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ASCL1 activates neuronal stem cell-like lineage programming through remodeling of the chromatin landscape in prostate cancer
Nouruzi, Shaghayegh, Ganguli, Dwaipayan, Tabrizian, Nakisa, Kobelev, Maxim, Sivak, Olena, Namekawa, Takeshi, Thaper, Daksh, Baca, Sylvan C., Freedman, Matthew L., Aguda, Adeleke, Davies, Alastair, Zoubeidi, Amina
Published in Nature communications (27.04.2022)
Published in Nature communications (27.04.2022)
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Journal Article
Punctuated Evolution of Prostate Cancer Genomes
Baca, Sylvan C., Prandi, Davide, Lawrence, Michael S., Mosquera, Juan Miguel, Romanel, Alessandro, Drier, Yotam, Park, Kyung, Kitabayashi, Naoki, MacDonald, Theresa Y., Ghandi, Mahmoud, Van Allen, Eliezer, Kryukov, Gregory V., Sboner, Andrea, Theurillat, Jean-Philippe, Soong, T. David, Nickerson, Elizabeth, Auclair, Daniel, Tewari, Ashutosh, Beltran, Himisha, Onofrio, Robert C., Boysen, Gunther, Guiducci, Candace, Barbieri, Christopher E., Cibulskis, Kristian, Sivachenko, Andrey, Carter, Scott L., Saksena, Gordon, Voet, Douglas, Ramos, Alex H., Winckler, Wendy, Cipicchio, Michelle, Ardlie, Kristin, Kantoff, Philip W., Berger, Michael F., Gabriel, Stacey B., Golub, Todd R., Meyerson, Matthew, Lander, Eric S., Elemento, Olivier, Getz, Gad, Demichelis, Francesca, Rubin, Mark A., Garraway, Levi A.
Published in Cell (25.04.2013)
Published in Cell (25.04.2013)
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Journal Article
Ubiquitylome analysis identifies dysregulation of effector substrates in SPOP-mutant prostate cancer
Theurillat, Jean-Philippe P., Udeshi, Namrata D., Errington, Wesley J., Svinkina, Tanya, Baca, Sylvan C., Pop, Marius, Wild, Peter J., Blattner, Mirjam, Groner, Anna C., Rubin, Mark A., Moch, Holger, Privé, Gilbert G., Carr, Steven A., Garraway, Levi A.
Published in Science (American Association for the Advancement of Science) (03.10.2014)
Published in Science (American Association for the Advancement of Science) (03.10.2014)
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Journal Article
Unraveling the clonal hierarchy of somatic genomic aberrations
Prandi, Davide, Baca, Sylvan C, Romanel, Alessandro, Barbieri, Christopher E, Mosquera, Juan-Miguel, Fontugne, Jacqueline, Beltran, Himisha, Sboner, Andrea, Garraway, Levi A, Rubin, Mark A, Demichelis, Francesca
Published in Genome Biology (26.08.2014)
Published in Genome Biology (26.08.2014)
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Journal Article
Optimized high-throughput screening of non-coding variants identified from genome-wide association studies
Morova, Tunc, Ding, Yi, Huang, Chia-Chi F, Sar, Funda, Schwarz, Tommer, Giambartolomei, Claudia, Baca, Sylvan C, Grishin, Dennis, Hach, Faraz, Gusev, Alexander, Freedman, Matthew L, Pasaniuc, Bogdan, Lack, Nathan A
Published in Nucleic acids research (22.02.2023)
Published in Nucleic acids research (22.02.2023)
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Journal Article
Gastrointestinal Adenocarcinomas of the Esophagus, Stomach, and Colon Exhibit Distinct Patterns of Genome Instability and Oncogenesis
Dulak, Austin M., Schumacher, Steven E., van Lieshout, Jasper, Imamura, Yu, Fox, Cameron, Shim, Byoungyong, Ramos, Alex H., Saksena, Gordon, Baca, Sylvan C., Baselga, Jose, Tabernero, Josep, Barretina, Jordi, Enzinger, Peter C., Corso, Giovanni, Roviello, Franco, Lin, Lin, Bandla, Santhoshi, Luketich, James D., Pennathur, Arjun, Meyerson, Matthew, Ogino, Shuji, Shivdasani, Ramesh A., Beer, David G., Godfrey, Tony E., Beroukhim, Rameen, Bass, Adam J.
Published in Cancer research (Chicago, Ill.) (01.09.2012)
Published in Cancer research (Chicago, Ill.) (01.09.2012)
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Journal Article
The PENGUIN approach to reconstruct protein interactions at enhancer-promoter regions and its application to prostate cancer
Armaos, Alexandros, Serra, François, Núñez-Carpintero, Iker, Seo, Ji-Heui, Baca, Sylvan C., Gustincich, Stefano, Valencia, Alfonso, Freedman, Matthew L., Cirillo, Davide, Giambartolomei, Claudia, Tartaglia, Gian Gaetano
Published in Nature communications (06.12.2023)
Published in Nature communications (06.12.2023)
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Journal Article
Determining Membrane Capacitance by Dynamic Control of Droplet Interface Bilayer Area
Gross, Linda C. M, Heron, Andrew J, Baca, Sylvan C, Wallace, Mark I
Published in Langmuir (06.12.2011)
Published in Langmuir (06.12.2011)
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Journal Article
Extensive androgen receptor enhancer heterogeneity in primary prostate cancers underlies transcriptional diversity and metastatic potential
Kneppers, Jeroen, Severson, Tesa M., Siefert, Joseph C., Schol, Pieter, Joosten, Stacey E. P., Yu, Ivan Pak Lok, Huang, Chia-Chi Flora, Morova, Tunç, Altıntaş, Umut Berkay, Giambartolomei, Claudia, Seo, Ji-Heui, Baca, Sylvan C., Carneiro, Isa, Emberly, Eldon, Pasaniuc, Bogdan, Jerónimo, Carmen, Henrique, Rui, Freedman, Matthew L., Wessels, Lodewyk F. A., Lack, Nathan A., Bergman, Andries M., Zwart, Wilbert
Published in Nature communications (30.11.2022)
Published in Nature communications (30.11.2022)
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Journal Article
CREB5 reprograms FOXA1 nuclear interactions to promote resistance to androgen receptor-targeting therapies
Hwang, Justin H, Arafeh, Rand, Seo, Ji-Heui, Baca, Sylvan C, Ludwig, Megan, Arnoff, Taylor E, Sawyer, Lydia, Richter, Camden, Tape, Sydney, Bergom, Hannah E, McSweeney, Sean, Rennhack, Jonathan P, Klingenberg, Sarah A, Cheung, Alexander TM, Kwon, Jason, So, Jonathan, Kregel, Steven, Van Allen, Eliezer M, Drake, Justin M, Freedman, Matthew L, Hahn, William C
Published in eLife (12.05.2022)
Published in eLife (12.05.2022)
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Journal Article
Integrative molecular analyses define correlates of high B7-H3 expression in metastatic castrate-resistant prostate cancer
Shi, Xiaolei, Day, Abderrahman, Bergom, Hannah E., Tape, Sydney, Baca, Sylvan C., Sychev, Zoi E., Larson, Gabrianne, Bozicevich, Asha, Drake, Justin M., Zorko, Nicholas, Wang, Jinhua, Ryan, Charles J., Antonarakis, Emmanuel S., Hwang, Justin
Published in NPJ precision oncology (02.11.2022)
Published in NPJ precision oncology (02.11.2022)
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Journal Article
Plasma epigenomic profiling reveals treatment-emergent squamous transformation in prostate cancer
Semaan, Karl, Nawfal, Rashad, Canniff, John, Savignano, Hunter, Seo, Ji-Heui, Siegmund, Stephanie E., Wu, Sarah J., Rotow, Julia K., Lee, Gwo-Shu Mary, El Hajj Chehade, Razane, Zhang, Ze, Gulati, Gunsagar S., Phillips, Noa, Lee, Garyoung Gary, French, Christopher A., Hirsch, Michelle S., Jacene, Heather A., Choudhury, Atish D., Choueiri, Toni K., Freedman, Matthew L., Baca, Sylvan C., Berchuck, Jacob E.
Published in NPJ precision oncology (09.07.2025)
Published in NPJ precision oncology (09.07.2025)
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Journal Article
Erratum to: Unraveling the clonal hierarchy of somatic genomic aberrations
Prandi, Davide, Baca, Sylvan C., Romanel, Alessandro, Barbieri, Christopher E., Mosquera, Juan-Miguel, Fontugne, Jacqueline, Beltran, Himisha, Sboner, Andrea, Garraway, Levi A., Rubin, Mark A., Demichelis, Francesca
Published in Genome Biology (02.05.2017)
Published in Genome Biology (02.05.2017)
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Journal Article
Machine learning for genetics-based classification and treatment response prediction in cancer of unknown primary
Moon, Intae, LoPiccolo, Jaclyn, Baca, Sylvan C., Sholl, Lynette M., Kehl, Kenneth L., Hassett, Michael J., Liu, David, Schrag, Deborah, Gusev, Alexander
Published in Nature medicine (01.08.2023)
Published in Nature medicine (01.08.2023)
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Journal Article
Detection of renal cell carcinoma using plasma and urine cell-free DNA methylomes
Nuzzo, Pier Vitale, Berchuck, Jacob E., Korthauer, Keegan, Spisak, Sandor, Nassar, Amin H., Abou Alaiwi, Sarah, Chakravarthy, Ankur, Shen, Shu Yi, Bakouny, Ziad, Boccardo, Francesco, Steinharter, John, Bouchard, Gabrielle, Curran, Catherine R., Pan, Wenting, Baca, Sylvan C., Seo, Ji-Heui, Lee, Gwo-Shu Mary, Michaelson, M. Dror, Chang, Steven L., Waikar, Sushrut S., Sonpavde, Guru, Irizarry, Rafael A., Pomerantz, Mark, De Carvalho, Daniel D., Choueiri, Toni K., Freedman, Matthew L.
Published in Nature medicine (01.07.2020)
Published in Nature medicine (01.07.2020)
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Journal Article
Mechanism for controlled assembly of transcriptional condensates by Aire
Huoh, Yu-San, Zhang, Qianxia, Törner, Ricarda, Baca, Sylvan C., Arthanari, Haribabu, Hur, Sun
Published in Nature immunology (01.09.2024)
Published in Nature immunology (01.09.2024)
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Journal Article
HOXB13 suppresses de novo lipogenesis through HDAC3-mediated epigenetic reprogramming in prostate cancer
Lu, Xiaodong, Fong, Ka-wing, Gritsina, Galina, Wang, Fang, Baca, Sylvan C., Brea, Lourdes T., Berchuck, Jacob E., Spisak, Sandor, Ross, Jenny, Morrissey, Colm, Corey, Eva, Chandel, Navdeep S., Catalona, William J., Yang, Ximing, Freedman, Matthew L., Zhao, Jonathan C., Yu, Jindan
Published in Nature genetics (01.05.2022)
Published in Nature genetics (01.05.2022)
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Journal Article
H3K27ac HiChIP in prostate cell lines identifies risk genes for prostate cancer susceptibility
Giambartolomei, Claudia, Seo, Ji-Heui, Schwarz, Tommer, Freund, Malika Kumar, Johnson, Ruth Dolly, Spisak, Sandor, Baca, Sylvan C., Gusev, Alexander, Mancuso, Nicholas, Pasaniuc, Bogdan, Freedman, Matthew L.
Published in American journal of human genetics (02.12.2021)
Published in American journal of human genetics (02.12.2021)
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Journal Article
Liquid biopsy in renal cell carcinoma
Machaalani, Marc, Eid, Marc, Semaan, Karl, El Hajj Chehade, Razane, Nawfal, Rashad, Baca, Sylvan C, Choueiri, Toni K
Published in The oncologist (Dayton, Ohio) (01.10.2024)
Published in The oncologist (Dayton, Ohio) (01.10.2024)
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Journal Article
Detecting Neuroendocrine Prostate Cancer Through Tissue-Informed Cell-Free DNA Methylation Analysis
Berchuck, Jacob E., Baca, Sylvan C., McClure, Heather M., Korthauer, Keegan, Tsai, Harrison K., Nuzzo, Pier Vitale, Kelleher, Kaitlin M., He, Monica, Steinharter, John A., Zacharia, Soumya, Spisak, Sandor, Seo, Ji-Heui, Conteduca, Vincenza, Elemento, Olivier, Auh, Joonghoon, Sigouros, Michael, Corey, Eva, Hirsch, Michelle S., Taplin, Mary-Ellen, Choueiri, Toni K., Pomerantz, Mark M., Beltran, Himisha, Freedman, Matthew L.
Published in Clinical cancer research (01.03.2022)
Published in Clinical cancer research (01.03.2022)
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Journal Article