Publications as a Trainee
Learn more about Ziarek’s research contributions during his training through the publications below.
Links to each article's PubMed entry or journal website are included below. If you are unable to retrieve an article, please request a copy by email from joshua.ziarek@northwestern.edu.
- Hitchinson B, Eby JM, Gao X, Guite-Vinet F, Ziarek JJ, Abdelkarim H, Lee Y, Okamoto Y, Shikano S, Majetschak M, Heveker N, Volkman BF, Tarasova NI, & Gaponenko V. 2018. Biased antagonism of CXCR4 avoids antagonist tolerance. Science Signaling, 11:eaat2214.
- Ziarek JJ, Baptista D, & Wagner G. 2018. Recent developments in solution NMR-based molecular biology. Journal of Molecular Medicine, 96:1-8.
- Chhabra S, Fischer P, Takeuchi K, Dubey A, Ziarek JJ, Boeszoermenyi A, Mathieu D, Bermel W, Davey NE, Wagner G, & Arthanari HA. 2018. 15N Detection Harnesses the Slow Relaxation Property of Nitrogen: Delivering Enhanced Resolution for Intrinsically Disordered Proteins. Proceedings of the National Academy of Sciences of the United States of America, 115(8):E1710-1719.
- Ziarek JJ, Kleist AB, London N, Raveh B, Montpas N, Bonneterre J, St-Onge G, DiCosmo-Ponticello CJ, Koplinski CA, Roy I, Stephens B, Thelen S, Veldkamp CT, Coffman FD, Cohen MC, Dwinell MB, Thelen M, Peterson FC, Heveker N, & Volkman BF. 2017. Structural basis for chemokine recognition of a G protein-coupled receptor and implications for receptor activation. Science Signaling, 10:eaah5756.
- Kleist AB, Getschman AE, Ziarek JJ, Nevins AM, Gauthier P-A, Chevigne A, Szpakowska M, & Volkman BF. 2016. New paradigms in chemokine receptor signal transduction: moving beyond the two-site model. Biochemical Pharmacology, 114:53-68.
- Nihongi A, Ziarek JJ, Uttieri M, Sandulli R, Zambianchi E, & Strickler JR. 2016. Behavioral interseasonal adaptations in Daphnia pulicaria (Crustacea: Cladocera) as induced by predation infochemicals. Aquatic Ecology, doi:10.1007/s10452-016-9585-0.
- Smith E, Liu Y, Getschman AE, Peterson FC, Ziarek JJ, Li R, Volkman BF, & Chen Y. 2014. Structural analysis of a novel small molecule ligand bound to the CXCL12 chemokine. Journal of Medicinal Chemistry, 57(22):9693-9699.
- Wommack AJ, Ziarek JJ, Tomaras J, Chileveru HR, Zhang Y, Wagner G, & Nolan EM. 2014. Discovery and characterization of a disulfide-locked C2-symmetric defensin peptide. Journal of the American Chemical Society, 136(39):13494-13497.
- Verkaar F, van Offenbeek J, van der Lee MMC, van Lith LHCJ, Watts AO, Rops ALWMM, Aguilar DC, Ziarek JJ, van der Vlag J, Handel TM, Volkman BF, Proudfoot AEI, Vischer HF, Zaman GJR, & Smit, M.J. 2014. Chemokine cooperativity is caused by competitive glycosaminoglycan binding. Journal of Immunology, 192(8):3908-3914.
- Ziarek JJ★, Getschman AE★, Butler, SJ, Taleski D, Stephens B, Kufareva I, Handel TM, Payne RJ, & Volkman BF. 2013. Sulfopeptide probes of the CXCR4/CXCL12 interface reveal oligomer-specific contacts and chemokine allostery. ACS Chemical Biology, 8:1955-1963. ★Equal contributors.
- Ziarek JJ, Veldkamp CT, Zhang F, Murray NJ, Kartz GA, Liang X, Su J, Baker JE, Lindhardt RJ, & Volkman BF. 2013. Heparin Oligosaccharides Inhibit Chemokine (CXC Motif) Ligand 12 (CXCL12) Cardioprotection by Binding Orthogonal to the Dimerization Interface, Promoting Oligomerization, and Competing with the Chemokine (CXC Motif) Receptor 4 (CXCR4) N Terminus. Journal of Biological Chemistry, 288:737-746.
- Luna RE★, Akabayov SR★, Ziarek JJ★, & Wagner G. 2013. Examining weak protein-protein interactions in start codon recognition via nuclear magnetic resonance spectroscopy. FEBS Journal, 281(8):1965-1973. ★Equal contributors.
- Ziarek JJ★, Liu Y★, Smith E, Chen J, Peterson FC, Zhang G, Yu Y, Chen Y, Volkman BF, & Li R. 2012. Fragment-based optimization of small molecule CXCL12 inhibitors for antagonizing the CXCL12/CXCR4 interaction. Current Topics in Medicinal Chemistry, 12:2727-2740. ★Equal contributors.
- Ziarek JJ & Volkman BF. 2012. NMR in the analysis of functional chemokine interactions and drug discovery. Drug Discovery Today: Technologies, 9:e293-e299.
- Takekoshi T, Ziarek JJ, Volkman BF, & Hwang ST. 2012. A locked, dimeric CXCL12 variant effectively inhibits pulmonary metastasis of CXCR4-expressing melanoma cells due to enhanced serum stability. Molecular Cancer Therapeutics, 11:2516-2525.
- Mysinger MM★, Weiss DR★, Ziarek JJ★, Gravel S, Doak AK, Karpiak J, Heveker N, Shoichet BK, & Volkman BF. 2012. Structure-based ligand discovery for chemokine receptor CXCR4. Proceedings of the National Academy of Sciences of the United States of America, 109: 5517-5522. ★Equal contributors.
- Love M, Sandberg JL, Ziarek JJ, Rode RR, Gerarden KP, Jensen DR, McCastlin D, Peterson FC, & Veldkamp CT. 2012. Solution structure of CCL21 and identification of a putative CCR7 binding site. Biochemistry, 51(3): 733-735.
- Ziarek JJ, Peterson FC, Lytle BL, & Volkman BF. 2011. Chapter ten: Binding site identification and structure determination of protein-ligand complexes by NMR. Methods in Enzymology, 493:241-275.
- Drury LD.★, Ziarek JJ★, Gravel S, Veldkamp CT, Takekoshi T, Hwang ST, Heveker N, Volkman BF, & Dwinell MB. 2011. Monomeric and dimeric CXCL12 inhibit metastasis through distinct CXCR4 interactions and signaling pathways. Proceedings of the National Academy of Sciences of the United States of America, 108: 17655-17660. ★Equal contributors.
- Saini V, Staren DM, Ziarek JJ, Nashaat ZN, Campbell EM, Volkman BF, Marchese A, & Majetschak M. 2011. The CXC chemokine receptor 4 ligands ubiquitin and stromal-cell derived factor-1α function through distinct receptor interactions. Journal of Biological Chemistry, 286: 33466-33477.
- Ziarek JJ, Heroux MS, Veldkamp CT, Peterson FC, & Volkman BF. 2011. Sulfotyrosine recognition as marker for druggable sites in the extracellular space. International Journal of Molecular Sciences, 12(6), 3740-3756.
- Ziarek JJ, Nihongi A, Nagai T, Uttieri M, Zambianchi E, & Stricker JR. 2011. Seasonal adaptations of Daphnia pulicaria swimming behaviour: the effect of water temperature. Hydrobiologia, 661: 317-327.
- Nihongi A, Ziarek JJ, Nagai T, Uttieri M, Zambianchi E, & Strickler JR. 2011. Daphnia pulicaria hijacked by Vibrio cholera: Altered swimming behaviour and predation risk Implications. In: Zooplankton and Phytoplankton. Ed: Katell, G. Nova Science Publishers.
- Veldkamp CT, Ziarek JJ, Peterson FC, Chen Y, & Volkman BF 2010. Targeting SDF-1/CXCL12 with a ligand that prevents activation of CXCR4 through structure based drug design. Journal of the American Chemical Society, 132: 7242-7243.
- Veldkamp CT, Ziarek JJ, Su J, Basnet H, Lennertz R, Weiner JJ, Peterson FC, Baker JE, & Volkman BF. 2009. Monomeric structure of the cardioprotective chemokine SDF-1/CXCL12. Protein Science, 18:1359-1369.
- Strickler JR, Udvadia AJ, Marino J, Radabaugh N, Ziarek JJ, & Nihongi A. 2005. Visibility as a factor in the copepod – planktivorous fish relationship. Scientia Marina, 69(Suppl. 1):111-124.