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Newsletter articlesFull Text
INTERNATIONAL PATENT: DANA-FARBER CANCER INSTITUTE, INC., BERCHUCK, JACOB, FREEDMAN, MATTHEW, BACA, SYLVAN FILES APPLICATION FOR "METHODS AND COMPOSITIONS FOR IDENTIFYING NEUROENDOCRINE PROSTATE CANCE...
Publisher:Washington, D.C: HT Digital Streams Limited
Journal title:US Fed News Service, Including US State News, 2022
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ArticlesPeer ReviewedFull Text
ASCL1 activates neuronal stem cell-like lineage programming through remodeling of the chromatin landscape in prostate cancer
Author / Creator: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
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2022-04, Vol.13 (1), p.2282-2282, Article 2282
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ArticlesPeer ReviewedFull Text
Machine learning for genetics-based classification and treatment response prediction in cancer of unknown primary
Author / Creator:Moon, Intae ; LoPiccolo, Jaclyn ; Baca, Sylvan C. ; Sholl, Lynette M. ; Kehl, Kenneth L. ; Hassett, Michael J. ; Liu, David ; Schrag, Deborah ; Gusev, Alexander
Publisher:New York: Nature Publishing Group US
Journal title:Nature medicine, 2023-08, Vol.29 (8), p.2057-2067
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ArticlesPeer ReviewedFull Text
Detection of renal cell carcinoma using plasma and urine cell-free DNA methylomes
Author / Creator: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.
Publisher:New York: Nature Publishing Group US
Journal title:Nature medicine, 2020-07, Vol.26 (7), p.1041-1043
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ArticlesPeer ReviewedFull Text
Ubiquitylome analysis identifies dysregulation of effector substrates in SPOP-mutant prostate cancer
Author / Creator: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.
Publisher:Washington: American Association for the Advancement of Science
Journal title:Science (American Association for the Advancement of Science), 2014-10, Vol.346 (6205), p.85-89
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ArticlesPeer ReviewedFull Text
HOXB13 suppresses de novo lipogenesis through HDAC3-mediated epigenetic reprogramming in prostate cancer
Author / Creator: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
Publisher:New York: Nature Publishing Group US
Journal title:Nature genetics, 2022-05, Vol.54 (5), p.670-683
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ArticlesPeer ReviewedFull Text
Unraveling the clonal hierarchy of somatic genomic aberrations
Author / Creator: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
Publisher:England: BioMed Central Ltd
Journal title:Genome Biology, 2014-08, Vol.15 (8), p.439-439, Article 439
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ArticlesPeer ReviewedFull Text
Exome sequencing identifies recurrent SPOP, FOXA1 and MED12 mutations in prostate cancer
Author / Creator:Barbieri, Christopher E ; Baca, Sylvan C ; Lawrence, Michael S ; Demichelis, Francesca ; Blattner, Mirjam ; Theurillat, Jean-Philippe ; White, Thomas A ; Stojanov, Petar ; Van Allen, Eliezer ; Stransky, Nicolas ; Nickerson, Elizabeth ; Chae, Sung-Suk ; Boysen, Gunther ; Auclair, Daniel ; Onofrio, Robert C ; Park, Kyung ; Kitabayashi, Naoki ; MacDonald, Theresa Y ; Sheikh, Karen ; Vuong, Terry ; Guiducci, Candace ; Cibulskis, Kristian ; Sivachenko, Andrey ; Carter, Scott L ; Saksena, Gordon ; Voet, Douglas ; Hussain, Wasay M ; Ramos, Alex H ; Winckler, Wendy ; Redman, Michelle C ; Ardlie, Kristin ; Tewari, Ashutosh K ; Mosquera, Juan Miguel ; Rupp, Niels ; Wild, Peter J ; Moch, Holger ; Morrissey, Colm ; Nelson, Peter S ; Kantoff, Philip W ; Gabriel, Stacey B ; Golub, Todd R ; Meyerson, Matthew ; Lander, Eric S ; Getz, Gad ; Rubin, Mark A ; Garraway, Levi A
Publisher:New York: Nature Publishing Group US
Journal title:Nature genetics, 2012-06, Vol.44 (6), p.685-689
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ArticlesPeer ReviewedFull Text
The PENGUIN approach to reconstruct protein interactions at enhancer-promoter regions and its application to prostate cancer
Author / Creator: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
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2023-12, Vol.14 (1), p.8084-8084, Article 8084
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ArticlesPeer ReviewedFull Text
Liquid biopsy in renal cell carcinoma
Author / Creator:Machaalani, Marc ; Eid, Marc ; Semaan, Karl ; El Hajj Chehade, Razane ; Nawfal, Rashad ; Baca, Sylvan C ; Choueiri, Toni K
Publisher:US: Oxford University Press
Journal title:The oncologist (Dayton, Ohio), 2024-10, Vol.29 (10), p.821-823
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ArticlesPeer ReviewedFull Text
Liquid biopsy epigenomic profiling for cancer subtyping
Author / Creator:Baca, Sylvan C. ; Seo, Ji-Heui ; Davidsohn, Matthew P. ; Fortunato, Brad ; Semaan, Karl ; Sotudian, Shahabbedin ; Lakshminarayanan, Gitanjali ; Diossy, Miklos ; Qiu, Xintao ; El Zarif, Talal ; Savignano, Hunter ; Canniff, John ; Madueke, Ikenna ; Saliby, Renee Maria ; Zhang, Ziwei ; Li, Rong ; Jiang, Yijia ; Taing, Len ; Awad, Mark ; Chau, Cindy H. ; DeCaprio, James A. ; Figg, William D. ; Greten, Tim F. ; Hata, Aaron N. ; Hodi, F. Stephen ; Hughes, Melissa E. ; Ligon, Keith L. ; Lin, Nancy ; Ng, Kimmie ; Oser, Matthew G. ; Meador, Catherine ; Parsons, Heather A. ; Pomerantz, Mark M. ; Rajan, Arun ; Ritz, Jerome ; Thakuria, Manisha ; Tolaney, Sara M. ; Wen, Patrick Y. ; Long, Henry ; Berchuck, Jacob E. ; Szallasi, Zoltan ; Choueiri, Toni K. ; Freedman, Matthew L.
Publisher:New York: Nature Publishing Group US
Journal title:Nature medicine, 2023-11, Vol.29 (11), p.2737-2741
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ArticlesPeer ReviewedFull Text
Publisher Correction: Machine learning for genetics-based classification and treatment response prediction in cancer of unknown primary
Author / Creator:Moon, Intae ; LoPiccolo, Jaclyn ; Baca, Sylvan C. ; Sholl, Lynette M. ; Kehl, Kenneth L. ; Hassett, Michael J. ; Liu, David ; Schrag, Deborah ; Gusev, Alexander
Publisher:New York: Nature Publishing Group US
Journal title:Nature medicine, 2024-02, Vol.30 (2), p.607-607
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ArticlesPeer ReviewedFull Text
Genetic determinants of chromatin reveal prostate cancer risk mediated by context-dependent gene regulation
Author / Creator:Baca, Sylvan C. ; Singler, Cassandra ; Zacharia, Soumya ; Seo, Ji-Heui ; Morova, Tunc ; Hach, Faraz ; Ding, Yi ; Schwarz, Tommer ; Huang, Chia-Chi Flora ; Anderson, Jacob ; Fay, André P. ; Kalita, Cynthia ; Groha, Stefan ; Pomerantz, Mark M. ; Wang, Victoria ; Linder, Simon ; Sweeney, Christopher J. ; Zwart, Wilbert ; Lack, Nathan A. ; Pasaniuc, Bogdan ; Takeda, David Y. ; Gusev, Alexander ; Freedman, Matthew L.
Publisher:New York: Nature Publishing Group US
Journal title:Nature genetics, 2022-09, Vol.54 (9), p.1364-1375
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ArticlesPeer ReviewedFull Text
Extensive androgen receptor enhancer heterogeneity in primary prostate cancers underlies transcriptional diversity and metastatic potential
Author / Creator: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
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2022-11, Vol.13 (1), p.7367-16, Article 7367
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ArticlesPeer ReviewedFull Text
A biallelic multiple nucleotide length polymorphism explains functional causality at 5p15.33 prostate cancer risk locus
Author / Creator:Spisak, Sandor ; Tisza, Viktoria ; Nuzzo, Pier Vitale ; Seo, Ji-Heui ; Pataki, Balint ; Ribli, Dezso ; Sztupinszki, Zsofia ; Bell, Connor ; Rohanizadegan, Mersedeh ; Stillman, David R. ; Alaiwi, Sarah Abou ; Bartels, Alan H. ; Papp, Marton ; Shetty, Anamay ; Abbasi, Forough ; Lin, Xianzhi ; Lawrenson, Kate ; Gayther, Simon A. ; Pomerantz, Mark ; Baca, Sylvan ; Solymosi, Norbert ; Csabai, Istvan ; Szallasi, Zoltan ; Gusev, Alexander ; Freedman, Matthew L.
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2023-08, Vol.14 (1), p.5118-13, Article 5118
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ArticlesPeer ReviewedFull Text
CREB5 reprograms FOXA1 nuclear interactions to promote resistance to androgen receptor-targeting therapies
Author / Creator: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
Publisher:England: eLife Sciences Publications Ltd
Journal title:eLife, 2022-05, Vol.11
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ArticlesPeer ReviewedFull Text
Author Correction: Liquid biopsy epigenomic profiling for cancer subtyping
Author / Creator:Baca, Sylvan C. ; Seo, Ji-Heui ; Davidsohn, Matthew P. ; Fortunato, Brad ; Semaan, Karl ; Sotudian, Shahabbedin ; Lakshminarayanan, Gitanjali ; Diossy, Miklos ; Qiu, Xintao ; El Zarif, Talal ; Savignano, Hunter ; Canniff, John ; Madueke, Ikenna ; Saliby, Renee Maria ; Zhang, Ziwei ; Li, Rong ; Jiang, Yijia ; Taing, Len ; Awad, Mark ; Chau, Cindy H. ; DeCaprio, James A. ; Figg, William D. ; Greten, Tim F. ; Hata, Aaron N. ; Hodi, F. Stephen ; Hughes, Melissa E. ; Ligon, Keith L. ; Lin, Nancy ; Ng, Kimmie ; Oser, Matthew G. ; Meador, Catherine ; Parsons, Heather A. ; Pomerantz, Mark M. ; Rajan, Arun ; Ritz, Jerome ; Thakuria, Manisha ; Tolaney, Sara M. ; Wen, Patrick Y. ; Long, Henry ; Berchuck, Jacob E. ; Szallasi, Zoltan ; Choueiri, Toni K. ; Freedman, Matthew L.
Publisher:New York: Nature Publishing Group US
Journal title:Nature medicine, 2024-03, Vol.30 (3), p.907-907
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ArticlesPeer ReviewedFull Text
Author Correction: A biallelic multiple nucleotide length polymorphism explains functional causality at 5p15.33 prostate cancer risk locus
Author / Creator:Spisak, Sandor ; Tisza, Viktoria ; Nuzzo, Pier Vitale ; Seo, Ji-Heui ; Pataki, Balint ; Ribli, Dezso ; Sztupinszki, Zsofia ; Bell, Connor ; Rohanizadegan, Mersedeh ; Stillman, David R. ; Alaiwi, Sarah Abou ; Bartels, Alan H. ; Papp, Marton ; Shetty, Anamay ; Abbasi, Forough ; Lin, Xianzhi ; Lawrenson, Kate ; Gayther, Simon A. ; Pomerantz, Mark ; Baca, Sylvan ; Solymosi, Norbert ; Csabai, Istvan ; Szallasi, Zoltan ; Gusev, Alexander ; Freedman, Matthew L.
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2023-10, Vol.14 (1), p.6623-6623, Article 6623
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ArticlesPeer ReviewedFull Text
Integrative molecular analyses define correlates of high B7-H3 expression in metastatic castrate-resistant prostate cancer
Author / Creator: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
Publisher:London: Nature Publishing Group UK
Journal title:NPJ precision oncology, 2022-11, Vol.6 (1), p.80-80, Article 80
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ArticlesPeer ReviewedFull Text
Author Correction: Detection of renal cell carcinoma using plasma and urine cell-free DNA methylomes
Author / Creator:Nuzzo, Pier Vitale ; Berchuck, Jacob E. ; Korthauer, Keegan ; Spisak, Sandor ; Nassar, Amin H. ; Alaiwi, Sarah Abou ; 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.
Publisher:New York: Nature Publishing Group US
Journal title:Nature medicine, 2020-10, Vol.26 (10), p.1663-1663
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INTERNATIONAL PATENT: DANA-FARBER CANCER INSTITUTE, INC., BERCHUCK, JACOB, FREEDMAN, MATTHEW, BACA, SYLVAN FILES APPLICATION FOR "METHODS AND COMPOSITIONS FOR IDENTIFYING NEUROENDOCRINE PROSTATE CANCE...

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ASCL1 activates neuronal stem cell-like lineage programming through remodeling of the chromatin landscape in prostate cancer

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Machine learning for genetics-based classification and treatment response prediction in cancer of unknown primary

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Detection of renal cell carcinoma using plasma and urine cell-free DNA methylomes

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Ubiquitylome analysis identifies dysregulation of effector substrates in SPOP-mutant prostate cancer

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HOXB13 suppresses de novo lipogenesis through HDAC3-mediated epigenetic reprogramming in prostate cancer

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Unraveling the clonal hierarchy of somatic genomic aberrations

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Exome sequencing identifies recurrent SPOP, FOXA1 and MED12 mutations in prostate cancer

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The PENGUIN approach to reconstruct protein interactions at enhancer-promoter regions and its application to prostate cancer

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Liquid biopsy in renal cell carcinoma

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Liquid biopsy epigenomic profiling for cancer subtyping

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Publisher Correction: Machine learning for genetics-based classification and treatment response prediction in cancer of unknown primary

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Genetic determinants of chromatin reveal prostate cancer risk mediated by context-dependent gene regulation

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Extensive androgen receptor enhancer heterogeneity in primary prostate cancers underlies transcriptional diversity and metastatic potential

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A biallelic multiple nucleotide length polymorphism explains functional causality at 5p15.33 prostate cancer risk locus

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CREB5 reprograms FOXA1 nuclear interactions to promote resistance to androgen receptor-targeting therapies

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Author Correction: Liquid biopsy epigenomic profiling for cancer subtyping

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Author Correction: A biallelic multiple nucleotide length polymorphism explains functional causality at 5p15.33 prostate cancer risk locus

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Integrative molecular analyses define correlates of high B7-H3 expression in metastatic castrate-resistant prostate cancer

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Author Correction: Detection of renal cell carcinoma using plasma and urine cell-free DNA methylomes

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