Paul Knoepfler, Ph.D.
633A Shriners Hospital
Sacramento Campus


We are analyzing how the pluripotency control machinery goes awry during cancer. Our lab studies the molecular programming of embryonic and neural stem cells as well as cancer stem cells. We are studying the genomic and epigenomic events that inflence pluripotency and tumorigenicity. We are particularly interested in pediatric nervous system tumors, but also glioblastoma.

For more information please visit the Knoepfler lab homepage at:

2016  To CRISPR and beyond: the evolution of genome editing in stem cells. Chen KY, Knoepfler PS., Regen Med. 2016 Dec;11(8):801-816. PMID: 27905217

2016  Turner L, Knoepfler P. Selling Stem Cells in the USA: Assessing the Direct-to-Consumer Industry. Cell Stem Cell. 2016 Jun 29. pii: S1934-5909(16)30157-6. doi: 10.1016/j.stem.2016.06.007. [Epub ahead of print] PubMed PMID: 27374789.

2016  Review of Stem Cell Dialogues by Sheldon Krimsky(1). Knoepfler PS. Am J Bioeth. 2016 Apr;16(4):W12-3. doi: 10.1080/15265161.2016.1145756.

2016  When patients reach out, scientists should reach back carefully. Knoepfler PS. Nat Med. 2016 Mar 3;22(3):230. doi: 10.1038/nm0316-230.

2015  Reviewing post-publication peer review. Knoepfler P., Trends Genet. 2015 May;31(5):221-3. doi: 10.1016/j.tig.2015.03.006. Epub 2015 Apr 4.

2015  From bench to FDA to bedside: US regulatory trends for new stem cell therapies. Knoepfler PS., Adv Drug Deliv Rev. 2015 Mar;82-83C:192-196. doi: 10.1016/j.addr.2014.12.001. Epub 2014 Dec 7. Review.

2014  Histone H3.3 regulates dynamic chromatin states during spermatogenesis. Yuen BT, Bush KM, Barrilleaux BL, Cotterman R, Knoepfler PS. Development. 2014 Aug 19. pii: dev.106450. [Epub ahead of print]

2014  Miz-1 Activates Gene Expression via a Novel Consensus DNA Binding Motif.. Barrilleaux BL, Burow D, Lockwood SH, Yu A, Segal DJ, Knoepfler PS. PLoS One. 2014 Jul 1;9(7):e101151. doi: 10.1371/journal.pone.0101151. eCollection 2014.

2014  Epigenetic mechanisms of tumorigenicity manifesting in stem cells. Tung PY, Knoepfler PS. Oncogene. Jun 16;0. doi: 10.1038/onc.2014.172. [Epub ahead of print]

2013  Histone H3.3 Mutations: A Variant Path to Cancer. BTK Yuen, PS Knoepfler. Cancer cell 24 (5), 567-574.

2013  Identification of DPPA4 and DPPA2 as a Novel Family of Pluripotency‐Related Oncogenes. PY Tung, NV Varlakhanova, PS Knoepfler. STEM CELLS 31 (11), 2330-2342.

2013  Key Action Items for the Stem Cell Field: Looking Ahead to 2014. PS Knoepfler. Stem cells and development.

2013  Scientists: you really need to get out of the lab more. Knoepfler PS. Nat Med. 2013 Sep 6;19(9):1086. doi: 10.1038/nm0913-1086.

2013  Chromatin immunoprecipitation assays for myc and N-myc. Barrilleaux BL, Cotterman R, Knoepfler PS. The Myc Gene, 117-133.

2013  Automation of Library Preparation for High-resolution ChIP-seq Profiling. IM Henry, R Cotterman, P Knoepfler, L Comai, RW Kim, H O'Geen. Journal of Biomolecular Techniques. 2013. JBT 24 (Suppl), S45.

2013  Laskowski AI and Knoepfler PS. Myc binds the pluripotency factor Utf1 through the basic-helix-loop-helix leucine zipper domain. Biochemical and biophysical research communications.

2013  Endogenous mammalian histone H3.3 exhibits chromatin-related functions during development. Bush KM, Yuen BT, Barrilleaux BL, Riggs JW, O Geen H, Cotterman R, Knoepfler PS. Epigenetics Chromatin. 2013 Apr 9;6(1):7.

2013  Riggs JW,
Barrilleaux B,
Varlakhanova N,
Bush K,
Chan V,
and Knoepfler PS. Induced pluripotency and oncogenic transformation are related processes. Stem Cells & Dev. 2013 Jan 1;22(1):37-50.

2013  Knoepfler PS. Call for fellowship programs in stem cell-based regenerative and cellular medicine: new stem cell training is essential for physicians. Regen Med. 2013 Mar;8(2):223-5.

2012  Meissen JK , Yuen BTK, Kind T, Riggs JW, Barupala DK, Knoepfler PK*, and Fiehn O*. Induced pluripotent stem cells show metabolomic differences to embryonic stem cells in polyunsaturated phosphatidylcholines and primary metabolism. PLoS One 2012;7(10):e46770. *co-corresponding authors.

2012  Laskowski AI and Knoepfler PS. Utf1: Goldilocks for ESC bivalency. Cell Stem Cell 2012; Dec 7;11(6):732-4.

2012  Pshenichnaya ISchouwey KArmaro MLarue LKnoepfler PSEisenman RNTrumpp ADelmas V, and Beermann F. Constitutive gray hair in Mice induced by Melanocyte-specific deletion of c-Myc. Pigment Cell Melanoma Res. 2012 Mar 15.

2012  Martínez-Cerdeño V, Lemen JM, Chan V, Wey A, Lin W, Dent SR, and Knoepfler PS. N-Myc and GCN5 regulate significantly overlapping transcriptional programs in neural stem cells. PLoS One. 2012;7(6):e39456.

2012  Knoepfler PS. Key anticipated regulatory issues for clinical use of human induced pluripotent stem cells. Regenerative Medicine. 2012. 2012; Sep;7(5):713-20.

2011  Dominguez-Frutos E.,  Lopez Hernandez I., Vendrell V., Gallozzi M., Gutsche K., Sharpe J., Knoepfler PS, Eisenman RN, Trumpp A., and Schimmang T. N-myc controls proliferation, morphogenesis and patterning of the inner ear.  J. NeuroSci. 2011 31(19):7178-89.

2011  Barrilleaux B. and Knoepfler PS. Inducing iPS cells to escape the dish. Cell Stem Cell. 2011 Aug 5;9(2):103-11.

2011  Varlakhanova NV, Cotterman RF, Bradnam K, Korf I, and Knoepfler PS. Myc and Miz-1 have coordinate genomic functions including targeting Hox genes in human embryonic stem cells. Epigenetics & Chromatin. 2011 Nov 4;4(1):20.

Knoepfler PS. My Year As A Stem Cell Blogger. Nature. 475(7357):425.

2011  Barrilleaux B. and Knoepfler PS. Overexpression of oncogenes in human cells using ecotropic lentivirus for enhanced biosafety. J Vis Exp. 2011 Jul 24;(53). pii: 2822

2011  Domínguez-Frutos E, López-Hernández I, Vendrell V, Neves J, Gallozzi M, Gutsche K, Quintana L, Sharpe J, Knoepfler PS, Eisenman RN, Trumpp A, Giráldez F, Schimmang T. N-myc Controls Proliferation, Morphogenesis, and Patterning of the Inner Ear. J. Neurosci 2011 31(19): 7178-7189.

  • Leukemia & Lymphoma Society Special Fellowship, 2002-2005
  • Howard Temin Award, NCI, 2005-2010
  • Brain Tumor Society Award: 2007-8 Steven C. Higgins Leadership Chair of Research
  • March of Dimes Basil O'Conner Starter Scholar Award, 2008-9.
  • CIRM New Faculty Award: 2009-2014
  • National Institute of Health
  • CA Institute for Regenerative Medicine
  • National Cancer Institute Howard Temin Award Grant
  • St. Baldrick's Foundation
  • MCB 213, Developmental Biology
  • CHA 402, Cell and Tissue Biology
  • CHA 199, Undergraduate Research
  • NSC 290C, Research Conference in Neuroscience
  • NSC 299, Graduate Research