Samuel Beck | Profiles RNS

Samuel Beck, PhD

Assistant Professor

Boston University Chobanian & Avedisian School of Medicine

Dermatology

PhD, Seoul National University
BS, Seoul National University

Websites

	Beck Lab homepage
	LinkedIn
	Google Scholar

ORCID : 0000-0002-0184-8367

As the volume of cumulated biological data grows exponentially, its systematic analyses and interpretations become more and more critical. However, the synergy between computational and experimental biology can be challenging due to the difficulty of clear communication between these disciplines. As an interdisciplinary biologist, my overarching career goal is to study crucial biological questions through the combination of Big Data analytics and experimental validations. Specifically, throughout my postdoctoral training and independent career, I have studied mammalian gene regulatory mechanisms at the transcription level. Through integrative and comprehensive Big Data analysis, I discovered that CpG islands (CGIs) direct modes of gene regulation, including 3-D chromatin architectures and transcriptional/epigenetic regulations. This discovery has provided important clues to the mechanism by which changes in chromatin architecture contribute to age-associated physiological deterioration.

Diversity, Equity, Inclusion and Accessibility

2018-2021 Mentored multiple local and national undergraduate students (one underrepresented, two first-generation internationals, and two female students)

BU Research

Loss of transcriptional homeostasis of genes lacking CpG islands during aging
06/01/2023 - 05/31/2026 (PI)
NIH/National Institute on Aging
5R01AG068179-04

DISARMing the immunological barriers to regeneration in mammals
02/01/2024 - 01/31/2026 (Subcontract PI)
Jackson Laboratory NIH NICHD
5R01HD110440-02

Hevolution/AFAR New Investigator Award in Biology and Geroscience Research
12/31/2022 - 12/31/2025 (Subcontract PI)
American Federation for Aging Research Hevolution Fdn

Chromatin architecture disruption and the vicious cycle of aging.
09/20/2023 - 08/31/2025 (PI)
NIH/National Institute on Aging
1R56AG082796-01

Title

Yr	Title	Project-Sub Proj	Pubs

Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.

iCite Analysis Copy PMIDs To Clipboard

Seo H, Kim S, Beck S, Song HY. Perspectives on Microbiome Therapeutics in Infectious Diseases: A Comprehensive Approach Beyond Immunology and Microbiology. Cells. 2024 Dec 04; 13(23). PMID: 39682751; PMCID: PMC11640688; DOI: 10.3390/cells13232003;

Gladyshev VN, Anderson B, Barlit H, Barré B, Beck S, Behrouz B, Belsky DW, Chaix A, Chamoli M, Chen BH, Cheng K, Chuprin J, Churchill GA, Cipriano A, Colville A, Deelen J, Deigin Y, Edmonds KK, English BW, Fang R, Florea M, Gershteyn IM, Gill D, Goetz LH, Gorbunova V, Griffin PT, Horvath S, Borch Jensen M, Jin X, Jovanovska S, Kajderowicz KM, Kasahara T, Kerepesi C, Kulkarni S, Labunskyy VM, Levine ME, Libert S, Lu JY, Lu YR, Marioni RE, McCoy BM, Mitchell W, Moqri M, Nasirian F, Niimi P, Oh HS, Okundaye B, Parkhitko AA, Peshkin L, Petljak M, Poganik JR, Pridham G, Promislow DEL, Prusisz W, Quiniou M, Raj K, Richard D, Ricon JL, Rutledge J, Scheibye-Knudsen M, Schork NJ, Seluanov A, Shadpour M, Shindyapina AV, Shuken SR, Sivakumar S, Stoeger T, Sugiura A, Sutton NR, Suvorov A, Tarkhov AE, Teeling EC, Trapp A, Tyshkovskiy A, Unfried M, Ward-Caviness CK, Yim SH, Ying K, Yunes J, Zhang B, Zhavoronkov A. Disagreement on foundational principles of biological aging. PNAS Nexus. 2024 Dec; 3(12):pgae499.View Related Profiles.

Beck, Samuel
Labunskyy, Vyacheslav

PMID: 39660064; PMCID: PMC11630784; DOI: 10.1093/pnasnexus/pgae499;

Kumar V, Beck S. Single-cell multimodal chromatin profiles revealing epigenetic regulations of cells in hepatocellular carcinoma. Clin Transl Discov. 2024 Oct; 4(5). PMID: 39444758; PMCID: PMC11495655; DOI: 10.1002/ctd2.70002;

Batara DC, Kim HJ, Phan LT, Kim M, Son YO, Lee S, Park SI, Choi YS, Beck S, Kim SH. Elevated a-1,2-mannosidase MAN1C1 in glioma stem cells and its implications for immunological changes and prognosis in glioma patients. Sci Rep. 2024 Sep 27; 14(1):22159. PMID: 39333557; PMCID: PMC11436702; DOI: 10.1038/s41598-024-72901-2;

Lee K, Barone M, Waterbury AL, Jiang H, Nam E, DuBois-Coyne SE, Whedon SD, Wang ZA, Caroli J, Neal K, Ibeabuchi B, Dhoondia Z, Kuroda MI, Liau BB, Beck S, Mattevi A, Cole PA. Uncoupling histone modification crosstalk by engineering lysine demethylase LSD1. Nat Chem Biol. 2025 Feb; 21(2):227-237. PMID: 38965385; PMCID: PMC11699879; DOI: 10.1038/s41589-024-01671-9;

Kim HJ, Batara DC, Jeon YJ, Lee S, Beck S, Kim SH. The impact of MEIS1 TALE homeodomain transcription factor knockdown on glioma stem cell growth. Anim Cells Syst (Seoul). 2024; 28(1):93-109. PMID: 38487309; PMCID: PMC10939110; DOI: 10.1080/19768354.2024.2327340;

Wu M, Hanly A, Gibson F, Fisher R, Rogers S, Park K, Zuger A, Kuang K, Kalin JH, Nocco S, Cole M, Xiao A, Agus F, Labadorf A, Beck S, Collard M, Cole PA, Alani RM. The CoREST repressor complex mediates phenotype switching and therapy resistance in melanoma. J Clin Invest. 2024 Feb 01; 134(6).View Related Profiles.

Labadorf, Adam
Collard, Marianne
Alani, Rhoda
Beck, Samuel

PMID: 38300709; PMCID: PMC10940100; DOI: 10.1172/JCI171063;

Crossland NA, Beck S, Tan WY, Lo M, Mason JB, Zhang C, Guo W, Crott JW. Fecal microbiota transplanted from old mice promotes more colonic inflammation, proliferation, and tumor formation in azoxymethane-treated A/J mice than microbiota originating from young mice. Gut Microbes. 2023 Dec; 15(2):2288187.View Related Profiles.

Crott, Jimmy
Lo, Ming
Crossland, Nicholas
Beck, Samuel
Guo, Weimin

PMID: 38031252; PMCID: PMC10730208; DOI: 10.1080/19490976.2023.2288187;

Lee J, Beck S. Misexpression of Genes Lacking Cpg Islands is a Hallmark of Aging. Open Access Journal of Gerontology & Geriatric Medicine. 2022; 3(6):OAJGGM.MS.ID.555690.

Lee JY, Davis I, Youth EHH, Kim J, Churchill G, Godwin J, Korstanje R, Beck S. Misexpression of genes lacking CpG islands drives degenerative changes during aging. Sci Adv. 2021 Dec 17; 7(51):eabj9111. PMID: 34910517; PMCID: PMC8673774; DOI: 10.1126/sciadv.abj9111;

Showing 10 of 36 results. Show More

Oh SH, Kim SH, Jeon JH, Kim EB, Lee NK, Beck S, Choi YJ, Kang SK. Cytoplasmic expression of a model antigen with M Cell-Targeting moiety in lactic acid bacteria and implication of the mechanism as a mucosal vaccine via oral route. Vaccine. 2021 Jul 05; 39(30):4072-4081. PMID: 34127296; DOI: 10.1016/j.vaccine.2021.06.010;

Lee JY, Song J, LeBlanc L, Davis I, Kim J, Beck S. Conserved dual-mode gene regulation programs in higher eukaryotes. Nucleic Acids Res. 2021 Mar 18; 49(5):2583-2597. PMID: 33621342; PMCID: PMC7969006; DOI: 10.1093/nar/gkab108;

Lee BK, Jang YJ, Kim M, LeBlanc L, Rhee C, Lee J, Beck S, Shen W, Kim J. Super-enhancer-guided mapping of regulatory networks controlling mouse trophoblast stem cells. Nat Commun. 2019 Oct 18; 10(1):4749. PMID: 31628347; PMCID: PMC6802173; DOI: 10.1038/s41467-019-12720-6;

Skamagki M, Correia C, Yeung P, Baslan T, Beck S, Zhang C, Ross CA, Dang L, Liu Z, Giunta S, Chang TP, Wang J, Ananthanarayanan A, Bohndorf M, Bosbach B, Adjaye J, Funabiki H, Kim J, Lowe S, Collins JJ, Lu CW, Li H, Zhao R, Kim K. Author Correction: ZSCAN10 expression corrects the genomic instability of iPSCs from aged donors. Nat Cell Biol. 2019 Apr; 21(4):531-532. PMID: 30643186

Wang E, Sorolla A, Cunningham PT, Bogdawa HM, Beck S, Golden E, Dewhurst RE, Florez L, Cruickshank MN, Hoffmann K, Hopkins RM, Kim J, Woo AJ, Watt PM, Blancafort P. Tumor penetrating peptides inhibiting MYC as a potent targeted therapeutic strategy for triple-negative breast cancers. Oncogene. 2019 Jan; 38(1):140-150. PMID: 30076412; PMCID: PMC6318000; DOI: 10.1038/s41388-018-0421-y;

Beck S, Rhee C, Song J, Lee BK, LeBlanc L, Cannon L, Kim J. Implications of CpG islands on chromosomal architectures and modes of global gene regulation. Nucleic Acids Res. 2018 May 18; 46(9):4382-4391. PMID: 29529258; PMCID: PMC5961348; DOI: 10.1093/nar/gky147;

Lee BK, Uprety N, Jang YJ, Tucker SK, Rhee C, LeBlanc L, Beck S, Kim J. Fosl1 overexpression directly activates trophoblast-specific gene expression programs in embryonic stem cells. Stem Cell Res. 2018 Jan; 26:95-102. PMID: 29272857; PMCID: PMC5899959; DOI: 10.1016/j.scr.2017.12.004;

Rhee C, Lee BK, Beck S, LeBlanc L, Tucker HO, Kim J. Mechanisms of transcription factor-mediated direct reprogramming of mouse embryonic stem cells to trophoblast stem-like cells. Nucleic Acids Res. 2017 Sep 29; 45(17):10103-10114. PMID: 28973471; PMCID: PMC5737334; DOI: 10.1093/nar/gkx692;

Skamagki M, Correia C, Yeung P, Baslan T, Beck S, Zhang C, Ross CA, Dang L, Liu Z, Giunta S, Chang TP, Wang J, Ananthanarayanan A, Bohndorf M, Bosbach B, Adjaye J, Funabiki H, Kim J, Lowe S, Collins JJ, Lu CW, Li H, Zhao R, Kim K. ZSCAN10 expression corrects the genomic instability of iPSCs from aged donors. Nat Cell Biol. 2017 Sep; 19(9):1037-1048. PMID: 28846095; PMCID: PMC5843481; DOI: 10.1038/ncb3598;

Song J, Zynda G, Beck S, Springer NM, Vaughn MW. Bisulfite Sequence Analyses Using CyVerse Discovery Environment: From Mapping to DMRs. Curr Protoc Plant Biol. 2016 Sep; 1(3):510-529. PMID: 31725961; DOI: 10.1002/cppb.20034;

Kim SH, Ezhilarasan R, Phillips E, Gallego-Perez D, Sparks A, Taylor D, Ladner K, Furuta T, Sabit H, Chhipa R, Cho JH, Mohyeldin A, Beck S, Kurozumi K, Kuroiwa T, Iwata R, Asai A, Kim J, Sulman EP, Cheng SY, Lee LJ, Nakada M, Guttridge D, DasGupta B, Goidts V, Bhat KP, Nakano I. Serine/Threonine Kinase MLK4 Determines Mesenchymal Identity in Glioma Stem Cells in an NF-?B-dependent Manner. Cancer Cell. 2016 Feb 08; 29(2):201-13. PMID: 26859459; PMCID: PMC4837946; DOI: 10.1016/j.ccell.2016.01.005;

Kim SH, Kim EJ, Hitomi M, Oh SY, Jin X, Jeon HM, Beck S, Jin X, Kim JK, Park CG, Chang SY, Yin J, Kim T, Jeon YJ, Song J, Lim YC, Lathia JD, Nakano I, Kim H. The LIM-only transcription factor LMO2 determines tumorigenic and angiogenic traits in glioma stem cells. Cell Death Differ. 2015 Sep; 22(9):1517-25. PMID: 25721045; PMCID: PMC4532780; DOI: 10.1038/cdd.2015.7;

Beck S, Lee BK, Rhee C, Song J, Woo AJ, Kim J. CpG island-mediated global gene regulatory modes in mouse embryonic stem cells. Nat Commun. 2014 Nov 18; 5:5490. PMID: 25405324; PMCID: PMC4236720; DOI: 10.1038/ncomms6490;

Rhee C, Lee BK, Beck S, Anjum A, Cook KR, Popowski M, Tucker HO, Kim J. Arid3a is essential to execution of the first cell fate decision via direct embryonic and extraembryonic transcriptional regulation. Genes Dev. 2014 Oct 15; 28(20):2219-32. PMID: 25319825; PMCID: PMC4201284; DOI: 10.1101/gad.247163.114;

Beck S, Lee BK, Kim J. Multi-layered global gene regulation in mouse embryonic stem cells. Cell Mol Life Sci. 2015 Jan; 72(2):199-216. PMID: 25227241; PMCID: PMC4284393; DOI: 10.1007/s00018-014-1734-9;

Jin X, Jin X, Jung JE, Beck S, Kim H. Cell surface Nestin is a biomarker for glioma stem cells. Biochem Biophys Res Commun. 2013 Apr 19; 433(4):496-501. PMID: 23524267; DOI: 10.1016/j.bbrc.2013.03.021;

Jin X, Kim SH, Jeon HM, Beck S, Sohn YW, Yin J, Kim JK, Lim YC, Lee JH, Kim SH, Kang SH, Pian X, Song MS, Park JB, Chae YS, Chung YG, Lee SH, Choi YJ, Nam DH, Choi YK, Kim H. Interferon regulatory factor 7 regulates glioma stem cells via interleukin-6 and Notch signalling. Brain. 2012 Apr; 135(Pt 4):1055-69. PMID: 22434214; DOI: 10.1093/brain/aws028;

Jin X, Yin J, Kim SH, Sohn YW, Beck S, Lim YC, Nam DH, Choi YJ, Kim H. EGFR-AKT-Smad signaling promotes formation of glioma stem-like cells and tumor angiogenesis by ID3-driven cytokine induction. Cancer Res. 2011 Nov 15; 71(22):7125-34. PMID: 21975932; DOI: 10.1158/0008-5472.CAN-11-1330;

Beck S, Jin X, Yin J, Kim SH, Lee NK, Oh SY, Jin X, Kim MK, Kim EB, Son JS, Kim SC, Nam DH, Kim SH, Kang SK, Kim H, Choi YJ. Identification of a peptide that interacts with Nestin protein expressed in brain cancer stem cells. Biomaterials. 2011 Nov; 32(33):8518-28. PMID: 21880363; DOI: 10.1016/j.biomaterials.2011.07.048;

Jeon HM, Sohn YW, Oh SY, Kim SH, Beck S, Kim S, Kim H. ID4 imparts chemoresistance and cancer stemness to glioma cells by derepressing miR-9*-mediated suppression of SOX2. Cancer Res. 2011 May 01; 71(9):3410-21. PMID: 21531766; DOI: 10.1158/0008-5472.CAN-10-3340;

Yin J, Kim JK, Moon JH, Beck S, Piao D, Jin X, Kim SH, Lim YC, Nam DH, You S, Kim H, Choi YJ. hMSC-mediated concurrent delivery of endostatin and carboxylesterase to mouse xenografts suppresses glioma initiation and recurrence. Mol Ther. 2011 Jun; 19(6):1161-9. PMID: 21386822; PMCID: PMC3129799; DOI: 10.1038/mt.2011.28;

Jin X, Jeon HY, Joo KM, Kim JK, Jin J, Kim SH, Kang BG, Beck S, Lee SJ, Kim JK, Park AK, Park WY, Choi YJ, Nam DH, Kim H. Frizzled 4 regulates stemness and invasiveness of migrating glioma cells established by serial intracranial transplantation. Cancer Res. 2011 Apr 15; 71(8):3066-75. PMID: 21363911; DOI: 10.1158/0008-5472.CAN-10-1495;

Beck S, Jin X, Sohn YW, Kim JK, Kim SH, Yin J, Pian X, Kim SC, Nam DH, Choi YJ, Kim H. Telomerase activity-independent function of TERT allows glioma cells to attain cancer stem cell characteristics by inducing EGFR expression. Mol Cells. 2011 Jan; 31(1):9-15. PMID: 21193962; PMCID: PMC3906874; DOI: 10.1007/s10059-011-0008-8;

Jin X, Beck S, Sohn YW, Kim JK, Kim SH, Yin J, Pian X, Kim SC, Choi YJ, Kim H. Human telomerase catalytic subunit (hTERT) suppresses p53-mediated anti-apoptotic response via induction of basic fibroblast growth factor. Exp Mol Med. 2010 Aug 31; 42(8):574-82. PMID: 20628269; PMCID: PMC2928930; DOI: 10.3858/emm.2010.42.8.058;

Yin J, Jin X, Beck S, Kang DH, Hong Z, Li Z, Jin Y, Zhang Q, Choi YJ, Kim SC, Kim H. In vitro myogenic and adipogenic differentiation model of genetically engineered bovine embryonic fibroblast cell lines. Biotechnol Lett. 2010 Feb; 32(2):195-202. PMID: 19834648; DOI: 10.1007/s10529-009-0142-y;

Jin X, Kim JG, Oh MJ, Oh HY, Sohn YW, Pian X, Yin JL, Beck S, Lee N, Son J, Kim H, Yan C, Wang JH, Choi YJ, Whang KY. Opposite roles of MRF4 and MyoD in cell proliferation and myogenic differentiation. Biochem Biophys Res Commun. 2007 Dec 21; 364(3):476-82. PMID: 17959144; DOI: 10.1016/j.bbrc.2007.10.042;

This graph shows the total number of publications by year, by first, middle/unknown, or last author.

Bar chart showing 36 publications over 16 distinct years, with a maximum of 7 publications in 2024

Bar chart showing 36 publications over 16 distinct years, with a maximum of 7 publications in 2024

Year	Publications
2007	1
2009	1
2010	2
2011	5
2012	1
2013	1
2014	3
2015	1
2016	2
2017	3
2018	2
2019	2
2021	3
2022	1
2023	1
2024	7

2017 UT-Austin: Rom Rhome International Professional Development Award

2016 Department of Molecular Biosciences Retreat, UT-Austin: Best Poster Award

2015 KSEA West Gulf Coast Regional Conference / KoreanAmerican Biomedical Scientists Symposium: Best Talk/Poster Award

2015 Scientist and Engineers Early-career Development (SEED) Workshop: Travel Award for Outstanding Early Career Professionals

Contact for Mentoring:

609 Albany St
Boston MA 02118
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617.358.9700

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