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Group Meeting Papers 2006

Here is a list of research papers that were presented for discussion in our 2006 weekly group meetings. Papers are selected by group members as a means to broaden our knowledge in chemistry and chemical biology.


13 Nov 2006, presented by Chris DiBlasi
Design and characterization of a thyroid hormone receptor α (TRα)-specific agonist.
Ocasio, C. A; Scanlan, T. S.* ACS Chem. Biol. 2006, 1, 585-593.
[ Abstract ]

30 Oct 2006, presented by Guodong Liu
Structural and mechanistic insights into polyketide macrolactonization from polyketide-based affinity labels.
Giraldes, J. W.; Akey, D. L.; Kittendorf, J. D.; Sherman, D. H.; Smith, J. L.;* Fecik, R. A.* Nat. Chem. Biol. 2006, 2, 531-536.
[ Abstract ]

25 Sep 2006, presented by Justin Cisar
Global mapping of pharmacological space.
Paolini, G. V.; Shapland, R. H. B.; van Hoorn, W. P.; Mason, J. S.; Hopkins, A. L.* Nat. Biotechnol. 2006, 24, 805-815.
[ Abstract ]

11 Sep 2006, presented by Shiying Shang
Sulfation patterns of glycosaminoglycans encode molecular recognition and activity.
Gama, C. I.; Tully, S. E.; Sotogaku, N.; Clark, P. M.; Rawat, M.; Vaidehi, N.; Goddard III, W. A.; Nishi, A.; Hsieh-Wilson, L. C.* Nat. Chem. Biol. 2006, 2, 467-473.
[ Abstract ]

28 Aug 2006, presented by Sirkka Moilanen
A general strategy for creating “inactive-conformation” Abl inhibitors.
Okram, B.; Nagle, A.; Adrián, F. J.; Lee, C.; Ren, P.; Wang, X.; Sim, T.; Xie, Y.; Wang, X.; Xia, G.; Spraggon, G.; Warmuth, M.; Liu, Y.*; Gray, N. S.* Chem. Biol. 2006, 13, 779-786.
[ Abstract ]

26 Jul 2006, presented by Xuequan Lu
Discovery of aminoacyl-tRNA synthetase activity through cell-surface display of noncanonical amino acids.
Link, A. J., Vink, M. K. S.; Agard, N. J.; Prescher, J. A.; Bertozzi, C. R.; Tirrell, D. A.* Proc. Natl. Acad. Sci. USA 2006, 103, 10180-10185.
[ Abstract ]

17 Jul 2006, presented by Hayato Iwadare
Identifying off-target effects and hidden phenotypes of drugs in human cells.
MacDonald, M. L.; Lamerdin, J.; Owens, S.; Keon, B. H.; Bilter, G. K.; Shang, Z.; Huang, Z.; Yu, H.; Dias, J.; Minami, T.; Michnick, S. W.*; Westwick, J. K.* Nat. Chem. Biol. 2006, 2, 329-337.
[ Abstract ]

10 Jul 2006, presented by Justin Potuzak
A new approach for enhancing differential selectivity of drugs to cancer cells.
Duvvuri, M.; Konkar, S.; Hong, K. H.; Blagg, B. S. J.*; Krise, J. P.* ACS Chem. Biol. 2006, 1, 309-315.
[ Abstract ]

5 Jul 2006, presented by Chris DiBlasi
Hypothalamic mTOR signaling regulates food intake.
Cota, D.; Proulx, K.; Blake Smith, K. A.; Kozma, S. C.; Thomas, G.; Woods, S. C.; Seeley, R. J* Science 2006, 312, 927-930.
[ Abstract ]

26 Jun 2006, presented by Shiying Shang
Small molecule-based reversible reprogramming of cellular lifespan.
Won, J.; Kim, M.; Kim, N.; Ahn, J. H.; Lee, W. G.; Kim, S. S.; Chang, K.-Y.; Yi, Y.-W.; Kim, T. K.* Nat. Chem. Biol. 2006, 2, 369-374.
[ Abstract ]

19 Jun 2006, presented by Justin Cisar
Studies related to the relative thermodynamic stability of C-terminal peptidyl esters of o-hydroxy thiophenol: Emergence of a doable strategy for non-cysteine ligation applicable to the chemical synthesis of glycopeptides.
Chen, G.; Warren, J. D.; Chen, J.; Wu, B.; Wan, Q.; Danishefsky, S. J.* J. Am. Chem. Soc. 2006, 128, 7460-7462.
[ Abstract ]

12 Jun 2006, presented by Sirkka Moilanen
Total syntheses of hexacyclinol, 5-epi-hexacyclinol, and desoxohexacyclinol unveil an antimalarial prodrug motif.
La Clair, J. J.* Angew. Chem. Int. Ed. 2006, 45, 2769-2773.
[ Abstract ]

Predicting NMR spectra by computational methods: Structure revision of hexacyclinol.
Rychnovsky, S. D.* Org. Lett. 2006, 8, 2895-2898.
[ Abstract ]

29 May 2006, presented by Hayato Iwadare
Mig6 is a negative regulator of EGF receptor-mediated skin morphogenesis and tumor formation.
Ferby, I.; Reschke, M.; Kudlacek, O.; Knyazev, P.; Pantè, G.; Amann, K.; Sommergruber, W.; Kraut, N.; Ullrich, A.; Fässler, R.; Klein, R.* Nat. Med. 2006, 12, 568-573.
[ Abstract ]

15 May 2006, presented by Justin Potuzak
Chemical rescue of a mutant enzyme in living cells.
Qiao, Y.; Molina, H.; Pandey, a.; Zhang, J.; Cole, P. A.* Science 2006, 311, 1293-1297.
[ Abstract ]

8 May 2006, presented by Christine DiBlasi
Reversal to cisplatin sensitivity in recurrent human ovarian cancer cells by NCX-4016, a nitro derivative of aspirin.
Bratasz, A.; Weir, N. M.; Parinandi, N. L.; Zweier, J. L.; Sridhar, R.; Ignarro, L. J.*; Kuppusamy, P.* Proc. Natl. Acad. Sci. USA 2006, 103, 3914-3919.
[ Abstract ]

24 Apr 2006, presented by Justin Cisar
Pharmaco-metabonomic phenotyping and personalized drug treatment.
Clayton, T. A.; Lindon, J. C.; Cloarec, O.; Antti, H.; Charuel, C.; Hanton, G.; Provost, J.-P.; Le Net, J.-L.; Baker, D.; Walley, R. J.; Everett, J. R.; Nicholson, J. K.* Nature 2006, 440, 1073-1077.
[ Abstract ]

17 Apr 2006, presented by Shiying Shang
An shRNA barcode screen provides insight into cancer cell vulnerability to MDM2 inhibitors.
Brummelkamp, T. R.; Fabius, A. W. M.; Mullenders, J.; Madiredjo, M.; Veldds, A.; Kerkhoven, R. M.; Bernards, R.*; Beijersbergen, R. L.* Nat. Chem. Biol. 2006, 2, 202-206.
[ Abstract ]

11 Apr 2006, presented by Sirkka Moilanen
Stable benzotriazole esters as mechanism-based inactivators of the severe acute respiratory syndrome 3CL protease.
Wu, C.-Y.; King, K.-Y.; Kuo, C.-J.; Fang, J.-M.; Wu, Y.-T.; Ho, M.-Y.; Liao, C.-L.; Shie, J.-J.; Liang, P.-H.*; Wong, C.-H.* Chem. Biol. 2006, 13, 261-268.
[ Abstract ]

4 Apr 2006, presented by Xuequan Lu
The up-regulation of ferritin expression using a small-molecule ligand to the native mRNA.
Tibodeau, J. D.; Fox, P. M.; Ropp, P. A.; Thiel, E. C.*; Thorp, H. H.* Proc. Natl. Acad. Sci. USA 2006, 103, 253-257.
[ Abstract ]

27 Mar 2006, presented by Hayato Iwadare
A functional genomics approach to the mode of action of apratoxin.
Luesch, H.*; Chanda, S. K.; Raya, R. M.; DeJesus, P. D.; Orth, A. P.; Walker, J. R.; Belmonte, J. C. I.; Schultz, P. G.* Nat. Chem. Biol. 2006, 2, 158-167.
[ Abstract ]

13 Mar 2006, presented by Justin Potuzak
Allosteric inhibitors of Bcr-abl-dependent cell proliferation.
Adrián, 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.* Nat. Chem. Biol. 2006, 2, 95-102.
[ Abstract ]

6 Mar 2006, presented by Christine DiBlasi
Virtual and biomolecular screening converge on a selective agonist for GPR30.
Bologa, C. G.; Revankar, C. M.; Young, S. M.; Edwards, B. S.; Arterburn, J. B.; Kiselyov, A. S.; Parker, M. A.; Tkachenko, S. E.; Savchuck, N. P.; Sklar, L. A.; Oprea, T. I.*; Prossnitz, E. R.* Nat. Chem. Biol. 2006, 2, 207-212.
[ Abstract ]

27 Feb 2006, presented by Justin Cisar
Enzymatic tailoring of enterobactin alters membrane partitioning and iron acquisition.
Luo, M.; Lin, H.; Fischbach, M. A.; Liu, D. R.; Walsh, C. T.*; Groves, J. T.* ACS Chem. Biol. 2006, 1, 29-32.
[ Abstract ]

6 Feb 2006, presented by Shiying Shang
The glycosphingolipid globotriaosylceramide in the metastatic transformation of colon cancer.
Kovbasnjuk, O.*; Mourtazina, R.; Baibakov, B.; Wang, T.; Elowsky, C.; Choti, M. A.; Kane, A.; Donowitz, M. Proc. Natl. Acad. Sci. USA 2005, 102, 19087-19092.
[ Abstract ]

30 Jan 2006, presented by Sirkka Moilanen
Microarray-based method for monitoring yeast overexpression strains reveals small-molecule targets in TOR pathway.
Butchers, R. A.; Bhullar, B. S.; Perlstein, E. O.; Marsischky, G.; LaBaer, J.; Schreiber, S. L.* Nat. Chem. Biol. 2006, 2, 103-109.
[ Abstract ]

23 Jan 2006, presented by Xuequan Lu
Small-molecule inhibition of proteasome and aggresome function induces synergistic antitumor activity in multiple myeloma.
Hideshima, T.; Bradner, J. E.; Wong, J.; Chauhan, D.; Richardson, P.; Schreiber, S. L.*; Anderson, K. C.* Proc. Natl. Acad. Sci. USA 2005, 102, 8567-8572.
[ Abstract ]

16 Jan 2006, presented by Hayato Iwadare
R-Ras is a global regulator of vascular regeneration that suppresses intimal hyperplasia and tumor angiogenesis.
Komatsu, M.; Ruoslahti, E.* Nat. Med. 2005, 11, 1346-1350.
[ Abstract ]

10 Jan 2006, presented by Justin Potuzak
Secramine inhibits Cdc42-dependent functions in cells and Cdc42 activation in vitro.
Pelish, H. E.; Peterson, J. R.; Salvarezza, S. B.; Rodriguez-Boulan, E.; Chen, J.-L.; Stamnes, M.; Macia, E.; Feng, Y.; Shair, M. D.*; Kirchhausen, T.* Nat. Chem. Biol. 2005, 1, 39-46.
[ Abstract ]