Publications

Noyes MB, Christensen RG, Wakabayashi A, Stormo GD, Brodsky MH and Wolfe, S.A. (2008) Analysis of homeodomain specificities allows the family-wide prediction of preferred recognition sites. Cell.  133, 1277-1289.

O'Brien K, Matlin AJ, Lowell AM and Moore MJ (2008) The Biflavonoid Isoginkgetin Is a General Inhibitor of Pre-mRNA Splicing.  J Biol Chem. 283, 33147-33154.

Zhang S, Metelev V, Tabatadze D, Zamecnik P and Bogdanov A Jr. (2008) Near-infrared fluorescent oligodeoxyribonucleotide reporters for sensing NF-kappaB DNA interactions in vitro.  Oligonucleotides. 18, 235-243.

Meng X, Noyes MB, Zhu LJ, Lawson ND, and Wolfe SA (2008) Targeted gene inactivation in zebrafish using engineered zinc-finger nucleases.  Nat Biotechnol. 26, 695-701

Morin TJ and Kobertz WR (2008)  Tethering chemistry and K+ channels.  J Biol Chem. 283, 25105-25109.

Song J, Xu J, Filion T, Saiz E, Tomsia AP, Lian JB, Stein GS, Ayers DC, and Bertozzi CR (2008)  Elastomeric high-mineral content hydrogel-hydroxyapatite composites for orthopedic applications.  J Biomed Mater Res A 

Altman MD, Ali A, Reddy GS, Nalam MN, Anjum SG, Cao H, Chellappan S, Kairys V, Fernandes MX, Gilson MK, Schiffer CA, Rana TM and Tidor B  (2008)  HIV-1 protease inhibitors from inverse design in the substrate envelope exhibit subnanomolar binding to drug-resistant variants.  J Am Chem Soc. 130, 6099-6113.

Zhang S, Metelev V, Tabatadze D, Zamecnik PC and Bogdanov A Jr. (2008) Fluorescence resonance energy transfer in near-infrared fluorescent oligonucleotide probes for detecting protein-DNA interactions.  Proc Natl Acad Sci U S A. 105, 4156-4161.

Morin TJ and Kobertz WR (2008) Counting Membrane-embedded KCNE β-subunits in Functioning K+ Channel Complexes. Proc Natl Acad Sci USA. 105, 1478-1482.

Noyes MB, Meng X, Wakabayashi A, Sinha S, Brodsky MH  and Wolfe SA (2008) A systematic characterization of factors that regulate Drosophila segmentation via a bacterial one-hybrid system.  Nucleic Acids Res. 36, 2547-2560.

Bhunia AK and Miller SC (2007) Labeling Tetracysteine-Tagged Proteins with a SplAsH of Color: A Modular Approach to Bis-Arsenical Fluorophores. ChemBioChem. 8, 1642-1645.

Querol M, Bennett DG, Sotak C, Kang, HW and Bogdanov A Jr. (2007) A Paramagnetic Contrast Agent for Detecting Tyrosinase Activity. ChemBioChem. 8, 1637-1641.

Meng X, Thibodeau-Beganny S, Jiang T, Joung JK and Wolfe SA (2007) Profiling the DNA-binding specificities of engineered Cys2His2 zinc finger domains using a rapid cell-based method. Nucleic Acids Res. 35, e81.

Kaufman JD, Song J and Klapperich CM (2007) Nanomechanical analysis of bone tissue engineering scaffolds. J Biomed Mater Res. 81A, 611-623.

Chellappan S, Reddy K, Ali A, Altman MD, Nalam M, Cao H, Kairys V, Fernandes MX, Tidor B, Rana TM, Schiffer CA and Gilson M (2007) Design of Mutation-Resistant HIV Protease Inhibitors with the Substrate Envelope Hypothesis. Chem Biol Drug Des. 69, 298-313.

Robb GB and Rana TM (2007) RNA Helicase A Interacts with RISC in Human Cells and Functions in RISC Loading. Mol Cell. 26, 523-537.

Morin TJ and Kobertz WR (2007) A Derivatized Scorpion Toxin Reveals the Functional Output of Heteromeric KCNQ1-KCNE K+ Channel Complexes. ACS Chem Biol. 2, 469-473.

Baigude H, McCarroll J, Yang CS, Swain PM and Rana TM (2007) Design and creation of new nanomaterials for therapeutic RNAi. ACS Chem Biol. 2, 237-241.

Bogdanov A Jr., Kang HW, Querol M, Pretorius PH and Yudina A (2007) Synthesis and testing of a binary catalytic system for imaging of signal amplification in vivo. Bioconjug Chem. 18, 1123-1130.

Ali A, Reddy GS, Cao H, Anjum SG, Nalam MN, Schiffer CA and Rana TM (2006) Discovery of HIV-1 protease inhibitors with picomolar affinities incorporating N-aryl-oxazolidinone-5-carboxamides as novel P2 ligands. J Med Chem. 49, 7342-7356.

Meng X and Wolfe SA (2006) Identifying DNA sequences recognized by a transcription factor using a bacterial one-hybrid system. Nature Protoc. 1, 30-45.

Querol M, Chen JW and Bogdanov A Jr. (2006) A paramagnetic contrast agent with myeloperoxidase-sensing properties. Org Biomol Chem. 4, 1887-1895.

Banerjee P, Weissleder R and Bogdanov A Jr. (2006) Linear polyethyleneimine grafted to a hyperbranched poly(ethylene glycol)-like core: a copolymer for gene delivery. Bioconjug Chem. 17, 125-131.

Chiu YL, Dinesh CU, Chu CY, Ali A, Brown KM, Cao H, and Rana TM (2005) Dissecting RNA-interference pathway with small molecules. Chem Biol. 12, 643

Meng X, Brodsky MH and Wolfe SA (2005) A bacterial one-hybrid system for determining the DNA-binding specificity of transcription factors. Nature Biotechnol. 23, 988-994.

Surleraux D, De Kock H, Verschueren W, Pille GME, Peeters A, De Meyer S, Azijn H, Pauwels R, de Bethune MP, King NM, Prabu-Jeyabalan M, Schiffer CA, Wigerinck P (2005) Design of Protease Inhibitors Active of Multi-drug Resistant Virus. J Med Chem. 48, 1965-1973.

Tomsia AP, Saiz E, Song J and Bertozzi CR (2005) Biomimetic Bonelike Composites and Novel Bioactive Glass Coatings. Adv Eng Mater. 7, 999-1004.

Surleraux D, Tahri A, Verschueren W, Pille GME, Jonckers THM, Peeters A, De Meyer S, Azijn H, Pauwels R, de Bethune MP, King NM, Prabu-Jeyabalan M, Schiffer CA, Wigerinck P (2005) The Discovery and Selection of TMC114, a next generation HIV-1 protease inhibitor. J Med Chem. 48, 1813-1822.

Song J, Malathong V and Bertozzi CR (2005) Mineralization of synthetic polymer scaffolds: A bottom-up approach for the development of artificial bone.  J Am Chem Soc. 127, 3366-3372.