Thomas Kodadek

Toward synthetic transcription activators: recruitment of transcription factors to DNA by a PNA-peptide chimera.

Magnetic resonance imaging detects a specific peptide-protein binding event.

Recruitment of a 19S proteasome subcomplex to an activated promoter.

Development of protein-detecting microarrays and related devices.

Removal of impurities from transcription factor preparations that alter their DNA-binding properties.

Physical association of the APIS complex and general transcription factors.

Inhibition of proteolysis and other posttranslational modifications with substrate-targeted inhibitors.

A nonproteolytic function of the 19S regulatory subunit of the 26S proteasome is required for efficient activated transcription by human RNA polymerase II.

Microwave-assisted solid-phase synthesis of peptoids.

Protein affinity labeling mediated by genetically encoded peptide tags.

Immobilized peptides as high-affinity capture agents for self-associating proteins.

Mixed-element capture agents: a simple strategy for the construction of synthetic, high-affinity protein capture ligands.

Transcription activation by a PNA-peptide chimera in a mammalian cell extract.

Isolation of protein ligands from large peptoid libraries.

Quantum dots as a visual aid for screening bead-bound combinatorial libraries.

Using oxidative crosslinking and proximity labeling to quantitatively characterize protein-protein and protein-Peptide complexes.

Peptides as modulators of enzymes and regulatory proteins.

Photolithographic synthesis of peptoids.

Physical and functional association of RNA polymerase II and the proteasome.

Target identification in chemical genetics: the (often) missing link.

Toward a general chemical method for rapidly mapping multi-protein complexes.

Transformation of low-affinity lead compounds into high-affinity protein capture agents.

Periodate-triggered cross-linking of DOPA-containing peptide-protein complexes.

Synthetic molecules as antibody replacements.

The potential of protein-detecting microarrays for clinical diagnostics.

Photolithographic synthesis of cyclic peptide arrays using a differential deprotection strategy.

Genomic studies of transcription factor-DNA interactions.

Techniques: Oxidative cross-linking as an emergent tool for the analysis of receptor-mediated signalling events.

A high-throughput assay for assessing the cell permeability of combinatorial libraries.

A potent transactivation domain mimic with activity in living cells.

Protein "fingerprinting" in complex mixtures with peptoid microarrays.

NMR analyses of the activation of the Arp2/3 complex by neuronal Wiskott-Aldrich syndrome protein.

The proteasomal ATPase complex is required for stress-induced transcription in yeast.

Widespread, but non-identical, association of proteasomal 19 and 20 S proteins with yeast chromatin.

Optimized protocols for the isolation of specific protein-binding peptides or peptoids from combinatorial libraries displayed on beads.

Simple reporter gene-based assays for hairpin poly(amide) conjugate permeability and DNA-binding activity in living cells.

Identification of Gal4 activation domain-binding proteins in the 26S proteasome by periodate-triggered cross-linking.

Proteolytic turnover of the Gal4 transcription factor is not required for function in vivo.

Keeping transcriptional activators under control.

Chemistry of periodate-mediated cross-linking of 3,4-dihydroxylphenylalanine-containing molecules to proteins.

The role of the proteasomal ATPases and activator monoubiquitylation in regulating Gal4 binding to promoters.

Isolation and characterization of coactivator-binding peptoids from a combinatorial library.

Introduction to monitoring and manipulating signaling networks.

Genome-wide analysis of human HSF1 signaling reveals a transcriptional program linked to cellular adaptation and survival.

Quantitative evaluation of the relative cell permeability of peptoids and peptides.

A cell-permeable synthetic transcription factor mimic.

A convenient, high-throughput assay for measuring the relative cell permeability of synthetic compounds.

Design and synthesis of a cell-permeable synthetic transcription factor mimic.

Identification of a peptoid inhibitor of the proteasome 19S regulatory particle.

Quantitative comparison of the relative cell permeability of cyclic and linear peptides.

Label transfer chemistry for the characterization of protein-protein interactions.

Dynamics of the hypoxia-inducible factor-1-vascular endothelial growth factor promoter complex.

Periodate-triggered cross-linking reveals Sug2/Rpt4 as the molecular target of a peptoid inhibitor of the 19S proteasome regulatory particle.

The neurohormone orexin stimulates hypoxia-inducible factor-1 activity.

Characterization of proteomic and metabolomic responses to dietary factors and supplements.

A general system for evaluating the efficiency of chromophore-assisted light inactivation (CALI) of proteins reveals Ru(II) tris-bipyridyl as an unusually efficient "warhead".

The detection limit of a Gd3+-based T1 agent is substantially reduced when targeted to a protein microdomain.

Rapid identification of the pharmacophore in a peptoid inhibitor of the proteasome regulatory particle.

Activation domain-dependent monoubiquitylation of Gal4 protein is essential for promoter binding in vivo.

Use of peptide analogue diversity library beads for increased depth of proteomic analysis: application to cerebrospinal fluid.

A peptoid "antibody surrogate" that antagonizes VEGF receptor 2 activity.

High-throughput evaluation of relative cell permeability between peptoids and peptides.

A peptoid antagonist of VEGF receptor 2 recognizes a 'hotspot' in the extracellular domain distinct from the hormone-binding site.

Physical and functional interactions of monoubiquitylated transactivators with the proteasome.

Biochemistry: Molecular cloaking devices.

Proteomes take the electrophilic bait.

The pharmacophore of a peptoid VEGF receptor 2 antagonist includes both side chain and main chain residues.

Rise of the machines: Bruce Alberts and the biochemistry of multi-protein complexes.

Phosphorylation of the Gal4 DNA-binding domain is essential for activator mono-ubiquitylation and efficient promoter occupancy.

Encoded combinatorial libraries for the construction of cyclic peptoid microarrays.

Selective toxin sequestrants for the treatment of bacterial infections.

Rapid identification of improved protein ligands using peptoid microarrays.

Genome-wide analysis of chromatin regulation by cocaine reveals a role for sirtuins.

Peptoids as potential therapeutics.

Imipramine treatment and resiliency exhibit similar chromatin regulation in the mouse nucleus accumbens in depression models.

Investigation of the relative cellular permeability of DNA-binding pyrrole-imidazole polyamides.

Non-proteolytic regulation of p53-mediated transcription through destabilization of the activator.promoter complex by the proteasomal ATPases.

The hydrophobic patch of ubiquitin is required to protect transactivator-promoter complexes from destabilization by the proteasomal ATPases.

Isolation of antagonists of antigen-specific autoimmune T cell proliferation.

No Splicing, no dicing: non-proteolytic roles of the ubiquitin-proteasome system in transcription.

Rapid identification of orexin receptor binding ligands using cell-based screening accelerated with magnetic beads.

Seamless bead to microarray screening: rapid identification of the highest affinity protein ligands from large combinatorial libraries.

Rethinking screening.

Potent and selective photo-inactivation of proteins with peptoid-ruthenium conjugates.

Chemistry and biology of orexin signaling.

The interface of chemical biology and the nervous system (related to the NIDA Chemical Genomics Symposium).

Steroid receptor coactivator-3 expression in lung cancer and its role in the regulation of cancer cell survival and proliferation.

GU81, a VEGFR2 antagonist peptoid, enhances the anti-tumor activity of doxorubicin in the murine MMTV-PyMT transgenic model of breast cancer.

Development of antibody surrogates for the treatment of cancers and autoimmune disease.

Synthetic receptors with antibody-like binding affinities.

MRI detection of VEGFR2 in vivo using a low molecular weight peptoid-(Gd)8-dendron for targeting.

Identification of candidate IgG biomarkers for Alzheimer's disease via combinatorial library screening.

Protein binding: Antibody surrogates click into place.

The rise, fall and reinvention of combinatorial chemistry.

Peptoid ligands that bind selectively to phosphoproteins.

Acyl hydrazides as peptoid sub-monomers.

PDZ dimerization brings proteins together.

Expanded polyglutamine-binding peptoid as a novel therapeutic agent for treatment of Huntington's disease.

A biomimetic polyketide-inspired approach to small-molecule ligand discovery.

Incorporation of heterocycles into the backbone of peptoids to generate diverse peptoid-inspired one bead one compound libraries.

On-Bead Two-Color (OBTC) Cell Screen for Direct Identification of Highly Selective Cell Surface Receptor Ligands.

A Cleavable Scaffold Strategy for the Synthesis of One-Bead One-Compound Cyclic Peptoid Libraries That Can Be Sequenced By Tandem Mass Spectrometry.

Rapid development of a potent photo-triggered inhibitor of the serine hydrolase RBBP9.

Submonomer synthesis of a hybrid peptoid-azapeptoid library.

Synthesis of libraries of peptidomimetic compounds containing a 2-oxopiperazine unit in the main chain.

Discovery of peptoid ligands for anti-aquaporin 4 antibodies.

Synthesis and screening of stereochemically diverse combinatorial libraries of peptide tertiary amides.

Decoding split and pool combinatorial libraries with electron-transfer dissociation tandem mass spectrometry.

Advances in blood-based protein biomarkers for Alzheimer's disease.

Features of modularly assembled compounds that impart bioactivity against an RNA target.

A jack of all trades to combat drug-resistant Gram-negative bacteria.

A liquid array platform for the multiplexed analysis of synthetic molecule-protein interactions.

Discovery of biomarkers for systemic lupus erythematosus using a library of synthetic autoantigen surrogates.

Discovery Of An Orexin Receptor Positive Potentiator.

Utility of redundant combinatorial libraries in distinguishing high and low quality screening hits.