Stephen Todd Smale - Publications

1990- Microbiology, Immunology, and Molecular Genetics University of California, Los Angeles, Los Angeles, CA 
gene regulation during inflammatory and innate immune responses and during lymphocyte development and leukemogenesis

149 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
2024 Purbey PK, Seo J, Paul MK, Iwamoto KS, Daly AE, Feng AC, Champhekar AS, Langerman J, Campbell KM, Schaue D, McBride WH, Dubinett SM, Ribas A, Smale ST, Scumpia PO. Opposing tumor-cell-intrinsic and -extrinsic roles of the IRF1 transcription factor in antitumor immunity. Cell Reports. 43: 114289. PMID 38833371 DOI: 10.1016/j.celrep.2024.114289  0.744
2024 Feng AC, Thomas BJ, Purbey PK, de Melo FM, Liu X, Daly AE, Sun F, Lo JH, Cheng L, Carey MF, Scumpia PO, Smale ST. The transcription factor NF-κB orchestrates nucleosome remodeling during the primary response to Toll-like receptor 4 signaling. Immunity. PMID 38430908 DOI: 10.1016/j.immuni.2024.02.004  0.333
2023 Kagan JC, Rothenberg EV, Weiss A, Rudensky AY, Smale ST. Cold Spring Harbor Laboratory 2022: emerging insights and viewpoints in immunology. Trends in Immunology. PMID 36907684 DOI: 10.1016/  0.507
2022 Lo JH, Edwards M, Langerman J, Sridharan R, Plath K, Smale ST. Oct4:Sox2 binding is essential for establishing but not maintaining active and silent states of dynamically regulated genes in pluripotent cells. Genes & Development. 36: 1079-1095. PMID 36418052 DOI: 10.1101/gad.350113.122  0.819
2022 Aliyari SR, Ghaffari AA, Pernet O, Parvatiyar K, Wang Y, Gerami H, Tong AJ, Vergnes L, Takallou A, Zhang A, Wei X, Chilin LD, Wu Y, Semenkovich CF, Reue K, ... Smale ST, et al. Suppressing fatty acid synthase by type I interferon and chemical inhibitors as a broad spectrum anti-viral strategy against SARS-CoV-2. Acta Pharmaceutica Sinica. B. PMID 35251918 DOI: 10.1016/j.apsb.2022.02.019  0.431
2022 Blair L, Pattison MJ, Chakravarty P, Papoutsopoulou S, Bakiri L, Wagner EF, Smale S, Ley SC. TPL-2 Inhibits IFN-β Expression via an ERK1/2-TCF-FOS Axis in TLR4-Stimulated Macrophages. Journal of Immunology (Baltimore, Md. : 1950). 208: 941-954. PMID 35082159 DOI: 10.4049/jimmunol.2100213  0.349
2021 Langerman J, Lopez D, Pellegrini M, Smale ST. Species-Specific Relationships between DNA and Chromatin Properties of CpG Islands in Embryonic Stem Cells and Differentiated Cells. Stem Cell Reports. PMID 33770494 DOI: 10.1016/j.stemcr.2021.02.016  0.741
2020 Hsieh WY, Zhou QD, York AG, Williams KJ, Scumpia PO, Kronenberger EB, Hoi XP, Su B, Chi X, Bui VL, Khialeeva E, Kaplan A, Son YM, Divakaruni AS, Sun J, ... Smale ST, et al. Toll-Like Receptors Induce Signal-Specific Reprogramming of the Macrophage Lipidome. Cell Metabolism. PMID 32516576 DOI: 10.1016/J.Cmet.2020.05.003  0.306
2020 Weinmann AS, Youngblood BA, Smale ST, Brink R, Schatz DG, McHeyzer-Williams M. A Future Outlook on Molecular Mechanisms of Immunity. Trends in Immunology. PMID 32507312 DOI: 10.1016/J.It.2020.05.005  0.709
2020 Kim YJ, Sheu KM, Tsoi J, Abril-Rodriguez G, Grasso C, Hoffmann A, Smale ST, Graeber TG, Puig-Saus C, Ribas A. Abstract 3155: Interferon-gamma-induced melanoma plasticity and response to PD-1 blockade therapy Cancer Research. 80: 3155-3155. DOI: 10.1158/1538-7445.Am2020-3155  0.504
2019 Rajbhandari P, Arneson D, Hart SK, Ahn IS, Diamante G, Santos LC, Zaghari N, Feng AC, Thomas BJ, Vergnes L, Lee SD, Rajbhandari AK, Reue K, Smale ST, Yang X, et al. Single cell analysis reveals immune cell-adipocyte crosstalk regulating the transcription of thermogenic adipocytes. Elife. 8. PMID 31644425 DOI: 10.7554/Elife.49501  0.357
2019 Comoglio F, Simonatto M, Polletti S, Liu X, Smale ST, Barozzi I, Natoli G. Dissection of acute stimulus-inducible nucleosome remodeling in mammalian cells. Genes & Development. PMID 31371436 DOI: 10.1101/Gad.326348.119  0.41
2019 Rajbhandari P, Arneson D, Hart SK, Ahn IS, Diamante G, Santos LC, Zaghari N, Feng A, Thomas BJ, Vergnes L, Lee SD, Rajbhandari AK, Reue K, Smale ST, Yang X, et al. Author response: Single cell analysis reveals immune cell–adipocyte crosstalk regulating the transcription of thermogenic adipocytes Elife. DOI: 10.7554/Elife.49501.021  0.424
2018 Fu K, Chronis C, Soufi A, Bonora G, Edwards M, Smale ST, Zaret KS, Plath K, Pellegrini M. Comparison of reprogramming factor targets reveals both species-specific and conserved mechanisms in early iPSC reprogramming. Bmc Genomics. 19: 956. PMID 30577748 DOI: 10.1186/S12864-018-5326-1  0.564
2018 Germain RN, Greenbaum BD, Hoffmann A, Miller-Jensen K, Mora T, Walczak AM, Segal E, Vogl T, Klompus S, Peled-Liviatan S, Weinberger A, Smale ST, Tsang JS. What Can Immunologists Learn from Systems Approaches Trends in Immunology. 39: 163-166. PMID 29477635 DOI: 10.1016/J.It.2018.01.002  0.413
2018 Sallam T, Jones M, Thomas BJ, Wu X, Gilliland T, Qian K, Eskin A, Casero D, Zhang Z, Sandhu J, Salisbury D, Rajbhandari P, Civelek M, Hong C, Ito A, ... ... Smale S, et al. Transcriptional regulation of macrophage cholesterol efflux and atherogenesis by a long noncoding RNA. Nature Medicine. PMID 29431742 DOI: 10.1038/Nm.4479  0.452
2018 Rajbhandari P, Thomas BJ, Feng AC, Hong C, Wang J, Vergnes L, Sallam T, Wang B, Sandhu J, Seldin MM, Lusis AJ, Fong LG, Katz M, Lee R, Young SG, ... ... Smale ST, et al. IL-10 Signaling Remodels Adipose Chromatin Architecture to Limit Thermogenesis and Energy Expenditure. Cell. 172: 218-233.e17. PMID 29249357 DOI: 10.1016/J.Cell.2017.11.019  0.344
2017 Purbey PK, Scumpia PO, Kim PJ, Tong AJ, Iwamoto KS, McBride WH, Smale ST. Defined Sensing Mechanisms and Signaling Pathways Contribute to the Global Inflammatory Gene Expression Output Elicited by Ionizing Radiation. Immunity. 47: 421-434.e3. PMID 28930658 DOI: 10.1016/J.Immuni.2017.08.017  0.402
2017 Scumpia PO, Botten GA, Norman JS, Kelly-Scumpia KM, Spreafico R, Ruccia AR, Purbey PK, Thomas BJ, Modlin RL, Smale ST. Opposing roles of Toll-like receptor and cytosolic DNA-STING signaling pathways for Staphylococcus aureus cutaneous host defense. Plos Pathogens. 13: e1006496. PMID 28704551 DOI: 10.1371/Journal.Ppat.1006496  0.365
2017 Schjerven H, Ayongaba EF, Aghajanirefah A, McLaughlin J, Cheng D, Geng H, Boyd JR, Eggesbø LM, Lindeman I, Heath JL, Park E, Witte ON, Smale ST, Frietze S, Müschen M. Genetic analysis of Ikaros target genes and tumor suppressor function in BCR-ABL1 pre-B ALL. The Journal of Experimental Medicine. 214: 793-814. PMID 28190001 DOI: 10.1084/Jem.20160049  0.549
2016 Thomas BJ, Smale ST. The Ly6C(lo)-Down: Targeting Developmental Enhancers for Cell Subset Depletion. Immunity. 45: 949-951. PMID 27851919 DOI: 10.1016/J.Immuni.2016.10.034  0.304
2016 Tong AJ, Liu X, Thomas BJ, Lissner MM, Baker MR, Senagolage MD, Allred AL, Barish GD, Smale ST. A Stringent Systems Approach Uncovers Gene-Specific Mechanisms Regulating Inflammation. Cell. 165: 165-179. PMID 26924576 DOI: 10.1016/J.Cell.2016.01.020  0.479
2016 Cunningham CR, Champhekar A, Tullius MV, Dillon BJ, Zhen A, de la Fuente JR, Herskovitz J, Elsaesser H, Snell LM, Wilson EB, de la Torre JC, Kitchen SG, Horwitz MA, Bensinger SJ, Smale ST, et al. Type I and Type II Interferon Coordinately Regulate Suppressive Dendritic Cell Fate and Function during Viral Persistence. Plos Pathogens. 12: e1005356. PMID 26808628 DOI: 10.1371/Journal.Ppat.1005356  0.327
2015 Arenzana TL, Schjerven H, Smale ST. Regulation of gene expression dynamics during developmental transitions by the Ikaros transcription factor. Genes & Development. 29: 1801-16. PMID 26314708 DOI: 10.1101/Gad.266999.115  0.447
2015 Lissner MM, Thomas BJ, Wee K, Tong AJ, Kollmann TR, Smale ST. Age-Related Gene Expression Differences in Monocytes from Human Neonates, Young Adults, and Older Adults. Plos One. 10: e0132061. PMID 26147648 DOI: 10.1371/Journal.Pone.0132061  0.338
2015 Fowler T, Garruss AS, Ghosh A, De S, Becker KG, Wood WH, Weirauch MT, Smale ST, Aronow B, Sen R, Roy AL. Divergence of transcriptional landscape occurs early in B cell activation. Epigenetics & Chromatin. 8: 20. PMID 25987903 DOI: 10.1186/S13072-015-0012-X  0.366
2015 Kayama H, Ramirez-Carrozzi VR, Yamamoto M, Mizutani T, Kuwata H, Iba H, Matsumoto M, Honda K, Smale ST, Takeda K. Class-specific regulation of pro-inflammatory genes by MyD88 pathways and IκBζ. The Journal of Biological Chemistry. 290: 4815. PMID 25713407 DOI: 10.1074/Jbc.A114.709965  0.485
2014 Patterson M, Gaeta X, Loo K, Edwards M, Smale S, Cinkornpumin J, Xie Y, Listgarten J, Azghadi S, Douglass SM, Pellegrini M, Lowry WE. let-7 miRNAs can act through notch to regulate human gliogenesis. Stem Cell Reports. 3: 758-73. PMID 25316189 DOI: 10.1016/J.Stemcr.2014.08.015  0.334
2014 Smale ST, Natoli G. Transcriptional control of inflammatory responses. Cold Spring Harbor Perspectives in Biology. 6: a016261. PMID 25213094 DOI: 10.1101/Cshperspect.A016261  0.495
2014 Heller JJ, Schjerven H, Li S, Lee A, Qiu J, Chen ZM, Smale ST, Zhou L. Restriction of IL-22-producing T cell responses and differential regulation of regulatory T cell compartments by zinc finger transcription factor Ikaros. Journal of Immunology (Baltimore, Md. : 1950). 193: 3934-46. PMID 25194055 DOI: 10.4049/Jimmunol.1401234  0.477
2014 Smale ST. Transcriptional regulation in the immune system: a status report. Trends in Immunology. 35: 190-4. PMID 24703179 DOI: 10.1016/J.It.2014.03.003  0.456
2014 Garcia AJ, Ruscetti M, Arenzana TL, Tran LM, Bianci-Frias D, Sybert E, Priceman SJ, Wu L, Nelson PS, Smale ST, Wu H. Pten null prostate epithelium promotes localized myeloid-derived suppressor cell expansion and immune suppression during tumor initiation and progression. Molecular and Cellular Biology. 34: 2017-28. PMID 24662052 DOI: 10.1128/Mcb.00090-14  0.328
2014 Smale ST, Tarakhovsky A, Natoli G. Chromatin contributions to the regulation of innate immunity. Annual Review of Immunology. 32: 489-511. PMID 24555473 DOI: 10.1146/Annurev-Immunol-031210-101303  0.453
2013 Smale ST, Plevy SE, Weinmann AS, Zhou L, Ramirez-Carrozzi VR, Pope SD, Bhatt DM, Tong AJ. Toward an understanding of the gene-specific and global logic of inducible gene transcription. Cold Spring Harbor Symposia On Quantitative Biology. 78: 61-8. PMID 24747344 DOI: 10.1101/Sqb.2013.78.020313  0.795
2013 Schjerven H, McLaughlin J, Arenzana TL, Frietze S, Cheng D, Wadsworth SE, Lawson GW, Bensinger SJ, Farnham PJ, Witte ON, Smale ST. Selective regulation of lymphopoiesis and leukemogenesis by individual zinc fingers of Ikaros. Nature Immunology. 14: 1073-83. PMID 24013668 DOI: 10.1038/Ni.2707  0.729
2013 Carey MF, Peterson CL, Smale ST. Electrophoretic mobility-shift assays. Cold Spring Harbor Protocols. 2013: 636-9. PMID 23818676 DOI: 10.1101/Pdb.Prot075861  0.305
2013 Carey MF, Peterson CL, Smale ST. DNase I footprinting. Cold Spring Harbor Protocols. 2013: 469-78. PMID 23637368 DOI: 10.1101/Pdb.Prot074328  0.338
2013 Pandya-Jones A, Bhatt DM, Lin CH, Tong AJ, Smale ST, Black DL. Splicing kinetics and transcript release from the chromatin compartment limit the rate of Lipid A-induced gene expression. Rna (New York, N.Y.). 19: 811-27. PMID 23616639 DOI: 10.1261/Rna.039081.113  0.775
2013 Carey MF, Peterson CL, Smale ST. The RNase protection assay. Cold Spring Harbor Protocols. 2013. PMID 23457339 DOI: 10.1101/Pdb.Prot071910  0.335
2013 Carey MF, Peterson CL, Smale ST. The primer extension assay. Cold Spring Harbor Protocols. 2013: 164-73. PMID 23378648 DOI: 10.1101/Pdb.Prot071902  0.318
2013 Ferreirós-Vidal I, Carroll T, Taylor B, Terry A, Liang Z, Bruno L, Dharmalingam G, Khadayate S, Cobb BS, Smale ST, Spivakov M, Srivastava P, Petretto E, Fisher AG, Merkenschlager M. Genome-wide identification of Ikaros targets elucidates its contribution to mouse B-cell lineage specification and pre-B-cell differentiation. Blood. 121: 1769-82. PMID 23303821 DOI: 10.1182/Blood-2012-08-450114  0.401
2013 Koshiba R, Yanai H, Matsuda A, Goto A, Nakajima A, Negishi H, Nishio J, Smale ST, Taniguchi T. Regulation of cooperative function of the Il12b enhancer and promoter by the interferon regulatory factors 3 and 5. Biochemical and Biophysical Research Communications. 430: 95-100. PMID 23154183 DOI: 10.1016/J.Bbrc.2012.11.006  0.539
2013 Heller J, Schjerven H, Qiu J, Lee A, Smale S, Zhou L. 118 Cytokine. 63: 271. DOI: 10.1016/J.Cyto.2013.06.121  0.511
2012 Bhatt DM, Pandya-Jones A, Tong AJ, Barozzi I, Lissner MM, Natoli G, Black DL, Smale ST. Transcript dynamics of proinflammatory genes revealed by sequence analysis of subcellular RNA fractions. Cell. 150: 279-90. PMID 22817891 DOI: 10.1016/J.Cell.2012.05.043  0.788
2012 Carey MF, Peterson CL, Smale ST. Confirming the functional importance of a protein-DNA interaction. Cold Spring Harbor Protocols. 2012: 733-57. PMID 22753608 DOI: 10.1101/Pdb.Top070060  0.309
2012 Negishi H, Yanai H, Nakajima A, Koshiba R, Atarashi K, Matsuda A, Matsuki K, Miki S, Doi T, Aderem A, Nishio J, Smale ST, Honda K, Taniguchi T. Cross-interference of RLR and TLR signaling pathways modulates antibacterial T cell responses. Nature Immunology. 13: 659-66. PMID 22610141 DOI: 10.1038/Ni.2307  0.397
2012 Smale ST. Dimer-specific regulatory mechanisms within the NF-κB family of transcription factors. Immunological Reviews. 246: 193-204. PMID 22435556 DOI: 10.1111/J.1600-065X.2011.01091.X  0.486
2012 Carey MF, Peterson CL, Smale ST. Identifying cis-acting DNA elements within a control region. Cold Spring Harbor Protocols. 2012: 279-96. PMID 22383646 DOI: 10.1101/Pdb.Top068171  0.39
2012 Carey MF, Peterson CL, Smale ST. Experimental strategies for cloning or identifying genes encoding DNA-binding proteins. Cold Spring Harbor Protocols. 2012: 183-92. PMID 22301659 DOI: 10.1101/Pdb.Top067900  0.377
2012 Smale ST. Transcriptional regulation in the innate immune system. Current Opinion in Immunology. 24: 51-7. PMID 22230561 DOI: 10.1016/J.Coi.2011.12.008  0.519
2012 Carey MF, Peterson CL, Smale ST. Experimental strategies for the identification of DNA-binding proteins. Cold Spring Harbor Protocols. 2012: 18-33. PMID 22194258 DOI: 10.1101/Pdb.Top067470  0.374
2011 Siggers T, Chang AB, Teixeira A, Wong D, Williams KJ, Ahmed B, Ragoussis J, Udalova IA, Smale ST, Bulyk ML. Principles of dimer-specific gene regulation revealed by a comprehensive characterization of NF-κB family DNA binding. Nature Immunology. 13: 95-102. PMID 22101729 DOI: 10.1038/Ni.2151  0.57
2011 Smale ST. Hierarchies of NF-κB target-gene regulation. Nature Immunology. 12: 689-94. PMID 21772277 DOI: 10.1038/Ni.2070  0.447
2011 Smith AM, Qualls JE, O'Brien K, Balouzian L, Johnson PF, Schultz-Cherry S, Smale ST, Murray PJ. A distal enhancer in Il12b is the target of transcriptional repression by the STAT3 pathway and requires the basic leucine zipper (B-ZIP) protein NFIL3. The Journal of Biological Chemistry. 286: 23582-90. PMID 21566115 DOI: 10.1074/Jbc.M111.249235  0.374
2011 Kobayashi T, Matsuoka K, Sheikh SZ, Elloumi HZ, Kamada N, Hisamatsu T, Hansen JJ, Doty KR, Pope SD, Smale ST, Hibi T, Rothman PB, Kashiwada M, Plevy SE. NFIL3 is a regulator of IL-12 p40 in macrophages and mucosal immunity. Journal of Immunology (Baltimore, Md. : 1950). 186: 4649-55. PMID 21383239 DOI: 10.4049/Jimmunol.1003888  0.792
2010 Carey MF, Peterson CL, Smale ST. Magnesium-agarose electrophoretic mobility shift assay (EMSA) of transcription factor IID binding to DNA. Cold Spring Harbor Protocols. 2010: pdb.prot5514. PMID 21041387 DOI: 10.1101/Pdb.Prot5514  0.424
2010 Mukhopadhyay S, Plüddemann A, Hoe JC, Williams KJ, Varin A, Makepeace K, Aknin ML, Bowdish DM, Smale ST, Barclay AN, Gordon S. Immune inhibitory ligand CD200 induction by TLRs and NLRs limits macrophage activation to protect the host from meningococcal septicemia. Cell Host & Microbe. 8: 236-47. PMID 20833375 DOI: 10.1016/J.Chom.2010.08.005  0.314
2010 Carey MF, Peterson CL, Smale ST. Protein complex binding to promoter DNA: immobilized template assay. Cold Spring Harbor Protocols. 2010: pdb.prot5465. PMID 20679374 DOI: 10.1101/Pdb.Prot5465  0.362
2010 Carey MF, Peterson CL, Smale ST. Purification of mediator from HeLa cell lines expressing a flag-tagged mediator subunit. Cold Spring Harbor Protocols. 2010: pdb.prot5451. PMID 20647355 DOI: 10.1101/Pdb.Prot5451  0.395
2010 Carey MF, Peterson CL, Smale ST. Purification of epitope-tagged transcription factor IID. Cold Spring Harbor Protocols. 2010: pdb.prot5450. PMID 20647354 DOI: 10.1101/Pdb.Prot5450  0.393
2010 Smale ST. Pioneer factors in embryonic stem cells and differentiation. Current Opinion in Genetics & Development. 20: 519-26. PMID 20638836 DOI: 10.1016/J.Gde.2010.06.010  0.495
2010 Sen R, Smale ST. Selectivity of the NF-{kappa}B response. Cold Spring Harbor Perspectives in Biology. 2: a000257. PMID 20452937 DOI: 10.1101/Cshperspect.A000257  0.391
2010 Smale ST. Beta-galactosidase assay. Cold Spring Harbor Protocols. 2010: pdb.prot5423. PMID 20439410 DOI: 10.1101/Pdb.Prot5423  0.354
2010 Smale ST. Chloramphenicol acetyltransferase assay. Cold Spring Harbor Protocols. 2010: pdb.prot5422. PMID 20439409 DOI: 10.1101/Pdb.Prot5422  0.34
2010 Smale ST. Seq-ing LPS-induced enhancers. Immunity. 32: 296-8. PMID 20346768 DOI: 10.1016/J.Immuni.2010.03.011  0.334
2010 Smale ST. Selective transcription in response to an inflammatory stimulus. Cell. 140: 833-44. PMID 20303874 DOI: 10.1016/J.Cell.2010.01.037  0.456
2010 Carey MF, Peterson CL, Smale ST. G-less cassette in vitro transcription using HeLa cell nuclear extracts. Cold Spring Harbor Protocols. 2010: pdb.prot5387. PMID 20194456 DOI: 10.1101/Pdb.Prot5387  0.389
2010 Smale ST. PL2-2 Selective regulation of pro-inflammatory genes by chromatin and NF-κB Cytokine. 52: 36. DOI: 10.1016/J.Cyto.2010.07.163  0.387
2009 Carey MF, Peterson CL, Smale ST. In vitro transcription using HeLa cell extracts and primer extension. Cold Spring Harbor Protocols. 2009: pdb.prot5331. PMID 20150078 DOI: 10.1101/Pdb.Prot5331  0.365
2009 Smale ST. Nuclear run-on assay. Cold Spring Harbor Protocols. 2009: pdb.prot5329. PMID 20150068 DOI: 10.1101/Pdb.Prot5329  0.458
2009 Carey MF, Peterson CL, Smale ST. Chromatin immunoprecipitation (ChIP). Cold Spring Harbor Protocols. 2009: pdb.prot5279. PMID 20147264 DOI: 10.1101/Pdb.Prot5279  0.356
2009 Xu J, Watts JA, Pope SD, Gadue P, Kamps M, Plath K, Zaret KS, Smale ST. Transcriptional competence and the active marking of tissue-specific enhancers by defined transcription factors in embryonic and induced pluripotent stem cells. Genes & Development. 23: 2824-38. PMID 20008934 DOI: 10.1101/Gad.1861209  0.816
2009 Papathanasiou P, Attema JL, Karsunky H, Hosen N, Sontani Y, Hoyne GF, Tunningley R, Smale ST, Weissman IL. Self-renewal of the long-term reconstituting subset of hematopoietic stem cells is regulated by Ikaros. Stem Cells (Dayton, Ohio). 27: 3082-92. PMID 19816952 DOI: 10.1002/Stem.232  0.332
2009 Ramirez-Carrozzi VR, Braas D, Bhatt DM, Cheng CS, Hong C, Doty KR, Black JC, Hoffmann A, Carey M, Smale ST. A unifying model for the selective regulation of inducible transcription by CpG islands and nucleosome remodeling. Cell. 138: 114-28. PMID 19596239 DOI: 10.1016/J.Cell.2009.04.020  0.806
2008 Zaret KS, Watts J, Xu J, Wandzioch E, Smale ST, Sekiya T. Pioneer factors, genetic competence, and inductive signaling: programming liver and pancreas progenitors from the endoderm. Cold Spring Harbor Symposia On Quantitative Biology. 73: 119-26. PMID 19028990 DOI: 10.1101/Sqb.2008.73.040  0.42
2008 Reynaud D, Demarco IA, Reddy KL, Schjerven H, Bertolino E, Chen Z, Smale ST, Winandy S, Singh H. Regulation of B cell fate commitment and immunoglobulin heavy-chain gene rearrangements by Ikaros. Nature Immunology. 9: 927-36. PMID 18568028 DOI: 10.1038/Ni.1626  0.593
2008 Kayama H, Ramirez-Carrozzi VR, Yamamoto M, Mizutani T, Kuwata H, Iba H, Matsumoto M, Honda K, Smale ST, Takeda K. Class-specific regulation of pro-inflammatory genes by MyD88 pathways and IkappaBzeta. The Journal of Biological Chemistry. 283: 12468-77. PMID 18319258 DOI: 10.1074/Jbc.M709965200  0.485
2008 Sridharan R, Smale S. IKZF2 (IKAROS family zinc finger 2) Atlas of Genetics and Cytogenetics in Oncology and Haematology. DOI: 10.4267/2042/15940  0.56
2007 Carey M, Smale ST. Methylation interference assay. Csh Protocols. 2007: pdb.prot4812. PMID 21356995 DOI: 10.1101/Pdb.Prot4812  0.354
2007 Carey M, Smale ST. Phosphate ethylation interference assay. Csh Protocols. 2007: pdb.prot4811. PMID 21356994 DOI: 10.1101/Pdb.Prot4811  0.324
2007 Carey M, Smale ST. Micrococcal Nuclease-Southern Blot Assay: II. Capillary Transfer and Hybridization. Csh Protocols. 2007: pdb.prot4891. PMID 21356982 DOI: 10.1101/Pdb.Prot4891  0.313
2007 Carey M, Smale ST. Micrococcal Nuclease-Southern Blot Assay: I. MNase and Restriction Digestions. Csh Protocols. 2007: pdb.prot4890. PMID 21356981 DOI: 10.1101/Pdb.Prot4890  0.331
2007 Sridharan R, Smale ST. Predominant interaction of both Ikaros and Helios with the NuRD complex in immature thymocytes. The Journal of Biological Chemistry. 282: 30227-38. PMID 17681952 DOI: 10.1074/Jbc.M702541200  0.596
2007 Attema JL, Papathanasiou P, Forsberg EC, Xu J, Smale ST, Weissman IL. Epigenetic characterization of hematopoietic stem cell differentiation using miniChIP and bisulfite sequencing analysis. Proceedings of the National Academy of Sciences of the United States of America. 104: 12371-6. PMID 17640913 DOI: 10.1073/Pnas.0704468104  0.395
2007 Xu J, Pope SD, Jazirehi AR, Attema JL, Papathanasiou P, Watts JA, Zaret KS, Weissman IL, Smale ST. Pioneer factor interactions and unmethylated CpG dinucleotides mark silent tissue-specific enhancers in embryonic stem cells. Proceedings of the National Academy of Sciences of the United States of America. 104: 12377-82. PMID 17640912 DOI: 10.1073/Pnas.0704579104  0.769
2007 Thompson EC, Cobb BS, Sabbattini P, Meixlsperger S, Parelho V, Liberg D, Taylor B, Dillon N, Georgopoulos K, Jumaa H, Smale ST, Fisher AG, Merkenschlager M. Ikaros DNA-binding proteins as integral components of B cell developmental-stage-specific regulatory circuits. Immunity. 26: 335-44. PMID 17363301 DOI: 10.1016/J.Immuni.2007.02.010  0.468
2007 Zhou L, Nazarian AA, Xu J, Tantin D, Corcoran LM, Smale ST. An inducible enhancer required for Il12b promoter activity in an insulated chromatin environment. Molecular and Cellular Biology. 27: 2698-712. PMID 17242186 DOI: 10.1128/Mcb.00788-06  0.577
2006 Li CC, Ramirez-Carrozzi VR, Smale ST. Pursuing gene regulation 'logic' via RNA interference and chromatin immunoprecipitation. Nature Immunology. 7: 692-7. PMID 16785883 DOI: 10.1038/Ni0706-692  0.442
2006 Smale ST, Dorshkind K. Hematopoiesis flies high with Ikaros. Nature Immunology. 7: 367-9. PMID 16550201 DOI: 10.1038/Ni0406-367  0.332
2006 Ramirez-Carrozzi VR, Nazarian AA, Li CC, Gore SL, Sridharan R, Imbalzano AN, Smale ST. Selective and antagonistic functions of SWI/SNF and Mi-2beta nucleosome remodeling complexes during an inflammatory response. Genes & Development. 20: 282-96. PMID 16452502 DOI: 10.1101/Gad.1383206  0.603
2005 Cobb BS, Smale ST. Ikaros-family proteins: in search of molecular functions during lymphocyte development. Current Topics in Microbiology and Immunology. 290: 29-47. PMID 16480038  0.364
2005 Sanjabi S, Williams KJ, Saccani S, Zhou L, Hoffmann A, Ghosh G, Gerondakis S, Natoli G, Smale ST. A c-Rel subdomain responsible for enhanced DNA-binding affinity and selective gene activation. Genes & Development. 19: 2138-51. PMID 16166378 DOI: 10.1101/Gad.1329805  0.628
2005 Dovat S, Montecino-Rodriguez E, Schuman V, Teitell MA, Dorshkind K, Smale ST. Transgenic expression of Helios in B lineage cells alters B cell properties and promotes lymphomagenesis. Journal of Immunology (Baltimore, Md. : 1950). 175: 3508-15. PMID 16148093 DOI: 10.4049/Jimmunol.175.6.3508  0.304
2005 Cobb BS, Nesterova TB, Thompson E, Hertweck A, O'Connor E, Godwin J, Wilson CB, Brockdorff N, Fisher AG, Smale ST, Merkenschlager M. T cell lineage choice and differentiation in the absence of the RNase III enzyme Dicer. The Journal of Experimental Medicine. 201: 1367-73. PMID 15867090 DOI: 10.1084/Jem.20050572  0.399
2005 Su RC, Sridharan R, Smale ST. Assembly of silent chromatin during thymocyte development. Seminars in Immunology. 17: 129-40. PMID 15737574 DOI: 10.1016/J.Smim.2005.01.003  0.596
2004 Su RC, Brown KE, Saaber S, Fisher AG, Merkenschlager M, Smale ST. Dynamic assembly of silent chromatin during thymocyte maturation. Nature Genetics. 36: 502-6. PMID 15098035 DOI: 10.1038/Ng1351  0.378
2004 Zhou L, Nazarian AA, Smale ST. Interleukin-10 inhibits interleukin-12 p40 gene transcription by targeting a late event in the activation pathway. Molecular and Cellular Biology. 24: 2385-96. PMID 14993278 DOI: 10.1128/Mcb.24.6.2385-2396.2004  0.505
2003 Cupit PM, Hansen JD, McCarty AS, White G, Chioda M, Spada F, Smale ST, Cunningham C. Ikaros family members from the agnathan Myxine glutinosa and the urochordate Oikopleura dioica: emergence of an essential transcription factor for adaptive immunity. Journal of Immunology (Baltimore, Md. : 1950). 171: 6006-13. PMID 14634112 DOI: 10.4049/Jimmunol.171.11.6006  0.802
2003 Liberg D, Smale ST, Merkenschlager M. Upstream of Ikaros. Trends in Immunology. 24: 567-70. PMID 14596876 DOI: 10.1016/J.It.2003.09.008  0.413
2003 Papathanasiou P, Perkins AC, Cobb BS, Ferrini R, Sridharan R, Hoyne GF, Nelms KA, Smale ST, Goodnow CC. Widespread failure of hematolymphoid differentiation caused by a recessive niche-filling allele of the Ikaros transcription factor. Immunity. 19: 131-44. PMID 12871645 DOI: 10.1016/S1074-7613(03)00168-7  0.795
2003 Smale ST. A Th2 cytokine LCR. Adding a new piece to the regulatory puzzle. Immunity. 19: 1-2. PMID 12871632 DOI: 10.1016/S1074-7613(03)00180-8  0.329
2003 Bradley MN, Zhou L, Smale ST. C/EBPbeta regulation in lipopolysaccharide-stimulated macrophages. Molecular and Cellular Biology. 23: 4841-58. PMID 12832471 DOI: 10.1128/Mcb.23.14.4841-4858.2003  0.744
2003 Smale ST. The establishment and maintenance of lymphocyte identity through gene silencing. Nature Immunology. 4: 607-15. PMID 12830135 DOI: 10.1038/Ni0703-607  0.422
2003 Smale ST, Kadonaga JT. The RNA polymerase II core promoter. Annual Review of Biochemistry. 72: 449-79. PMID 12651739 DOI: 10.1146/Annurev.Biochem.72.121801.161520  0.644
2003 Ronni T, Agarwal V, Haykinson M, Haberland ME, Cheng G, Smale ST. Common interaction surfaces of the toll-like receptor 4 cytoplasmic domain stimulate multiple nuclear targets. Molecular and Cellular Biology. 23: 2543-55. PMID 12640135 DOI: 10.1128/Mcb.23.7.2543-2555.2003  0.575
2003 McCarty AS, Kleiger G, Eisenberg D, Smale ST. Selective dimerization of a C2H2 zinc finger subfamily. Molecular Cell. 11: 459-70. PMID 12620233 DOI: 10.1016/S1097-2765(03)00043-1  0.764
2002 Dovat S, Ronni T, Russell D, Ferrini R, Cobb BS, Smale ST. A common mechanism for mitotic inactivation of C2H2 zinc finger DNA-binding domains. Genes & Development. 16: 2985-90. PMID 12464629 DOI: 10.1101/Gad.1040502  0.789
2002 Smale ST, Fisher AG. Chromatin structure and gene regulation in the immune system. Annual Review of Immunology. 20: 427-62. PMID 11861609 DOI: 10.1146/Annurev.Immunol.20.100301.064739  0.502
2001 Liston DR, Lau AO, Ortiz D, Smale ST, Johnson PJ. Initiator recognition in a primitive eukaryote: IBP39, an initiator-binding protein from Trichomonas vaginalis. Molecular and Cellular Biology. 21: 7872-82. PMID 11604521 DOI: 10.1128/Mcb.21.22.7872-7882.2001  0.47
2001 Smale ST. Core promoters: active contributors to combinatorial gene regulation. Genes & Development. 15: 2503-8. PMID 11581155 DOI: 10.1101/Gad.937701  0.521
2001 Trinh LA, Ferrini R, Cobb BS, Weinmann AS, Hahm K, Ernst P, Garraway IP, Merkenschlager M, Smale ST. Down-regulation of TDT transcription in CD4(+)CD8(+) thymocytes by Ikaros proteins in direct competition with an Ets activator. Genes & Development. 15: 1817-32. PMID 11459831 DOI: 10.1101/Gad.905601  0.792
2001 Weinmann AS, Mitchell DM, Sanjabi S, Bradley MN, Hoffmann A, Liou HC, Smale ST. Nucleosome remodeling at the IL-12 p40 promoter is a TLR-dependent, Rel-independent event. Nature Immunology. 2: 51-7. PMID 11135578 DOI: 10.1038/83168  0.8
2000 Sanjabi S, Hoffmann A, Liou HC, Baltimore D, Smale ST. Selective requirement for c-Rel during IL-12 P40 gene induction in macrophages. Proceedings of the National Academy of Sciences of the United States of America. 97: 12705-10. PMID 11058167 DOI: 10.1073/Pnas.230436397  0.644
2000 Cobb BS, Morales-Alcelay S, Kleiger G, Brown KE, Fisher AG, Smale ST. Targeting of Ikaros to pericentromeric heterochromatin by direct DNA binding. Genes & Development. 14: 2146-60. PMID 10970879 DOI: 10.1101/Gad.816400  0.383
2000 Brightbill HD, Plevy SE, Modlin RL, Smale ST. A prominent role for Sp1 during lipopolysaccharide-mediated induction of the IL-10 promoter in macrophages. Journal of Immunology (Baltimore, Md. : 1950). 164: 1940-51. PMID 10657644 DOI: 10.4049/Jimmunol.164.4.1940  0.733
1999 Ernst P, Hahm K, Cobb BS, Brown KE, Trinh LA, McCarty AS, Merkenschlager M, Klug CA, Fisher AG, Smale ST. Mechanisms of transcriptional regulation in lymphocyte progenitors: insight from an analysis of the terminal transferase promoter. Cold Spring Harbor Symposia On Quantitative Biology. 64: 87-97. PMID 11232341 DOI: 10.1101/Sqb.1999.64.87  0.802
1999 Weinmann AS, Plevy SE, Smale ST. Rapid and selective remodeling of a positioned nucleosome during the induction of IL-12 p40 transcription. Immunity. 11: 665-75. PMID 10626889 DOI: 10.1016/S1074-7613(00)80141-7  0.742
1999 Brightbill HD, Libraty DH, Krutzik SR, Yang RB, Belisle JT, Bleharski JR, Maitland M, Norgard MV, Plevy SE, Smale ST, Brennan PJ, Bloom BR, Godowski PJ, Modlin RL. Host defense mechanisms triggered by microbial lipoproteins through toll-like receptors. Science (New York, N.Y.). 285: 732-6. PMID 10426995 DOI: 10.1126/Science.285.5428.732  0.697
1998 Smale ST, Jain A, Kaufmann J, Emami KH, Lo K, Garraway IP. The initiator element: a paradigm for core promoter heterogeneity within metazoan protein-coding genes. Cold Spring Harbor Symposia On Quantitative Biology. 63: 21-31. PMID 10384267 DOI: 10.1101/Sqb.1998.63.21  0.364
1998 Hahm K, Cobb BS, McCarty AS, Brown KE, Klug CA, Lee R, Akashi K, Weissman IL, Fisher AG, Smale ST. Helios, a T cell-restricted Ikaros family member that quantitatively associates with Ikaros at centromeric heterochromatin. Genes & Development. 12: 782-96. PMID 9512513 DOI: 10.1101/Gad.12.6.782  0.787
1998 Emami KH, Burke TW, Smale ST. Sp1 activation of a TATA-less promoter requires a species-specific interaction involving transcription factor IID. Nucleic Acids Research. 26: 839-46. PMID 9443978 DOI: 10.1093/Nar/26.3.839  0.468
1998 Klug CA, Morrison SJ, Masek M, Hahm K, Smale ST, Weissman IL. Hematopoietic stem cells and lymphoid progenitors express different Ikaros isoforms, and Ikaros is localized to heterochromatin in immature lymphocytes. Proceedings of the National Academy of Sciences of the United States of America. 95: 657-62. PMID 9435248 DOI: 10.1073/Pnas.95.2.657  0.36
1998 Kaufmann J, Ahrens K, Koop R, Smale ST, Müller R. CIF150, a human cofactor for transcription factor IID-dependent initiator function. Molecular and Cellular Biology. 18: 233-9. PMID 9418870 DOI: 10.1128/Mcb.18.1.233  0.43
1997 Brown KE, Guest SS, Smale ST, Hahm K, Merkenschlager M, Fisher AG. Association of transcriptionally silent genes with Ikaros complexes at centromeric heterochromatin. Cell. 91: 845-54. PMID 9413993 DOI: 10.1016/S0092-8674(00)80472-9  0.391
1997 Emami KH, Jain A, Smale ST. Mechanism of synergy between TATA and initiator: synergistic binding of TFIID following a putative TFIIA-induced isomerization. Genes & Development. 11: 3007-19. PMID 9367983 DOI: 10.1101/Gad.11.22.3007  0.433
1997 Plevy SE, Gemberling JH, Hsu S, Dorner AJ, Smale ST. Multiple control elements mediate activation of the murine and human interleukin 12 p40 promoters: evidence of functional synergy between C/EBP and Rel proteins. Molecular and Cellular Biology. 17: 4572-88. PMID 9234715 DOI: 10.1128/Mcb.17.8.4572  0.466
1997 Smale ST. Transcription initiation from TATA-less promoters within eukaryotic protein-coding genes. Biochimica Et Biophysica Acta. 1351: 73-88. PMID 9116046 DOI: 10.1016/S0167-4781(96)00206-0  0.432
1996 Lo K, Smale ST. Generality of a functional initiator consensus sequence. Gene. 182: 13-22. PMID 8982062 DOI: 10.1016/S0378-1119(96)00438-6  0.413
1996 Ernst P, Hahm K, Trinh L, Davis JN, Roussel MF, Turck CW, Smale ST. A potential role for Elf-1 in terminal transferase gene regulation. Molecular and Cellular Biology. 16: 6121-31. PMID 8887642 DOI: 10.1128/Mcb.16.11.6121  0.625
1996 Kaufmann J, Verrijzer CP, Shao J, Smale ST. CIF, an essential cofactor for TFIID-dependent initiator function. Genes & Development. 10: 873-86. PMID 8846923 DOI: 10.1101/Gad.10.7.873  0.451
1996 Garraway IP, Semple K, Smale ST. Transcription of the lymphocyte-specific terminal deoxynucleotidyltransferase gene requires a specific core promoter structure. Proceedings of the National Academy of Sciences of the United States of America. 93: 4336-41. PMID 8633066 DOI: 10.1073/Pnas.93.9.4336  0.485
1995 Ernst P, Smale ST. Combinatorial regulation of transcription II: The immunoglobulin mu heavy chain gene. Immunity. 2: 427-38. PMID 7749979 DOI: 10.1016/1074-7613(95)90024-1  0.61
1995 Ernst P, Smale ST. Combinatorial regulation of transcription. I: General aspects of transcriptional control. Immunity. 2: 311-9. PMID 7719936 DOI: 10.1016/1074-7613(95)90139-6  0.628
1995 Emami KH, Navarre WW, Smale ST. Core promoter specificities of the Sp1 and VP16 transcriptional activation domains. Molecular and Cellular Biology. 15: 5906-16. PMID 7565743 DOI: 10.1128/Mcb.15.11.5906  0.45
1994 Javahery R, Khachi A, Lo K, Zenzie-Gregory B, Smale ST. DNA sequence requirements for transcriptional initiator activity in mammalian cells. Molecular and Cellular Biology. 14: 116-27. PMID 8264580 DOI: 10.1128/Mcb.14.1.116  0.437
1994 Quon DV, Delgadillo MG, Khachi A, Smale ST, Johnson PJ. Similarity between a ubiquitous promoter element in an ancient eukaryote and mammalian initiator elements. Proceedings of the National Academy of Sciences of the United States of America. 91: 4579-83. PMID 8183951 DOI: 10.1073/Pnas.91.10.4579  0.466
1994 Hahm K, Ernst P, Lo K, Kim GS, Turck C, Smale ST. The lymphoid transcription factor LyF-1 is encoded by specific, alternatively spliced mRNAs derived from the Ikaros gene. Molecular and Cellular Biology. 14: 7111-23. PMID 7935426 DOI: 10.1128/Mcb.14.11.7111  0.654
1994 Kaufmann J, Smale ST. Direct recognition of initiator elements by a component of the transcription factor IID complex. Genes & Development. 8: 821-9. PMID 7926770 DOI: 10.1101/Gad.8.7.821  0.457
1993 Ernst P, Hahm K, Smale ST. Both LyF-1 and an Ets protein interact with a critical promoter element in the murine terminal transferase gene. Molecular and Cellular Biology. 13: 2982-92. PMID 8474456 DOI: 10.1128/Mcb.13.5.2982  0.615
1993 Hahm K, Kim G, Turck CW, Smale ST. Isolation of a murine gene encoding a nucleic acid-binding protein with homology to hnRNP K. Nucleic Acids Research. 21: 3894. PMID 8367306 DOI: 10.1093/Nar/21.16.3894  0.322
1993 Zenzie-Gregory B, Khachi A, Garraway IP, Smale ST. Mechanism of initiator-mediated transcription: evidence for a functional interaction between the TATA-binding protein and DNA in the absence of a specific recognition sequence. Molecular and Cellular Biology. 13: 3841-9. PMID 8321191 DOI: 10.1128/Mcb.13.7.3841  0.478
1991 Lo K, Landau NR, Smale ST. LyF-1, a transcriptional regulator that interacts with a novel class of promoters for lymphocyte-specific genes. Molecular and Cellular Biology. 11: 5229-43. PMID 1922043 DOI: 10.1128/Mcb.11.10.5229  0.503
1991 Sakaguchi M, Zenzie-Gregory B, Groopman JE, Smale ST, Kim SY. Alternative pathway for induction of human immunodeficiency virus gene expression: involvement of the general transcription machinery. Journal of Virology. 65: 5448-56. PMID 1895393 DOI: 10.1128/JVI.65.10.5448-5456.1991  0.374
1990 Smale ST, Schmidt MC, Berk AJ, Baltimore D. Transcriptional activation by Sp1 as directed through TATA or initiator: specific requirement for mammalian transcription factor IID. Proceedings of the National Academy of Sciences of the United States of America. 87: 4509-13. PMID 2141169 DOI: 10.1073/Pnas.87.12.4509  0.606
1989 Smale ST, Baltimore D. The "initiator" as a transcription control element. Cell. 57: 103-13. PMID 2467742 DOI: 10.1016/0092-8674(89)90176-1  0.481
1986 Haltiner MM, Smale ST, Tjian R. Two distinct promoter elements in the human rRNA gene identified by linker scanning mutagenesis. Molecular and Cellular Biology. 6: 227-35. PMID 3785147 DOI: 10.1128/Mcb.6.1.227  0.532
1986 Smale ST, Tjian R. T-antigen-DNA polymerase alpha complex implicated in simian virus 40 DNA replication. Molecular and Cellular Biology. 6: 4077-87. PMID 3025630  0.444
1985 Smale ST, Tjian R. Transcription of herpes simplex virus tk sequences under the control of wild-type and mutant human RNA polymerase I promoters. Molecular and Cellular Biology. 5: 352-62. PMID 2983190  0.517
1983 Learned RM, Smale ST, Haltiner MM, Tjian R. Regulation of human ribosomal RNA transcription. Proceedings of the National Academy of Sciences of the United States of America. 80: 3558-62. PMID 6304717 DOI: 10.1073/Pnas.80.12.3558  0.552
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