Biochemistry and Molecular Genetics

2024

Epigenetic therapies targeting histone lysine methylation: complex mechanisms and clinical challenges

Gold, S. & Shilatifard, A., Oct 15 2024, In: Journal of Clinical Investigation. 134, 20, e183391.

Research output: Contribution to journal › Review article › peer-review

Open Access

Exploring new roles for RNA-binding proteins in epigenetic and gene regulation

Avila-Lopez, P. & Lauberth, S. M., Feb 2024, In: Current Opinion in Genetics and Development. 84, 102136.

Research output: Contribution to journal › Review article › peer-review

6 Scopus citations

Hijacked enhancer–promoter and silencer–promoter loops in cancer

Wang, X. & Yue, F., Jun 2024, In: Current Opinion in Genetics and Development. 86, 102199.

Research output: Contribution to journal › Review article › peer-review

3 Scopus citations

Histone oxidation as a new mechanism of metabolic control over gene expression

Gantner, B. N., Palma, F. R., Kayzuka, C., Lacchini, R., Foltz, D. R., Backman, V., Kelleher, N., Shilatifard, A. & Bonini, M. G., Sep 2024, In: Trends in Genetics. 40, 9, p. 739-746 8 p.

Research output: Contribution to journal › Review article › peer-review

The heat shock factor code: Specifying a diversity of transcriptional regulatory programs broadly promoting stress resilience

Alasady, M. J. & Mendillo, M. L., Dec 2024, In: Cell Stress and Chaperones. 29, 6, p. 735-749 15 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

Therapeutic targeting of BET bromodomain and other epigenetic acetylrecognition domain–containing factors

Gold, S. & Shilatifard, A., Jun 2024, In: Current Opinion in Genetics and Development. 86, 102181.

Research output: Contribution to journal › Review article › peer-review

2 Scopus citations

2023

Epigenetic moonlighting: Catalytic-independent functions of histone modifiers in regulating transcription

Morgan, M. A. J. & Shilatifard, A., Apr 2023, In: Science Advances. 9, 16, eadg6593.

Research output: Contribution to journal › Review article › peer-review

Open Access

20 Scopus citations

Regulation of nucleotide metabolism in cancers and immune disorders

Ali, E. S. & Ben-Sahra, I., Nov 2023, In: Trends in Cell Biology. 33, 11, p. 950-966 17 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

27 Scopus citations

Transcriptional elongation control in developmental gene expression, aging, and disease

Aoi, Y. & Shilatifard, A., Nov 16 2023, In: Molecular cell. 83, 22, p. 3972-3999 28 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

16 Scopus citations

2022

It's a DoG-eat-DoG world—altered transcriptional mechanisms drive downstream-of-gene (DoG) transcript production

Morgan, M., Shiekhattar, R., Shilatifard, A. & Lauberth, S. M., Jun 2 2022, In: Molecular cell. 82, 11, p. 1981-1991 11 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

12 Scopus citations

The Use of Drosophila to Understand Psychostimulant Responses

Philyaw, T. J., Rothenfluh, A. & Titos, I., Jan 2022, In: Biomedicines. 10, 1, 119.

Research output: Contribution to journal › Review article › peer-review

Open Access

8 Scopus citations

Toward manipulating serotonin signaling via the microbiota–gut–brain axis

Everett, B. A., Tran, P. & Prindle, A., Dec 2022, In: Current Opinion in Biotechnology. 78, 102826.

Research output: Contribution to journal › Review article › peer-review

Open Access

17 Scopus citations

2021

At the dawn: cell-free DNA fragmentomics and gene regulation

Liu, Y., 2021, (Accepted/In press) In: British Journal of Cancer.

Research output: Contribution to journal › Review article › peer-review

Open Access

40 Scopus citations

COMPASS and SWI/SNF complexes in development and disease

Cenik, B. K. & Shilatifard, A., Jan 2021, In: Nature Reviews Genetics. 22, 1, p. 38-58 21 p.

Research output: Contribution to journal › Review article › peer-review

131 Scopus citations

Emerging multifaceted roles of BAP1 complexes in biological processes

Szczepanski, A. P. & Wang, L., Jun 2021, In: Cell Death Discovery. 7, 1, 20.

Research output: Contribution to journal › Review article › peer-review

Open Access

30 Scopus citations

Potential Roles for Gamma-Aminobutyric Acid Signaling in Bacterial Communities

Quillin, S. J., Tran, P. & Prindle, A., Jun 2021, In: Bioelectricity. 3, 2, p. 120-125 6 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

25 Scopus citations

Reduce, retain, recycle: Mechanisms for promoting histone protein degradation versus stability and retention

Hogan, A. K. & Foltz, D. R., May 2021, In: Molecular and cellular biology. 41, 6, e00007-21.

Research output: Contribution to journal › Review article › peer-review

Open Access

12 Scopus citations

Synthetic biology in biofilms: Tools, challenges, and opportunities

Tran, P. & Prindle, A., Sep 1 2021, In: Biotechnology Progress. 37, 5, e3123.

Research output: Contribution to journal › Review article › peer-review

16 Scopus citations

The roles of Polycomb repressive complexes in mammalian development and cancer

Piunti, A. & Shilatifard, A., May 2021, In: Nature Reviews Molecular Cell Biology. 22, 5, p. 326-345 20 p.

Research output: Contribution to journal › Review article › peer-review

215 Scopus citations

2020

Bioelectrical understanding and engineering of cell biology

Schofield, Z., Meloni, G. N., Tran, P., Zerfass, C., Sena, G., Hayashi, Y., Grant, M., Contera, S. A., Minteer, S. D., Kim, M., Prindle, A., Rocha, P., Djamgoz, M. B. A., Pilizota, T., Unwin, P. R., Asally, M. & Soyer, O. S., May 1 2020, In: Journal of the Royal Society Interface. 17, 166, 20200013.

Research output: Contribution to journal › Review article › peer-review

Open Access

50 Scopus citations

Determinants and role of chromatin organization in acute leukemia

Fang, C., Rao, S., Crispino, J. D. & Ntziachristos, P., Oct 1 2020, In: Leukemia. 34, 10, p. 2561-2575 15 p.

Research output: Contribution to journal › Review article › peer-review

14 Scopus citations

Deubiquitinases: Pro-oncogenic Activity and Therapeutic Targeting in Blood Malignancies

Gutierrez-Diaz, B. T., Gu, W. & Ntziachristos, P., Apr 2020, In: Trends in Immunology. 41, 4, p. 327-340 14 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

16 Scopus citations

Enhancer RNAs are an important regulatory layer of the epigenome

Sartorelli, V. & Lauberth, S. M., Jun 1 2020, In: Nature Structural and Molecular Biology. 27, 6, p. 521-528 8 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

215 Scopus citations

Identification of a druggable protein–protein interaction site between mutant p53 and its stabilizing chaperone DNAJA1

Tong, X., Xu, D., Mishra, R. K., Jones, R. D., Sun, L., Schiltz, G. E., Liao, J. & Yang, G. Y., 2020, In: Journal of Biological Chemistry. 296, 100098.

Research output: Contribution to journal › Review article › peer-review

Open Access

21 Scopus citations

Metabolic Implications of Circadian–HIF Crosstalk

Peek, C. B., Jun 2020, In: Trends in Endocrinology and Metabolism. 31, 6, p. 459-468 10 p.

Research output: Contribution to journal › Review article › peer-review

25 Scopus citations

Perspectives on ENCODE

The ENCODE Project Consortium, Jul 30 2020, In: Nature. 583, 7818, p. 693-698 6 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

122 Scopus citations

Systematic integration of GATA transcription factors and epigenomes via IDEAS paints the regulatory landscape of hematopoietic cells

Hardison, R. C., Zhang, Y., Keller, C. A., Xiang, G., Heuston, E. F., An, L., Lichtenberg, J., Giardine, B. M., Bodine, D., Mahony, S., Li, Q., Yue, F., Weiss, M. J., Blobel, G. A., Taylor, J., Hughes, J., Higgs, D. R. & Göttgens, B., Jan 1 2020, In: IUBMB Life. 72, 1, p. 27-38 12 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

5 Scopus citations

The HECT E3 ligase E6AP/UBE3A as a therapeutic target in cancer and neurological disorders

Owais, A., Mishra, R. K. & Kiyokawa, H., Aug 2020, In: Cancers. 12, 8, p. 1-19 19 p., 2108.

Research output: Contribution to journal › Review article › peer-review

Open Access

22 Scopus citations

The Neurotransmitters Involved in Drosophila Alcohol-Induced Behaviors

Chvilicek, M. M., Titos, I. & Rothenfluh, A., Dec 15 2020, In: Frontiers in Behavioral Neuroscience. 14, 607700.

Research output: Contribution to journal › Review article › peer-review

Open Access

25 Scopus citations

The role of cis-elements in the evolution of crassulacean acid metabolism photosynthesis

Chen, L. Y., Xin, Y., Wai, C. M., Liu, J. & Ming, R., Dec 1 2020, In: Horticulture Research. 7, 1, 5.

Research output: Contribution to journal › Review article › peer-review

Open Access

18 Scopus citations

The role of histone modifications in leukemogenesis

Birch, N. W. & Shilatifard, A., Dec 1 2020, In: Journal of Biosciences. 45, 1, 6.

Research output: Contribution to journal › Review article › peer-review

3 Scopus citations

2019

Cancer cells tune the signaling pathways to empower de novo synthesis of nucleotides

Villa, E., Ali, E. S., Sahu, U. & Ben-Sahra, I., May 2019, In: Cancers. 11, 5, 688.

Research output: Contribution to journal › Review article › peer-review

Open Access

189 Scopus citations

Epigenetic modifications of histones in cancer

Zhao, Z. & Shilatifard, A., Nov 20 2019, In: Genome biology. 20, 1, 245.

Research output: Contribution to journal › Review article › peer-review

Open Access

357 Scopus citations

Nuclear deubiquitination in the spotlight: the multifaceted nature of USP7 biology in disease

Rawat, R., Starczynowski, D. T. & Ntziachristos, P., Jun 2019, In: Current Opinion in Cell Biology. 58, p. 85-94 10 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

35 Scopus citations

UTX Mutations in Human Cancer

Wang, L. & Shilatifard, A., Feb 11 2019, In: Cancer cell. 35, 2, p. 168-176 9 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

113 Scopus citations

2018

A beginner’s guide to analysis of RNA sequencing data

Koch, C. M., Chiu, S. F., Akbarpour, M., Bharat, A., Ridge, K. M., Bartom, E. T. & Winter, D. R., Aug 2018, In: American journal of respiratory cell and molecular biology. 59, 2, p. 145-157 13 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

98 Scopus citations

A brief overview of the Swi1 prion—[SWI⁺]

Goncharoff, D. K., Du, Z. & Li, L., Sep 1 2018, In: FEMS yeast research. 18, 6, foy061.

Research output: Contribution to journal › Review article › peer-review

Open Access

16 Scopus citations

Born to run: Control of transcription elongation by RNA polymerase II

Chen, F. X., Smith, E. R. & Shilatifard, A., Jul 1 2018, In: Nature Reviews Molecular Cell Biology. 19, 7, p. 464-478 15 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

272 Scopus citations

Enhancer Logic and Mechanics in Development and Disease

Rickels, R. & Shilatifard, A., Aug 2018, In: Trends in Cell Biology. 28, 8, p. 608-630 23 p.

Research output: Contribution to journal › Review article › peer-review

127 Scopus citations

Posttranslational mechanisms controlling centromere function and assembly

Srivastava, S., Zasadzińska, E. & Foltz, D. R., Jun 2018, In: Current Opinion in Cell Biology. 52, p. 126-135 10 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

20 Scopus citations

Posttranslational modifications of CENP-A: marks of distinction

Srivastava, S. & Foltz, D. R., Sep 1 2018, In: Chromosoma. 127, 3, p. 279-290 12 p.

Research output: Contribution to journal › Review article › peer-review

36 Scopus citations

2017

mTORC1 signaling and the metabolic control of cell growth

Ben-Sahra, I. & Manning, B. D., Apr 1 2017, In: Current Opinion in Cell Biology. 45, p. 72-82 11 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

453 Scopus citations

Orchestrating the Specific Assembly of Centromeric Nucleosomes

Zasadzińska, E. & Foltz, D. R., Jan 1 2017, In: Progress in molecular and subcellular biology. 56, p. 165-192 28 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

20 Scopus citations

Precancer atlas to drive precision prevention trials

Spira, A., Yurgelun, M. B., Alexandrov, L., Rao, A., Bejar, R., Polyak, K., Giannakis, M., Shilatifard, A., Finn, O. J., Dhodapkar, M., Kay, N. E., Braggio, E., Vilar, E., Mazzilli, S. A., Rebbeck, T. R., Garber, J. E., Velculescu, V. E., Disis, M. L., Wallace, D. C. & Lippman, S. M., 2017, In: Cancer Research. 77, 7, p. 1510-1541 32 p.

Research output: Contribution to journal › Review article › peer-review

Open Access