Michael Buck PhD
Michael Buck
PhD
Professor and Director Genetics, Genomics and Bioinformatics
Jacobs School of Medicine & Biomedical Sciences
Specialty/Research Focus
Bioinformatics; Computational Biology; Developmental Biology; Epigenetics; Gene Expression; Genomics and proteomics; Microbiology; Molecular and Cellular Biology; Molecular genetics; Stem Cells; Team Science; Transcription - Gene; Transcription and Translation; Transcription Factors
Professional Summary:
Dr. Buck’s research is focused on uncovering how epigenetics and the microbiome regulate cellular events. Dr. Buck’s laboratory uses multiple model systems to uncover fundamental biological principles which are subsequently translated to the study of human disease.
Instructions controlling cellular functions are contained within DNA that is wrapped and packaged around proteins into chromatin. Chromatin can be modified in response to the environment and these modifications can be passed onto their daughter cells. These modifications act as a cellular memory and are known as epigenetic modifications. Changes in epigenetic modifications are essential players in many disease pathways including: cancer, diabetes, obesity, and autism. Dr. Buck’s research is focused on uncovering how epigenetic changes redirect regulatory proteins and how regulatory proteins read epigenetic modifications.
Our bodies are populated by a diverse and complex population of thousands of microbes, mostly bacteria, but also viruses, fungi and archaea, termed the human microbiota. This co-inhabiting microbial ecosystem has been associated with various human disease including colon cancer, diabetes, periodontal disease, and others. To understand how the microbiota is affecting human health the Buck lab has developed robust and reproducible high-throughput approaches to examine thousands of samples and are currently defining causal relationships between the microbiota and human health.
Education and Training:
- Fellowship, Gene regulation, chromatin, and genomics, University of North Carolina at Chapel Hill (2007)
- PhD, Genetics, North Carolina State University (2003)
- BS, Biotechnology, Rutgers University, Cum Laude (1997)
Employment:
- Director, Genetics, Genomics and Bioinformatics, Jacobs School of Medicine and Biomedical Sciences (2021-present)
- Professor, Biochemistry, Jacobs School of Medicine and Biomedical Sciences (2021-present)
- Professor, Biomedical Informatics, Jacobs School of Medicine and Biomedical Sciences
- Member, Cellular and Molecular Biology Graduate Program, Roswell Park Cancer Institute (2008-present)
- Member, The State University of New York at Buffalo Center of Excellence in Bioinformatics and Life Sciences (2007-present)
- Director, Stem Cell Sequencing/Epigenomics Center, The State University of New York at Buffalo Jacobs School of Medicine & Biomedical Sciences (2011–2025)
- Associate Professor, Biochemistry, State University of New York-Buffalo Jacobs School of Medicine & Biomedical Sciences (2014–2021)
- Co-Director, Next-Generation Sequencing & Expression Analysis Core, The State University of New York at Buffalo Jacobs School of Medicine & Biomedical Sciences (2010–2016)
- Assistant Professor, Biochemistry, The State University of New York at Buffalo Jacobs School of Medicine & Biomedical Sciences (2007–2014)
- Postdoctoral Fellow, Biology, University of North Carolina at Chapel Hill (2003–2007)
Awards and Honors:
- Lumen Circles Fellowship in Advanced Generative AI for Teaching and Learning (2025)
- Buffalo Blue Sky Bronze Coin (2021)
- Buffalo Blue Sky Gold Coin (2018)
Research Centers:
- Center of Excellence in Bioinformatics and Life Sciences
UB 2020 Strategic Strengths:
- Molecular Recognition in Biological Systems and Bioinformatics
Grants and Sponsored Research:
- September 2025–August 2029
Defining the Rules for Pioneer Factor Nucleosome Engagement
National Institutes of Health
Role: Principal Investigator - March 2020–May 2029
Regulatory mechanisms that dictate stem and differentiated cell populations of the salivary gland
NIH
Role: Co-Investigator
$3,718,135 - August 2023–July 2028
Therapeutic targeting of master regulators in non-canonical AR driven advanced lethal prostate cancers
NCI
Role: Co-Investigator
$3,823,553 - October 2017–December 2025
Personalizing Head and Neck Squamous Cell Carcinoma Therapy
Community Foundation for Greater Buffalo
Role: Co-Principal Investigator - August 2019–August 2025
A high-throughput, comprehensive, and quantitative approach for measuring nucleosome-protein binding
National Institutes of Health
Role: Principal Investigator
$1,415,135 - September 2020–February 2024
Protective effects of dietary pulse flours on the transgenerational influence of maternal obesity
United States Department of Agriculture
Role: Co-Investigator
$480,255 - March 2018–January 2024
Genomic and epigenomic investigations of the transcriptional regulatory network of skin keratinocytes in defined genetic models
NIH
Role: Co-Investigator
$1,754,500 - January 2019–December 2020
The Microbiome in the Etiology and Prevention of Breast Cancer
NYS Department of Health
Role: Co-Investigator
$359,024 - July 2014–July 2019
Oral microbiome and periodontitis: a prospective study in postmenopausal women
NIH
Role: Co-Investigator
$4,000,000 - August 2011–July 2015
Western New York Stem Cell Culture and Analysis Center
NYSTEM
Role: Co-Investigator
$1,068,541 - March 2013–February 2015
Epi)Genomic drivers of primary and metastatic pancreatic islet cell carcinoma
National Institutes of Health
Role: Co-Investigator - August 2010–July 2013
Overlapping Clustering Analysis of Biological Networks
NSF
Role: Co-Principal Investigator
Journal Articles:
- Hussein M, Li L, Falkner KL, Buck MJ, Diaz PI, Hatzikirou H. (2026) Multi-domain identification of myocardial infarction incidence using explainable AI: the overlooked role of periodontal health. Scientific reports (Jul), 16(1).
- Utreja S, Andreani GA, Mahmood S, Patel MS, Buck MJ, Rideout TC. (2026) Dietary pulse prebiotic fibre intake in a rat obese pregnancy model alters maternal caecal microbiome and protects against steatosis in newly weaned offspring. Journal of nutritional science (Jan), 15: e37.
- Handelmann CR, Skeens E, Lisi GP, Buck MJ. (2026) Evaluating high-fidelity CRISPR-Cas nucleases in nucleosomal contexts using a quantitative framework. Frontiers in genome editing (Jan), 8: 1759382.
- Tsompana M, Wilson PD, Murugaiyan V, Handelmann CR, Buck MJ. (2025) Defining transcription factor nucleosome binding with Pioneer-seq. PLoS genetics (Aug), 21(8): e1011813.
- Wilson PD, Yu X, Handelmann CR, Buck MJ. (2025) Nucleosome binding by TP53, TP63, and TP73 is determined by the composition, accessibility, and helical orientation of their binding sites. Genome research (Mar), 35(3): 404-416.
- Yue Y, Hovey KM, Wactawski-Wende J, LaMonte MJ, Andrews CA, Diaz PI, McSkimming DI, Buck M, Sun Y, Millen AE. (2025) Association Between Healthy Eating Index-2020 and Oral Microbiome Among Postmenopausal Women. The Journal of nutrition (Jan), 155(1): 66-77.
- Wilson PD, Yu X, Buck MJ. (2024) Nucleosome-binding by TP53, TP63, and TP73 is determined by the composition, accessibility, and helical orientation of their binding sites. bioRxiv : the preprint server for biology (May).
- Murugaiyan V, Utreja S, Hovey KM, Sun Y, LaMonte MJ, Wactawski-Wende J, Diaz PI, Buck MJ. (2024) Defining Porphyromonas gingivalis strains associated with periodontal disease. Scientific reports (Mar), 14(1): 6222. doi:10.1038/s41598-024-56849-x
- Maley SJ, Yue Y, Burns KF, Hovey KM, Wactawski-Wende J, Freudenheim JL, McSkimming DI, LaMonte MJ, Andrews CA, Sun Y, Buck M, Millen AE. (2023) Alcohol Consumption and the Diversity of the Oral Microbiome in Postmenopausal Women. The Journal of nutrition (Oct).
- Ramalingam V, Yu X, Slaughter BD, Unruh JR, Brennan KJ, Onyshchenko A, Lange JJ, Natarajan M, Buck M, Zeitlinger J. (2023) Lola-I is a promoter pioneer factor that establishes de novo Pol II pausing during development. Nature communications (Sep), 14(1): 5862. doi:10.1038/s41467-023-41408-1
- Oyelakin A, Sosa J, Nayak KB, Glathar A, Gluck C, Sethi I, Tsompana M, Nowak N, Buck M, Romano RA, Sinha S. (2023) An integrated genomic approach identifies follistatin as a target of the p63-epidermal growth factor receptor oncogenic network in head and neck squamous cell carcinoma. NAR cancer (Sep), 5(3): zcad038. doi:10.1093/narcan/zcad038
- Handelmann CR, Tsompana M, Samudrala R, Buck MJ. (2023) The impact of nucleosome structure on CRISPR/Cas9 fidelity. Nucleic acids research (Mar), 51(5): 2333-2344. doi:10.1093/nar/gkad021
- Soliman AI, LaMonte MJ, Hovey KM, McSkimming DI, Andrews CA, Diaz PI, Buck MJ, Sun Y, Millen AE, Wactawski-Wende J. (2022) Relationship between the subgingival microbiome and menopausal hormone therapy use: The Buffalo OsteoPerio study. Journal of periodontology (Nov), 93(11): 1635-1648. doi:10.1002/JPER.22-0027
- LaMonte MJ, Gordon JH, Diaz-Moreno P, Andrews CA, Shimbo D, Hovey KM, Buck MJ, Wactawski-Wende J. (2022) Oral Microbiome Is Associated With Incident Hypertension Among Postmenopausal Women. Journal of the American Heart Association (Mar), 11(6): e021930. doi:10.1161/JAHA.121.021930
- Millen AE, Dahhan R, Freudenheim JL, Hovey KM, Li L, McSkimming DI, Andrews CA, Buck MJ, LaMonte MJ, Kirkwood KL, Sun Y, Murugaiyan V, Tsompana M, Wactawski-Wende J. (2022) Dietary carbohydrate intake is associated with the subgingival plaque oral microbiome abundance and diversity in a cohort of postmenopausal women. Scientific reports (Feb), 12(1): 2643. doi:10.1038/s41598-022-06421-2
- Bard JE, Nowak NJ, Buck MJ, Sinha S. (2022) Multimodal Dimension Reduction and Subtype Classification of Head and Neck Squamous Cell Tumors. Frontiers in oncology (Jan), 12: 892207. doi:10.3389/fonc.2022.892207
- LaMonte MJ, Andrews CA, Hovey KM, Buck MJ, Li L, McSkimming DI, Banack HR, Rotterman J, Sun Y, Kirkwood KL, Wactawski-Wende J. (2021) Subgingival microbiome is associated with alveolar bone loss measured 5 years later in postmenopausal women. Journal of periodontology (May), 92(5): 648-661. doi:10.1002/JPER.20-0445
- Yu X, Singh PK, Tabrejee S, Sinha S, Buck MJ. (2021) ?Np63 is a pioneer factor that binds inaccessible chromatin and elicits chromatin remodeling. Epigenetics & chromatin (Apr), 14(1): 20. doi:10.1186/s13072-021-00394-8
- Lamb NA, Bard JE, Buck MJ, Surtees JA. (2021) A selection-based next generation sequencing approach to develop robust, genotype-specific mutation profiles in Saccharomyces cerevisiae. G3 (Bethesda, Md.) (Mar). doi:10.1093/g3journal/jkab099
- Hu Z, Li H, Jiang H, Ren Y, Yu X, Qiu J, Stablewski AB, Zhang B, Buck MJ, Feng J, Buck M. (2020) Transient inhibition of mTOR in human pluripotent stem cells enables robust formation of mouse-human chimeric embryos. Sci Adv (May), 6(20): 0298-0298.
- Yu X, Buck MJ, Buck M. (2020) Pioneer factors and their in vitro identification methods. Mol Genet Genomics (Apr).
- Tsompana M, Gluck C, Sethi I, Joshi I, Bard J, Nowak NJ, Sinha S, Buck MJ, Buck M. (2020) Reactivation of super-enhancers by KLF4 in human Head and Neck Squamous Cell Carcinoma. Oncogene (Jan), 39(2): 262-277.
- LaMonte MJ, Genco RJ, Buck MJ, McSkimming DI, Li L, Hovey KM, Andrews CA, Zheng W, Sun Y, Millen AE, Tsompana M, Banack HR, Wactawski-Wende J, Buck M. (2019) Composition and diversity of the subgingival microbiome and its relationship with age in postmenopausal women: an epidemiologic investigation. BMC Oral Health (Nov), 19(1): 246-246.
- Gordon JH, LaMonte MJ, Genco RJ, Zhao J, Li L, Hovey KM, Tsompana M, Buck MJ, Andrews CA, Mcskimming DI, Zheng W, Sun Y, Wactawski-Wende J, Buck M. (2019) Is the Oral Microbiome Associated with Blood Pressure in Older Women?. High Blood Press Cardiovasc Prev (Jun), 26(3): 217-225.
- Zheng W, Mao Q, Genco RJ, Wactawski-Wende J, Buck M, Cai Y, Sun Y. (2019) A parallel computational framework for ultra-large-scale sequence clustering analysis. Bioinformatics (Feb), 35(3): 380-388.
- Yu X, Buck MJ, Buck M. (2019) Defining TP53 pioneering capabilities with competitive nucleosome binding assays. Genome Res (Jan), 29(1): 107-115.
- Gluck C, Glathar A, Tsompana M, Nowak N, Garrett-Sinha LA, Buck MJ, Sinha S, Buck M. (2019) Molecular dissection of the oncogenic role of ETS1 in the mesenchymal subtypes of head and neck squamous cell carcinoma. PLoS Genet (Jan), 15(7): 1008250-1008250.
- Zheng W, Yang L, Genco RJ, Wactawski-Wende J, Buck M, Sun Y. (2019) SENSE: Siamese neural network for sequence embedding and alignment-free comparison. Bioinformatics (Jan), 35(11): 1820-1828.
- Genco RJ, LaMonte MJ, McSkimming DI, Buck MJ, Li L, Hovey KM, Andrews CA, Sun Y, Tsompana M, Zheng W, Banack HR, Murugaiyan V, Wactawski-Wende J, Buck M. (2019) The Subgingival Microbiome Relationship to Periodontal Disease in Older Women. J Dent Res (Jan), 98(9): 975-984.
- Banack HR, Genco RJ, LaMonte MJ, Millen AE, Buck MJ, Sun Y, Andrews CA, Hovey KM, Tsompana M, McSkimming DI, Zhao J, Wactawski-Wende J, Buck M. (2018) Cohort profile: the Buffalo OsteoPerio microbiome prospective cohort study. BMJ Open (Dec), 8(12): 024263-024263.
- Zheng W, Yang L, Genco RJ, Wactawski-Wende J, Buck M, Sun Y. (2018) SENSE: Siamese neural network for sequence embedding and alignment-free comparison. Bioinformatics (Oct).
- LaMonte MJ, Genco RJ, Zheng W, McSkimming DI, Andrews CA, Hovey KM, Li L, Sun Y, Buck MJ, Millen AE, Falkner KL, Wactawski-Wende J, Buck M. (2018) Substantial Differences in the Subgingival Microbiome Measured by 16S Metagenomics According to Periodontitis Status in Older Women. Dent J (Basel) (Oct), 6(4).
- Chaves LD, McSkimming DI, Bryniarski MA, Honan AM, Abyad S, Thomas SA, Wells S, Buck M, Sun Y, Genco RJ, Quigg RJ, Yacoub R. (2018) Chronic Kidney Disease, Uremic Milieu, and its Effects on Gut Bacterial Microbiota Dysbiosis. Am J Physiol Renal Physiol (Sep), 315(3): 487-502.
- Jiao N, Baker SS, Nugent CA, Tsompana M, Cai L, Wang Y, Buck M, Genco RJ, Baker RD, Zhu R, Zhu L. (2018) Gut microbiome may contribute to insulin resistance and systemic inflammation in obese rodents: a meta-analysis. Physiol Genom (Apr), 50(4): 244-254.
- Adelaiye-Ogala R, Budka J, Damayanti NP, Arrington J, Ferris M, Hsu CC, Chintala S, Orillion A, Miles KM, Shen L, Elbanna M, Ciamporcero E, Arisa S, Pettazzoni P, Draetta GF, Seshadri M, Hancock B, Radovich M, Kota J, Buck M, Keilhack H, McCarthy BP, Persohn SA, Territo PR, Zang Y, Irudayaraj J, Tao WA, Hollenhorst P, Pili R. (2017) EZH2 Modifies Sunitinib Resistance in Renal Cell Carcinoma by Kinome Reprogramming. Cancer Res (Dec), 77(23): 6651-6666.
- Yacoub R, Nugent M, Cai W, Nadkarni GN, Chaves LD, Abyad S, Honan AM, Thomas SA, Zheng W, Valiyaparambil SA, Bryniarski MA, Sun Y, Buck M, Genco RJ, Quigg RJ, He JC, Uribarri J. (2017) Advanced Glycation End Products Dietary Restriction Effects on Bacterial Gut Microbiota in Peritoneal Dialysis Patients; a Randomized Open Label Controlled Trial. PLoS One (Sep), 12(9): 0184789-0184789.
- Sethi I, Gluck C, Zhou H, Buck MJ, Sinha S, Buck M. (2017) Evolutionary re-wiring of p63 and the epigenomic regulatory landscape in keratinocytes and its potential implications on species-specific gene expression and phenotypes. Nucleic Acids Res (Aug), 45(14): 8208-8224.
- Jiao N, Baker SS, Chapa Rodriguez A, Liu W, Nugent CA, Tsompana M, Mastrandrea LD, Buck M, Baker RD, Genco RJ, Zhu R, Zhu L. (2017) Suppressed hepatic bile acid signalling despite elevated production of primary and secondary bile acids in NAFLD. Gut (Aug).
- Simpson RM, Bruno AE, Chen R, Lott K, Tylec BL, Bard JE, Sun Y, Buck MJ, Read LK, Buck M. (2017) Trypanosome RNA Editing Mediator Complex proteins have distinct functions in gRNA utilization. Nucleic Acids Res (Jul), 45(13): 7965-7983.
- Zhu J, Wang J, Chen X, Tsompana M, Gaile D, Buck M, Ren X. (2017) A time-series analysis of altered histone H3 acetylation and gene expression during the course of MMAIII-induced malignant transformation of urinary bladder cells. Carcinogenesis (Apr), 38(4): 378-390.
- Tomov ML, Olmsted ZT, Dogan H, Gongorurler E, Tsompana M, Otu HH, Buck M, Chang EA, Cibelli J, Paluh JL. (2016) Distinct and Shared Determinants of Cardiomyocyte Contractility in Multi-Lineage Competent Ethnically Diverse Human iPSCs. Sci Rep (Dec), 6: 37637-37637.
- Simpson RM, Bruno AE, Bard JE, Buck MJ, Read LK, Buck M. (2016) High-throughput sequencing of partially edited trypanosome mRNAs reveals barriers to editing progression and evidence for alternative editing. RNA (May), 22(5): 677-695.
- Zheng W, Tsompana M, Ruscitto A, Sharma A, Genco R, Sun Y, Buck MJ. (2015) An accurate and efficient experimental approach for characterization of the complex oral microbiota. Microbiome (Oct), 3: 48. doi:10.1186/s40168-015-0110-9
- Sethi I, Romano RA, Gluck C, Smalley K, Vojtesek B, Buck MJ, Sinha S, Buck M . (2015) A global analysis of the complex landscape of isoforms and regulatory networks of p63 in human cells and tissues. BMC Genomics (Aug), 16: 584-584.
- Jiang K, Zhu L, Buck M, Chen Y, Carrier B, Liu T, Jarvis JN. (2015) Disease-Associated Single-Nucleotide Polymorphisms From Noncoding Regions in Juvenile Idiopathic Arthritis Are Located Within or Adjacent to Functional Genomic Elements of Human Neutrophils and CD4+ T Cells. Arthritis Rheumatol (Jul), 67(7): 1966-1977.
- Mechtler P, Singhal R, Kichina JV, Bard JE, Buck MJ, Kandel ES, Buck M. (2015) MicroRNA analysis suggests an additional level of feedback regulation in the NF-?B signaling cascade. Oncotarget (Jul), 6(19): 17097-17106.
- Mechtler P, Singhal R, Kichina JV, Bard JE, Buck MJ, Kandel ES, Buck M. (2015) MicroRNA analysis suggests an additional level of feedback regulation in the NF-κB signaling cascade. Oncotarget (Jul), 6(19): 17097-17106.
- Paul E, Tirosh I, Lai W, Buck MJ, Palumbo MJ, Morse RH, Buck M. (2015) Chromatin mediation of a transcriptional memory effect in yeast. G3 (Bethesda) (May), 5(5): 829-838.
- Terranova C, Narla ST, Lee YW, Bard J, Parikh A, Stachowiak EK, Tzanakakis ES, Buck MJ, Birkaya B, Stachowiak MK, Buck M. (2015) Global Developmental Gene Programing Involves a Nuclear Form of Fibroblast Growth Factor Receptor-1 (FGFR1). PLoS One (Apr), 10(4): 0123380-0123380.
- Tsompana M, Valiyaparambil S, Bard J, Marzullo B, Nowak N, Buck MJ, Buck M. (2015) An automated method for efficient, accurate and reproducible construction of RNA-seq libraries. BMC Res Notes (Apr), 8: 124-124.
- Adelaiye R, Ciamporcero E, Miles KM, Sotomayor P, Bard J, Tsompana M, Conroy D, Shen L, Ramakrishnan S, Ku SY, Orillion A, Prey J, Fetterly G, Buck M, Chintala S, Bjarnason GA, Pili R. (2015) Sunitinib dose escalation overcomes transient resistance in clear cell renal cell carcinoma and is associated with epigenetic modifications. Mol Cancer Ther (Feb), 14(2): 513-522.
- Sethi I, Sinha S, Buck MJ, Buck M. (2014) Role of chromatin and transcriptional co-regulators in mediating p63-genome interactions in keratinocytes. BMC Genomics (Nov), 15: 1042-1042.
- Tsompana M, Buck MJ, Buck M. (2014) Chromatin accessibility: a window into the genome. Epigenetics Chromatin (Nov), 7(1): 33-33.
- Puri S, Lai WK, Rizzo JM, Buck MJ, Edgerton M, Buck M. (2014) Iron-responsive chromatin remodelling and MAPK signalling enhance adhesion in Candida albicans. Mol Microbiol (Jul), 93(2): 291-305.
- Buck MJ, Raaijmakers LM, Ramakrishnan S, Wang D, Valiyaparambil S, Liu S, Nowak NJ, Pili R, Buck M. (2013) Alterations in chromatin accessibility and DNA methylation in clear cell renal cell carcinoma. Oncogene (Nov).
- Ge Y, Gong Z, Olson JR, Xu P, Buck MJ, Ren X, Buck M. (2013) Inhibition of monomethylarsonous acid (MMA(III))-induced cell malignant transformation through restoring dysregulated histone acetylation. Toxicology (Oct), 312: 30-35.
- Lai WK, Buck MJ, Buck M. (2013) An integrative approach to understanding the combinatorial histone code at functional elements. Bioinformatics (Sep), 29(18): 2231-2237.
- Garcia H, Miecznikowski JC, Safina A, Commane M, Ruusulehto A, Kilpinen S, Leach RW, Attwood K, Li Y, Degan S, Omilian AR, Guryanova O, Papantonopoulou O, Wang J, Buck M, Liu S, Morrison C, Gurova KV. (2013) Facilitates chromatin transcription complex is an "accelerator" of tumor transformation and potential marker and target of aggressive cancers. Cell Rep (Jul), 4(1): 159-173.
- Yang CC, Buck MJ, Chen MH, Chen YF, Lan HC, Chen JJ, Cheng C, Liu CC, Buck M. (2013) Discovering chromatin motifs using FAIRE sequencing and the human diploid genome. BMC Genomics (May), 14: 310-310.
- Singhal R, Bard JE, Nowak NJ, Buck MJ, Kandel ES, Buck M. (2013) FOXO1 regulates expression of a microRNA cluster on X chromosome. Aging (Albany NY) (May), 5(5): 347-356.
- Rizzo JM, Buck MJ, Buck M. (2012) Key Principles and Clinical Applications of "Next-Generation" DNA Sequencing. Cancer Prev Res (Phila) (Jun).
- Rizzo JM, Bard JE, Buck MJ, Buck M. (2012) Standardized collection of MNase-seq experiments enables unbiased dataset comparisons. BMC Mol Biol (May), 13(1): 15-15.
- Givens RM, Lai WK, Rizzo JM, Bard JE, Mieczkowski PA, Leatherwood J, Huberman JA, Buck MJ, Buck M. (2012) Chromatin architectures at fission yeast transcriptional promoters and replication origins. Nucleic Acids Res (May).
- Lai WK, Bard JE, Buck MJ, Buck M. (2012) ArchTEx: accurate extraction and visualization of next-generation sequence data. Bioinformatics (Apr), 28(7): 1021-1023.
- Givens RM, Mesner LD, Hamlin JL, Buck MJ, Huberman JA, Buck M. (2011) Integrity of chromatin and replicating DNA in nuclei released from fission yeast by semi-automated grinding in liquid nitrogen. BMC Res Notes (Nov), 4(1): 499-499.
- Rizzo JM, Mieczkowski PA, Buck MJ, Buck M. (2011) Tup1 stabilizes promoter nucleosome positioning and occupancy at transcriptionally plastic genes. Nucleic Acids Res (Jul).
- Hanlon SE, Rizzo JM, Tatomer DC, Lieb JD, Buck MJ, Buck M. (2011) The Stress Response Factors Yap6, Cin5, Phd1, and Skn7 Direct Targeting of the Conserved Co-Repressor Tup1-Ssn6 in S. cerevisiae. PLoS One (Apr), 6(4): 19060-19060.
- Lai W, Buck MJ, Buck M. (2010) ArchAlign: Coordinate-free chromatin alignment reveals novel architectures. Genome Biol (Dec), 11(12): 126-126.
- Hoke SM, Irina Mutiu A, Genereaux J, Kvas S, Buck M, Yu M, Gloor GB, Brandl CJ. (2010) Mutational analysis of the C-terminal FATC domain of Saccharomyces cerevisiae Tra1. Curr Genet (Oct), 56(5): 447-465.
- Escamilla-Hernandez R, Chakrabarti R, Romano RA, Smalley K, Zhu Q, Lai W, Halfon MS, Buck MJ, Sinha S. (2010) Genome-wide search identifies Ccnd2 as a direct transcriptional target of Elf5 in mouse mammary gland. BMC molecular biology (Sep), 11: 68. doi:10.1186/1471-2199-11-68
- Sun W, Buck MJ, Patel M, Davis IJ, Buck M. (2009) Improved ChIP-chip analysis by a mixture model approach. BMC Bioinformatics (Jun), 10: 173-173.
- Mieczkowski PA, Dominska M, Buck MJ, Lieb JD, Petes TD, Buck M. (2007) Loss of a histone deacetylase dramatically alters the genomic distribution of Spo11p-catalyzed DNA breaks in Saccharomyces cerevisiae. Proc Natl Acad Sci U S A (Mar), 104(10): 3955-3960.
- Xiao T, Shibata Y, Rao B, Laribee RN, O'Rourke R, Buck MJ, Greenblatt JF, Krogan NJ, Lieb JD, Strahl BD, Buck M. (2007) The RNA polymerase II kinase Ctk1 regulates positioning of a 5' histone methylation boundary along genes. Mol Cell Biol (Jan), 27(2): 721-731.
- Buck MJ, Lieb JD, Buck M. (2006) A chromatin-mediated mechanism for specification of conditional transcription factor targets. Nat Genet (Dec), 38(12): 1446-1451.
- Mieczkowski PA, Dominska M, Buck MJ, Gerton JL, Lieb JD, Petes TD, Buck M. (2006) Global analysis of the relationship between the binding of the Bas1p transcription factor and meiosis-specific double-strand DNA breaks in Saccharomyces cerevisiae. Mol Cell Biol (Feb), 26(3): 1014-1027.
- Buck MJ, Nobel AB, Lieb JD, Buck M. (2005) ChIPOTle: a user-friendly tool for the analysis of ChIP-chip data. Genome Biol (Oct), 6(11): 97-97.
- Buck MJ, Atchley WR, Buck M. (2005) Networks of coevolving sites in structural and functional domains of serpin proteins. Mol Biol Evol (Jul), 22(7): 1627-1634.
- Buck MJ, Lieb JD, Buck M. (2004) ChIP-chip: considerations for the design, analysis, and application of genome-wide chromatin immunoprecipitation experiments. Genomics (Mar), 83(3): 349-360.
- Buck MJ, Atchley WR, Buck M. (2003) Phylogenetic analysis of plant basic helix-loop-helix proteins. J Mol Evol (Jun), 56(6): 742-750.
- Buck MJ, Squire TL, Andrews MT, Buck M. (2002) Coordinate expression of the PDK4 gene: a means of regulating fuel selection in a hibernating mammal. Physiol Genomics (Feb), 8(1): 5-13.
Abstracts:
- Mammen MJ, Buck M, Sun Y, Waldron N, Valiyaparambil S, Wrona C, Sethi S. (2018) Distinct Airway Microbiome Patterns Associated with Lung Cancer Development in a COPD Cohort. American Journal of Respiratory and Critical Care Medicine, (May)
- Mammen MJ, Tsompana M, Buck M, Biswal S, Criner GJ, Sethi S. (2017) Effect Of Sulforaphane Treatment On The Airway Microbiome In COPD. American Journal of Respiratory and Critical Care Medicine, (May)
- Jiao N, Baker SS, Chapa Rodriguez A, Liu W, Nugent CA, Tsompana M, Mastrandrea LD, Buck M, Baker RD, Genco RJ, Zhu R, Zhu L. (2017) Suppressed Hepatic Bile Acid Signaling Despite Elevated Production of Primary and Secondary Bile Acids in NAFLD. Gastroenterology, (Apr) S1068-S1068
Presentations:
- "Cell-Type Specific APA Changes are Associated with Gene Dysregulation and Predict Survival Outcome in Head and Neck Cancer" International Conference on Intelligent Biology and Medicine (2026)
- "Cell-Type Specific APA Changes Lead to Gene Dysregulation Through the Modulation of mRNA-Regulatory miRNA Binding Sites in Head and Neck Cancer" AHNS 12th International Conference on Head and Neck Cancer (2026)
- "Defining Fusobacterium nucleatum strain diversity in oral samples" One Health Microbiome Symposium (2026)
- "Comprehensive Profiling of Cas9 and Cas12a Nucleases Across Nucleosomal Landscapes" Keystone Precision Genome Engineering: From Basic Mechanisms to Application (2026)
- "Maximizing accuracy of cellular deconvolution. (ACeD)" Intelligent Systems for Molecular Biologists (ISMB) Conference (2024)
- "The Impact of Nucleosome Structure on CRISPR Cas9 Fidelity" Keystone Precision Genome Engineering Conference (2023)
- "Defining transcription factor nucleosome binding with Pioneer-seq" Systems Biology: Global Regulation of Gene Expression (2022)
- "Breaking Into Chromatin with Pioneer Factors" Departmental Seminar, Michigan State University, Department of Biochemistry and Molecular Biology, East Lansing, MI (2021)
- "Breaking Into Chromatin with Pioneer Factors" Departmental Seminar, University of North Carolina at Chapel Hill, Department of Biochemistry & Biophysics, Chapel Hill, NC (2020)
- "Breaking Into Chromatin with Pioneer Factors" Departmental Seminar, University of Rochester, Biology Department, Rochester, NY (2020)
Service Activities:
- NIH GCAT study section; Study section member (2026)
- Executive Committee to develop AI+MS degrees; JSMBS Representative (2025–present)
- Biochemistry Faculty Search; Chair (2025–2026)
- NIH Fellowship Panel; Study Section Member (2025)
- International conference on Intelligent Biology and Medicine; Program Committee Member (2025–2026)
- AI+X Biomedical Science curriculum degree committee; Member (2025–2026)
- Office of Biomedical Education Program Administer search committee; Member (2025)
- Department of Biochemistry Chair Search Committee; Member (2024–2025)
- NIH NIGMS T32 study section; Study Section member (2024)
- JSMBS Committee on Promotions to Academic; Chair (2024–2025)
- Mentor for Andrew Lombardo; Faculty Mentor (2024–present)
- Finger Lakes Microbiome Symposium; Committee Member (2023–2025)
- JSMBS Committee on Promotions to Academic (2022–2025)
- Director UB Genomics, Genetics, and Bioinformatics graduate program.; Director (2021–present)
- JSMBS PhD Program in Biomedical Sciences (PPBS); Steering committee member (2021–present)
- Study section member NIH Emerging Centers of Excellence in Genomic Sciences; Member (2021)
- Study section member, NIH Special Emphasis Panel 4D Nucleome Center Awards; Member (2020)
- Study section Ad hoc member, NIH GCAT study section; Member (2020)
- ACM-BCB annual meeting committee member; ACM-BCB annual meeting committee member (2019–present)
- SMBS Faculty Mentoring Committee; Member (2019–present)
- JSMBS MD-PhD Admissions Committee; Member (2018–2021)
- Biochemistry Undergraduate Education; Member (2018–present)
- Biochemistry Undergraduate Program; Undergraduate Advisor (2018–present)
- Advisory Committee UB Genomics and Bioinformatics Core; Member (2017–present)
- Steering committee member, UB Genomics, Genetics, and Bioinformatics graduate program.; Member (2014–present)
- Manuscript reviewer for Cell, Nature Biotech, Nature Methods, Nature Comm, Genome Research, PNAS, PLOS Genetics, Genome Biology, Nucleic Acids Research, Molecular and Cellular Biology, BMC Bioinformatics, Bioinformatics, BMC Genomics