Cistrome and Epicistrome Features Shape the Regulatory DNA Landscape
O’Malley, Ronan C., Huang, Shao-shan Carol, Song, Liang, Lewsey, Mathew G., Bartlett, Anna, Nery, Joseph R., Galli, Mary, Gallavotti, Andrea, Ecker, Joseph R.
Published in Cell (19.05.2016)
Published in Cell (19.05.2016)
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Journal Article
Mapping genome-wide transcription-factor binding sites using DAP-seq
Bartlett, Anna, O'Malley, Ronan C, Huang, Shao-shan Carol, Galli, Mary, Nery, Joseph R, Gallavotti, Andrea, Ecker, Joseph R
Published in Nature protocols (01.08.2017)
Published in Nature protocols (01.08.2017)
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Journal Article
High-Throughput Single-Cell Transcriptome Profiling of Plant Cell Types
Shulse, Christine N., Cole, Benjamin J., Ciobanu, Doina, Lin, Junyan, Yoshinaga, Yuko, Gouran, Mona, Turco, Gina M., Zhu, Yiwen, O’Malley, Ronan C., Brady, Siobhan M., Dickel, Diane E.
Published in Cell reports (Cambridge) (14.05.2019)
Published in Cell reports (Cambridge) (14.05.2019)
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Journal Article
Persistence and plasticity in bacterial gene regulation
Baumgart, Leo A., Lee, Ji Eun, Salamov, Asaf, Dilworth, David J., Na, Hyunsoo, Mingay, Matthew, Blow, Matthew J., Zhang, Yu, Yoshinaga, Yuko, Daum, Chris G., O’Malley, Ronan C.
Published in Nature methods (01.12.2021)
Published in Nature methods (01.12.2021)
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Journal Article
Transcriptome and DNA methylome divergence of inflorescence development between 2 ecotypes in Panicum hallii
Weng, Xiaoyu, Song, Haili, Sreedasyam, Avinash, Haque, Taslima, Zhang, Li, Chen, Cindy, Yoshinaga, Yuko, Williams, Melissa, O’Malley, Ronan C, Grimwood, Jane, Schmutz, Jeremy, Juenger, Thomas E
Published in Plant physiology (Bethesda) (03.07.2023)
Published in Plant physiology (Bethesda) (03.07.2023)
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Journal Article
Highly Integrated Single-Base Resolution Maps of the Epigenome in Arabidopsis
Lister, Ryan, O'Malley, Ronan C., Tonti-Filippini, Julian, Gregory, Brian D., Berry, Charles C., Millar, A. Harvey, Ecker, Joseph R.
Published in Cell (02.05.2008)
Published in Cell (02.05.2008)
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Journal Article
Phased diploid genome assembly with single-molecule real-time sequencing
Chin, Chen-Shan, Peluso, Paul, Sedlazeck, Fritz J, Nattestad, Maria, Concepcion, Gregory T, Clum, Alicia, Dunn, Christopher, O'Malley, Ronan, Figueroa-Balderas, Rosa, Morales-Cruz, Abraham, Cramer, Grant R, Delledonne, Massimo, Luo, Chongyuan, Ecker, Joseph R, Cantu, Dario, Rank, David R, Schatz, Michael C
Published in Nature methods (01.12.2016)
Published in Nature methods (01.12.2016)
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Journal Article
IgG4 Disease-Related Ataxia
Hadjivassiliou, Marios, Blackburn, Daniel, O’Malley, Ronan, Hoggard, Nigel
Published in Cerebellum (London, England) (01.06.2024)
Published in Cerebellum (London, England) (01.06.2024)
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Journal Article
Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells
Lister, Ryan, Pelizzola, Mattia, Kida, Yasuyuki S., Hawkins, R. David, Nery, Joseph R., Hon, Gary, Antosiewicz-Bourget, Jessica, O’Malley, Ronan, Castanon, Rosa, Klugman, Sarit, Downes, Michael, Yu, Ruth, Stewart, Ron, Ren, Bing, Thomson, James A., Evans, Ronald M., Ecker, Joseph R.
Published in Nature (London) (03.03.2011)
Published in Nature (London) (03.03.2011)
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Journal Article
A qualitative meta-analysis exploring client-reported outcomes of couple therapy
O'Malley, Ronan, Glenny, Rebecca, Poppleton, Simone, Timulak, Ladislav
Published in Psychotherapy (Chicago, Ill.) (01.12.2023)
Published in Psychotherapy (Chicago, Ill.) (01.12.2023)
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Journal Article
The regulatory and transcriptional landscape associated with carbon utilization in a filamentous fungus
Wu, Vincent W., Thieme, Nils, Huberman, Lori B., Dietschmann, Axel, Kowbel, David J., Lee, Juna, Calhoun, Sara, Singan, Vasanth R., Lipzen, Anna, Xiong, Yi, Monti, Remo, Blow, Matthew J., O’Malley, Ronan C., Grigoriev, Igor V., Benz, J. Philipp, Glass, N. Louise
Published in Proceedings of the National Academy of Sciences - PNAS (17.03.2020)
Published in Proceedings of the National Academy of Sciences - PNAS (17.03.2020)
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Journal Article
Voltage-dependent gating of SV channel TPC1 confers vacuole excitability
Jaślan, Dawid, Dreyer, Ingo, Lu, Jinping, O’Malley, Ronan, Dindas, Julian, Marten, Irene, Hedrich, Rainer
Published in Nature communications (14.06.2019)
Published in Nature communications (14.06.2019)
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Journal Article
The Arabidopsis Auxin Receptor F-Box Proteins AFB4 and AFB5 Are Required for Response to the Synthetic Auxin Picloram
Prigge, Michael J, Greenham, Kathleen, Zhang, Yi, Santner, Aaron, Castillejo, Cristina, Mutka, Andrew M, O'Malley, Ronan C, Ecker, Joseph R, Kunkel, Barbara N, Estelle, Mark
Published in G3 : genes - genomes - genetics (01.05.2016)
Published in G3 : genes - genomes - genetics (01.05.2016)
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Journal Article
CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping
Wanamaker, Shelly A, Garza, Renee M, MacWilliams, Andrew, Nery, Joseph R, Bartlett, Anna, Castanon, Rosa, Goubil, Adeline, Feeney, Joseph, O'Malley, Ronan, Huang, Shao-shan C, Zhang, Zhuzhu Z, Galli, Mary, Ecker, Joseph R
Published in Nature methods (01.08.2017)
Published in Nature methods (01.08.2017)
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Journal Article
PO236 A rare encounter with a common condition: encephalopathy in a tourist
O’Malley, Ronan, Majid, Arshad
Published in Journal of neurology, neurosurgery and psychiatry (01.12.2017)
Published in Journal of neurology, neurosurgery and psychiatry (01.12.2017)
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Journal Article
Genome Sequencing
Yoshinaga, Yuko, Daum, Christopher, He, Guifen, O'Malley, Ronan
Published in Methods in molecular biology (Clifton, N.J.) (2018)
Published in Methods in molecular biology (Clifton, N.J.) (2018)
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Journal Article
DNA affinity purification sequencing and transcriptional profiling reveal new aspects of nitrogen regulation in a filamentous fungus
Huberman, Lori B., Wu, Vincent W., Kowbel, David J., Lee, Juna, Daum, Chris, Grigoriev, Igor V., O’Malley, Ronan C., Glass, N. Louise
Published in Proceedings of the National Academy of Sciences - PNAS (30.03.2021)
Published in Proceedings of the National Academy of Sciences - PNAS (30.03.2021)
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Journal Article
The role of ATXR6 expression in modulating genome stability and transposable element repression in Arabidopsis
Potok, Magdalena E, Zhong, Zhenhui, Picard, Colette L, Liu, Qikun, Do, Truman, Jacobsen, Cassidy E, Sakr, Ocean, Naranbaatar, Bilguudei, Thilakaratne, Ruwan, Khnkoyan, Zhanna, Purl, Megan, Cheng, Harrison, Vervaet, Helena, Feng, Suhua, Rayatpisheh, Shima, Wohlschlegel, James A, O'Malley, Ronan C, Ecker, Joseph R, Jacobsen, Steven E
Published in Proceedings of the National Academy of Sciences - PNAS (18.01.2022)
Published in Proceedings of the National Academy of Sciences - PNAS (18.01.2022)
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Journal Article
The landscape of Chlamydomonas histone H3 lysine 4 methylation reveals both constant features and dynamic changes during the diurnal cycle
Strenkert, Daniela, Yildirim, Asli, Yan, Juying, Yoshinaga, Yuko, Pellegrini, Matteo, O'Malley, Ronan C., Merchant, Sabeeha S., Umen, James G.
Published in The Plant journal : for cell and molecular biology (01.10.2022)
Published in The Plant journal : for cell and molecular biology (01.10.2022)
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Journal Article