The Ding Laboratory

 

 

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Publications:

Original Research Articles:

  1. Zhou, H. et al. Generation of Induced Pluripotent Stem Cells Using Recombinant Proteins. Cell Stem Cell, 4, 381-384, (2009).

  2. Yang, W. et al. Pluripotin combined with leukemia inhibitory factor greatly promotes the derivation of embryonic stem cell lines from refractory strains. Stem Cells 27(2), 383-389, (2009).

  3. Wu, D. et al. A conserved mechanism for control of human and mouse embryonic stem cell pluripotency and differentiation by Shp2 tyrosine phosphatase. PLoS One 4(3), (2009).

  4. Li, W., Wei, W., Zhu, S., Zhu, J., Shi, Y., Lin, T., Hao, E., Hayek, A., Deng, H. and Ding, S. Generation of Rat and Human Induced Pluripotent Stem Cells by Combining Genetic Reprogramming and Chemical Inhibitors. Cell Stem Cell 4, 16-19 (2009).

  5. Shi, Y., Desponts, C., Do, J-T, Hahm, H-S, Schöler, H.R. & Ding, S. Induction of pluripotent stem cells from mouse embryonic fibroblasts by oct4 and klf4 with small-molecule compounds. Cell Stem Cell 3, 568-574, (2008).

  6. Shi, Y., Do, J-T, Desponts, C., Hahm, H-S, Schöler, H.R. & Ding, S. A combined chemical and genetic approach for the generation of induced pluripotent stem cells. Cell Stem Cell 2, 525-528, (2008).

  7. Qyang, Y., Martin-Puig, S., Chiravuri, M., Chen, S., Granger, A., Bu, L., Jiang, X., Moretti, A., Caron, L., Clarke, J., Laugwitz, K.-L., Moon, R.T., Gruber, P., Ding, S. & Chien, K.R. A cardiac mesenchymal niche differentially controls the pre-specification and renewal of Isl1+ cardiovascular progenitors via a paracrine canonical Wnt pathway. Cell Stem Cell 1, 165-179, (2007).

  8. Chen, S.; Takanashi, S.; Zhang, Q.; Xiong, W.; Peters, E.C.;  Ding, S. & Schultz, P.G.  Reversine induces cellular reprogramming of lineage-committed mammalian cells. Proc. Natl. Acad. Sci. USA, 104: 10482-10487, (2007).

  9. Zhao, Y. and Ding, S. A high-throughput siRNA library screen identifies negative regulators of osteogenesis in human mesenchymal stem cells. Proc. Natl. Acad. Sci. USA, 104: 9673-9678, (2007).

  10. Zhang, Q., Major, B., Takanashi, S., Camp, N.D., Nishiya, N., Ginsberg, M., Schultz, P.G., Moon, R.T. & Ding, S. A small molecule synergist of the Wnt signaling pathway. Proc. Natl. Acad. Sci. USA 104: 7444-7448, (2007).

  11. Chen, S., Zhang, Q., Do, J-T., Yao, S., Yan, F., Peters, E.C., Schöler, H.R., Schultz, P.G. and Ding, S. A small molecule that sustains self-renewal of embryonic stem cells. Proc. Natl. Acad. Sci. USA 103, 17266-17271, (2006).

  12. Belvindrah, R., Nalbant, P., Ding, S., Wu, C., Bokoch, G.M., Mueller, U.  Integrin-linked kinase regulates Bergmann glial differentiation during cerebellar development.    Molecular and Cellular Neuroscience 33(2), 109-125. (2006).

  13. Adrian, F.J., Ding, Q., Sim, T., Velentza, A., Sloan, C., Liu, Y., Zhang, G., Hur, W., Ding, S., Manley, P., Mestan, J., Fabbro, D., Gray, N.S.  Allosteric inhibitors of Bcr-abl-dependent cell proliferation. Nature Chemical Biology 2(2), 95-102. (2006).

  14. Warashina, M., Min, K.H., Kuwabara, T., Huynh, A., Gage, F.H., Schultz, P.G., Ding, S. A novel synthetic small molecule that induces neuronal differentiation of adult hippocampal neural progenitor cells. Angewandte Chemie 45(4), 591-593, (2006).

  15. Yao, S., Chen, S., Hao, E., Beattie, G., Hayek, A. and Ding, S. Long term self-renewal and directed differentiations of human embryonic stem cells in chemically defined conditions, Proc. Natl. Acad. Sci. USA 103, 6907-6912, (2006).

  16. Liu, J., Wu, X., Mitchell, B., Kintner, C., Ding, S. and Schultz, P.G., A small-molecule agonist of the Wnt signaling pathway, Angewandte Chemie 117, 2023-2026, (2005).

  17. Liu, J., Bang, A.G., Kintner, C., Orth, A.P., Chanda, S.K., Ding, S. and Schultz, P.G., Identification of the Wnt signaling activator leucine-rich repeat in Flightless interaction protein 2 by a genome-wide functional analysis, PNAS 102, 1927-1932, (2005).

  18. Wu, X., Walker, J., Zhang, J., Ding, S., and Schultz, P.G. Purmorphamine induces osteogenesis by activation of the hedgehog signaling pathway, Chemistry & Biology 11, 1229-1238, (2004).

  19. Wu, X., Ding, S., Ding, Q., Gray, N.S. and Schultz P.G. “Small Molecules that Induce Cardiomyogenesis in Embryonic Stem Cells”, J. Am. Chem. Soc 126, 1590-1591, (2004).

  20. Zheng, L., Liu, J., Batalov, S., Zhou, D., Orth, A., Ding, S. and Schultz, P.G. “An approach to genome-wide screens of expressed small interfering RNAs in mammalian cells”, Proc. Natl. Acad. Sci. USA, 101, 135-140, (2004).

  21. Chen, S., Zhang, Q., Wu, X., Schultz, P.G. and Ding, S. “Dedifferentiation of Lineage-Committed Cells by a Small Molecule”, J. Am. Chem. Soc. 126, 410-411, (2004).

  22. Wu, T.Y.H., Hassig, C., Wu, Y., Ding S. and Schultz, P.G. “Design, synthesis, and activity of HDAC inhibitors with a N-formyl hydroxylamine head group.” Bioorg Med Chem Lett. 14, 449-453, (2004).

  23. Wu, T.Y.H., Schultz, P.G. and Ding, S. “A One-Pot Two-Step Microwave Assisted Reaction in Constructing 4,5-Disubstituted Pyrazolopyrimidines”, Org. Lett. 5, 3587-90, (2003).

  24. Ding, S., Wu, T.Y.H., Brinker, A., Peters, E.C., Hur, W., Gray, N.S., Schultz, P.G. “Synthetic Small Molecules that Control Stem Cell Fate” Proc. Natl. Acad. Sci. USA 100, 7632-7637, (2003).

  25. Trnka, T.M., Morgan, J.P., Sanford, M.S., Wilhelm, T.E., Scholl, M., Choi, T.-L., Ding, S., Day, M.W., Grubbs, R.H. “Synthesis and Activity of Ruthenium Alkylidene Complexes Coordinated with Phosphine and N-Heterocyclic Carbene Ligands.”  J. Am. Chem. Soc. 125, 2546-2558, (2003).

  26. Wu, X., Ding, S., Ding, Q., Gray, N.S., Schultz, P.G. “A Small Molecule with Osteogenesis-Inducing Activity in Multipotent Mesenchymal Progenitor Cells.” J. Am. Chem. Soc. 124, 14520-14521, (2002).

  27. Chapman, E., Ding, S., Schultz, P.G., Wong, C.-H. “A Potent and Highly Selective Sulfotransferase Inhibitor.” J. Am. Chem. Soc. 124, 14524-14525, (2002).

  28. Chang, Y.-T., Choi, J., Ding, S., Prieschl, E.E., Baumruker, T., Lee, J.-M., Chung, S.-K., Schultz, P.G. “The Synthesis and Biological Characterization of a Ceramide Library.” J. Am. Chem. Soc. 124, 1856-1857, (2002).

  29. Ding, S., Gray, N.S., Wu, X., Ding, Q., Schultz, P.G. “A Combinatorial Scaffold Approach toward Kinase-Directed Heterocycle Libraries.” J. Am. Chem. Soc. 124, 1594-1596, (2002).

  30. Ding, S., Gray, N.S., Ding, Q., Wu, X., Schultz, P.G. “Resin-Capture and Release Strategy toward Combinatorial Libraries of 2,6,9-Substituted Purines.” J. Comb. Chem.  4, 183-186, (2002).

  31.  Ding, S., Gray, N.S., Ding, Q., Schultz, P.G. “Expanding the diversity of purine libraries.” Tetrahedron Lett.  42, 8751-8755, (2001).

  32. Wu, T.Y.H., Ding, S., Gray, N.S., Schultz, P.G. “Solid-Phase Synthesis of 2,3,5-Trisubstituted Indoles.” Org. Lett. 3, 3827-3830, (2001).

  33. Ding, S., Gray, N.S., Ding, Q., Schultz, P.G. “A Concise and Traceless Linker Strategy toward Combinatorial Libraries of 2,6,9-Substituted Purines.” J. Org. Chem. 66, 8273-8276, (2001).

  34. Kielkopf, C.L., Ding, S., Kuhn, P., Rees, D.C. “Conformational Flexibility of B-DNA at 0.74 .ANG. Resolution: d(CCAGTACTGG)2.” J.M.B. 296, 787-801, (2000).

  35. Scholl, M., Ding, S., Lee, C.W., Grubbs, R.H. “Synthesis and Activity of a New Generation of Ruthenium-Based Olefin Metathesis Catalysts Coordinated with 1,3-Dimesityl-4,5-dihydroimidazol-2-ylidene Ligands.” Org. Lett. 1, 953-956, (1999).

 

Invited Reviews & Book Chapters:

1.      Ding, S. and Schultz, P.G. A role for chemistry in stem cell biology, Nature Biotechnology 22, 833-840, (2004).

2.      Zheng, L. and Ding, S. Mammalian genome-wide loss-of-function screens using arrayed small interfering RNA expression libraries, Discovery Medicine 4, 102-105 (2004).

3.      Ding, S. and Schultz, P.G., Small molecules and future regenerative medicine, Current Topics in Medicinal Chemistry 5, 383-396 (2005).

4.      Chen, S., Hilcove, S. and Ding, S. Exploring stem cell biology with small molecules. Molecular Biosystems 2(1), 18, (2006).

5.      Zhao, Y., Clark, J. Ding, S.  Genomic studies in stem cell systems. Current Opinion in Molecular Therapeutics 7(6), 543-550, (2005).

6.      Clark J, Ding S. Generation of RNAi Libraries for High-Throughput Screens. J Biomed Biotechnol. 4, 45716, (2006).

7.      Wu, T.Y.H. and Ding, S. Applying chemical tools to the discovery of novel regenerative medicine, Drug Discovery Today: Technologies, 3, 255-260, (2006).

8.      Wu, T.Y.H. and Ding, S. “Target validation in chemogenomics”. Target Validation in Drug Discovery, Academic Press/Elsevier, Inc. San Diego, CA (2006).

9.      Chen, S. and Ding, S. “GSK3 and stem cells”. GSK and its inhibitors, John Wiley & Sons, Inc. Hoboken, NJ (2006).

10.  Wen, X. and Ding, S. “Chemical and functional genomic approaches to study stem cell biology and regeneration”, Principles of Developmental Genetics, Academic Press/Elsevier, Inc. San Diego, CA (2006).

11.  Clark, JH and Ding, S. “Controlling self-renewal and differentiation of hES cells in chemically defined conditions”. Human embryonic stem cells: a practical handbook, John Wiley & Sons, Inc. Hoboken, NJ (2007).

12.  Xu, Y. and Ding, S. “Small Molecules in Stem Cell Research”, Wiley Encyclopedia of Chemical Biology, John Wiley & Sons, Inc. Hoboken, NJ (2007).

13.  Editor and contributor, Functional Genomics in Stem Cells. John Wiley & Sons, Inc. Hoboken, NJ (2007).

14.  Emre, N., Coleman, R. & Ding, S. Current Opinion in Chemical Biology 11:252–258, (2007).

15. Ambasudhan, R., Ding, S. An "Orphan" Finds a Home in NSC Regulation. Chemistry & Biology 14(9), 974-975, (2007).

16. Xu, Y., Shi, Y. & Ding, S. A chemical approach to stem cell biology and regenerative medicine. Nature 453, 338-44 (2008).

17. Editor and contributor, “Dedifferentiation and Reprogramming” series in Methods in Molecular Biology, (2009).

18. Abujarour, R.  & Ding, S. Induced pluripotent stem cells free of exogenous reprogramming factors. Genome Biology 10:220, (2009).

 

Patents:

1.          Ding, S., Ding, Q., Gray, N.S., Schultz, P.G. Methods for the synthesis of substituted purines. PCT Int. Appl. (2003), WO 2003031405 A2 20030417.

2.          Ding, S.; Ding, Q.; Gray, N.S. C2-, C6- and 9-Aryl-substituted purine and other heteroaryl kinase inhibitor scaffolds and methods for their preparation. PCT Int. Appl. (2003), WO 2003031406 A2 20030417.

3.          Liao, J., Ding, S., Schultz, P.G. cDNAs encoding human sweet taste receptors and methods for drug screening. PCT Int. Appl. (2003), WO 2003025137 A2 20030327.

4.          Ding, S., Wu, T., Gray, N., Schultz, P.G.  Kinase-modulating heterocyclic compounds that induce neuronal differentiation in embryonic stem cells, and useful in the treatment of kinase signalling-associated diseases. PCT Int. Appl.  (2004), WO 2004093812 A2 20041104.

5.          Wu, X., Ding, S., Gray, N.S.  Purine derivatives for inducing osteogenesis. U.S. Pat. Appl. Publ. (2004), US 2004157864 A1 20040812.

6.          Wu, X., Ding, S., Schultz, P.G. 2,4-Diaminopyrimidines as inducers of cardiomyogenesis, their preparation and use in the treatment of cardiomyopathy. PCT Int. Appl. (2005), WO 2005068437 A1 20050728.

7.          Chen, S., Ding, S., Schultz, P.G.   Compositions and methods for inducing cell dedifferentiation.  PCT Int. Appl.  (2005), WO 2005047524 A2 20050526.

8.          Zheng, L.; Ding, S.; Schultz, P.G. PCR-derived siRNA expression cassettes comprising dual polIII promoters. PCT Int. Appl. (2005), WO 2005021733 A2 20050310.

9.          Ding, S.; Liu, J., Schultz, P.G.  Pyrimidine compounds and compositions as Wnt signaling pathway modulators. PCT Int. Appl. (2006), WO 2006078886 A2 20060727.

10.      Wu, Xu; Ding, Sheng; Schultz, Peter G.  Compounds and compositions as hedgehog pathway modulators.    PCT Int. Appl. (2006), WO 2006050351 A2 20060511.

11.      Liao, J., Ding, S., Rosen, H., Schultz, P.G.  Methods and compositions using G protein-coupled receptor GPR43 or GPR41 modulators for treating insulin resistance and obesity-induced diseases, and screening methods.    PCT Int. Appl.  (2006), WO 2006102653 A2 20060928.

12.      Chen, S.; Ding, S.; Yan, F.; Schultz, P.G.  Preparation of pyrimidopyrimidinones that maintain pluripotency of embryonic stem cells.  PCT Int. Appl. (2006), WO 2006135824 A1 20061221.

13.      Zhang, Q.; Ding, S.; Schultz, P.G.  Methods and compositions for modulating WNT signaling pathway. PCT Int. Appl. (2006), WO 2006116503 A2 20061102.

14.      Micklash, K.J.; Hong, J.; Mainquist, J. K.; Ding, S.; Downs, R. C.; Schultz, P.G. Automated cellular assaying systems, high throughput and automated cellular disruption systems for cellular motility assays and other assay types. U.S. Pat. Appl. Publ. (2007), US 2007105214 A1 20070510.

15.      Warashina, M.; Min, K.H.; Gage, F.; Schultz, P.G.; Ding, S. Compositions comprising aminothiazole compounds and methods for inducing neuronal differentiation for treating neurodegenerative diseases. PCT Int. Appl. (2007), WO 2007064891 A1 20070607. 

16.      Zhao, Y.X. & Ding, S. Pharmaceutical compositions containing siRNAs for the treatment of osteogenesis by inhibition of osteogenic suppressors. PCT Int. Appl. (2008), WO 2008019159 A2 20080214.

 

Some old stories in the news (Google for more recent ones):

   Regenerative medicine is heating up.

 

Hope for new source of stem cells.

 

   Drug may give cells a fresh start.

 

The Geniuses Of Regeneration

 

 

Dedifferentiation: More Than Reversing Fate

 

CELLULAR U-TURN

 

    A major step seen for stem-cell research.