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Miles A. Pufall, Ph.D. - Publications

Affiliations: 
2004 University of Utah, Salt Lake City, UT 
Area:
Biochemistry, Oncology, Molecular Biology
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31 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Alexandari AM, Horton CA, Shrikumar A, Shah N, Li E, Weilert M, Pufall MA, Zeitlinger J, Fordyce PM, Kundaje A. distillation of thermodynamic affinity from deep learning regulatory sequence models of protein-DNA binding. Biorxiv : the Preprint Server For Biology. PMID 37214836 DOI: 10.1101/2023.05.11.540401  0.314
2023 Marcelot A, Rodriguez-Tirado F, Cuniasse P, Joiner ML, Miron S, Soshnev AA, Fang M, Pufall MA, Mathews KD, Moore SA, Zinn-Justin S, Geyer PK. A De Novo Sequence Variant in Barrier-to-Autointegration Factor Is Associated with Dominant Motor Neuronopathy. Cells. 12. PMID 36980188 DOI: 10.3390/cells12060847  0.321
2023 Mielko Z, Zhang Y, Sahay H, Liu Y, Schaich MA, Schnable B, Morrison AM, Burdinski D, Adar S, Pufall M, Van Houten B, Gordân R, Afek A. UV irradiation remodels the specificity landscape of transcription factors. Proceedings of the National Academy of Sciences of the United States of America. 120: e2217422120. PMID 36888663 DOI: 10.1073/pnas.2217422120  0.386
2020 Afek A, Shi H, Rangadurai A, Sahay H, Senitzki A, Xhani S, Fang M, Salinas R, Mielko Z, Pufall MA, Poon GMK, Haran TE, Schumacher MA, Al-Hashimi HM, Gordân R. DNA mismatches reveal conformational penalties in protein-DNA recognition. Nature. PMID 33087930 DOI: 10.1038/s41586-020-2843-2  0.44
2020 Sanchez JC, Zhang L, Evoli S, Schnicker NJ, Nunez-Hernandez M, Yu L, Wereszczynski J, Pufall MA, Musselman CA. The molecular basis of specific DNA binding by the BRG1 AT-hook and bromodomain. Biochimica Et Biophysica Acta. Gene Regulatory Mechanisms. 194566. PMID 32376391 DOI: 10.1016/J.Bbagrm.2020.194566  0.456
2020 Zhang L, Rube HT, Vakulskas CA, Behlke MA, Bussemaker HJ, Pufall MA. Systematic in vitro profiling of off-target affinity, cleavage and efficiency for CRISPR enzymes. Nucleic Acids Research. PMID 32315032 DOI: 10.1093/Nar/Gkaa231  0.416
2019 Sasse SK, Gruca M, Allen MA, Kadiyala V, Song T, Gally F, Gupta A, Pufall MA, Dowell RD, Gerber AN. Nascent transcript analysis of glucocorticoid crosstalk with TNF defines primary and cooperative inflammatory repression. Genome Research. PMID 31519741 DOI: 10.1101/Gr.248187.119  0.395
2019 Pal SK, Tew BY, Lim M, Stankavich B, He M, Pufall M, Hu W, Chen Y, Jones JO. Mechanistic Investigation of the Androgen Receptor DNA-Binding Domain Inhibitor Pyrvinium. Acs Omega. 4: 2472-2481. PMID 30873507 DOI: 10.1021/acsomega.8b03205  0.332
2019 Pufall MA, Fang M, Bradley RK, Guo-Liang C, Lanier R, Tasian SK. Glucocorticoids Regulate the Splicing Factor MBNL1, a Potential Control Point for B-Cell Specification Blood. 134: 2478-2478. DOI: 10.1182/Blood-2019-131322  0.304
2019 Sanchez JC, Zhang Zhang L, Pufall M, Musselman C. Characterization of the Novel DNA Binding Activity of the BRG1 At-Hook-Bromodomain Biophysical Journal. 116: 332a. DOI: 10.1016/J.Bpj.2018.11.1806  0.48
2018 Guo A, Wang Y, Chen B, Wang Y, Yuan J, Zhang L, Hall D, Wu J, Shi Y, Zhu Q, Chen C, Thiel WH, Zhan X, Weiss RM, Zhan F, ... ... Pufall M, et al. E-C coupling structural protein junctophilin-2 encodes a stress-adaptive transcription regulator. Science (New York, N.Y.). PMID 30409805 DOI: 10.1126/Science.Aan3303  0.314
2018 Sanchez JC, Zhang L, Liu A, Pufall MA, Musselman CA. Characterization of the Novel DNA Binding Activity of the BRG1 At-Hook-Bromodomain and Effect of Cancer Mutations Biophysical Journal. 114: 569a. DOI: 10.1016/J.Bpj.2017.11.3112  0.403
2017 Zhang L, Martini GD, Rube HT, Kribelbauer JF, Rastogi C, FitzPatrick VD, Houtman JC, Bussemaker HJ, Pufall MA. SelexGLM differentiates androgen and glucocorticoid receptor DNA-binding preference over an extended binding site. Genome Research. PMID 29196557 DOI: 10.1101/Gr.222844.117  0.493
2017 Rollins DA, Kharlyngdoh JB, Coppo M, Tharmalingam B, Mimouna S, Guo Z, Sacta MA, Pufall MA, Fisher RP, Hu X, Chinenov Y, Rogatsky I. Glucocorticoid-induced phosphorylation by CDK9 modulates the coactivator functions of transcriptional cofactor GRIP1 in macrophages. Nature Communications. 8: 1739. PMID 29170386 DOI: 10.1038/S41467-017-01569-2  0.348
2017 Kruth K, Fang M, Shelton DN, Abu-Halawa O, Mahling R, Yang H, Weissman JS, Loh ML, Müschen M, Tasian SK, Bassik MC, Kampmann M, Pufall MA. Suppression of B-cell development genes is key to glucocorticoid efficacy in treatment of acute lymphoblastic leukemia. Blood. PMID 28424165 DOI: 10.1182/Blood-2017-02-766204  0.338
2017 Chan LN, Chen Z, Braas D, Lee JW, Xiao G, Geng H, Cosgun KN, Hurtz C, Shojaee S, Cazzaniga V, Schjerven H, Ernst T, Hochhaus A, Kornblau SM, Konopleva M, ... Pufall MA, et al. Metabolic gatekeeper function of B-lymphoid transcription factors. Nature. 1-5. PMID 28192788 DOI: 10.1038/Nature21076  0.306
2015 Sasse SK, Zuo Z, Kadiyala V, Zhang L, Pufall MA, Jain MK, Phang TL, Stormo GD, Gerber AN. Response Element Composition Governs Correlations Between Binding Site Affinity and Transcription in Glucocorticoid Receptor Feed-forward Loops. The Journal of Biological Chemistry. PMID 26088140 DOI: 10.1074/Jbc.M115.668558  0.449
2013 Thomas-Chollier M, Watson LC, Cooper SB, Pufall MA, Liu JS, Borzym K, Vingron M, Yamamoto KR, Meijsing SH. A naturally occurring insertion of a single amino acid rewires transcriptional regulation by glucocorticoid receptor isoforms. Proceedings of the National Academy of Sciences of the United States of America. 110: 17826-31. PMID 24127590 DOI: 10.1073/Pnas.1316235110  0.514
2013 Pufall MA, Kaplan CD. Mechanisms of eukaryotic transcription. Genome Biology. 14: 311. PMID 24079829 DOI: 10.1186/Gb-2013-14-9-311  0.305
2013 Watson LC, Kuchenbecker KM, Schiller BJ, Gross JD, Pufall MA, Yamamoto KR. The glucocorticoid receptor dimer interface allosterically transmits sequence-specific DNA signals. Nature Structural & Molecular Biology. 20: 876-83. PMID 23728292 DOI: 10.1038/Nsmb.2595  0.518
2013 Pufall MA, Yang H, Shelton DN. Differential Response Of Leukemic Blasts To Dexamethasone and Prednisone Occurs At Sub-Saturating Doses Blood. 122: 4915-4915. DOI: 10.1182/Blood.V122.21.4915.4915  0.311
2012 Serafimova IM, Pufall MA, Krishnan S, Duda K, Cohen MS, Maglathlin RL, McFarland JM, Miller RM, Frödin M, Taunton J. Reversible targeting of noncatalytic cysteines with chemically tuned electrophiles. Nature Chemical Biology. 8: 471-6. PMID 22466421 DOI: 10.1038/Nchembio.925  0.305
2011 Lee G, Donaldson L, Pufall M, Kang H, Gentile L, Pot I, Graves B, McIntosh L. Backbone and Sidechain 1H, 13C, and 15N Chemical Shift Assignments and Backbone 15N Relaxation Parameters for Murine Ets-1 deltaN301 Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr5991  0.525
2010 Shipp LE, Lee JV, Yu CY, Pufall M, Zhang P, Scott DK, Wang JC. Transcriptional regulation of human dual specificity protein phosphatase 1 (DUSP1) gene by glucocorticoids. Plos One. 5: e13754. PMID 21060794 DOI: 10.1371/Journal.Pone.0013754  0.374
2009 Meijsing SH, Pufall MA, So AY, Bates DL, Chen L, Yamamoto KR. DNA binding site sequence directs glucocorticoid receptor structure and activity Science. 324: 407-410. PMID 19372434 DOI: 10.1126/Science.1164265  0.47
2008 Lee GM, Pufall MA, Meeker CA, Kang HS, Graves BJ, McIntosh LP. The affinity of Ets-1 for DNA is modulated by phosphorylation through transient interactions of an unstructured region. Journal of Molecular Biology. 382: 1014-30. PMID 18692067 DOI: 10.1016/J.Jmb.2008.07.064  0.657
2005 Pufall MA, Lee GM, Nelson ML, Kang HS, Velyvis A, Kay LE, McIntosh LP, Graves BJ. Variable control of Ets-1 DNA binding by multiple phosphates in an unstructured region. Science (New York, N.Y.). 309: 142-5. PMID 15994560 DOI: 10.1126/Science.1111915  0.683
2005 Lee GM, Donaldson LW, Pufall MA, Kang HS, Pot I, Graves BJ, McIntosh LP. The structural and dynamic basis of Ets-1 DNA binding autoinhibition. The Journal of Biological Chemistry. 280: 7088-99. PMID 15591056 DOI: 10.1074/Jbc.M410722200  0.682
2002 Garvie CW, Pufall MA, Graves BJ, Wolberger C. Structural analysis of the autoinhibition of Ets-1 and its role in protein partnerships. The Journal of Biological Chemistry. 277: 45529-36. PMID 12221090 DOI: 10.1074/Jbc.M206327200  0.678
2002 Pufall MA, Graves BJ. Autoinhibitory domains: modular effectors of cellular regulation. Annual Review of Cell and Developmental Biology. 18: 421-62. PMID 12142282 DOI: 10.1146/Annurev.Cellbio.18.031502.133614  0.589
2002 Pufall MA, Graves BJ. Ets-1 flips for new partner Pax-5. Structure (London, England : 1993). 10: 11-4. PMID 11796106 DOI: 10.1016/S0969-2126(01)00701-8  0.661
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