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  • Stephen B Baylin
2019

Aging-like Spontaneous Epigenetic Silencing Facilitates Wnt Activation, Stemness, and Braf V600E -Induced Tumorigenesis

Tao, Y., Kang, B., Petkovich, D. A., Bhandari, Y. R., In, J., Stein-O'Brien, G., Kong, X., Xie, W., Zachos, N., Maegawa, S., Vaidya, H., Brown, S., Chiu Yen, R. W., Shao, X., Thakor, J., Lu, Z., Cai, Y., Zhang, Y., Mallona, I., Peinado, M. A. & 6 others, Zahnow, C. A., Ahuja, N., Fertig, E., Issa, J. P., Baylin, S. B. & Easwaran, H., Feb 11 2019, In : Cancer cell. 35, 2, p. 315-328.e6

Research output: Contribution to journalArticle

Defining UHRF1 Domains that Support Maintenance of Human Colon Cancer DNA Methylation and Oncogenic Properties

Kong, X., Chen, J., Xie, W., Brown, S. M., Cai, Y., Wu, K., Fan, D., Nie, Y., Yegnasubramanian, S., Tiedemann, R. L., Tao, Y., Yen, R-W., Topper, M. J., Zahnow, C., Easwaran, H., Rothbart, S. B., Xia, L. & Baylin, S. B., Apr 15 2019, In : Cancer cell. 35, 4, p. 633-648.e7

Research output: Contribution to journalArticle

DFMO and 5-azacytidine increase M1 macrophages in the tumor microenvironment of murine ovarian cancer

Travers, M., Brown, S. M., Dunworth, M., Holbert, C. E., Wiehagen, K. R., Bachman, K. E., Foley, J. R., Stone, M. L., Baylin, S. B., Casero, R. A. & Zahnow, C., Jan 1 2019, In : Cancer Research. 79, 13, p. 3445-3454 10 p.

Research output: Contribution to journalArticle

DNA methyltransferase inhibitors induce a BRCAness phenotype that sensitizes NSCLC to PARP inhibitor and ionizing radiation

Abbotts, R., Topper, M. J., Biondi, C., Fontaine, D., Goswami, R., Stojanovic, L., Choi, E. Y., McLaughlin, L., Kogan, A. A., Xia, L., Lapidus, R., Mahmood, J., Baylin, S. B. & Rassool, F. V., Nov 5 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 45, p. 22609-22618 10 p.

Research output: Contribution to journalArticle

Open Access

Erratum: The Immune Landscape of Cancer (Immunity (2018) 48(4) (812–830.e14), (S1074761318301213), (10.1016/j.immuni.2018.03.023))

The Cancer Genome Atlas Research Network, Aug 20 2019, In : Immunity. 51, 2, p. 411-412 2 p.

Research output: Contribution to journalComment/debate

Open Access

The emerging role of epigenetic therapeutics in immuno-oncology

Topper, M. J., Vaz, M., Marrone, K. A., Brahmer, J. R. & Baylin, S. B., Jan 1 2019, (Accepted/In press) In : Nature Reviews Clinical Oncology.

Research output: Contribution to journalReview article

2018

A Comprehensive Pan-Cancer Molecular Study of Gynecologic and Breast Cancers

The Cancer Genome Atlas Research Network, Apr 9 2018, In : Cancer Cell. 33, 4, p. 690-705.e9

Research output: Contribution to journalArticle

A KDM5 inhibitor increases global H3K4 trimethylation occupancy and enhances the biological efficacy of 5-aza-2′-deoxycytidine

Leadem, B. R., Kagiampakis, I., Wilson, C., Cheung, T. K., Arnott, D., Trojer, P., Classon, M., Easwaran, H. & Baylin, S. B., Mar 1 2018, In : Cancer Research. 78, 5, p. 1127-1139 13 p.

Research output: Contribution to journalArticle

An effective epigenetic-PARP inhibitor combination therapy for breast and ovarian cancers independent of BRCA mutations

Pulliam, N., Fang, F., Ozes, A. R., Tang, J., Adewuyi, A., Keer, H., Lyons, J., Baylin, S. B., Matei, D., Nakshatri, H., Rassool, F. V., Miller, K. D. & Nephew, K. P., Jul 1 2018, In : Clinical Cancer Research. 24, 13, p. 3163-3175 13 p.

Research output: Contribution to journalArticle

An Integrated TCGA Pan-Cancer Clinical Data Resource to Drive High-Quality Survival Outcome Analytics

The Cancer Genome Atlas Research Network, Apr 5 2018, In : Cell. 173, 2, p. 400-416.e11

Research output: Contribution to journalArticle

A Pan-Cancer Analysis of Enhancer Expression in Nearly 9000 Patient Samples

The Cancer Genome Atlas Research Network, Apr 5 2018, In : Cell. 173, 2, p. 386-399.e12

Research output: Contribution to journalArticle

A Pan-Cancer Analysis Reveals High-Frequency Genetic Alterations in Mediators of Signaling by the TGF-β Superfamily

The Cancer Genome Atlas Research Network, Oct 24 2018, In : Cell Systems. 7, 4, p. 422-437.e7

Research output: Contribution to journalArticle

A phase I trial of a guadecitabine (SGI-110) and irinotecan in metastatic colorectal cancer patients previously exposed to irinotecan

Lee, V., Wang, J., Zahurak, M., Gootjes, E., Verheul, H. M., Parkinson, R., Kerner, Z., Sharma, A., Rosner, G., De Jesus-Acosta, A., Laheru, D., Le, D., Oganesian, A., Lilly, E., Brown, T., Jones, P., Baylin, S. B., Ahuja, N. & Azad, N., Dec 15 2018, In : Clinical Cancer Research. 24, 24, p. 6160-6167 8 p.

Research output: Contribution to journalArticle

Biochemical Studies and Molecular Dynamic Simulations Reveal the Molecular Basis of Conformational Changes in DNA Methyltransferase-1

Ye, F., Kong, X., Zhang, H., Liu, Y., Shao, Z., Jin, J., Cai, Y., Zhang, R., Li, L., Zhang, Y., Liu, Y. C., Zhang, C., Xie, W., Yu, K., Ding, H., Zhao, K., Chen, S., Jiang, H., Baylin, S. B. & Luo, C., Mar 16 2018, In : ACS Chemical Biology. 13, 3, p. 772-781 10 p.

Research output: Contribution to journalArticle

Cell-of-Origin Patterns Dominate the Molecular Classification of 10,000 Tumors from 33 Types of Cancer

The Cancer Genome Atlas Network, Apr 5 2018, In : Cell. 173, 2, p. 291-304.e6

Research output: Contribution to journalArticle

Comparative Molecular Analysis of Gastrointestinal Adenocarcinomas

The Cancer Genome Atlas Research Network, Apr 9 2018, In : Cancer Cell. 33, 4, p. 721-735.e8

Research output: Contribution to journalArticle

Comprehensive Analysis of Alternative Splicing Across Tumors from 8,705 Patients

The Cancer Genome Atlas Research Network, Aug 13 2018, In : Cancer Cell. 34, 2, p. 211-224.e6

Research output: Contribution to journalArticle

Comprehensive Characterization of Cancer Driver Genes and Mutations

The MC3 Working Group & The Cancer Genome Atlas Research Network, Apr 5 2018, In : Cell. 173, 2, p. 371-385.e18

Research output: Contribution to journalArticle

Comprehensive Molecular Characterization of the Hippo Signaling Pathway in Cancer

The Cancer Genome Atlas Research Network, Oct 30 2018, In : Cell Reports. 25, 5, p. 1304-1317.e5

Research output: Contribution to journalArticle

Diamine oxidase activity in human tumors: Clinical and biologic significance

Baylin, S. B. & Luk, G. D., Jan 1 2018, Structure and Functions of Amine Oxidases. CRC Press, p. 187-194 8 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

DNA Methylation Patterns Separate Senescence from Transformation Potential and Indicate Cancer Risk

Xie, W., Kagiampakis, I., Pan, L., Zhang, Y., Murphy, L., Tao, Y., Kong, X., Kang, B., Xia, L., Carvalho, F. L. F., Sen, S., Yen, R-W., Zahnow, C., Ahuja, N., Baylin, S. B. & Easwaran, H., Feb 12 2018, In : Cancer Cell. 33, 2, p. 309-321.e5

Research output: Contribution to journalArticle

Driver Fusions and Their Implications in the Development and Treatment of Human Cancers

The Fusion Analysis Working Group & The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 227-238.e3

Research output: Contribution to journalArticle

Dual inhibition of DNA and histone methyltransferases increases viral mimicry in ovarian cancer cells

Liu, M., Thomas, S. L., DeWitt, A. K., Zhou, W., Madaj, Z. B., Ohtani, H., Baylin, S. B., Liang, G. & Jones, P. A., Oct 15 2018, In : Cancer Research. 78, 20, p. 5754-5760 7 p.

Research output: Contribution to journalArticle

Erratum: The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma (Cell Reports (2018) 23(1) (313–326.e5) (S2211124718304364) (10.1016/j.celrep.2018.03.075))

The Cancer Genome Atlas Research Network & The Cancer Genome Atlas Research Network, Jun 19 2018, In : Cell Reports. 23, 12, 1 p.

Research output: Contribution to journalComment/debate

Erratum: Comprehensive Characterization of Cancer Driver Genes and Mutations (ARTICLE (2018) 173(2) (371–385), (S009286741830237X), (10.1016/j.cell.2018.02.060))

The MC3 Working Group & The Cancer Genome Atlas Research Network, Aug 9 2018, In : Cell. 174, 4, p. 1034-1035 2 p.

Research output: Contribution to journalComment/debate

Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 194-212.e6

Research output: Contribution to journalArticle

Genomic and Functional Approaches to Understanding Cancer Aneuploidy

The Cancer Genome Atlas Research Network, Apr 9 2018, In : Cancer Cell. 33, 4, p. 676-689.e3

Research output: Contribution to journalArticle

Genomic and Molecular Landscape of DNA Damage Repair Deficiency across The Cancer Genome Atlas

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 239-254.e6

Research output: Contribution to journalArticle

Histone deacetylase inhibitors and demethylating agents

Baylin, S. B., Nov 16 2018, DeVita, Hellman, and Rosenberg's Cancer: Principles & Practice of Oncology. Wolters Kluwer Health Pharma Solutions (Europe) Ltd, p. 312-320 9 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Integrated Genomic, Epigenomic, and Expression Analyses of Ovarian Cancer Cell Lines

Papp, E., Hallberg, D., Konecny, G. E., Bruhm, D. C., Adleff, V., Noë, M., Kagiampakis, I., Palsgrove, D., Conklin, D., Kinose, Y., White, J. R., Press, M. F., Drapkin, R., Easwaran, H., Baylin, S. B., Slamon, D., Velculescu, V. E. & Scharpf, R. B., Nov 27 2018, In : Cell Reports. 25, 9, p. 2617-2633 17 p.

Research output: Contribution to journalArticle

Integrated Genomic Analysis of the Ubiquitin Pathway across Cancer Types

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 213-226.e3

Research output: Contribution to journalArticle

Integrative molecular characterization of malignant pleural mesothelioma

TCGA Research Network, Dec 1 2018, In : Cancer Discovery. 8, 12, p. 1549-1565 17 p.

Research output: Contribution to journalArticle

lncRNA Epigenetic Landscape Analysis Identifies EPIC1 as an Oncogenic lncRNA that Interacts with MYC and Promotes Cell-Cycle Progression in Cancer

The Cancer Genome Atlas Research Network, Apr 9 2018, In : Cancer Cell. 33, 4, p. 706-720.e9

Research output: Contribution to journalArticle

Machine Learning Detects Pan-cancer Ras Pathway Activation in The Cancer Genome Atlas

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 172-180.e3

Research output: Contribution to journalArticle

Machine Learning Identifies Stemness Features Associated with Oncogenic Dedifferentiation

The Cancer Genome Atlas Research Network, Apr 5 2018, In : Cell. 173, 2, p. 338-354.e15

Research output: Contribution to journalArticle

Molecular Characterization and Clinical Relevance of Metabolic Expression Subtypes in Human Cancers

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 255-269.e4

Research output: Contribution to journalArticle

Oncogenic Signaling Pathways in The Cancer Genome Atlas

The Cancer Genome Atlas Research Network, Apr 5 2018, In : Cell. 173, 2, p. 321-337.e10

Research output: Contribution to journalArticle

Pan-cancer Alterations of the MYC Oncogene and Its Proximal Network across the Cancer Genome Atlas

The Cancer Genome Atlas Network, Mar 28 2018, In : Cell Systems. 6, 3, p. 282-300.e2

Research output: Contribution to journalArticle

Pan-Cancer Analysis of lncRNA Regulation Supports Their Targeting of Cancer Genes in Each Tumor Context

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 297-312.e12

Research output: Contribution to journalArticle

Pathogenic Germline Variants in 10,389 Adult Cancers

The Cancer Genome Atlas Research Network, Apr 5 2018, In : Cell. 173, 2, p. 355-370.e14

Research output: Contribution to journalArticle

Perspective on Oncogenic Processes at the End of the Beginning of Cancer Genomics

The Cancer Genome Atlas Research Network, Apr 5 2018, In : Cell. 173, 2, p. 305-320.e10

Research output: Contribution to journalArticle

Reply to Haffner et al. DNA hypomethylation renders tumors more immunogenic

Stone, M. L., Chiappinelli, K. B., Li, H., Murphy, L. M., Travers, M. E., Topper, M. J., Mathios, D., Lim, M., Shih, I. M., Wang, T-L., Hung, C-F., Bhargava, V., Wiehagen, K. R., Cowley, G. S., Bachman, K. E., Strick, R., Strissel, P. L., Baylin, S. B. & Zahnow, C., Sep 11 2018, In : Proceedings of the National Academy of Sciences of the United States of America. 115, 37, p. E8583-E8584

Research output: Contribution to journalLetter

Scalable Open Science Approach for Mutation Calling of Tumor Exomes Using Multiple Genomic Pipelines

MC3 Working Group & The Cancer Genome Atlas Research Network, Mar 28 2018, In : Cell Systems. 6, 3, p. 271-281.e7

Research output: Contribution to journalArticle

Somatic Mutational Landscape of Splicing Factor Genes and Their Functional Consequences across 33 Cancer Types

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 282-296.e4

Research output: Contribution to journalArticle

Spatial Organization and Molecular Correlation of Tumor-Infiltrating Lymphocytes Using Deep Learning on Pathology Images

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 181-193.e7

Research output: Contribution to journalArticle

Systematic Analysis of Splice-Site-Creating Mutations in Cancer

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 270-281.e3

Research output: Contribution to journalArticle

Targeting CDK9 Reactivates Epigenetically Silenced Genes in Cancer

Zhang, H., Pandey, S., Travers, M., Sun, H., Morton, G., Madzo, J., Chung, W., Khowsathit, J., Perez-Leal, O., Barrero, C. A., Merali, C., Okamoto, Y., Sato, T., Pan, J., Garriga, J., Bhanu, N. V., Simithy, J., Patel, B., Huang, J., Raynal, N. J. M. & 13 others, Garcia, B. A., Jacobson, M. A., Kadoch, C., Merali, S., Zhang, Y., Childers, W., Abou-Gharbia, M., Karanicolas, J., Baylin, S. B., Zahnow, C., Jelinek, J., Graña, X. & Issa, J. P. J., Nov 15 2018, In : Cell. 175, 5, p. 1244-1258.e26

Research output: Contribution to journalArticle

The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 313-326.e5

Research output: Contribution to journalArticle

The Immune Landscape of Cancer

The Cancer Genome Atlas Research Network, Apr 17 2018, In : Immunity. 48, 4, p. 812-830.e14

Research output: Contribution to journalArticle

The tumor suppressor Hic1 maintains chromosomal stability independent of Tp53

Szczepny, A., Carey, K., McKenzie, L., Jayasekara, W. S. N., Rossello, F., Gonzalez-Rajal, A., McCaw, A. S., Popovski, D., Wang, D., Sadler, A. J., Mahar, A., Russell, P. A., Wright, G., McCloy, R. A., Garama, D. J., Gough, D. J., Baylin, S. B., Burgess, A., Cain, J. E. & Watkins, D. N., Apr 1 2018, In : Oncogene. 37, 14, p. 1939-1948 10 p.

Research output: Contribution to journalArticle