Gottesfeld Lab Publications

Selecting and isolating colonies of human induced pluripotent stem cells reprogrammed from adult fibroblasts. Polak U, Hirsch C, Ku S, Gottesfeld J, Dent SY, Napierala M. J Vis Exp. 2012 Feb 20;(60).

A gene expression phenotype in lymphocytes from Friedreich ataxia patients. Coppola G, Burnett R, Perlman S, Versano R, Gao F, Plasterer H, Rai M, Saccá F, Filla A, Lynch DR, Rusche JR, Gottesfeld JM, Pandolfo M, Geschwind DH. Ann Neurol. 2011 Nov;70(5):790-804. doi: 10.1002/ana.22526.

Evaluation of histone deacetylase inhibitors as therapeutics for neurodegenerative diseases. Soragni E, Xu C, Cooper A, Plasterer HL, Rusche JR, Gottesfeld JM.
Methods Mol Biol. 2011;793:495-508.

Introduction to the thematic minireview series on epigenetics.Gottesfeld JM.J Biol Chem. 2011 May 27;286(21):18345-6.

Prolonged treatment with pimelic o-aminobenzamide HDAC inhibitors ameliorates the disease phenotype of a Friedreich ataxia mouse model.Sandi C, Pinto RM, Al-Mahdawi S, Ezzatizadeh V, Barnes G, Jones S, Rusche JR, Gottesfeld JM, Pook MA.Neurobiol Dis. 2011 Jun;42(3):496-505.

Friedreich's ataxia induced pluripotent stem cells model intergenerational GAA⋅TTC triplet repeat instability.Ku S, Soragni E, Campau E, Thomas EA, Altun G, Laurent LC, Loring JF, Napierala M, Gottesfeld JM.Cell Stem Cell. 2010 Nov 5;7(5):631-7.

Development of histone deacetylase inhibitors as therapeutics for neurological disease.
Gottesfeld JM, Pandolfo M.Future Neurol. 2009 Nov 1;4(6):775-784.

Chemical biology meets biological chemistry minireview series.Cravatt BF, Gottesfeld JM.J Biol Chem. 2010 Apr 9;285(15):11031-2.

Two new pimelic diphenylamide HDAC inhibitors induce sustained frataxin upregulation in cells from Friedreich's ataxia patients and in a mouse model.Rai M, Soragni E, Chou CJ, Barnes G, Jones S, Rusche JR, Gottesfeld JM, Pandolfo M.PLoS One. 2010 Jan 21;5(1):e8825.

Reduced histone deacetylase 7 activity restores function to misfolded CFTR in cystic fibrosis.Hutt DM, Herman D, Rodrigues AP, Noel S, Pilewski JM, Matteson J, Hoch B, Kellner W, Kelly JW, Schmidt A, Thomas PJ, Matsumura Y, Skach WR, Gentzsch M, Riordan JR, Sorscher EJ, Okiyoneda T, Yates JR 3rd, Lukacs GL, Frizzell RA, Manning G, Gottesfeld JM, Balch WE.Nat Chem Biol. 2010 Jan;6(1):25-33.

Potent activity against K562 cells by polyamide-seco-CBI conjugates targeting histone H4 genes.Minoshima M, Chou JC, Lefebvre S, Bando T, Shinohara K, Gottesfeld JM, Sugiyama H.Bioorg Med Chem. 2010 Jan 1;18(1):168-74.

Chemical probes identify a role for histone deacetylase 3 in Friedreich's ataxia gene silencing. Xu C, Soragni E, Chou CJ, Herman D, Plasterer HL, Rusche JR, Gottesfeld JM. Chem Biol. 2009 Sep 25;16(9):980-9.

Design and synthesis of novel hybrid benzamide-peptide histone deacetylase inhibitors.
Hu F, Chou CJ, Gottesfeld JM.Bioorg Med Chem Lett. 2009 Jul 15;19(14):3928-31.

Chou, C.J., O’Hare, T., Lefebvre, S., Alvarez, D., Tyner, J.W., Eide, C.A., Druker, B.J. and J.,M. Gottesfeld. Growth arrest of BCR-ABL positive cells with a sequence-specific polyamide-chlorambucil conjugate. PLoS ONE, 3(10):e3593, 2008

Chou, C.J, Herman, D. and J.M. Gottesfeld. Pimelic diphenylamide 106 is a slow, tight-binding inhibitor of class I histone deacetylases. J.Biol. Chem.283(51):35402-9, 2008.

Thomas, E.A., Coppola, G., Desplats, P.A., Tang, B., Soragni, E., Burnett, R., Gao, F., Fitzgerald, K.M., Brook, J.F., Herman, D., Geschwind, D.H. and J.M. Gottesfeld. The HDAC inhibitor 4b ameliorates the disease phenotype and transcriptional abnormalities in Huntington's disease transgenic mice. Proc. Natl. Acad. Sci. USA, 105(40):15564-9, 2008.

Minoshima, M., Chou, C.J., Lefebvre, S., Bando, T., Shinohara, K., Gottesfeld, J.M. and H. Sugiyama. Targeting specific gene by alkylating pyrrole-imidazole polyamides. Nucleic Acids Symp. Ser. (Oxf), (52):363-4, 2008.

Rai, M. Soragni, E., K. Jenssen, R. Burnett, Herman, D., Coppola, G., Geschwind, D.H., Gottesfeld, J.M. and M. Pandolfo. HDAC inhibitors correct frataxin deficiency in a Friedreich ataxia mouse model. PLoS ONE, :e1958, 2008.

Chou, C.J., Farkas, M.E., Tsai, S.M., Alvarez, D., Dervan, P.B. and J.M. Gottesfeld. Small Molecules targeting histone H4 as potential therapeutics for chronic myelogenous leukemia. Mol. Cancer Ther. 4: 769-778, 2008.

Gottesfeld, J.M. Small molecules affecting transcription in Friedreich ataxia. Pharmacol Ther.2: 236-248, 2007.

Tsai, S.M., Farkas, M.E., Chou, C.J., Gottesfeld, J.M. and P.B. Dervan. Unanticipated differences between alpha- and gamma-diaminobutyric acid-linked hairpin polyamide-alkylator conjugates. Nucleic Acids Res. 1: 307-316, 2007

Herman, D., Jenssen, K., Burnett, R., Soragni, E., Perlman, S.L., J.M. Gottesfeld. Histone deacetylase inhibitors reverse gene silencing in Friedreich’s ataxia. Nat. Chem. Bio., 2:551-558, 2006.

Alvarez, D., Chou, C.J., Latell, L., Zeitlin, S.G., Ku, S., Puri, P.L. Dervan, P.B., J.M. Gottesfeld. A Two-Hit Mechanism for Pre-Mitotic Arrest of Cancer Cell Proliferation by a Polyamide Alkylator Conjugate. Cell Cycle, 5:1537-1548, 2006.

Burnett, R., Melander, C., Puckett, J.W., Son., L.S., Wells, R.D., Dervan, P.B., J.M. Gottesfeld. DNA sequence-specific polyamide alleviate transcription inhibition associated with long GAA TTC repeats in Friedreich’s ataxia. Proc. Natl. Acad. Sci., 103:11497-11502, 2006.

Trzupek JD, Gottesfeld JM, Boger DL. Alkylation of duplex DNA in nucleosome core particles by
duocarmycin SA and yatakemycin. Nat Chem Biol. 2:79-82, 2006.

Beltran, A.C., Dawson, P.E., J.M. Gottesfeld. Role of DNA Sequence in the Binding Specificity of Synthetic Basic-Helix-Loop-Helix Domains. ChemBioChem, 6:104-113, 2005.

Gearhart, M.D., L. Dickinson, J. Ehley, C. Melander, P.B. Dervan, P.E. Wright, J.M. Gottesfeld. Inhibition of DNA Binding by Human Estrogen-Related Receptor 2 and Estrogen Receptor alpha with Minor Groove Binding Polyamides. Biochemistry, 44:4196-203, 2005.

Edayathumangalam, R.S., P. Weyermann, P.B. Dervan, J.M. Gottesfeld, and K.Luger. Nucleosomes in Solution exist as a Mixture of Twist-Defect States. J. Mol. Biol., 345:103-14, 2005.

Dickinson, L.A., R. Burnett, C. Melander, B.S. Edelson, P.S. Arora, P.B. Dervan, and J.M. Gottesfeld. Arresting Cancer Proliferation by Small-Molecule Gene Regulation. Chem. & Biol., 11:1583-94, 2004.

Edayathumangalam, R.S., P. Weyermann, J.M. Gottesfeld, P.B. Dervan, and K. Luger. Molecular recognition of the nucleosomal “supergroove”. Proc. Natl. Acad. Sci. USA, 101:6864-6869, 2004.

Thastrom, A., J.M. Gottesfeld, K. Luger, and J. Widom. Histone-DNA Binding Free Energy Cannot Be Measured in Dilution-Driven Dissociation Experiments. Biochemistry, 43:736-741, 2004.

Dervan, P.B., E.J. Fechter, B.S. Edelson, and J.M.Gottesfeld. Regulation of Gene Expression with Pyrrole-Imidazole Polyamides, Pseudo Peptides in Drug Development, ed. P.E. Neilsen (Wiley Europe), 121-152, 2003.

Dudouet, B., R. Burnett, L.A. Dickinson, M.R. Wood, C. Melander, J.M. Belitsky, B. Edelson, N. Wurtz, C. Briehn, P.B. Dervan, and J.M. Gottesfeld. Accessibility of Nuclear Chromatin by DNA-Binding Polyamides. Chem. & Biol., 10:859-867, 2003.

Gottesfeld, J.M., J.M. Belitsky, C. Melander, P.B. Dervan and K. Luger. Blocking Transcription Through a Nucleosome with Synthetic DNA Ligands. J. Mol. Biol., 321:249-263, 2002.

Suto, R.K., R.W. Edayathumangalam, C.L. White, C. Melander, J.M. Gottesfeld, P.B. Dervan, and K. Luger. Crystal Structures of Nucleosome Core Particles in Complex with Minor Groove DNA-binding Ligands. J. Mol. Biol., 326:371-380, 2003.

Dickinson, L.A., A.J. Edgar, J. Ehley and J.M. Gottesfeld. Cyclin L: an RS Domain Protein Involved in Pre-mRNA Splicing. J. Biol. Chem., 277:25465-25473, 2002.

Gottesfeld, J.M. and K. Luger. Energetics and Affinity of the Histone Octamer for Defined DNA Sequences. Biochemistry, 40:10927-10933, 2001.

Gottesfeld, J.M., C. Melander, R.K. Suto, H. Raviol, K. Luger, and P.B. Dervan. Sequence-specific Recognition of DNA in the Nucleosome by Pyrrole-Imidazole Polyamides. J. Mol. Biol., 309:615-629, 2001.

Gottesfeld, J.M., J.M. Turner, and P.B. Dervan. Chemical Approaches to Control Gene Expression. Gene Expression, 9:71-91, 2000.

Winston, R.L., J.A. Ehley, E.E. Baird, P.B. Dervan, and J.M. Gottesfeld. Asymmetric DNA Binding by a Homodimeric bHLH Protein. Biochemistry, 39:9092-9098, 2000.

Winston, R.L. and J.M. Gottesfeld. Rapid Identification of Key Amino Acid-DNA Contacts through Combinatorial Peptide Synthesis. Chem. & Biol., 7:245-251, 2000. Reviewed by S. Nair & S. Burley in Nature "News and Views," Vol. 404, April 13, 2000, pp. 715-718.

Dickinson, L.A., J.W. Trauger, E.E. Baird, P. Ghazal, P.B. Dervan, and J.M. Gottesfeld. Anti-Repression of Polymerase II Transcription by a Designed Ligand. Biochemistry, 38:10801-10807, 1999.

Dickinson, L.A., J.W. Trauger, E.E. Baird, P.B. Dervan, B.J. Graves, and J.M. Gottesfeld. Inhibition of Ets-1 DNA Binding and Ternary Complex Formation Between Ets-1, NF-kB, and DNA by a Designed DNA-Binding Ligand. J. Biol. Chem., 274:12765-12773, 1999.

Dickinson, L.A., R.J. Gulizia, J.W. Trauger, E.E. Baird, D.E. Mosier, J.M. Gottesfeld, and P.B. Dervan. Inhibition of RNA Polymerase II Transcription in Human Cells by Synthetic DNA-Binding Ligands. Proc. Natl. Acad. Sci. USA, 95:12890-12895, 1998.

Long, J.J., A. Leresche, R.W. Kriwacki, and J.M. Gottesfeld. Repression of TFIIH Transcriptional Activity and TFIIH-Associated Cdk7 Kinase Activity at Mitosis. Mol. Cell. Biol., 18:1467-1476, 1998.

Wuttke, D.S., M.P. Foster, D.A. Case, J.M. Gottesfeld, and P.E. Wright. Solution Structure of the First Three Zinc Fingers of TFIIIA Bound to the Cognate DNA Sequence: Determinants of Affinity and Sequence Specificity. J. Mol. Biol., 273:183-206, 1997.

Foster, M.P., D.S. Wuttke, I. Radhakrishnan, D.A. Case, J.M. Gottesfeld, and P.E. Wright. Domain Packing and Dynamics in the DNA Complex of the N-Terminal Zinc Fingers of TFIIIA. Nature Struct. Biol., 4:605-608, 1997.

Gottesfeld, J.M. and D.J. Forbes. Mitotic Repression of the Transcriptional Machinery. Trends Biochem. Sci., 22:197-202, 1997.

Gottesfeld, J.M., L. Neely, J.W. Trauger, E.E. Baird, and P.B. Dervan. Regulation of Gene Expression by Small Molecules. Nature, 387:202-205, 1997.

Gottesfeld, J.M., V.J. Wolf, T. Dang, D.J. Forbes, and P. Hartl. Mitotic Repression of RNA Polymerase III Transcription in Vitro Mediated by Phosphorylation of a TFIIIB Component. Science, 263:81-84, 1994.

Clemens, K.R., V. Wolf, S.J. McBryant, P. Zhang, X. Liao, P.E. Wright, and J.M. Gottesfeld. Molecular Basis for Specific Recognition of both RNA and DNA by a Zinc Finger Protein. Science, 260:530-533, 1993.