All2: A tool for selecting mosaic mutations from comprehensive multi-cell comparisons
Sarangi, Vivekananda, Jang, Yeongjun, Suvakov, Milovan, Bae, Taejeong, Fasching, Liana, Sekar, Shobana, Tomasini, Livia, Mariani, Jessica, Vaccarino, Flora M, Abyzov, Alexej
Published in PLoS computational biology (01.04.2022)
Published in PLoS computational biology (01.04.2022)
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Journal Article
TRIM28 repression of retrotransposon-based enhancers is necessary to preserve transcriptional dynamics in embryonic stem cells
Rowe, Helen M, Kapopoulou, Adamandia, Corsinotti, Andrea, Fasching, Liana, Macfarlan, Todd S, Tarabay, Yara, Viville, Stéphane, Jakobsson, Johan, Pfaff, Samuel L, Trono, Didier
Published in Genome research (01.03.2013)
Published in Genome research (01.03.2013)
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Journal Article
TRIM28 Represses Transcription of Endogenous Retroviruses in Neural Progenitor Cells
Fasching, Liana, Kapopoulou, Adamandia, Sachdeva, Rohit, Petri, Rebecca, Jönsson, Marie E., Männe, Christian, Turelli, Priscilla, Jern, Patric, Cammas, Florence, Trono, Didier, Jakobsson, Johan
Published in Cell reports (Cambridge) (2015)
Published in Cell reports (Cambridge) (2015)
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Journal Article
Comprehensive identification of somatic nucleotide variants in human brain tissue
Wang, Yifan, Bae, Taejeong, Thorpe, Jeremy, Sherman, Maxwell A, Jones, Attila G, Cho, Sean, Daily, Kenneth, Dou, Yanmei, Ganz, Javier, Galor, Alon, Lobon, Irene, Pattni, Reenal, Rosenbluh, Chaggai, Tomasi, Simone, Tomasini, Livia, Yang, Xiaoxu, Zhou, Bo, Akbarian, Schahram, Ball, Laurel L, Bizzotto, Sara, Emery, Sarah B, Doan, Ryan, Fasching, Liana, Jang, Yeongjun, Juan, David, Lizano, Esther, Luquette, Lovelace J, Moldovan, John B, Narurkar, Rujuta, Oetjens, Matthew T, Rodin, Rachel E, Sekar, Shobana, Shin, Joo Heon, Soriano, Eduardo, Straub, Richard E, Zhou, Weichen, Chess, Andrew, Gleeson, Joseph G, Marquès-Bonet, Tomas, Park, Peter J, Peters, Mette A, Pevsner, Jonathan, Walsh, Christopher A, Weinberger, Daniel R, Vaccarino, Flora M, Moran, John V, Urban, Alexander E, Kidd, Jeffrey M, Mills, Ryan E, Abyzov, Alexej
Published in Genome Biology (29.03.2021)
Published in Genome Biology (29.03.2021)
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Journal Article
The role of somatic mosaicism in brain disease
Jourdon, Alexandre, Fasching, Liana, Scuderi, Soraya, Abyzov, Alexej, Vaccarino, Flora M
Published in Current opinion in genetics & development (01.12.2020)
Published in Current opinion in genetics & development (01.12.2020)
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Journal Article
miRNAs in brain development
Petri, Rebecca, Malmevik, Josephine, Fasching, Liana, Åkerblom, Malin, Jakobsson, Johan
Published in Experimental cell research (01.02.2014)
Published in Experimental cell research (01.02.2014)
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Journal Article
Early developmental asymmetries in cell lineage trees in living individuals
Fasching, Liana, Jang, Yeongjun, Tomasi, Simone, Schreiner, Jeremy, Tomasini, Livia, Brady, Melanie V, Bae, Taejeong, Sarangi, Vivekananda, Vasmatzis, Nikolaos, Wang, Yifan, Szekely, Anna, Fernandez, Thomas V, Leckman, James F, Abyzov, Alexej, Vaccarino, Flora M
Published in Science (American Association for the Advancement of Science) (19.03.2021)
Published in Science (American Association for the Advancement of Science) (19.03.2021)
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Journal Article
Intersection of diverse neuronal genomes and neuropsychiatric disease: The Brain Somatic Mosaicism Network
McConnell, Michael J., Moran, John V., Abyzov, Alexej, Akbarian, Schahram, Bae, Taejeong, Cortes-Ciriano, Isidro, Erwin, Jennifer A., Fasching, Liana, Flasch, Diane A., Freed, Donald, Ganz, Javier, Jaffe, Andrew E., Kwan, Kenneth Y., Kwon, Minseok, Lodato, Michael A., Mills, Ryan E., Paquola, Apua C. M., Rodin, Rachel E., Rosenbluh, Chaggai, Sestan, Nenad, Sherman, Maxwell A., Shin, Joo Heon, Song, Saera, Straub, Richard E., Thorpe, Jeremy, Weinberger, Daniel R., Urban, Alexander E., Zhou, Bo, Gage, Fred H., Lehner, Thomas, Senthil, Geetha, A. Walsh, Christopher, Chess, Andrew, Courchesne, Eric, Gleeson, Joseph G., Kidd, Jeffrey M., Park, Peter J., Pevsner, Jonathan, Vaccarino, Flora M.
Published in Science (American Association for the Advancement of Science) (28.04.2017)
Published in Science (American Association for the Advancement of Science) (28.04.2017)
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Journal Article
Efficient reconstruction of cell lineage trees for cell ancestry and cancer
Jang, Yeongjun, Fasching, Liana, Bae, Taejeong, Tomasini, Livia, Schreiner, Jeremy, Szekely, Anna, Fernandez, Thomas V, Leckman, James F, Vaccarino, Flora M, Abyzov, Alexej
Published in Nucleic acids research (09.06.2023)
Published in Nucleic acids research (09.06.2023)
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Journal Article
Correction: All2: A tool for selecting mosaic mutations from comprehensive multi-cell comparisons
Sarangi, Vivekananda, Jang, Yeongjun, Suvakov, Milovan, Bae, Taejeong, Fasching, Liana, Sekar, Shobana, Tomasini, Livia, Mariani, Jessica, Vaccarino, Flora M., Abyzov, Alexej
Published in PLoS computational biology (15.11.2022)
Published in PLoS computational biology (15.11.2022)
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Journal Article
Correction: All.sup.2: A tool for selecting mosaic mutations from comprehensive multi-cell comparisons
Sarangi, Vivekananda, Jang, Yeongjun, Suvakov, Milovan, Bae, Taejeong, Fasching, Liana, Sekar, Shobana, Tomasini, Livia, Mariani, Jessica, Vaccarino, Flora M, Abyzov, Alexej
Published in PLoS computational biology (15.11.2022)
Published in PLoS computational biology (15.11.2022)
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Journal Article
The landscape of somatic mutation in cerebral cortex of autistic and neurotypical individuals revealed by ultra-deep whole-genome sequencing
Rodin, Rachel E., Dou, Yanmei, Kwon, Minseok, Sherman, Maxwell A., D’Gama, Alissa M., Doan, Ryan N., Rento, Lariza M., Girskis, Kelly M., Bohrson, Craig L., Kim, Sonia N., Nadig, Ajay, Luquette, Lovelace J., Gulhan, Doga C., Park, Peter J., Walsh, Christopher A.
Published in Nature neuroscience (01.02.2021)
Published in Nature neuroscience (01.02.2021)
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Journal Article
All.sup.2: A tool for selecting mosaic mutations from comprehensive multi-cell comparisons
Sarangi, Vivekananda, Jang, Yeongjun, Suvakov, Milovan, Bae, Taejeong, Fasching, Liana, Sekar, Shobana, Tomasini, Livia, Mariani, Jessica, Vaccarino, Flora M, Abyzov, Alexej
Published in PLoS computational biology (20.04.2022)
Published in PLoS computational biology (20.04.2022)
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Journal Article
TRIM28 Controls a Gene Regulatory Network Based on Endogenous Retroviruses in Human Neural Progenitor Cells
Brattås, Per Ludvik, Jönsson, Marie E., Fasching, Liana, Nelander Wahlestedt, Jenny, Shahsavani, Mansoureh, Falk, Ronny, Falk, Anna, Jern, Patric, Parmar, Malin, Jakobsson, Johan
Published in Cell reports (Cambridge) (03.01.2017)
Published in Cell reports (Cambridge) (03.01.2017)
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Journal Article
Control-independent mosaic single nucleotide variant detection with DeepMosaic
Yang, Xiaoxu, Xu, Xin, Breuss, Martin W., Antaki, Danny, Ball, Laurel L., Chung, Changuk, Shen, Jiawei, Li, Chen, George, Renee D., Wang, Yifan, Bae, Taejeong, Cheng, Yuhe, Abyzov, Alexej, Wei, Liping, Alexandrov, Ludmil B., Sebat, Jonathan L., Gleeson, Joseph G.
Published in Nature biotechnology (01.06.2023)
Published in Nature biotechnology (01.06.2023)
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Journal Article
Mapping recurrent mosaic copy number variation in human neurons
Sun, Chen, Kathuria, Kunal, Emery, Sarah B., Kim, ByungJun, Burbulis, Ian E., Shin, Joo Heon, Weinberger, Daniel R., Moran, John V., Kidd, Jeffrey M., Mills, Ryan E., McConnell, Michael J.
Published in Nature communications (17.05.2024)
Published in Nature communications (17.05.2024)
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Journal Article
Machine learning reveals bilateral distribution of somatic L1 insertions in human neurons and glia
Zhu, Xiaowei, Zhou, Bo, Pattni, Reenal, Gleason, Kelly, Tan, Chunfeng, Kalinowski, Agnieszka, Sloan, Steven, Fiston-Lavier, Anna-Sophie, Mariani, Jessica, Petrov, Dmitri, Barres, Ben A., Duncan, Laramie, Abyzov, Alexej, Vogel, Hannes, Moran, John V., Vaccarino, Flora M., Tamminga, Carol A., Levinson, Douglas F., Urban, Alexander E.
Published in Nature neuroscience (01.02.2021)
Published in Nature neuroscience (01.02.2021)
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Journal Article
Author Correction: Machine learning reveals bilateral distribution of somatic L1 insertions in human neurons and glia
Zhu, Xiaowei, Zhou, Bo, Pattni, Reenal, Gleason, Kelly, Tan, Chunfeng, Kalinowski, Agnieszka, Sloan, Steven, Fiston-Lavier, Anna-Sophie, Mariani, Jessica, Petrov, Dmitri, Barres, Ben A., Duncan, Laramie, Abyzov, Alexej, Vogel, Hannes, Moran, John V., Vaccarino, Flora M., Tamminga, Carol A., Levinson, Douglas F., Urban, Alexander E.
Published in Nature neuroscience (01.10.2023)
Published in Nature neuroscience (01.10.2023)
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Journal Article
Author Correction: The landscape of somatic mutation in cerebral cortex of autistic and neurotypical individuals revealed by ultra-deep whole-genome sequencing
Rodin, Rachel E., Dou, Yanmei, Kwon, Minseok, Sherman, Maxwell A., D’Gama, Alissa M., Doan, Ryan N., Rento, Lariza M., Girskis, Kelly M., Bohrson, Craig L., Kim, Sonia N., Nadig, Ajay, Luquette, Lovelace J., Gulhan, Doga C., Park, Peter J., Walsh, Christopher A.
Published in Nature neuroscience (01.10.2023)
Published in Nature neuroscience (01.10.2023)
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Journal Article
Author Correction: The landscape of somatic mutation in cerebral cortex of autistic and neurotypical individuals revealed by ultra-deep whole-genome sequencing
Rodin, Rachel E., Dou, Yanmei, Kwon, Minseok, Sherman, Maxwell A., D’Gama, Alissa M., Doan, Ryan N., Rento, Lariza M., Girskis, Kelly M., Bohrson, Craig L., Kim, Sonia N., Nadig, Ajay, Luquette, Lovelace J., Gulhan, Doga C., Park, Peter J., Walsh, Christopher A.
Published in Nature neuroscience (01.04.2021)
Published in Nature neuroscience (01.04.2021)
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Journal Article