Pathological priming causes developmental gene network heterochronicity in autistic subject-derived neurons
Schafer, Simon T., Paquola, Apua C. M., Stern, Shani, Gosselin, David, Ku, Manching, Pena, Monique, Kuret, Thomas J. M., Liyanage, Marvin, Mansour, Abed AlFatah, Jaeger, Baptiste N., Marchetto, Maria C., Glass, Christopher K., Mertens, Jerome, Gage, Fred H.
Published in Nature neuroscience (01.02.2019)
Published in Nature neuroscience (01.02.2019)
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Developmental excitation-inhibition imbalance underlying psychoses revealed by single-cell analyses of discordant twins-derived cerebral organoids
Sawada, Tomoyo, Chater, Thomas E., Sasagawa, Yohei, Yoshimura, Mika, Fujimori-Tonou, Noriko, Tanaka, Kaori, Benjamin, Kynon J. M., Paquola, Apuã C. M., Erwin, Jennifer A., Goda, Yukiko, Nikaido, Itoshi, Kato, Tadafumi
Published in Molecular psychiatry (01.11.2020)
Published in Molecular psychiatry (01.11.2020)
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L1-associated genomic regions are deleted in somatic cells of the healthy human brain
Erwin, Jennifer A, Paquola, Apuã C M, Singer, Tatjana, Gallina, Iryna, Novotny, Mark, Quayle, Carolina, Bedrosian, Tracy A, Alves, Francisco I A, Butcher, Cheyenne R, Herdy, Joseph R, Sarkar, Anindita, Lasken, Roger S, Muotri, Alysson R, Gage, Fred H
Published in Nature neuroscience (01.12.2016)
Published in Nature neuroscience (01.12.2016)
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Sex affects transcriptional associations with schizophrenia across the dorsolateral prefrontal cortex, hippocampus, and caudate nucleus
Benjamin, Kynon J. M., Arora, Ria, Feltrin, Arthur S., Pertea, Geo, Giles, Hunter H., Stolz, Joshua M., D’Ignazio, Laura, Collado-Torres, Leonardo, Shin, Joo Heon, Ulrich, William S., Hyde, Thomas M., Kleinman, Joel E., Weinberger, Daniel R., Paquola, Apuã C. M., Erwin, Jennifer A.
Published in Nature communications (10.05.2024)
Published in Nature communications (10.05.2024)
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Journal Article
Differential L1 regulation in pluripotent stem cells of humans and apes
Marchetto, Maria C. N., Narvaiza, Iñigo, Denli, Ahmet M., Benner, Christopher, Lazzarini, Thomas A., Nathanson, Jason L., Paquola, Apuã C. M., Desai, Keval N., Herai, Roberto H., Weitzman, Matthew D., Yeo, Gene W., Muotri, Alysson R., Gage, Fred H.
Published in Nature (London) (29.11.2013)
Published in Nature (London) (29.11.2013)
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Analysis of the caudate nucleus transcriptome in individuals with schizophrenia highlights effects of antipsychotics and new risk genes
Benjamin, Kynon J. M., Chen, Qiang, Jaffe, Andrew E., Stolz, Joshua M., Collado-Torres, Leonardo, Huuki-Myers, Louise A., Burke, Emily E., Arora, Ria, Feltrin, Arthur S., Barbosa, André Rocha, Radulescu, Eugenia, Pergola, Giulio, Shin, Joo Heon, Ulrich, William S., Deep-Soboslay, Amy, Tao, Ran, Hyde, Thomas M., Kleinman, Joel E., Erwin, Jennifer A., Weinberger, Daniel R., Paquola, Apuã C. M.
Published in Nature neuroscience (01.11.2022)
Published in Nature neuroscience (01.11.2022)
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Analysis of gene expression in the postmortem brain of neurotypical Black Americans reveals contributions of genetic ancestry
Benjamin, Kynon J. M., Chen, Qiang, Eagles, Nicholas J., Huuki-Myers, Louise A., Collado-Torres, Leonardo, Stolz, Joshua M., Pertea, Geo, Shin, Joo Heon, Paquola, Apuã C. M., Hyde, Thomas M., Kleinman, Joel E., Jaffe, Andrew E., Han, Shizhong, Weinberger, Daniel R.
Published in Nature neuroscience (01.06.2024)
Published in Nature neuroscience (01.06.2024)
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Human archetypal pluripotent stem cells differentiate into trophoblast stem cells via endogenous BMP5/7 induction without transitioning through naive state
Tietze, Ethan, Barbosa, Andre Rocha, Araujo, Bruno, Euclydes, Veronica, Spiegelberg, Bailey, Cho, Hyeon Jin, Lee, Yong Kyu, Wang, Yanhong, McCord, Alejandra, Lorenzetti, Alan, Feltrin, Arthur, van de Leemput, Joyce, Di Carlo, Pasquale, Ursini, Gianluca, Benjamin, Kynon J., Brentani, Helena, Kleinman, Joel E., Hyde, Thomas M., Weinberger, Daniel R., McKay, Ronald, Shin, Joo Heon, Sawada, Tomoyo, Paquola, Apua C. M., Erwin, Jennifer A.
Published in Scientific reports (08.02.2024)
Published in Scientific reports (08.02.2024)
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Directly Reprogrammed Human Neurons Retain Aging-Associated Transcriptomic Signatures and Reveal Age-Related Nucleocytoplasmic Defects
Mertens, Jerome, Paquola, Apuã C.M., Ku, Manching, Hatch, Emily, Böhnke, Lena, Ladjevardi, Shauheen, McGrath, Sean, Campbell, Benjamin, Lee, Hyungjun, Herdy, Joseph R., Gonçalves, J. Tiago, Toda, Tomohisa, Kim, Yongsung, Winkler, Jürgen, Yao, Jun, Hetzer, Martin W., Gage, Fred H.
Published in Cell stem cell (03.12.2015)
Published in Cell stem cell (03.12.2015)
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Age-dependent instability of mature neuronal fate in induced neurons from Alzheimer’s patients
Mertens, Jerome, Herdy, Joseph R., Traxler, Larissa, Schafer, Simon T., Schlachetzki, Johannes C.M., Böhnke, Lena, Reid, Dylan A., Lee, Hyungjun, Zangwill, Dina, Fernandes, Diana P., Agarwal, Ravi K., Lucciola, Raffaella, Zhou-Yang, Lucia, Karbacher, Lukas, Edenhofer, Frank, Stern, Shani, Horvath, Steve, Paquola, Apua C.M., Glass, Christopher K., Yuan, Shauna H., Ku, Manching, Szücs, Attila, Goldstein, Lawrence S.B., Galasko, Douglas, Gage, Fred H.
Published in Cell stem cell (02.09.2021)
Published in Cell stem cell (02.09.2021)
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Journal Article
Altered serotonergic circuitry in SSRI-resistant major depressive disorder patient-derived neurons
Vadodaria, Krishna C., Ji, Yuan, Skime, Michelle, Paquola, Apua C., Nelson, Timothy, Hall-Flavin, Daniel, Heard, Kelly J., Fredlender, Callie, Deng, Yalin, Elkins, James, Dani, Komal, Le, Amy T., Marchetto, Maria C., Weinshilboum, Richard, Gage, Fred H.
Published in Molecular psychiatry (01.06.2019)
Published in Molecular psychiatry (01.06.2019)
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Journal Article
Efficient Generation of CA3 Neurons from Human Pluripotent Stem Cells Enables Modeling of Hippocampal Connectivity In Vitro
Sarkar, Anindita, Mei, Arianna, Paquola, Apua C.M., Stern, Shani, Bardy, Cedric, Klug, Jason R., Kim, Stacy, Neshat, Neda, Kim, Hyung Joon, Ku, Manching, Shokhirev, Maxim N., Adamowicz, David H., Marchetto, Maria C., Jappelli, Roberto, Erwin, Jennifer A., Padmanabhan, Krishnan, Shtrahman, Matthew, Jin, Xin, Gage, Fred H.
Published in Cell stem cell (03.05.2018)
Published in Cell stem cell (03.05.2018)
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Mitochondrial Aging Defects Emerge in Directly Reprogrammed Human Neurons due to Their Metabolic Profile
Kim, Yongsung, Zheng, Xinde, Ansari, Zoya, Bunnell, Mark C., Herdy, Joseph R., Traxler, Larissa, Lee, Hyungjun, Paquola, Apua C.M., Blithikioti, Chrysanthi, Ku, Manching, Schlachetzki, Johannes C.M., Winkler, Jürgen, Edenhofer, Frank, Glass, Christopher K., Paucar, Andres A., Jaeger, Baptiste N., Pham, Son, Boyer, Leah, Campbell, Benjamin C., Hunter, Tony, Mertens, Jerome, Gage, Fred H.
Published in Cell reports (Cambridge) (29.05.2018)
Published in Cell reports (Cambridge) (29.05.2018)
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Nuclear RNA-seq of single neurons reveals molecular signatures of activation
Lacar, Benjamin, Linker, Sara B., Jaeger, Baptiste N., Krishnaswami, Suguna Rani, Barron, Jerika J., Kelder, Martijn J. E., Parylak, Sarah L., Paquola, Apuã C. M., Venepally, Pratap, Novotny, Mark, O'Connor, Carolyn, Fitzpatrick, Conor, Erwin, Jennifer A., Hsu, Jonathan Y., Husband, David, McConnell, Michael J., Lasken, Roger, Gage, Fred H.
Published in Nature communications (19.04.2016)
Published in Nature communications (19.04.2016)
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Journal Article
LINE-1 retrotransposition in the nervous system
Thomas, Charles A, Paquola, Apuã C M, Muotri, Alysson R
Published in Annual review of cell and developmental biology (01.01.2012)
Published in Annual review of cell and developmental biology (01.01.2012)
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Recapitulation of Perturbed Striatal Gene Expression Dynamics of Donors' Brains With Ventral Forebrain Organoids Derived From the Same Individuals With Schizophrenia
Sawada, Tomoyo, Barbosa, André R, Araujo, Bruno, McCord, Alejandra E, D'Ignazio, Laura, Benjamin, Kynon J M, Sheehan, Bonna, Zabolocki, Michael, Feltrin, Arthur, Arora, Ria, Brandtjen, Anna C, Kleinman, Joel E, Hyde, Thomas M, Bardy, Cedric, Weinberger, Daniel R, Paquola, Apuã C M, Erwin, Jennifer A
Published in The American journal of psychiatry (01.06.2024)
Published in The American journal of psychiatry (01.06.2024)
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Transcriptome analysis of the acoelomate human parasite Schistosoma mansoni
Bonaldo, Maria F, Farias, Leonardo P, Setubal, João C, Leite, Ricardo A, Rodrigues, Vanderlei, Nishiyama, Milton Y, Ho, Paulo L, Coulson, Patricia S, Dillon, Gary P, Soares, M Bento, Reis, Eduardo M, Paquola, Apuã C M, Ashton, Peter D, Nascimento, Ana L T O, Marques, Regina C P, Wilson, R Alan, Verjovski-Almeida, Sergio, Miyasato, Patricia A, Ojopi, Elida P B, Ribeiro, Marcela A, DeMarco, Ricardo, Madeira, Alda M B N, Piazza, João P, Sá, Renata G, Martins, Elizabeth A L, Gregorio, Sheila P, Leite, Luciana C C, Kawano, Toshie, Stukart, Gaëlle C, Kitajima, João P, Malaquias, L Cosme C, Adamson, Rachel E, Guimarães, Pedro E M, Gargioni, Cybele, Ohlweiler, Fernanda P, Menck, Carlos F M, Dias-Neto, Emmanuel
Published in Nature genetics (01.10.2003)
Published in Nature genetics (01.10.2003)
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Generation of four postmortem dura-derived iPS cell lines from four control individuals with genotypic and brain-region-specific transcriptomic data available through the BrainSEQ consortium
Sawada, Tomoyo, Benjamin, Kynon J.M., Brandtjen, Anna C., Tietze, Ethan, Allen, Samuel J., Paquola, Apuã C.M., Kleinman, Joel E., Hyde, Thomas M., Erwin, Jennifer A.
Published in Stem cell research (01.07.2020)
Published in Stem cell research (01.07.2020)
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Journal Article
Horizontal Gene Transfer Building Prokaryote Genomes: Genes Related to Exchange Between Cell and Environment are Frequently Transferred
Paquola, Apuã C. M., Asif, Huma, Pereira, Carlos Alberto de Bragança, Feltes, Bruno César, Bonatto, Diego, Lima, Wanessa Cristina, Menck, Carlos Frederico Martins
Published in Journal of molecular evolution (01.04.2018)
Published in Journal of molecular evolution (01.04.2018)
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