Stephen Baylin

2024

A phase II study of guadecitabine combined with irinotecan vs regorafenib or TAS-102 in irinotecan-refractory metastatic colorectal cancer patients

Lee, V., Parkinson, R., Zahurak, M., Cope, L., Cercek, A., Verheul, H., Gootjes, E., Lenz, H. J., Iqbal, S., Jones, P., Baylin, S., Rami, V., Ahuja, N., El Khoueiry, A. & Azad, N. S., May 15 2024, In: International Journal of Cancer. 154, 10, p. 1794-1801 8 p.

Research output: Contribution to journal › Article › peer-review

Tissue-location-specific transcription programs drive tumor dependencies in colon cancer

Yang, L., Tu, L., Bisht, S., Mao, Y., Petkovich, D., Thursby, S. J., Liang, J., Patel, N., Yen, R. W. C., Largent, T., Zahnow, C., Brock, M., Gabrielson, K., Salimian, K. J., Baylin, S. B. & Easwaran, H., Dec 2024, In: Nature communications. 15, 1, 1384.

Research output: Contribution to journal › Article › peer-review

Open Access

2023

A Phase II Trial of Guadecitabine plus Atezolizumab in Metastatic Urothelial Carcinoma Progressing after Initial Immune Checkpoint Inhibitor Therapy

Jang, H. J., Hostetter, G., Macfarlane, A. W., Madaj, Z., Ross, E. A., Hinoue, T., Kulchycki, J. R., Burgos, R. S., Tafseer, M., Alpaugh, R. K., Schwebel, C. L., Kokate, R., Geynisman, D. M., Zibelman, M. R., Ghatalia, P., Nichols, P. W., Chung, W., Madzo, J., Hahn, N. M., Quinn, D. I., & 7 othersIssa, J. P. J., Topper, M. J., Baylin, S. B., Shen, H., Campbell, K. S., Jones, P. A. & Plimack, E. R., Jun 1 2023, In: Clinical Cancer Research. 29, 11, p. 2052-2065 14 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Author Correction: Pan-cancer analysis of whole genomes (Nature, (2020), 578, 7793, (82-93), 10.1038/s41586-020-1969-6)

The ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium, Feb 16 2023, In: Nature. 614, 7948, p. E39

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

Author Correction: Comprehensive molecular characterization of mitochondrial genomes in human cancers (Nature Genetics, (2020), 52, 3, (342-352), 10.1038/s41588-019-0557-x)

PCAWG Consortium, May 2023, In: Nature genetics. 55, 5, p. 892 1 p.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

Author Correction: The landscape of viral associations in human cancers (Nature Genetics, (2020), 52, 3, (320-330), 10.1038/s41588-019-0558-9)

PCAWG Pathogens & PCAWG Consortium, Jun 2023, In: Nature genetics. 55, 6, p. 1077 1 p.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

Author Correction: Comprehensive molecular characterization of mitochondrial genomes in human cancers (Nature Genetics, (2020), 52, 3, (342-352), 10.1038/s41588-019-0557-x)

PCAWG Consortium, Jun 2023, In: Nature genetics. 55, 6, p. 1078 1 p.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

Author Correction: Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing (Nature Genetics, (2020), 52, 3, (331-341), 10.1038/s41588-019-0576-7)

PCAWG Structural Variation Working Group & PCAWG Consortium, Jun 2023, In: Nature genetics. 55, 6, p. 1076 1 p.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

Author Correction: Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition (Nature Genetics, (2020), 52, 3, (306-319), 10.1038/s41588-019-0562-0)

PCAWG Structural Variation Working Group & PCAWG Consortium, Jun 2023, In: Nature genetics. 55, 6, p. 1080 1 p.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

Author Correction: Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer (Nature Genetics, (2020), 52, 3, (294-305), 10.1038/s41588-019-0564-y)

PCAWG Structural Variation Working Group & PCAWG Consortium, Jun 2023, In: Nature genetics. 55, 6, p. 1079 1 p.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

Core mitochondrial genes are down-regulated during SARS-CoV-2 infection of rodent and human hosts

Guarnieri, J. W., Dybas, J. M., Fazelinia, H., Kim, M. S., Frere, J., Zhang, Y., Albrecht, Y. S., Murdock, D. G., Angelin, A., Singh, L. N., Weiss, S. L., Best, S. M., Lott, M. T., Zhang, S., Cope, H., Zaksas, V., Saravia-Butler, A., Meydan, C., Foox, J., Mozsary, C., & 31 othersBram, Y., Kidane, Y., Priebe, W., Emmett, M. R., Meller, R., Demharter, S., Stentoft-Hansen, V., Salvatore, M., Galeano, D., Enguita, F. J., Grabham, P., Trovao, N. S., Singh, U., Haltom, J., Heise, M. T., Moorman, N. J., Baxter, V. K., Madden, E. A., Taft-Benz, S. A., Anderson, E. J., Sanders, W. A., Dickmander, R. J., Baylin, S. B., Wurtele, E. S., Moraes-Vieira, P. M., Taylor, D., Mason, C. E., Schisler, J. C., Schwartz, R. E., Beheshti, A. & Wallace, D. C., 2023, In: Science translational medicine. 15, 708, eabq1533.

Research output: Contribution to journal › Article › peer-review

Derivation of CD8⁺ T cell infiltration potentiators in non-small-cell lung cancer through tumor microenvironment analysis

Topper, M. J., Anagnostou, V., Marrone, K. A., Velculescu, V. E., Jones, P. A., Brahmer, J. R., Baylin, S. B. & Hostetter, G. H., Jul 21 2023, In: iScience. 26, 7, 107095.

Research output: Contribution to journal › Article › peer-review

Open Access

Oncogenic Transformation Drives DNA Methylation Loss and Transcriptional Activation at Transposable Element Loci

Kanholm, T., Rentia, U., Hadley, M., Karlow, J. A., Cox, O. L., Diab, N., Bendall, M. L., Dawson, T., McDonald, J. I., Xie, W., Crandall, K. A., Burns, K. H., Baylin, S. B., Easwaran, H. & Chiappinelli, K. B., Aug 1 2023, In: Cancer Research. 83, 15, p. 2584-2599 16 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Publisher Correction: Comprehensive molecular characterization of mitochondrial genomes in human cancers (Nature Genetics, (2020), 52, 3, (342-352), 10.1038/s41588-019-0557-x)

PCAWG Consortium, May 2023, In: Nature genetics. 55, 5, p. 893 1 p.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

The legacy is not just with you: an interview with Stephen Baylin

Baylin, S., Feb 1 2023, In: Epigenomics. 15, 4, p. 189-194 6 p.

Research output: Contribution to journal › Comment/debate › peer-review

Transcription factor expression repertoire basis for epigenetic and transcriptional subtypes of colorectal cancers

Bhandari, Y. R., Krishna, V., Powers, R., Parmar, S., Thursby, S. J., Gupta, E., Kulak, O., Gokare, P., Reumers, J., Van Wesenbeeck, L., Bachman, K. E., Baylin, S. B. & Easwaran, H., 2023, In: Proceedings of the National Academy of Sciences of the United States of America. 120, 31, e2301536120.

Research output: Contribution to journal › Article › peer-review

Open Access

2022

Activating STING1-dependent immune signaling in TP53 mutant and wild-type acute myeloid leukemia

Kogan, A. A., Topper, M. J., Dellomo, A. J., Stojanovic, L., McLaughlin, L. J., Creed, T. M., Eberly, C. L., Kingsbury, T. J., Baer, M. R., Kessler, M. D., Baylin, S. B. & Rassool, F. V., Jul 5 2022, In: Proceedings of the National Academy of Sciences of the United States of America. 119, 27, e2123227119.

Research output: Contribution to journal › Article › peer-review

Open Access

Author Correction: High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations (Nature Communications, (2020), 11, 1, (736), 10.1038/s41467-019-13885-w)

PCAWG Transcriptome Working Group, PCAWG Structural Variation Working Group & PCAWG Consortium, Dec 1 2022, In: Nature communications. 13, 1, 7572.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

Author Correction: Genomic footprints of activated telomere maintenance mechanisms in cancer (Nature Communications, (2020), 11, 1, (733), 10.1038/s41467-019-13824-9)

PCAWG Structural Variation Working Group & PCAWG Consortium, Dec 1 2022, In: Nature communications. 13, 1, 7574.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

Author Correction: Divergent mutational processes distinguish hypoxic and normoxic tumours (Nature Communications, (2020), 11, 1, (737), 10.1038/s41467-019-14052-x)

PCAWG Consortium, Dec 2022, In: Nature communications. 13, 1, 7569.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

Author Correction: Integrative pathway enrichment analysis of multivariate omics data (Nature Communications, (2020), 11, 1, (735), 10.1038/s41467-019-13983-9)

PCAWG Drivers and Functional Interpretation Working Group & PCAWG Consortium, Dec 1 2022, In: Nature communications. 13, 1, 7570.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

Author Correction: A deep learning system accurately classifies primary and metastatic cancers using passenger mutation patterns (Nature Communications, (2020), 11, 1, (728), 10.1038/s41467-019-13825-8)

PCAWG Tumor Subtypes and Clinical Translation Working Group & PCAWG Consortium, Dec 2022, In: Nature communications. 13, 1, 7573.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

Author Correction: Inferring structural variant cancer cell fraction (Nature Communications, (2020), 11, 1, (730), 10.1038/s41467-020-14351-8)

PCAWG Evolution and Heterogeneity Working Group & PCAWG Consortium, Dec 1 2022, In: Nature communications. 13, 1, 7568.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

Author Correction: Reconstructing evolutionary trajectories of mutation signature activities in cancer using TrackSig (Nature Communications, (2020), 11, 1, (731), 10.1038/s41467-020-14352-7)

PCAWG Evolution and Heterogeneity Working Group & PCAWG Consortium, Dec 1 2022, In: Nature communications. 13, 1, 7567.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

Author Correction: Pathway and network analysis of more than 2500 whole cancer genomes (Nature Communications, (2020), 11, 1, (729), 10.1038/s41467-020-14367-0)

PCAWG Drivers and Functional Interpretation Working Group & PCAWG Consortium, Dec 1 2022, In: Nature communications. 13, 1, 7566.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

Author Correction: Combined burden and functional impact tests for cancer driver discovery using DriverPower (Nature Communications, (2020), 11, 1, (734), 10.1038/s41467-019-13929-1)

PCAWG Drivers and Functional Interpretation Working Group & PCAWG Consortium, Dec 1 2022, In: Nature communications. 13, 1, 7571.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

Betacoronavirus-specific alternate splicing

Karlebach, G., Aronow, B., Baylin, S. B., Butler, D., Foox, J., Levy, S., Meydan, C., Mozsary, C., Saravia-Butler, A. M., Taylor, D. M., Wurtele, E., Mason, C. E., Beheshti, A. & Robinson, P. N., Mar 2022, In: Genomics. 114, 2, 110270.

Research output: Contribution to journal › Article › peer-review

Open Access

Inhibiting DNA methylation improves antitumor immunity in ovarian cancer

Chiappinelli, K. B. & Baylin, S. B., Jul 15 2022, In: Journal of Clinical Investigation. 132, 14, e160186.

Research output: Contribution to journal › Article › peer-review

Open Access

Phase I Clinical Trial of DNA Methyltransferase Inhibitor Decitabine and PARP Inhibitor Talazoparib Combination Therapy in Relapsed/Refractory Acute Myeloid Leukemia

Baer, M. R., Kogan, A. A., Bentzen, S. M., Mi, T., Lapidus, R. G., Duong, V. H., Emadi, A., Niyongere, S., O’Connell, C. L., Youngblood, B. A., Baylin, S. B. & Rassool, F. V., Apr 1 2022, In: Clinical Cancer Research. 28, 7, p. 1313-1322 10 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Safety, Outcomes, and T-Cell Characteristics in Patients with Relapsed or Refractory MDS or CMML Treated with Atezolizumab in Combination with Guadecitabine

O'Connell, C. L., Baer, M. R., Duerskov, A., Saini, S. K., Duong, V. H., Kropf, P., Hansen, J. W., Tsao-Wei, D., Jang, H. S., Emadi, A., Holmberg-Thyden, S., Cowland, J., Brinker, B. T., Horwood, K., Burgos, R., Hostetter, G., Youngblood, B. A., Hadrup, S. R., Issa, J. P., Jones, P., & 3 othersBaylin, S. B., Siddiqi, I. & Grønbaek, K., Dec 15 2022, In: Clinical Cancer Research. 28, 24, p. 5306-5316 11 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Selective CDK9 Inhibition by Natural Compound Toyocamycin in Cancer Cells

Pandey, S., Djibo, R., Darracq, A., Calendo, G., Zhang, H., Henry, R. A., Andrews, A. J., Baylin, S. B., Madzo, J., Najmanovich, R., Issa, J. P. J. & Raynal, N. J. M., Jul 2022, In: Cancers. 14, 14, 3340.

Research output: Contribution to journal › Article › peer-review

Open Access

The interplay between lncRNAs, RNA-binding proteins and viral genome during SARS-CoV-2 infection reveals strong connections with regulatory events involved in RNA metabolism and immune response

Enguita, F. J., Leitão, A. L., McDonald, J. T., Zaksas, V., Das, S., Galeano, D., Taylor, D., Wurtele, E. S., Saravia-Butler, A., Baylin, S. B., Meller, R., Porterfield, D. M., Wallace, D. C., Schisler, J. C., Mason, C. E. & Beheshti, A., 2022, In: Theranostics. 12, 9, p. 3946-3962 17 p.

Research output: Contribution to journal › Article › peer-review

Open Access

2021

Bacterial-driven inflammation and mutant braf expression combine to promote murine colon tumorigenesis that is sensitive to immune checkpoint therapy

Destefano Shields, C. E., White, J. R., Chung, L., Wenzel, A., Hicks, J. L., Tam, A. J., Chan, J. L., Dejea, C. M., Fan, H., Michel, J., Maiuri, A. R., Sriramkumar, S., Podicheti, R., Rusch, D. B., Wang, H., De Marzo, A. M., Besharati, S., Anders, R. A., Baylin, S. B., O’hagan, H. M., & 2 othersHousseau, F. & Sears, C. L., Jul 2021, In: Cancer discovery. 11, 7, p. 1792-1807 16 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Clinical significance of plasma cd9-positive exosomes in hiv seronegative and seropositive lung cancer patients

Dimitrakopoulos, F. I., Kottorou, A. E., Rodgers, K., Sherwood, J. T., Koliou, G. A., Lee, B., Yang, A., Brahmer, J. R., Baylin, S. B., Yang, S. C., Orita, H., Hulbert, A. & Brock, M. V., Oct 1 2021, In: Cancers. 13, 20, 5193.

Research output: Contribution to journal › Article › peer-review

Open Access

Discovery of a first-in-class reversible DNMT1-selective inhibitor with improved tolerability and efficacy in acute myeloid leukemia

Pappalardi, M. B., Keenan, K., Cockerill, M., Kellner, W. A., Stowell, A., Sherk, C., Wong, K., Pathuri, S., Briand, J., Steidel, M., Chapman, P., Groy, A., Wiseman, A. K., McHugh, C. F., Campobasso, N., Graves, A. P., Fairweather, E., Werner, T., Raoof, A., Butlin, R. J., & 42 othersRueda, L., Horton, J. R., Fosbenner, D. T., Zhang, C., Handler, J. L., Muliaditan, M., Mebrahtu, M., Jaworski, J. P., McNulty, D. E., Burt, C., Eberl, H. C., Taylor, A. N., Ho, T., Merrihew, S., Foley, S. W., Rutkowska, A., Li, M., Romeril, S. P., Goldberg, K., Zhang, X., Kershaw, C. S., Bantscheff, M., Jurewicz, A. J., Minthorn, E., Grandi, P., Patel, M., Benowitz, A. B., Mohammad, H. P., Gilmartin, A. G., Prinjha, R. K., Ogilvie, D., Carpenter, C., Heerding, D., Baylin, S. B., Jones, P. A., Cheng, X., King, B. W., Luengo, J. I., Jordan, A. M., Waddell, I., Kruger, R. G. & McCabe, M. T., Oct 2021, In: Nature Cancer. 2, 10, p. 1002-1017 16 p.

Research output: Contribution to journal › Article › peer-review

Epigenetic therapies in ovarian cancer alter repetitive element expression in a TP53-dependent manner

McDonald, J. I., Diab, N., Arthofer, E., Hadley, M., Kanholm, T., Rentia, U., Gomez, S., Yu, A., Grundy, E. E., Cox, O., Topper, M. J., Xing, X., Strissel, P. L., Strick, R., Wang, T., Baylin, S. B. & Chiappinelli, K. B., Oct 15 2021, In: Cancer Research. 81, 20

Research output: Contribution to journal › Article › peer-review

Open Access

Erratum: Evaluating the impact of age on immune checkpoint therapy biomarkers (Cell Reports (2021) 36(8), (S2211124721010378), (10.1016/j.celrep.2021.109599))

Erbe, R., Wang, Z., Wu, S., Xiu, J., Zaidi, N., La, J., Tuck, D., Fillmore, N., Giraldo, N. A., Topper, M., Baylin, S., Lippman, M., Isaacs, C., Basho, R., Serebriiskii, I., Lenz, H. J., Astsaturov, I., Marshall, J., Taverna, J., Lee, J., & 5 othersJaffee, E. M., Roussos Torres, E. T., Weeraratna, A., Easwaran, H. & Fertig, E. J., Nov 16 2021, In: Cell Reports. 37, 7, 110033.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

Evaluating the impact of age on immune checkpoint therapy biomarkers

Erbe, R., Wang, Z., Wu, S., Xiu, J., Zaidi, N., La, J., Tuck, D., Fillmore, N., Giraldo, N. A., Topper, M., Baylin, S., Lippman, M., Isaacs, C., Basho, R., Serebriiskii, I., Lenz, H. J., Astsaturov, I., Marshall, J., Taverna, J., Lee, J., & 5 othersJaffee, E. M., Roussos Torres, E. T., Weeraratna, A., Easwaran, H. & Fertig, E. J., Aug 24 2021, In: Cell Reports. 36, 8, 109599.

Research output: Contribution to journal › Article › peer-review

Open Access

Interview with Stephen B Baylin

Baylin, S. B., Jan 2021, In: Epigenomics. 13, 2, p. 83-86 4 p.

Research output: Contribution to journal › Comment/debate › peer-review

Role of miR-2392 in driving SARS-CoV-2 infection

UNC COVID-19 Pathobiology Consortium, Oct 19 2021, In: Cell Reports. 37, 3, 109839.

Research output: Contribution to journal › Article › peer-review

Open Access

2020

A deep learning system accurately classifies primary and metastatic cancers using passenger mutation patterns

PCAWG Tumor Subtypes and Clinical Translation Working Group & PCAWG Consortium, Dec 1 2020, In: Nature communications. 11, 1, 728.

Research output: Contribution to journal › Article › peer-review

Open Access

Author Correction: Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples (Nature Communications, (2020), 11, 1, (4748), 10.1038/s41467-020-18151-y)

MC3 Working Group, PCAWG novel somatic mutation calling methods working group & PCAWG Consortium, Dec 1 2020, In: Nature communications. 11, 1, 6232.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

Combined burden and functional impact tests for cancer driver discovery using DriverPower

PCAWG Drivers and Functional Interpretation Working Group & PCAWG Consortium, Dec 1 2020, In: Nature communications. 11, 1, 734.

Research output: Contribution to journal › Article › peer-review

Open Access

Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing

PCAWG Structural Variation Working Group & PCAWG Consortium, Mar 1 2020, In: Nature genetics. 52, 3, p. 331-341 11 p.

Research output: Contribution to journal › Article › peer-review

Open Access

76 Scopus citations

Comprehensive molecular characterization of mitochondrial genomes in human cancers

PCAWG Consortium, Mar 1 2020, In: Nature genetics. 52, 3, p. 342-352 11 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Correction: Hypomethylating agents synergize with irinotecan to improve response to chemotherapy in colorectal cancer cells (PLoS ONE (2017) 12: 4 (e0176139) DOI: 10.1371/journal.pone.0176139)

Sharma, A., Vatapalli, R., Abdelfatah, E., McMahon, K. W., Kerner, Z., Guzzetta, A. A., Singh, J., Zahnow, C., Baylin, S. B., Yerram, S., Hu, Y., Azad, N. & Ahuja, N., Nov 2020, In: PloS one. 15, 11 November, e0242750.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer

PCAWG Structural Variation Working Group & PCAWG Consortium, Mar 1 2020, In: Nature genetics. 52, 3, p. 294-305 12 p.

Research output: Contribution to journal › Article › peer-review

Open Access

32 Scopus citations

Divergent mutational processes distinguish hypoxic and normoxic tumours

PCAWG Consortium, Dec 1 2020, In: Nature communications. 11, 1, 737.

Research output: Contribution to journal › Article › peer-review

Open Access

Epigenetic Therapy for Epithelioid Sarcoma

Rothbart, S. B. & Baylin, S. B., Apr 16 2020, In: Cell. 181, 2, p. 211 1 p.

Research output: Contribution to journal › Comment/debate › peer-review

Open Access

9 Scopus citations

Epigenetic therapy inhibits metastases by disrupting premetastatic niches

Lu, Z., Zou, J., Li, S., Topper, M. J., Tao, Y., Zhang, H., Jiao, X., Xie, W., Kong, X., Vaz, M., Li, H., Cai, Y., Xia, L., Huang, P., Rodgers, K., Lee, B., Riemer, J. B., Day, C. P., Yen, R. W. C., Cui, Y., & 28 othersWang, Y., Wang, Y., Zhang, W., Easwaran, H., Hulbert, A., Kim, K. B., Juergens, R. A., Yang, S. C., Battafarano, R. J., Bush, E. L., Broderick, S. R., Cattaneo, S. M., Brahmer, J. R., Rudin, C. M., Wrangle, J., Mei, Y., Kim, Y. J., Zhang, B., Wang, K. K. H., Forde, P. M., Margolick, J. B., Nelkin, B. D., Zahnow, C. A., Pardoll, D. M., Housseau, F., Baylin, S. B., Shen, L. & Brock, M. V., Mar 12 2020, In: Nature. 579, 7798, p. 284-290 7 p.

Research output: Contribution to journal › Article › peer-review

Open Access

48 Scopus citations

Stephen Baylin

Research output

Search results