A myelin-related transcriptomic profile is shared by Pitt–Hopkins syndrome models and human autism spectrum disorder von Phan, BaDoi N., Bohlen, Joseph F., Davis, Brittany A., Ye, Zengyou, Chen, Huei-Ying, Mayfield, Brent, Sripathy, Srinidhi Rao, Cerceo Page, Stephanie, Campbell, Morganne N., Smith, Hannah L., Gallop, Danisha, Kim, Hyojin, Thaxton, Courtney L., Simon, Jeremy M., Burke, Emily E., Shin, Joo Heon, Kennedy, Andrew J., Sweatt, J. David, Philpot, Benjamin D., Jaffe, Andrew E., Maher, Brady J.

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dotdotdot: an automated approach to quantify multiplex single molecule fluorescent in situ hybridization (smFISH) images in complex tissues von Maynard, Kristen R, Tippani, Madhavi, Takahashi, Yoichiro, Phan, BaDoi N, Hyde, Thomas M, Jaffe, Andrew E, Martinowich, Keri

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Dissecting transcriptomic signatures of neuronal differentiation and maturation using iPSCs von Burke, Emily E., Chenoweth, Joshua G., Shin, Joo Heon, Collado-Torres, Leonardo, Kim, Suel-Kee, Micali, Nicola, Wang, Yanhong, Colantuoni, Carlo, Straub, Richard E., Hoeppner, Daniel J., Chen, Huei-Ying, Sellers, Alana, Shibbani, Kamel, Hamersky, Gregory R., Diaz Bustamante, Marcelo, Phan, BaDoi N., Ulrich, William S., Valencia, Cristian, Jaishankar, Amritha, Price, Amanda J., Rajpurohit, Anandita, Semick, Stephen A., Bürli, Roland W., Barrow, James C., Hiler, Daniel J., Page, Stephanie C., Martinowich, Keri, Hyde, Thomas M., Kleinman, Joel E., Berman, Karen F., Apud, Jose A., Cross, Alan J., Brandon, Nicholas J., Weinberger, Daniel R., Maher, Brady J., McKay, Ronald D. G., Jaffe, Andrew E.

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Psychiatric Risk Gene Transcription Factor 4 Regulates Intrinsic Excitability of Prefrontal Neurons via Repression of SCN10a and KCNQ1 von Rannals, Matthew D., Hamersky, Gregory R., Page, Stephanie Cerceo, Campbell, Morganne N., Briley, Aaron, Gallo, Ryan A., Phan, BaDoi N., Hyde, Thomas M., Kleinman, Joel E., Shin, Joo Heon, Jaffe, Andrew E., Weinberger, Daniel R., Maher, Brady J.

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SPEAQeasy: a scalable pipeline for expression analysis and quantification for R/bioconductor-powered RNA-seq analyses von Eagles, Nicholas J, Burke, Emily E, Leonard, Jacob, Barry, Brianna K, Stolz, Joshua M, Huuki, Louise, Phan, BaDoi N, Serrato, Violeta Larios, Gutiérrez-Millán, Everardo, Aguilar-Ordoñez, Israel, Jaffe, Andrew E, Collado-Torres, Leonardo

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Single nuclei transcriptomics in human and non-human primate striatum in opioid use disorder von Phan, BaDoi N., Ray, Madelyn H., Xue, Xiangning, Fu, Chen, Fenster, Robert J., Kohut, Stephen J., Bergman, Jack, Haber, Suzanne N., McCullough, Kenneth M., Fish, Madeline K., Glausier, Jill R., Su, Qiao, Tipton, Allison E., Lewis, David A., Freyberg, Zachary, Tseng, George C., Russek, Shelley J., Alekseyev, Yuriy, Ressler, Kerry J., Seney, Marianne L., Pfenning, Andreas R., Logan, Ryan W.

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Spatial, transcriptomic, and epigenomic analyses link dorsal horn neurons to chronic pain genetic predisposition von Arokiaraj, Cynthia M., Leone, Michael J., Kleyman, Michael, Chamessian, Alexander, Noh, Myung-Chul, Phan, BaDoi N., Lopes, Bettega C., Corrigan, Kelly A., Cherupally, Vijay Kiran, Yeramosu, Deepika, Franusich, Michael E., Podder, Riya, Lele, Sumitra, Shiers, Stephanie, Kang, Byungsoo, Kennedy, Meaghan M., Chen, Viola, Chen, Ziheng, Mathys, Hansruedi, Dum, Richard P., Lewis, David A., Qadri, Yawar, Price, Theodore J., Pfenning, Andreas R., Seal, Rebecca P.

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Molecular rhythm alterations in prefrontal cortex and nucleus accumbens associated with opioid use disorder von Xue, Xiangning, Zong, Wei, Glausier, Jill R., Kim, Sam-Moon, Shelton, Micah A., Phan, BaDoi N., Srinivasan, Chaitanya, Pfenning, Andreas R., Tseng, George C., Lewis, David A., Seney, Marianne L., Logan, Ryan W.

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BDNF-TrkB signaling in oxytocin neurons contributes to maternal behavior von Maynard, Kristen R, Hobbs, John W, Phan, BaDoi N, Gupta, Amolika, Rajpurohit, Sumita, Williams, Courtney, Rajpurohit, Anandita, Shin, Joo Heon, Jaffe, Andrew E, Martinowich, Keri

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Induction of Bdnf from promoter I following electroconvulsive seizures contributes to structural plasticity in neurons of the piriform cortex von Ramnauth, Anthony D., Maynard, Kristen R., Kardian, Alisha S., Phan, BaDoi N., Tippani, Madhavi, Rajpurohit, Sumita, Hobbs, John W., Page, Stephanie Cerceo, Jaffe, Andrew E., Martinowich, Keri

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Correction to: SPEAQeasy: a scalable pipeline for expression analysis and quantification for R/bioconductor‑powered RNA‑seq analyses von Eagles, Nicholas J, Burke, Emily E, Leonard, Jacob, Barry, Brianna K, Stolz, Joshua M, Huuki, Louise, Phan, BaDoi N, Serrato, Violeta Larios, Gutiérrez-Millán, Everardo, Aguilar-Ordoéez, Israel, Jaffe, Andrew E, Collado-Torres, Leonardo

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Machine learning sequence prioritization for cell type-specific enhancer design von Lawler, Alyssa J, Ramamurthy, Easwaran, Brown, Ashley R, Shin, Naomi, Kim, Yeonju, Toong, Noelle, Kaplow, Irene M, Wirthlin, Morgan, Zhang, Xiaoyu, Phan, BaDoi N, Fox, Grant A, Wade, Kirsten, He, Jing, Ozturk, Bilge Esin, Byrne, Leah C, Stauffer, William R, Fish, Kenneth N, Pfenning, Andreas R

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Transcriptional Alterations in Dorsolateral Prefrontal Cortex and Nucleus Accumbens Implicate Neuroinflammation and Synaptic Remodeling in Opioid Use Disorder von Seney, Marianne L., Kim, Sam-Moon, Glausier, Jill R., Hildebrand, Mariah A., Xue, Xiangning, Zong, Wei, Wang, Jiebiao, Shelton, Micah A., Phan, BaDoi N., Srinivasan, Chaitanya, Pfenning, Andreas R., Tseng, George C., Lewis, David A., Freyberg, Zachary, Logan, Ryan W.

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Psychiatric risk gene Transcription Factor 4 (TCF4) regulates the density and connectivity of distinct inhibitory interneuron subtypes von Chen, Huei-Ying, Phan, BaDoi N., Shim, Gina, Hamersky, Gregory R., Sadowski, Norah, O’Donnell, Thomas S., Sripathy, Srinidhi Rao, Bohlen, Joseph F., Pfenning, Andreas R., Maher, Brady J.

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Addiction-Associated Genetic Variants Implicate Brain Cell Type- and Region-Specific Cis-Regulatory Elements in Addiction Neurobiology von Srinivasan, Chaitanya, Phan, BaDoi N., Lawler, Alyssa J., Ramamurthy, Easwaran, Kleyman, Michael, Brown, Ashley R., Kaplow, Irene M., Wirthlin, Morgan E., Pfenning, Andreas R.

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A quantitative analysis of factors influencing lower lid retraction and involutional ectropion von Chen, Hung-Chang, Polisetty, Teja S., Zhu, Kevin, Phan, BaDoi N., Durr, Nicholas J., Tian, Jing, Mahoney, Nicholas R.

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Evolutionary constraint and innovation across hundreds of placental mammals von Christmas, Matthew J, Kaplow, Irene M, Genereux, Diane P, Dong, Michael X, Hughes, Graham M, Li, Xue, Sullivan, Patrick F, Hindle, Allyson G, Andrews, Gregory, Armstrong, Joel C, Bianchi, Matteo, Breit, Ana M, Diekhans, Mark, Fanter, Cornelia, Foley, Nicole M, Goodman, Daniel B, Goodman, Linda, Keough, Kathleen C, Kirilenko, Bogdan, Kowalczyk, Amanda, Lawless, Colleen, Lind, Abigail L, Meadows, Jennifer R S, Moreira, Lucas R, Redlich, Ruby W, Ryan, Louise, Swofford, Ross, Valenzuela, Alejandro, Wagner, Franziska, Wallerman, Ola, Brown, Ashley R, Damas, Joana, Fan, Kaili, Gatesy, John, Grimshaw, Jenna, Johnson, Jeremy, Kozyrev, Sergey V, Lawler, Alyssa J, Marinescu, Voichita D, Morrill, Kathleen M, Osmanski, Austin, Paulat, Nicole S, Phan, BaDoi N, Reilly, Steven K, Schäffer, Daniel E, Steiner, Cynthia, Supple, Megan A, Wilder, Aryn P, Wirthlin, Morgan E, Xue, James R, Birren, Bruce W, Gazal, Steven, Hubley, Robert M, Koepfli, Klaus-Peter, Marques-Bonet, Tomas, Meyer, Wynn K, Nweeia, Martin, Sabeti, Pardis C, Shapiro, Beth, Smit, Arian F A, Springer, Mark S, Teeling, Emma C, Weng, Zhiping, Hiller, Michael, Levesque, Danielle L, Lewin, Harris A, Murphy, William J, Navarro, Arcadi, Paten, Benedict, Pollard, Katherine S, Ray, David A, Ruf, Irina, Ryder, Oliver A, Pfenning, Andreas R, Lindblad-Toh, Kerstin, Karlsson, Elinor K

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Leveraging base-pair mammalian constraint to understand genetic variation and human disease von Sullivan, Patrick F, Meadows, Jennifer R S, Gazal, Steven, Phan, BaDoi N, Li, Xue, Genereux, Diane P, Dong, Michael X, Bianchi, Matteo, Andrews, Gregory, Sakthikumar, Sharadha, Nordin, Jessika, Roy, Ananya, Christmas, Matthew J, Marinescu, Voichita D, Wang, Chao, Wallerman, Ola, Xue, James, Yao, Shuyang, Sun, Quan, Szatkiewicz, Jin, Wen, Jia, Huckins, Laura M, Lawler, Alyssa, Keough, Kathleen C, Zheng, Zhili, Zeng, Jian, Wray, Naomi R, Li, Yun, Johnson, Jessica, Chen, Jiawen, Paten, Benedict, Reilly, Steven K, Hughes, Graham M, Weng, Zhiping, Pollard, Katherine S, Pfenning, Andreas R, Forsberg-Nilsson, Karin, Karlsson, Elinor K, Lindblad-Toh, Kerstin

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Integrating gene annotation with orthology inference at scale von Kirilenko, Bogdan M, Munegowda, Chetan, Osipova, Ekaterina, Jebb, David, Sharma, Virag, Blumer, Moritz, Morales, Ariadna E, Ahmed, Alexis-Walid, Kontopoulos, Dimitrios-Georgios, Hilgers, Leon, Lindblad-Toh, Kerstin, Karlsson, Elinor K, Hiller, Michael

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A genomic timescale for placental mammal evolution von Foley, Nicole M, Mason, Victor C, Harris, Andrew J, Bredemeyer, Kevin R, Damas, Joana, Lewin, Harris A, Eizirik, Eduardo, Gatesy, John, Karlsson, Elinor K, Lindblad-Toh, Kerstin, Springer, Mark S, Murphy, William J

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