Jeff Ranish Group

Dr. Jeff Ranish

PhD, Molecular and Cellular Biology Program
University of Washington

Jeff Ranish

2011
Heldring N, Isaacs GD, Diehl AG, Sun M, Cheung E, Ranish JA, Kraus WL.  2011.  Multiple Sequence-Specific DNA-Binding Proteins Mediate Estrogen Receptor Signaling through a Tethering Pathway. Mol Endocrinol.
2010
Himeda CL, Ranish JA, Pearson RC, Crossley M, Hauschka SD.  2010.  KLF3 regulates muscle-specific gene expression and synergizes with serum response factor on KLF binding sites. Mol Cell Biol. 30:3430-43.
2009
Akiyoshi B, Nelson CR, Ranish JA, Biggins S.  2009.  Analysis of Ipl1-mediated phosphorylation of the Ndc80 kinetochore protein in Saccharomyces cerevisiae. Genetics. 183:1591-5.
Kao SC, Wu H, Xie J, Chang CP, Ranish JA, Graef IA, Crabtree GR.  2009.  Calcineurin/NFAT signaling is required for neuregulin-regulated Schwann cell differentiation. Science. 323:651-4.
Chaturvedi CP, Hosey AM, Palii C, Perez-Iratxeta C, Nakatani Y, Ranish JA, Dilworth FJ, Brand M.  2009.  Dual role for the methyltransferase G9a in the maintenance of beta-globin gene transcription in adult erythroid cells. Proc Natl Acad Sci U S A. 106:18303-8.
Gillespie MA, Le Grand F, Scime A, Kuang S, von Maltzahn J, Seale V, Cuenda A, Ranish JA, Rudnicki MA.  2009.  p38-{gamma}-dependent gene silencing restricts entry into the myogenic differentiation program. J Cell Biol. 187:991-1005.
Akiyoshi B, Nelson CR, Ranish JA, Biggins S.  2009.  Quantitative proteomic analysis of purified yeast kinetochores identifies a PP1 regulatory subunit. Genes Dev. 23:2887-99.
Miles GP, Samuel MA, Ranish JA, Donohoe SM, Sperrazzo GM, Ellis BE.  2009.  Quantitative proteomics identifies oxidant-induced, AtMPK6-dependent changes in Arabidopsis thaliana protein profiles. Plant Signal Behav. 4:497-505.
2008
Qi Y, Ranish JA, Zhu X, Krones A, Zhang J, Aebersold R, Rose DW, Rosenfeld MG, Carriere C.  2008.  Atbf1 is required for the Pit1 gene early activation. Proc Natl Acad Sci U S A. 105:2481-6.
Rubio ED, Reiss DJ, Welcsh PL, Disteche CM, Filippova GN, Baliga NS, Aebersold R, Ranish JA, Krumm A.  2008.  CTCF physically links cohesin to chromatin. Proc Natl Acad Sci U S A. 105:8309-14.
Himeda CL, Ranish JA, Hauschka SD.  2008.  Quantitative proteomic identification of MAZ as a transcriptional regulator of muscle-specific genes in skeletal and cardiac myocytes. Mol Cell Biol. 28:6521-35.
2007
Demers C, Chaturvedi CP, Ranish JA, Juban G, Lai P, Morle F, Aebersold R, Dilworth FJ, Groudine M, Brand M.  2007.  Activator-mediated recruitment of the MLL2 methyltransferase complex to the beta-globin locus. Mol Cell. 27:573-84.
Lessard J, Wu JI, Ranish JA, Wan M, Winslow MM, Staahl BT, Wu H, Aebersold R, Graef IA, Crabtree GR.  2007.  An essential switch in subunit composition of a chromatin remodeling complex during neural development. Neuron. 55:201-15.
Heo K, Kim B, Kim K, Choi J, Kim H, Zhan Y, Ranish JA, An W.  2007.  Isolation and characterization of proteins associated with histone H3 tails in vivo. J Biol Chem. 282:15476-83.
Choi J, Kim B, Heo K, Kim K, Kim H, Zhan Y, Ranish JA, An W.  2007.  Purification and characterization of cellular proteins associated with histone H4 tails. J Biol Chem. 282:21024-31.
Sun B, Ranish JA, Utleg AG, White JT, Yan X, Lin B, Hood L.  2007.  Shotgun glycopeptide capture approach coupled with mass spectrometry for comprehensive glycoproteomics. Mol Cell Proteomics. 6:141-9.
Kim B, Nesvizhskii AI, Rani PG, Hahn S, Aebersold R, Ranish JA.  2007.  The transcription elongation factor TFIIS is a component of RNA polymerase II preinitiation complexes. Proc Natl Acad Sci U S A. 104:16068-73.
Ranish JA, Brand M, Aebersold R.  2007.  Using stable isotope tagging and mass spectrometry to characterize protein complexes and to detect changes in their composition. Methods Mol Biol. 359:17-35.
2006
King NL, Deutsch EW, Ranish JA, Nesvizhskii AI, Eddes JS, Mallick P, Eng J, Desiere F, Flory M, Martin DB et al..  2006.  Analysis of the Saccharomyces cerevisiae proteome with PeptideAtlas. Genome Biol. 7:R106.
2005
Desiere F, Deutsch EW, Nesvizhskii AI, Mallick P, King NL, Eng JK, Aderem A, Boyle R, Brunner E, Donohoe S et al..  2005.  Integration with the human genome of peptide sequences obtained by high-throughput mass spectrometry. Genome Biol. 6:R9.
2004
Brand M, Ranish JA, Kummer NT, Hamilton J, Igarashi K, Francastel C, Chi TH, Crabtree GR, Aebersold R, Groudine M.  2004.  Dynamic changes in transcription factor complexes during erythroid differentiation revealed by quantitative proteomics. Nat Struct Mol Biol. 11:73-80.
Ranish JA, Hahn S, Lu Y, Yi EC, Li XJ, Eng J, Aebersold R.  2004.  Identification of TFB5, a new component of general transcription and DNA repair factor IIH. Nat Genet. 36:707-13.
Giglia-Mari G, Coin F, Ranish JA, Hoogstraten D, Theil A, Wijgers N, Jaspers NG, Raams A, Argentini M, van der Spek PJ et al..  2004.  A new, tenth subunit of TFIIH is responsible for the DNA repair syndrome trichothiodystrophy group A. Nat Genet. 36:714-9.
Warfield L, Ranish JA, Hahn S.  2004.  Positive and negative functions of the SAGA complex mediated through interaction of Spt8 with TBP and the N-terminal domain of TFIIA. Genes Dev. 18:1022-34.
Himeda CL, Ranish JA, Angello JC, Maire P, Aebersold R, Hauschka SD.  2004.  Quantitative proteomic identification of six4 as the trex-binding factor in the muscle creatine kinase enhancer. Mol Cell Biol. 24:2132-43.
Ranish JA, Hahn S, Lu H, Yi EC, Li XJ, Eng J, Aebersold R.  2004.  Quantitative proteomics analysis of an RNA polymerase II transcription complex identifies TFB5, a new component of general transcription factor IIH. Mol Cell Biol. 24:1709-20.
Rani PG, Ranish JA, Hahn S.  2004.  RNA polymerase II (Pol II)-TFIIF and Pol II-mediator complexes: the major stable Pol II complexes and their activity in transcription initiation and reinitiation. Mol Cell Biol. 24:1709-20.
2003
Griffin TJ, Lock CM, Li XJ, Patel A, Chervetsova I, Lee H, Wright ME, Ranish JA, Chen SS, Aebersold R.  2003.  Abundance ratio-dependent proteomic analysis by mass spectrometry. Anal Chem. 75:867-74.
Li XJ, Zhang H, Ranish JA, Aebersold R.  2003.  Automated statistical analysis of protein abundance ratios from data generated by stable-isotope dilution and tandem mass spectrometry. Anal Chem. 75:6648-57.
Ranish JA, Yi EC, Leslie DM, Purvine SO, Goodlett DR, Eng J, Aebersold R.  2003.  The study of macromolecular complexes by quantitative proteomics. Nat Genet. 33:349-55.
2002
Zhou H, Ranish JA, Watts J, Aebersold R.  2002.  Quantitative proteome analysis by solid-phase isotope tagging and mass spectrometry. Nat Biotechnol. 20:512-5.
2001
Ideker T, Thorsson V, Ranish JA, Christmas R, Buhler J, Eng JK, Bumgarner R, Goodlett DR, Aebersold R, Hood L.  2001.  Integrated genomic and proteomic analyses of a systematically perturbed metabolic network. Science. 292:929-34.
Liu Y, Ranish JA, Aebersold R, Hahn S.  2001.  Yeast nuclear extract contains two major forms of RNA polymerase II mediator complexes. J Biol Chem. 276:7169-75.

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