Mark B, Lein, Ed S, Knowles, James A, Sestan, Nenad, Willsey, A Jeremy, Oldre, Aaron, Szafer, Aaron, Camarena, Adrian, Cherskov, Adriana, Charney, Alexander W, Abyzov, Alexej, Kozlenkov, Alexey, Safi, Alexias, Jones, Allan R, Ashley-Koch, Allison E, Ebbert, Amanda, Price, Amanda J, Sekijima, Amanda, Kefi, Amira, Bernard, Amy, Amiri, Anahita, Sboner, Andrea, Clark, Andrew, Jaffe, Andrew E, Tebbenkamp, Andrew TN, Sodt, Andy J, Guillozet-Bongaarts, Angie L, Nairn, Angus C, Carey, Anita, Huttner, Anita, Chervenak, Ann, Szekely, Anna, Shieh, Annie W, Harmanci, Arif, Lipska, Barbara K, Carlyle, Becky C, Gregor, Ben W, Kassim, Bibi S, Sheppard, Brooke, Bichsel, Candace, Hahn, Chang-Gyu, Lee, Chang-Kyu, Chen, Chao, Kuan, Chihchau L, Dang, Chinh, Lau, Chris, Cuhaciyan, Christine, Armoskus, Christoper, Mason, Christopher E, Liu, Chunyu, Slaughterbeck, Cliff R, Bennet, Crissa, Pinto, Dalila, Polioudakis, Damon, Franjic, Daniel, Miller, Daniel J, Bertagnolli, Darren, and Lewis, David A

Subjects
Human Genome, Genetics, Neurosciences, Biotechnology, Pediatric, Mental Health, Brain, Epigenesis, Genetic, Epigenomics, Gene Expression Regulation, Developmental, Gene Regulatory Networks, Humans, Mental Disorders, Nervous System Diseases, Neurogenesis, Single-Cell Analysis, Transcriptome, BrainSpan Consortium, PsychENCODE Consortium, PsychENCODE Developmental Subgroup, General Science & Technology
Abstract

To broaden our understanding of human neurodevelopment, we profiled transcriptomic and epigenomic landscapes across brain regions and/or cell types for the entire span of prenatal and postnatal development. Integrative analysis revealed temporal, regional, sex, and cell type-specific dynamics. We observed a global transcriptomic cup-shaped pattern, characterized by a late fetal transition associated with sharply decreased regional differences and changes in cellular composition and maturation, followed by a reversal in childhood-adolescence, and accompanied by epigenomic reorganizations. Analysis of gene coexpression modules revealed relationships with epigenomic regulation and neurodevelopmental processes. Genes with genetic associations to brain-based traits and neuropsychiatric disorders (including MEF2C, SATB2, SOX5, TCF4, and TSHZ3) converged in a small number of modules and distinct cell types, revealing insights into neurodevelopment and the genomic basis of neuropsychiatric risks.

Published
2018

3. Survey of spiking in the mouse visual system reveals functional hierarchy

Author

Siegle, Joshua H., Jia, Xiaoxuan, Durand, Séverine, Gale, Sam, Bennett, Corbett, Graddis, Nile, Heller, Greggory, Ramirez, Tamina K., Choi, Hannah, Luviano, Jennifer A., Groblewski, Peter A., Ahmed, Ruweida, Arkhipov, Anton, Bernard, Amy, Billeh, Yazan N., Brown, Dillan, Buice, Michael A., Cain, Nicolas, Caldejon, Shiella, Casal, Linzy, Cho, Andrew, Chvilicek, Maggie, Cox, Timothy C., Dai, Kael, Denman, Daniel J., de Vries, Saskia E. J., Dietzman, Roald, Esposito, Luke, Farrell, Colin, Feng, David, Galbraith, John, Garrett, Marina, Gelfand, Emily C., Hancock, Nicole, Harris, Julie A., Howard, Robert, Hu, Brian, Hytnen, Ross, Iyer, Ramakrishnan, Jessett, Erika, Johnson, Katelyn, Kato, India, Kiggins, Justin, Lambert, Sophie, Lecoq, Jerome, Ledochowitsch, Peter, Lee, Jung Hoon, Leon, Arielle, Li, Yang, Liang, Elizabeth, Long, Fuhui, Mace, Kyla, Melchior, Jose, Millman, Daniel, Mollenkopf, Tyler, Nayan, Chelsea, Ng, Lydia, Ngo, Kiet, Nguyen, Thuyahn, Nicovich, Philip R., North, Kat, Ocker, Gabriel Koch, Ollerenshaw, Doug, Oliver, Michael, Pachitariu, Marius, Perkins, Jed, Reding, Melissa, Reid, David, Robertson, Miranda, Ronellenfitch, Kara, Seid, Sam, Slaughterbeck, Cliff, Stoecklin, Michelle, Sullivan, David, Sutton, Ben, Swapp, Jackie, Thompson, Carol, Turner, Kristen, Wakeman, Wayne, Whitesell, Jennifer D., Williams, Derric, Williford, Ali, Young, Rob, Zeng, Hongkui, Naylor, Sarah, Phillips, John W., Reid, R. Clay, Mihalas, Stefan, Olsen, Shawn R., and Koch, Christof

Published
2021
Full Text
View/download PDF

4. A large-scale standardized physiological survey reveals functional organization of the mouse visual cortex

Author

de Vries, Saskia E. J., Lecoq, Jerome A., Buice, Michael A., Groblewski, Peter A., Ocker, Gabriel K., Oliver, Michael, Feng, David, Cain, Nicholas, Ledochowitsch, Peter, Millman, Daniel, Roll, Kate, Garrett, Marina, Keenan, Tom, Kuan, Leonard, Mihalas, Stefan, Olsen, Shawn, Thompson, Carol, Wakeman, Wayne, Waters, Jack, Williams, Derric, Barber, Chris, Berbesque, Nathan, Blanchard, Brandon, Bowles, Nicholas, Caldejon, Shiella D., Casal, Linzy, Cho, Andrew, Cross, Sissy, Dang, Chinh, Dolbeare, Tim, Edwards, Melise, Galbraith, John, Gaudreault, Nathalie, Gilbert, Terri L., Griffin, Fiona, Hargrave, Perry, Howard, Robert, Huang, Lawrence, Jewell, Sean, Keller, Nika, Knoblich, Ulf, Larkin, Josh D., Larsen, Rachael, Lau, Chris, Lee, Eric, Lee, Felix, Leon, Arielle, Li, Lu, Long, Fuhui, Luviano, Jennifer, Mace, Kyla, Nguyen, Thuyanh, Perkins, Jed, Robertson, Miranda, Seid, Sam, Shea-Brown, Eric, Shi, Jianghong, Sjoquist, Nathan, Slaughterbeck, Cliff, Sullivan, David, Valenza, Ryan, White, Casey, Williford, Ali, Witten, Daniela M., Zhuang, Jun, Zeng, Hongkui, Farrell, Colin, Ng, Lydia, Bernard, Amy, Phillips, John W., Reid, R. Clay, and Koch, Christof

Published
2020
Full Text
View/download PDF

5. Classification of electrophysiological and morphological neuron types in the mouse visual cortex

Author

Gouwens, Nathan W., Sorensen, Staci A., Berg, Jim, Lee, Changkyu, Jarsky, Tim, Ting, Jonathan, Sunkin, Susan M., Feng, David, Anastassiou, Costas A., Barkan, Eliza, Bickley, Kris, Blesie, Nicole, Braun, Thomas, Brouner, Krissy, Budzillo, Agata, Caldejon, Shiella, Casper, Tamara, Castelli, Dan, Chong, Peter, Crichton, Kirsten, Cuhaciyan, Christine, Daigle, Tanya L., Dalley, Rachel, Dee, Nick, Desta, Tsega, Ding, Song-Lin, Dingman, Samuel, Doperalski, Alyse, Dotson, Nadezhda, Egdorf, Tom, Fisher, Michael, de Frates, Rebecca A., Garren, Emma, Garwood, Marissa, Gary, Amanda, Gaudreault, Nathalie, Godfrey, Keith, Gorham, Melissa, Gu, Hong, Habel, Caroline, Hadley, Kristen, Harrington, James, Harris, Julie A., Henry, Alex, Hill, DiJon, Josephsen, Sam, Kebede, Sara, Kim, Lisa, Kroll, Matthew, Lee, Brian, Lemon, Tracy, Link, Katherine E., Liu, Xiaoxiao, Long, Brian, Mann, Rusty, McGraw, Medea, Mihalas, Stefan, Mukora, Alice, Murphy, Gabe J., Ng, Lindsay, Ngo, Kiet, Nguyen, Thuc Nghi, Nicovich, Philip R., Oldre, Aaron, Park, Daniel, Parry, Sheana, Perkins, Jed, Potekhina, Lydia, Reid, David, Robertson, Miranda, Sandman, David, Schroedter, Martin, Slaughterbeck, Cliff, Soler-Llavina, Gilberto, Sulc, Josef, Szafer, Aaron, Tasic, Bosiljka, Taskin, Naz, Teeter, Corinne, Thatra, Nivretta, Tung, Herman, Wakeman, Wayne, Williams, Grace, Young, Rob, Zhou, Zhi, Farrell, Colin, Peng, Hanchuan, Hawrylycz, Michael J., Lein, Ed, Ng, Lydia, Arkhipov, Anton, Bernard, Amy, Phillips, John W., Zeng, Hongkui, and Koch, Christof

Published
2019
Full Text
View/download PDF

6. A high-resolution transcriptomic and spatial atlas of cell types in the whole mouse brain

Author

Yao, Zizhen, primary, van Velthoven, Cindy T. J., additional, Kunst, Michael, additional, Zhang, Meng, additional, McMillen, Delissa, additional, Lee, Changkyu, additional, Jung, Won, additional, Goldy, Jeff, additional, Abdelhak, Aliya, additional, Baker, Pamela, additional, Barkan, Eliza, additional, Bertagnolli, Darren, additional, Campos, Jazmin, additional, Carey, Daniel, additional, Casper, Tamara, additional, Chakka, Anish Bhaswanth, additional, Chakrabarty, Rushil, additional, Chavan, Sakshi, additional, Chen, Min, additional, Clark, Michael, additional, Close, Jennie, additional, Crichton, Kirsten, additional, Daniel, Scott, additional, Dolbeare, Tim, additional, Ellingwood, Lauren, additional, Gee, James, additional, Glandon, Alexandra, additional, Gloe, Jessica, additional, Gould, Joshua, additional, Gray, James, additional, Guilford, Nathan, additional, Guzman, Junitta, additional, Hirschstein, Daniel, additional, Ho, Windy, additional, Jin, Kelly, additional, Kroll, Matthew, additional, Lathia, Kanan, additional, Leon, Arielle, additional, Long, Brian, additional, Maltzer, Zoe, additional, Martin, Naomi, additional, McCue, Rachel, additional, Meyerdierks, Emma, additional, Nguyen, Thuc Nghi, additional, Pham, Trangthanh, additional, Rimorin, Christine, additional, Ruiz, Augustin, additional, Shapovalova, Nadiya, additional, Slaughterbeck, Cliff, additional, Sulc, Josef, additional, Tieu, Michael, additional, Torkelson, Amy, additional, Tung, Herman, additional, Cuevas, Nasmil Valera, additional, Wadhwani, Katherine, additional, Ward, Katelyn, additional, Levi, Boaz, additional, Farrell, Colin, additional, Thompson, Carol L., additional, Mufti, Shoaib, additional, Pagan, Chelsea M., additional, Kruse, Lauren, additional, Dee, Nick, additional, Sunkin, Susan M., additional, Esposito, Luke, additional, Hawrylycz, Michael J., additional, Waters, Jack, additional, Ng, Lydia, additional, Smith, Kimberly A., additional, Tasic, Bosiljka, additional, Zhuang, Xiaowei, additional, and Zeng, Hongkui, additional

Published
2023
Full Text
View/download PDF

7. Local connectivity and synaptic dynamics in mouse and human neocortex

Author

Campagnola, Luke, primary, Seeman, Stephanie C., additional, Chartrand, Thomas, additional, Kim, Lisa, additional, Hoggarth, Alex, additional, Gamlin, Clare, additional, Ito, Shinya, additional, Trinh, Jessica, additional, Davoudian, Pasha, additional, Radaelli, Cristina, additional, Kim, Mean-Hwan, additional, Hage, Travis, additional, Braun, Thomas, additional, Alfiler, Lauren, additional, Andrade, Julia, additional, Bohn, Phillip, additional, Dalley, Rachel, additional, Henry, Alex, additional, Kebede, Sara, additional, Alice, Mukora, additional, Sandman, David, additional, Williams, Grace, additional, Larsen, Rachael, additional, Teeter, Corinne, additional, Daigle, Tanya L., additional, Berry, Kyla, additional, Dotson, Nadia, additional, Enstrom, Rachel, additional, Gorham, Melissa, additional, Hupp, Madie, additional, Dingman Lee, Samuel, additional, Ngo, Kiet, additional, Nicovich, Philip R., additional, Potekhina, Lydia, additional, Ransford, Shea, additional, Gary, Amanda, additional, Goldy, Jeff, additional, McMillen, Delissa, additional, Pham, Trangthanh, additional, Tieu, Michael, additional, Siverts, La’Akea, additional, Walker, Miranda, additional, Farrell, Colin, additional, Schroedter, Martin, additional, Slaughterbeck, Cliff, additional, Cobb, Charles, additional, Ellenbogen, Richard, additional, Gwinn, Ryder P., additional, Keene, C. Dirk, additional, Ko, Andrew L., additional, Ojemann, Jeffrey G., additional, Silbergeld, Daniel L., additional, Carey, Daniel, additional, Casper, Tamara, additional, Crichton, Kirsten, additional, Clark, Michael, additional, Dee, Nick, additional, Ellingwood, Lauren, additional, Gloe, Jessica, additional, Kroll, Matthew, additional, Sulc, Josef, additional, Tung, Herman, additional, Wadhwani, Katherine, additional, Brouner, Krissy, additional, Egdorf, Tom, additional, Maxwell, Michelle, additional, McGraw, Medea, additional, Pom, Christina Alice, additional, Ruiz, Augustin, additional, Bomben, Jasmine, additional, Feng, David, additional, Hejazinia, Nika, additional, Shi, Shu, additional, Szafer, Aaron, additional, Wakeman, Wayne, additional, Phillips, John, additional, Bernard, Amy, additional, Esposito, Luke, additional, D’Orazi, Florence D., additional, Sunkin, Susan, additional, Smith, Kimberly, additional, Tasic, Bosiljka, additional, Arkhipov, Anton, additional, Sorensen, Staci, additional, Lein, Ed, additional, Koch, Christof, additional, Murphy, Gabe, additional, Zeng, Hongkui, additional, and Jarsky, Tim, additional

Published
2022
Full Text
View/download PDF

8. Local Connectivity and Synaptic Dynamics in Mouse and Human Neocortex

Author

Campagnola, Luke, primary, Seeman, Stephanie C, additional, Chartrand, Thomas, additional, Kim, Lisa, additional, Hoggarth, Alex, additional, Gamlin, Clare, additional, Ito, Shinya, additional, Trinh, Jessica, additional, Davoudian, Pasha, additional, Radaelli, Cristina, additional, Kim, Mean-Hwan, additional, Hage, Travis, additional, Braun, Thomas, additional, Alfiler, Lauren, additional, Andrade, Juia, additional, Bohn, Phillip, additional, Dalley, Rachel, additional, Henry, Alex, additional, Kebede, Sara, additional, Mukora, Alice, additional, Sandman, David, additional, Williams, Grace, additional, Larsen, Rachael, additional, Teeter, Corinne, additional, Daigle, Tanya L., additional, Berry, Kyla, additional, Dotson, Nadia, additional, Enstrom, Rachel, additional, Gorham, Melissa, additional, Hupp, Madie, additional, Lee, Samuel Dingman, additional, Ngo, Kiet, additional, Nicovich, Rusty, additional, Potekhina, Lydia, additional, Ransford, Shea, additional, Gary, Amanda, additional, Goldy, Jeff, additional, McMillen, Delissa, additional, Pham, Trangthanh, additional, Tieu, Michael, additional, Siverts, La’Akea, additional, Walker, Miranda, additional, Farrell, Colin, additional, Schroedter, Martin, additional, Slaughterbeck, Cliff, additional, Cobb, Charles, additional, Ellenbogen, Richard, additional, Gwinn, Ryder P, additional, Keene, C. Dirk, additional, Ko, Andrew L, additional, Ojemann, Jeffrey G, additional, Silbergeld, Daniel L, additional, Carey, Daniel, additional, Casper, Tamara, additional, Crichton, Kirsten, additional, Clark, Michael, additional, Dee, Nick, additional, Ellingwood, Lauren, additional, Gloe, Jessica, additional, Kroll, Matthew, additional, Sulc, Josef, additional, Tung, Herman, additional, Wadhwani, Katherine, additional, Brouner, Krissy, additional, Egdorf, Tom, additional, Maxwell, Michelle, additional, McGraw, Medea, additional, Pom, Christina Alice, additional, Ruiz, Augustin, additional, Bomben, Jasmine, additional, Feng, David, additional, Hejazinia, Nika, additional, Shi, Shu, additional, Szafer, Aaron, additional, Wakeman, Wayne, additional, Phillips, John, additional, Bernard, Amy, additional, Esposito, Luke, additional, D’Orazi, Florence D, additional, Sunkin, Susan, additional, Smith, Kimberly, additional, Tasic, Bosiljka, additional, Arkhipov, Anton, additional, Sorensen, Staci, additional, Lein, Ed, additional, Koch, Christof, additional, Murphy, Gabe, additional, Zeng, Hongkui, additional, and Jarsky, Tim, additional

Published
2021
Full Text
View/download PDF

9. A large-scale standardized physiological survey reveals functional organization of the mouse visual cortex

Author

de Vries, Saskia E. J., primary, Lecoq, Jerome A., additional, Buice, Michael A., additional, Groblewski, Peter A., additional, Ocker, Gabriel K., additional, Oliver, Michael, additional, Feng, David, additional, Cain, Nicholas, additional, Ledochowitsch, Peter, additional, Millman, Daniel, additional, Roll, Kate, additional, Garrett, Marina, additional, Keenan, Tom, additional, Kuan, Leonard, additional, Mihalas, Stefan, additional, Olsen, Shawn, additional, Thompson, Carol, additional, Wakeman, Wayne, additional, Waters, Jack, additional, Williams, Derric, additional, Barber, Chris, additional, Berbesque, Nathan, additional, Blanchard, Brandon, additional, Bowles, Nicholas, additional, Caldejon, Shiella D., additional, Casal, Linzy, additional, Cho, Andrew, additional, Cross, Sissy, additional, Dang, Chinh, additional, Dolbeare, Tim, additional, Edwards, Melise, additional, Galbraith, John, additional, Gaudreault, Nathalie, additional, Gilbert, Terri L., additional, Griffin, Fiona, additional, Hargrave, Perry, additional, Howard, Robert, additional, Huang, Lawrence, additional, Jewell, Sean, additional, Keller, Nika, additional, Knoblich, Ulf, additional, Larkin, Josh D., additional, Larsen, Rachael, additional, Lau, Chris, additional, Lee, Eric, additional, Lee, Felix, additional, Leon, Arielle, additional, Li, Lu, additional, Long, Fuhui, additional, Luviano, Jennifer, additional, Mace, Kyla, additional, Nguyen, Thuyanh, additional, Perkins, Jed, additional, Robertson, Miranda, additional, Seid, Sam, additional, Shea-Brown, Eric, additional, Shi, Jianghong, additional, Sjoquist, Nathan, additional, Slaughterbeck, Cliff, additional, Sullivan, David, additional, Valenza, Ryan, additional, White, Casey, additional, Williford, Ali, additional, Witten, Daniela M., additional, Zhuang, Jun, additional, Zeng, Hongkui, additional, Farrell, Colin, additional, Ng, Lydia, additional, Bernard, Amy, additional, Phillips, John W., additional, Reid, R. Clay, additional, and Koch, Christof, additional

Published
2019
Full Text
View/download PDF

10. A survey of spiking activity reveals a functional hierarchy of mouse corticothalamic visual areas

Author

Siegle, Joshua H., primary, Jia, Xiaoxuan, additional, Durand, Séverine, additional, Gale, Sam, additional, Bennett, Corbett, additional, Graddis, Nile, additional, Heller, Greggory, additional, Ramirez, Tamina K., additional, Choi, Hannah, additional, Luviano, Jennifer A., additional, Groblewski, Peter A., additional, Ahmed, Ruweida, additional, Arkhipov, Anton, additional, Bernard, Amy, additional, Billeh, Yazan N., additional, Brown, Dillan, additional, Buice, Michael A., additional, Cain, Nicolas, additional, Caldejon, Shiella, additional, Casal, Linzy, additional, Cho, Andrew, additional, Chvilicek, Maggie, additional, Cox, Timothy C., additional, Dai, Kael, additional, Denman, Daniel J., additional, de Vries, Saskia E. J., additional, Dietzman, Roald, additional, Esposito, Luke, additional, Farrell, Colin, additional, Feng, David, additional, Galbraith, John, additional, Garrett, Marina, additional, Gelfand, Emily C., additional, Hancock, Nicole, additional, Harris, Julie A., additional, Howard, Robert, additional, Hu, Brian, additional, Hytnen, Ross, additional, Iyer, Ramakrishnan, additional, Jessett, Erika, additional, Johnson, Katelyn, additional, Kato, India, additional, Kiggins, Justin, additional, Lambert, Sophie, additional, Lecoq, Jerome, additional, Ledochowitsch, Peter, additional, Lee, Jung Hoon, additional, Leon, Arielle, additional, Li, Yang, additional, Liang, Elizabeth, additional, Long, Fuhui, additional, Mace, Kyla, additional, Melchior, Jose, additional, Millman, Daniel, additional, Mollenkopf, Tyler, additional, Nayan, Chelsea, additional, Ng, Lydia, additional, Ngo, Kiet, additional, Nguyen, Thuyahn, additional, Nicovich, Philip R., additional, North, Kat, additional, Ocker, Gabriel Koch, additional, Ollerenshaw, Doug, additional, Oliver, Michael, additional, Pachitariu, Marius, additional, Perkins, Jed, additional, Reding, Melissa, additional, Reid, David, additional, Robertson, Miranda, additional, Ronellenfitch, Kara, additional, Seid, Sam, additional, Slaughterbeck, Cliff, additional, Stoecklin, Michelle, additional, Sullivan, David, additional, Sutton, Ben, additional, Swapp, Jackie, additional, Thompson, Carol, additional, Turner, Kristen, additional, Wakeman, Wayne, additional, Whitesell, Jennifer D., additional, Williams, Derric, additional, Williford, Ali, additional, Young, Rob, additional, Zeng, Hongkui, additional, Naylor, Sarah, additional, Phillips, John W., additional, Reid, R. Clay, additional, Mihalas, Stefan, additional, Olsen, Shawn R., additional, and Koch, Christof, additional

Published
2019
Full Text
View/download PDF

11. Aberration-free multi-plane imaging of neural activity from the mammalian brain using a fast-switching liquid crystal spatial light modulator

Author

Liu, Rui, primary, Ball, Neil, additional, Brockill, James, additional, Kuan, Leonard, additional, Millman, Daniel, additional, White, Cassandra, additional, Leon, Arielle, additional, Williams, Derric, additional, Nishiwaki, Shig, additional, de Vries, Saskia, additional, Larkin, Josh, additional, Sullivan, David, additional, Slaughterbeck, Cliff, additional, Farrell, Colin, additional, and Saggau, Peter, additional

Published
2019
Full Text
View/download PDF

12. Biological variation in the sizes, shapes and locations of visual cortical areas in the mouse

Author

Waters, Jack, primary, Lee, Eric, additional, Gaudreault, Nathalie, additional, Griffin, Fiona, additional, Lecoq, Jerome, additional, Slaughterbeck, Cliff, additional, Sullivan, David, additional, Farrell, Colin, additional, Perkins, Jed, additional, Reid, David, additional, Feng, David, additional, Graddis, Nile, additional, Garrett, Marina, additional, Li, Yang, additional, Long, Fuhui, additional, Mochizuki, Chris, additional, Roll, Kate, additional, Zhuang, Jun, additional, and Thompson, Carol, additional

Published
2019
Full Text
View/download PDF

13. Multi-plane Imaging of Neural Activity From the Mammalian Brain Using a Fast-switching Liquid Crystal Spatial Light Modulator

Author

Liu, Rui, primary, Ball, Neil, additional, Brockill, James, additional, Kuan, Leonard, additional, Millman, Daniel, additional, White, Cassandra, additional, Leon, Arielle, additional, Williams, Derric, additional, Nishiwaki, Shig, additional, de Vries, Saskia, additional, Larkin, Josh, additional, Sullivan, David, additional, Slaughterbeck, Cliff, additional, Farrell, Colin, additional, and Saggau, Peter, additional

Published
2018
Full Text
View/download PDF

14. Biological variation in the sizes, shapes and locations of visual cortical areas in the mouse

Author

Waters, Jack, primary, Lee, Eric, additional, Gaudreault, Nathalie, additional, Griffin, Fiona, additional, Lecoq, Jerome, additional, Slaughterbeck, Cliff, additional, Sullivan, David, additional, Farrell, Colin, additional, Perkins, Jed, additional, Reid, David, additional, Feng, David, additional, Graddis, Nile, additional, Garrett, Marina, additional, Li, Yang, additional, Long, Fuhui, additional, Mochizuki, Chris, additional, Roll, Kate, additional, Zhuang, Jun, additional, and Thompson, Carol, additional

Published
2018
Full Text
View/download PDF

15. Classification of electrophysiological and morphological types in mouse visual cortex

Author

Gouwens, Nathan W., primary, Sorensen, Staci A., additional, Berg, Jim, additional, Lee, Changkyu, additional, Jarsky, Tim, additional, Ting, Jonathan, additional, Sunkin, Susan M., additional, Feng, David, additional, Anastassiou, Costas, additional, Barkan, Eliza, additional, Bickley, Kris, additional, Blesie, Nicole, additional, Braun, Thomas, additional, Brouner, Krissy, additional, Budzillo, Agata, additional, Caldejon, Shiella, additional, Casper, Tamara, additional, Casteli, Dan, additional, Chong, Peter, additional, Crichton, Kirsten, additional, Cuhaciyan, Christine, additional, Tanya, L. Daigle, additional, Dalley, Rachel, additional, Dee, Nick, additional, Desta, Tsega, additional, Dingman, Samuel, additional, Doperalski, Alyse, additional, Dotson, Nadezhda, additional, Egdorf, Tom, additional, Fisher, Michael, additional, de Frates, Rebecca A., additional, Garren, Emma, additional, Garwood, Marissa, additional, Gary, Amanda, additional, Gaudreault, Nathalie, additional, Godfrey, Keith, additional, Gorham, Melissa, additional, Gu, Hong, additional, Habel, Caroline, additional, Hadley, Kristen, additional, Harrington, James, additional, Harris, Julie, additional, Henry, Alex, additional, Hill, DiJon, additional, Josephsen, Sam, additional, Kebede, Sara, additional, Kim, Lisa, additional, Kroll, Matthew, additional, Lee, Brian, additional, Lemon, Tracy, additional, Liu, Xiaoxiao, additional, Long, Brian, additional, Mann, Rusty, additional, McGraw, Medea, additional, Mihalas, Stefan, additional, Mukora, Alice, additional, Murphy, Gabe J., additional, Ng, Lindsay, additional, Ngo, Kiet, additional, Nguyen, Thuc Nghi, additional, Nicovich, Philip R., additional, Oldre, Aaron, additional, Park, Daniel, additional, Parry, Sheana, additional, Perkins, Jed, additional, Potekhina, Lydia, additional, Reid, David, additional, Robertson, Miranda, additional, Sandman, David, additional, Schroedter, Martin, additional, Slaughterbeck, Cliff, additional, Soler-Llavina, Gilberto, additional, Sulc, Josef, additional, Szafer, Aaron, additional, Tasic, Bosiljka, additional, Taskin, Naz, additional, Teeter, Corinne, additional, Thatra, Nivretta, additional, Tung, Herman, additional, Wakeman, Wayne, additional, Williams, Grace, additional, Young, Rob, additional, Zhou, Zhi, additional, Farrell, Colin, additional, Peng, Hanchuan, additional, Hawrylycz, Michael J., additional, Lein, Ed, additional, Ng, Lydia, additional, Arkhipov, Anton, additional, Bernard, Amy, additional, Phillips, John W., additional, Zeng, Hongkui, additional, and Koch, Christof, additional

Published
2018
Full Text
View/download PDF

16. A large-scale, standardized physiological survey reveals higher order coding throughout the mouse visual cortex

Author

de Vries, Saskia E. J., primary, Lecoq, Jerome, additional, Buice, Michael A., additional, Groblewski, Peter A., additional, Ocker, Gabriel K., additional, Oliver, Michael, additional, Feng, David, additional, Cain, Nicholas, additional, Ledochowitsch, Peter, additional, Millman, Daniel, additional, Roll, Kate, additional, Garrett, Marina, additional, Keenan, Tom, additional, Kuan, Leonard, additional, Mihalas, Stefan, additional, Olsen, Shawn, additional, Thompson, Carol, additional, Wakeman, Wayne, additional, Waters, Jack, additional, Williams, Derric, additional, Barber, Chris, additional, Berbesque, Nathan, additional, Blanchard, Brandon, additional, Bowles, Nicholas, additional, Caldejon, Shiella, additional, Casal, Linzy, additional, Cho, Andrew, additional, Cross, Sissy, additional, Dang, Chinh, additional, Dolbeare, Tim, additional, Edwards, Melise, additional, Galbraith, John, additional, Gaudreault, Nathalie, additional, Griffin, Fiona, additional, Hargrave, Perry, additional, Howard, Robert, additional, Huang, Lawrence, additional, Jewell, Sean, additional, Keller, Nika, additional, Knoblich, Ulf, additional, Larkin, Josh, additional, Larsen, Rachael, additional, Lau, Chris, additional, Lee, Eric, additional, Lee, Felix, additional, Leon, Arielle, additional, Li, Lu, additional, Long, Fuhui, additional, Luviano, Jennifer, additional, Mace, Kyla, additional, Nguyen, Thuyanh, additional, Perkins, Jed, additional, Robertson, Miranda, additional, Seid, Sam, additional, Shea-Brown, Eric, additional, Shi, Jianghong, additional, Sjoquist, Nathan, additional, Slaughterbeck, Cliff, additional, Sullivan, David, additional, Valenza, Ryan, additional, White, Casey, additional, Williford, Ali, additional, Witten, Daniela, additional, Zhuang, Jun, additional, Zeng, Hongkui, additional, Farrell, Colin, additional, Ng, Lydia, additional, Bernard, Amy, additional, Phillips, John W., additional, Reid, R. Clay, additional, and Koch, Christof, additional

Published
2018
Full Text
View/download PDF

17. Quantitative methods for genome-scale analysis of in situ hybridization and correlation with microarray data

Author

Lee, Chang-Kyu, primary, Sunkin, Susan M, additional, Kuan, Chihchau, additional, Thompson, Carol L, additional, Pathak, Sayan, additional, Ng, Lydia, additional, Lau, Chris, additional, Fischer, Shanna, additional, Mortrud, Marty, additional, Slaughterbeck, Cliff, additional, Jones, Allan, additional, Lein, Ed, additional, and Hawrylycz, Michael, additional

Published
2008
Full Text
View/download PDF

18. A high-resolution transcriptomic and spatial atlas of cell types in the whole mouse brain.

Author

Yao Z, van Velthoven CTJ, Kunst M, Zhang M, McMillen D, Lee C, Jung W, Goldy J, Abdelhak A, Baker P, Barkan E, Bertagnolli D, Campos J, Carey D, Casper T, Chakka AB, Chakrabarty R, Chavan S, Chen M, Clark M, Close J, Crichton K, Daniel S, Dolbeare T, Ellingwood L, Gee J, Glandon A, Gloe J, Gould J, Gray J, Guilford N, Guzman J, Hirschstein D, Ho W, Jin K, Kroll M, Lathia K, Leon A, Long B, Maltzer Z, Martin N, McCue R, Meyerdierks E, Nguyen TN, Pham T, Rimorin C, Ruiz A, Shapovalova N, Slaughterbeck C, Sulc J, Tieu M, Torkelson A, Tung H, Cuevas NV, Wadhwani K, Ward K, Levi B, Farrell C, Thompson CL, Mufti S, Pagan CM, Kruse L, Dee N, Sunkin SM, Esposito L, Hawrylycz MJ, Waters J, Ng L, Smith KA, Tasic B, Zhuang X, and Zeng H

Abstract

The mammalian brain is composed of millions to billions of cells that are organized into numerous cell types with specific spatial distribution patterns and structural and functional properties. An essential step towards understanding brain function is to obtain a parts list, i.e., a catalog of cell types, of the brain. Here, we report a comprehensive and high-resolution transcriptomic and spatial cell type atlas for the whole adult mouse brain. The cell type atlas was created based on the combination of two single-cell-level, whole-brain-scale datasets: a single-cell RNA-sequencing (scRNA-seq) dataset of ~7 million cells profiled, and a spatially resolved transcriptomic dataset of ~4.3 million cells using MERFISH. The atlas is hierarchically organized into five nested levels of classification: 7 divisions, 32 classes, 306 subclasses, 1,045 supertypes and 5,200 clusters. We systematically analyzed the neuronal, non-neuronal, and immature neuronal cell types across the brain and identified a high degree of correspondence between transcriptomic identity and spatial specificity for each cell type. The results reveal unique features of cell type organization in different brain regions, in particular, a dichotomy between the dorsal and ventral parts of the brain: the dorsal part contains relatively fewer yet highly divergent neuronal types, whereas the ventral part contains more numerous neuronal types that are more closely related to each other. We also systematically characterized cell-type specific expression of neurotransmitters, neuropeptides, and transcription factors. The study uncovered extraordinary diversity and heterogeneity in neurotransmitter and neuropeptide expression and co-expression patterns in different cell types across the brain, suggesting they mediate a myriad of modes of intercellular communications. Finally, we found that transcription factors are major determinants of cell type classification in the adult mouse brain and identified a combinatorial transcription factor code that defines cell types across all parts of the brain. The whole-mouse-brain transcriptomic and spatial cell type atlas establishes a benchmark reference atlas and a foundational resource for deep and integrative investigations of cell type and circuit function, development, and evolution of the mammalian brain., Competing Interests: Competing Interests X.Z. is a co-founder and consultant of Vizgen.

Published
2023
Full Text
View/download PDF

Catalog

Books, media, physical & digital resources
See catalog results