Student Achievements

Awards and Grants || First Author Papers

Awards and Grants

(^indicates the student has defended)

Shannon Brady (Andersen) was awarded a Dr. John N. Nicholson Fellowship (2018).

Amanda Davis-Roca (Wignall) and Lauren Kraft (Lackner) received Rappaport Awards for Research Excellence (2017).

Anne d'Aquino (Jewett) and Shuya Wang (Mirkin) were awarded Ryan Fellowships (2017).

Luay Almassalha^ (Backman) and Kathryn Gunn^ (Mondragón) received Outstanding Dissertation Awards (2017).

Justin Finkle (Bagheri) was awarded a Dr. John N. Nicholson Fellowship (2017).

Ian Wolff (Wignall) was awarded a Predoctoral Fellowship from the American Heart Association (2016).

Patrick Donahue (Leonard), Jennifer Ferrer (Mirkin/Wertheim), and Jia Wu (Bagheri) received Ruth L. Kirschstein Predoctoral NRSAs from the National Institutes of Health (2016).

Kaleigh Roberts (Meade) received a PRCRP Horizon Award from the Department of Defense (2016).

Lauren Geary (LaBonne) received a Northwestern University Presidential Fellowship (2016).

Ryan Marcum (Radhakrishnan) was awarded a Predoctoral Fellowship from the American Heart Association (2015).

Kara Nordin^ (LaBonne) received an Outstanding Dissertation Award (2015).

Elsy Buitrago Delgado (LaBonne) received the Rappaport Award for Research Excellence (2015).

Gokay Yamankurt (Mirkin) was awarded a Ryan Fellowship (2015).

Peter Doubleday (Kelleher) received a Predoctoral Fellowship from the National Science Foundation (2015).

Nicolle Bonar (Petersen) received a Postgraduate Scholarship from the Natural Sciences and Engineering Research Council of Canada (2015).

Adam Hockenberry^ (Jewett/Amaral) received a Northwestern University Presidential Fellowship (2015).

Aaron Sue (O'Halloran) was awarded a Dr. John N. Nicholson Fellowship (2015).

Grace Kenney^ (Rosenzweig) and Kenny Rodriguez^ (Horvath) received the Rappaport Award for Research Excellence (2014).

Andrew Younger^ (Leonard) received a Fellowship Award from the US Environmental Protection Agency (2014).

Adelita Mendoza^ (O'Halloran) received a Ruth L. Kirschstein Predoctoral NRSA from the National Institute of General Medical Sciences (2014).

Daniel Cook (Andersen), Anne d'Aquino (Jewett), Amanda Davis-Roca (Wignall), Alexandra de Paz (Tyo), and Benjamin Des Soye (Jewett) received Predoctoral Fellowships from the National Science Foundation (2014).

Annie Bruns^ (Horvath) received an Outstanding Dissertation Award (2014).

Kathryn Gunn^ (Mondragón) was awarded a Dr. John N. Nicholson Fellowship (2014).

Liangliang Hao^ (Mirkin) was selected to attend the 64th Lindau Nobel Laureate Meeting in Germany (2014).

Grace Kenney^ (Rosenzweig) and Varun Sood^ (Brickner) were awarded Predoctoral Fellowships from the American Heart Association (2014).

Ritika Giri (Carthew) and Lilien Voong^ (X. Wang) received Malkin Scholar Awards from the Robert H. Lurie Comprehensive Cancer Center (2014).

Adelita Mendoza^ (O'Halloran) received a Scholar award from the Chicago Biomedical Consortium (2014).

Timothy Sita^ (Mirkin) and Luke Vistain^ (Meade) received Ruth L. Kirschstein Predoctoral NRSAs from the National Cancer Institute (2013).

William Briley^ (Mirkin) was awarded a Ryan Fellowship (2013).

Jia Wu (Bagheri/Shea) received a GK-12 Fellowship from the National Science Foundation (2013).

Sarah Stainbrook (Tyo) and Lilien Voong^ (X. Wang) received Predoctoral Fellowships from the National Science Foundation (2013).

Liangliang Hao^ (Mirkin) and Timothy Sita^ (Mirkin) were awarded Ryan Fellowships (2012).

Clarence Chan (Mondragón) received an Achievement Rewards for College Scientists (ARCS) scholarship (2012).

Liangliang Hao^ (Mirkin) was awarded an International Student Research Fellowship from the Howard Hughes Medical Institute (2012).

Sarah Romereim^ (Dudley) received a Ruth L. Kirschstein Predoctoral Fellowship (NRSA) from the National Institutes of Health (2012).

Amanda Lewis^ (Raman) and Mingxuan Sun^ (Marko) received the Rappaport Award for Research Excellence (2012).

Weng Si Au Yeung (Horvath) and Stacy Ochoa^ (LaBonne) received Dr. John N. Nicholson Fellowships (2012).

Recent First Author Papers

(^indicates the student has defended)

Lauren Geary (LaBonne) FGF mediated MAPK and PI3K/Akt Signals make distinct contributions to pluripotency and the establishment of Neural Crest. Geary L and LaBonne C. eLife. 2018 January 19;7:e33845.

Varun Sood^ (Brickner) Genetic and Epigenetic Strategies Potentiate Gal4 Activation to Enhance Fitness in Recently Diverged Yeast Species. Sood V and Brickner JH. Current Biology. 2017 December 4;27(23):3591-3602.e3.

Kari Tanaka (Pinkett) Selective substrate uptake: The role of ATP-binding cassette (ABC) importers in pathogenesis. Tanaka KJ, Song S, Mason K, and Pinkett HW. Biochimica et Biophysica Acta. 2017 August 25;ePub before print.

Luay Almassalha^ and Greta Bauer (Backman) Macrogenomic engineering via modulation of the scaling of chromatin packing density. Almassalha LM, Bauer GM, Wu W, Cherkezyan L, Zhang D, Kendra A, Gladstein S, Chandler JE, VanDerway D, Seagle BL, Ugolkov A, Billadeau DD, O'Halloran TV, Mazar AP, Roy HK, Szleifer I, Shahabi S, and Backman V. Nature Biomedical Engineering. 2017 November 6;1:902-913.

Lauren Kraft (Lackner) Mitochondria-driven assembly of a cortical anchor for mitochondria and dynein. Kraft LM and Lackner LL. Journal of Cell Biology. 2017 October 2;216(10):3061.

Victoria Church^ (Carthew) Microprocessor Recruitment to Elongating RNA Polymerase II Is Required for Differential Expression of MicroRNAs. Church VA, Pressman S, Isaji M, Truscott M, Cizmecioglu NT, Buratowski S, Frolov MV, and Carthew RW. Cell Reports. 2017 September 26;20(13):3123-3134.

Timothy Mullen (Wignall) Interplay between microtubule bundling and sorting factors ensures acentriolar spindle stability during C. elegans oocyte meiosis. Mullen TJ and Wignall SM. PLoS Genetics. 2017 September 14;13(9):e1006986.

Varun Sood^ (Brickner) Epigenetic Transcriptional Memory of GAL Genes Depends on Growth in Glucose and the Tup1 Transcription Factor in Saccharomyces cerevisiae. Sood V, Cajigas I, D'Urso A, Light WH, and Brickner JH. Genetics. 2017 August 1;206(4):1895-1907.

Amanda Davis-Roca (Wignall) Caenorhabditis elegans oocytes detect meiotic errors in the absence of canonical end-on kinetochore attachments. Davis-Roca AC, Muscat CC, and Wignall SM. Journal of Cell Biology. 2017 May 1;216(5):1243-1253.

Kathryn Gunn^ (Mondragón) An orthogonal single-molecule experiment reveals multiple-attempt dynamics of type IA topoisomerases. Gunn KH, Marko JF, and Mondragón A. Nature Structural & Molecular Biology. 2017 May;24(5):484-490.

Timothy Sita^ (Mirkin/Stegh) Dual bioluminescence and near-infrared fluorescence monitoring to evaluate spherical nucleic acid nanoconjugate activity in vivo. Sita TL, Kouri FM, Hurley LA, Merkel TJ, Chalastanis A, May JL, Ghelfi ST, Cole LE, Cayton TC, Barnaby SN, Sprangers AJ, Savalia N, James CD, Lee A, Mirkin CA, and Stegh AH. PNAS. 2017 April 18;114(16):4129-4134.

Agustina D'Urso^ (Brickner) Memory Is the Treasury and Guardian of All Things. D'Urso A and Brickner JH. Molecular Cell. 2017 April 6;66(1):5-6.

Matthew Ross (Rosenzweig) A tale of two methane monooxygenases. Ross MO and Rosenzweig AC. Journal of Biological Inorganic Chemistry. 2017 April;22(2):307-319.

Nicolle Bonar (Petersen) Integrin suppresses neurogenesis and regulates brain tissue assembly in planarian regeneration. Bonar NA and Petersen CP. Development. 2017 March 1;144(5):784-794.

Andrew Younger^ (Leonard) Engineering Modular Biosensors to Confer Metabolite-Responsive Regulation of Transcription. Younger AKD, Dalvie NC, Rottinghaus AG, and Leonard JN. ACS Synthetic Biology. 2017 February 17;6(2):311-325.

Luay Almassalha^ (Backman) The Global Relationship between Chromatin Physical Topology, Fractal Structure, and Gene Expression. Almassalha LM, Tiwari A, Ruhoff PT, Stypula-Cyrus Y, Cherkezyan L, Matsuda H, Dela Cruz MA, Chandler JE, White C, Maneval C, Subramanian H, Szleifer I, Roy HK, and Backman V. Scientific Reports. 2017 January 24;7:41061.

Anthony Goering^ (Kelleher) In Vitro Reconstruction of Nonribosomal Peptide Biosynthesis Directly from DNA Using Cell-Free Protein Synthesis. Goering AW, Li J, McClure RA, Thomson RJ, Jewett MC, and Kelleher NL. ACS Synthetic Biology. 2017 January 20;6(1):39-44.

Adam Hockenberry^ (Jewett/Amaral) Leveraging genome-wide datasets to quantify the functional role of the anti-Shine–Dalgarno sequence in regulating translation efficiency. Hockenberry AJ, Pah AR, Jewett MC, and Amaral LAN. Open Biology. 2017 January 18;7:160239.

Nikhil Ram Mohan^ (Meade) Gd(III)-Gold Nanoconjugates Provide Remarkable Cell Labeling for High Field Magnetic Resonance Imaging. Rammohan N, Holbrook RJ, Rotz MW, MacRenaris KW, Preslar AT, Carney CE, Reichova V, and Meade TJ. Bioconjugate Chemistry. 2017 January 18;28(1):153-160.

Kathryn Evans (Andersen) Correlations of Genotype with Climate Parameters Suggest Caenorhabditis elegans Niche Adaptations. Evans KS, Zhao Y, Brady SC, Long L, McGrath PT, and Andersen EC. G3. 2017 January 1;7(1):289-298.

Daniel Cook (Andersen) CeNDR, the Caenorhabditis elegans natural diversity resource. Cook DE, Zdraljevic S, Roberts JP, and Andersen EC. Nucleic Acids Research. 2017 January;45(D1):D650-D657.

Adelita Mendoza^ (O'Halloran) Zinc availability during germline development impacts embryo viability in Caenorhabditis elegans. Mendoza AD, Woodruff TK, Wignall SM, and O'Halloran TV. Comparative Biochemistry and Physiology Part C: Toxicology & Pharmacology. 2017 January;191:194-202.

Nikhil Ram Mohan^ (Meade) Nanodiamond–Gadolinium(III) Aggregates for Tracking Cancer Growth In Vivo at High Field. Rammohan N, MacRenaris KW, Moore LK, Parigi G, Mastarone DJ, Manus LM, Lilley LM, Preslar AT, Waters EA, Filicko A, Luchinat C, Ho D, and Meade TJ. Nano Letters. 2016 December 14;16(12):7551-7564.

Lilien Voong^ (Wang) Insights into Nucleosome Organization in Mouse Embryonic Stem Cells through Chemical Mapping. Voong LN, Xi L, Sebeson AC, Xiong B, Wang J-P, and Wang X. Cell. 2016 December 1;167(6):1555-1570.

Luay Almassalha^ and Greta Bauer (Backman) Label-free imaging of the native, living cellular nanoarchitecture using partial-wave spectroscopic microscopy. Almassalha LM, Bauer GM, Chandler JE, Gladstein S, Cherkezyan L, Stypula-Cyrus Y, Weinberg S, Zhang D, Ruhoff PT, Roy HK, Subramanian H, Chandel NS, Szleifer I, and Backman V. PNAS. 2016 October 18;113(42):E6372-E6381.

Ian Wolff (Wignall) Assembly of Caenorhabditis elegans acentrosomal spindles occurs without evident microtubule-organizing centers and requires microtubule sorting by KLP-18/kinesin-12 and MESP-1. Wolff ID, Tran MV, Mullen TJ, Villeneuve AM, and Wignall SM. Molecular Biology of the Cell. 2016 October 15;27(20):3122-3131.

Sucharita Bhattacharyya^ (Matouschek) An assay for 26S proteasome activity based on fluorescence anisotropy measurements of dye-labeled protein substrates. Bhattacharyya S, Renn JP, Yu H, Marko JF, and Matouschek A. Analytical Biochemistry. 2016 September 15;509:50-59.

Grace Kenney^ (Rosenzweig) Characterization of Methanobactin from Methylosinus sp. LW4. Kenney GE, Goering AW, Ross MO, DeHart CJ, Thomas PM, Hoffman BM, Kelleher NL, and Rosenzweig AC. Journal of the American Chemical Society. 2016 September 7;138(35):11124-11127.

Daniel Cook (Andersen) The Genetic Basis of Natural Variation in Caenorhabditis elegans Telomere Length. Cook DE, Zdraljevic S, Tanny RE, Seo B, Riccardi DD, Noble LM, Rockman MV, Alkema MJ, Braendle C, Kammenga JE, Wang J, Kruglyak L, Félix M-A, Lee J, and Andersen EC. Genetics. 2016 September 1;204(1):371-383.

Grace Kenney^ (Rosenzweig) Copper-responsive gene expression in the methanotroph Methylosinus trichosporium OB3b. Kenney GE, Sadek M, and Rosenzweig AC. Metallomics. 2016 September 1;8(9):931-940.

Adrienne Eastland^ (Marko) Dependence of the structure and mechanics of metaphase chromosomes on oxidized cysteines. Eastland A, Hornick J, Kawamura R, Nanavati D, and Marko JF. Chromosome Research. 2016 September;24(3):339-353.

Timothy Toby^ (Kelleher) A researcher's guide to mass spectrometry-based proteomics. Savaryn JP, Toby TK, and Kelleher NL. Proteomics. 2016 September;16(18):2435-2443.

Luay Almassalha^ (Backman) Superresolution intrinsic fluorescence imaging of chromatin utilizing native, unmodified nucleic acids for contrast. Dong B, Almassalha LM, Stypula-Cyrus Y, Urban BE, Chandler JE, Nguyen T-Q, Sun C, Zhang HF, and Backman V. PNAS. 2016 August 30;113(35):9716-9721.

Matthew Henke^ (Kelleher) New Aspercryptins, Lipopeptide Natural Products, Revealed by HDAC Inhibition in Aspergillus nidulans. Henke MT, Soukup AA, Goering AW, McClure RA, Thomson RJ, Keller NP, and Kelleher NL. ACS Chemical Biology. 2016 August 19;11(8):2117-2123.

Constanza Vásquez Doorman^ (Petersen) The NuRD complex component p66 suppresses photoreceptor neuron regeneration in planarians. Vásquez-Doorman C and Petersen CP. Regeneration. 2016 August 18;3(3):168-178.

Matthew Henke^ (Kelleher) Modern mass spectrometry for synthetic biology and structure-based discovery of natural products. Henke MT and Kelleher NL. Natural Product Reports. 2016 August 1;33(8):942-950.

Mark Perelis^ (Bass) Circadian Transcription from Beta Cell Function to Diabetes Pathophysiology. Perelis M, Ramsey KM, Marcheva B, and Bass J. Journal of Biological Rhythms. 2016 August;31(4):323-336.

Luay Almassalha^ (Backman) Super-resolution spectroscopic microscopy via photon localization. Dong B, Almassalha L, Urban BE, Nguyen T-Q, Khuon S, Chew T-L, Backman V, Sun C, and Zhang HF. Nature Communications. 2016 July 25;7:12290.

Carlo Randise-Hinchliff^ (Brickner) Transcription factors dynamically control the spatial organization of the yeast genome. Randise-Hinchliff C and Brickner JH. Nucleus. 2016 July 21;7(4):369-374.

Houqing Yu^ (Matouschek) Conserved Sequence Preferences Contribute to Substrate Recognition by the Proteasome. Yu H, Singh Gautam AK, Wilmington SR, Wylie D, Martinez-Fonts K, Kago G, Warburton M, Chavali S, Inobe T, Finkelstein IJ, Babu MM, and Matouschek A. Journal of Biological Chemistry. 2016 July 8;291(28):14526-14539.

Timothy Toby^ (Kelleher) Comparative top down proteomics of peripheral blood mononuclear cells from kidney transplant recipients with normal kidney biopsies or acute rejection. Savaryn JP, Toby TK, Catherman AD, Fellers RT, LeDuc RD, Thomas PM, Friedewald JJ, Salomon DR, Abecassis MM, and Kelleher NL. Proteomics. 2016 July;16(14):2048-2058.

Agustina D'Urso^ (Brickner) Set1/COMPASS and Mediator are repurposed to promote epigenetic transcriptional memory. D'Urso A, Takahashi Y-H, Xiong B, Marone J, Coukos R, Randise-Hinchliff C, Wang J-P, Shilatifard A, and Brickner JH. eLife. 2016 June 23;5:e16691.

Timothy Toby^ (Kelleher) Progress in Top-Down Proteomics and the Analysis of Proteoforms. Toby TK, Fornelli L, and Kelleher NL. Annual Review of Analytical Chemistry. 2016 June;9:499-519.

Michelle Hung^ (Leonard) A Platform for Actively Loading Cargo RNA to Elucidate Limiting Steps in EV-mediated Delivery. Hung ME and Leonard JN. Journal of Extracellular Vesicles. 2016 May 13;5:31027.

Arlise Andress^ (Carthew) Spindle-E cycling between nuage and cytoplasm is controlled by Qin and PIWI proteins. Andress A, Bei Y, Fonslow BR, Giri R, Wu Y, Yates JR, and Carthew RW. Journal of Cell Biology. 2016 April 25;213(2):201-211.

Shameika Wilmington^ (Matouschek) An Inducible System for Rapid Degradation of Specific Cellular Proteins Using Proteasome Adaptors. Wilmington SR and Matouschek A. PLoS ONE. 2016 April 4;11(4):e0152679.

Kirby Martinez-Fonts^ (Matouschek) A Rapid and Versatile Method for Generating Proteins with Defined Ubiquitin Chains. Martinez-Fonts K and Matouschek A. Biochemistry. 2016 March 29;55(12):1898-1908.

Carlo Randise-Hinchliff^ (Brickner) Strategies to regulate transcription factor–mediated gene positioning and interchromosomal clustering at the nuclear periphery. Randise-Hinchliff C, Coukos R, Sood V, Sumner MC, Zdraljevic S, Meldi Sholl L, Brickner DG, Ahmed S, Watchmaker L, and Brickner JH. Journal of Cell Biology. 2016 March 14;212(6):633-646.

Kenneth Durbin^ (Kelleher) Quantitation and Identification of Thousands of Human Proteoforms below 30 kDa. Durbin KR, Fornelli L, Fellers RT, Doubleday PF, Narita M, and Kelleher NL. Journal of Proteome Research. 2016 March 4;15(3):976-982.

Sean Allen (Scott) Engineering Nanomaterials to Address Cell-Mediated Inflammation in Atherosclerosis. Allen S, Liu Y-G, and Scott E. Regenerative Engineering and Translational Medicine. 2016 March;2(1):37-50.

Anthony Goering^ (Kelleher) Metabologenomics: Correlation of Microbial Gene Clusters with Metabolites Drives Discovery of a Nonribosomal Peptide with an Unusual Amino Acid Monomer. Goering AW, McClure RA, Doroghazi JR, Albright JC, Haverland NA, Zhang Y, Ju K-S, Thomson RJ, Metcalf WW, and Kelleher NL. ACS Central Science. 2016 February 24;2(2):99-108.

Justin Cassidy^ (Carthew) Differential Masking of Natural Genetic Variation by miR-9a in Drosophila. Cassidy JJ, Straughan AJ, and Carthew RW. Genetics. 2016 February;202(2):675-687.

Jeffrey Liu^ (Shea) Transforming growth factor-beta 1 delivery from microporous scaffolds decreases inflammation post-implant and enhances function of transplanted islets. Liu JMH, Zhang J, Zhang X, Hlavaty KA, Ricci CF, Leonard JN, Shea LD, and Gower RM. Biomaterials. 2016 February;80:11-19.

Luke Vistain^ (Meade) Targeted delivery of gold nanoparticle contrast agents for reporting gene detection by magnetic resonance imaging. Vistain LF, Rotz MW, Rathore R, Preslar AT, and Meade TJ. Chemical Communications. 2016 January 4;52(1):160-163.

Eric Hill^ (Petersen) Wnt/Notum spatial feedback inhibition controls neoblast differentiation to regulate reversible growth of the planarian brain. Hill EM and Petersen CP. Development. 2015 December 15;142(24):4217-4229.

Nicolás Peláez^ (Carthew/Amaral) Dynamics and heterogeneity of a fate determinant during transition towards cell differentiation. Peláez N, Gavalda-Miralles A, Wang B, Tejedor Navarro H, Gudjonson H, Rebay I, Dinner AR, Katsaggelos AK, Amaral LAN, and Carthew RW. eLife. 2015 November 19;4:e08924.

Mark Perelis^ (Bass) Pancreatic β cell enhancers regulate rhythmic transcription of genes controlling insulin secretion. Perelis M, Marcheva B, Ramsey KM, Schipma MJ, Hutchison AL, Taguchi A, Peek CB, Hong H, Huang W, Omura C, Allred AL, Bradfield CA, Dinner AR, Barish GD, and Bass J. Science. 2015 November 6;350(6261):aac4250.

Liangliang Hao^ (Mirkin) Biodegradable DNA-Brush Block Copolymer Spherical Nucleic Acids Enable Transfection Agent-Free Intracellular Gene Regulation. Zhang C, Hao L, Calabrese CM, Zhou Y, Choi CHJ, Xing H, and Mirkin CA. Small. 2015 October 28;11(40):5360-5368.

Noelle Wakefield^ (Sontheimer) Primary processing of CRISPR RNA by the endonuclease Cas6 in Staphylococcus epidermidis. Wakefield N, Rajan R, and Sontheimer EJ. FEBS Letters. 2015 October 7;589(20B):3197-3204.

Benjamin Des Soye (Jewett) Repurposing the translation apparatus for synthetic biology. Des Soye BJ, Patel JR, Isaacs FJ, and Jewett MC. Current Opinion in Chemical Biology. 2015 October;28:83-90.

Luke Vistain^ (Meade) Targeted Inhibition of Snail Activity in Breast Cancer Cells by Using a CoIII-Ebox Conjugate. Vistain LF, Yamamoto N, Rathore R, Cha P, and Meade TJ. ChemBioChem. 2015 September 21;16(14):2065-2072.

Andrew Scarpelli^ (Leonard) Regulation of Bacterial Gene Expression by Protease-Alleviated Spatial Sequestration (PASS). Pitner RA, Scarpelli AH, and Leonard JN. ACS Synthetic Biology. 2015 September 18;4(9):966-974.

Timothy Sita^ (Mirkin) Ribozyme–Spherical Nucleic Acids. Rouge JL, Sita TL, Hao L, Kouri FM, Briley WE, Stegh AH, and Mirkin CA. Journal of the American Chemical Society. 2015 August 26;137(33):10528-10531.

Steven Philips^ (O'Halloran) Allosteric transcriptional regulation via changes in the overall topology of the core promoter. Philips SJ, Canalizo-Hernandez M, Yildirim I, Schatz GC, Mondragón A, and O'Halloran TV. Science. 2015 August 21;349(6250):877-881.

William Briley^ (Mirkin) Quantification and real-time tracking of RNA in live cells using Sticky-flares. Briley WE, Bondy MH, Randeria PS, Dupper TJ, and Mirkin CA. PNAS. 2015 August 4;112(31):9591-9595.

Annie Bruns^ (Horvath) LGP2 synergy with MDA5 in RLR-mediated RNA recognition and antiviral signaling. Bruns AM and Horvath CM. Cytokine. 2015 August;74(2):198-206.

Elsy Buitrago Delgado and Kara Nordin^ (LaBonne) Shared regulatory programs suggest retention of blastula-stage potential in neural crest cells. Buitrago-Delgado E, Nordin K, Rao A, Geary L, and LaBonne C. Science. 2015 June 19;348(6241):1332-1335.

Matthew Henke^ (Kelleher) Large-Scale Metabolomics Reveals a Complex Response of Aspergillus nidulans to Epigenetic Perturbation. Albright JC, Henke MT, Soukup AA, McClure RA, Thomson RJ, Keller NP, and Kelleher NL. ACS Chemical Biology. 2015 June 19;10(6):1535-1541.

Jennifer Ferrer (Mirkin/Wertheim) New Tools in Experimental Cellular Therapy for the Treatment of Liver Diseases. Ferrer JR, Chokechanachaisakul A, and Wertheim JA. Current Transplantation Reports. 2015 June;2(2):202-210.

Gabriel Rosanio^ (Uhlenbeck/Widom) In vitro selection of DNAs with an increased propensity to form small circles. Rosanio G, Widom J, and Uhlenbeck OC. Biopolymers. 2015 June;103(6):303-320.

Keila Torre-Santiago (Wignall) Kinetochore-independent chromosome segregation driven by lateral microtubule bundles. Muscat CC, Torre-Santiago KM, Tran MV, Powers JA, and Wignall SM. eLife. 2015 May 30;4:e06462.

Amy Sebeson^ (Wang/Widom) Differential Nucleosome Occupancies across Oct4-Sox2 Binding Sites in Murine Embryonic Stem Cells. Sebeson A, Xi L, Zhang Q, Sigmund A, Wang J-P, Widom J, and Wang X. PLoS ONE. 2015 May 18;10(5):e0127214.

Kyle Schneider^ (Weiss) The Structure of an NDR/LATS Kinase–Mob Complex Reveals a Novel Kinase–Coactivator System and Substrate Docking Mechanism. Gógl G, Schneider KD, Yeh BJ, Alam N, Nguyen Ba AN, Moses AM, Hetényi C, Reményi A, and Weiss EL. PLoS Biology. 2015 May 12;13(5):e1002146.

Sayantan Bose^ (Lamb) Timing is everything: Fine-tuned molecular machines orchestrate paramyxovirus entry. Bose S, Jardetzky TS, and Lamb RA. Virology. 2015 May;479-480:518-531.

Yi Liu^ (Jewett) Characterizing and Alleviating Substrate Limitations for Improved in vitro Ribosome Construction. Liu Y, Fritz BR, Anderson MJ, Schoborg JA, and Jewett MC. ACS Synthetic Biology. 2015 April 17;4(4):454-462.

Sarah Sirajuddin^ (Rosenzweig) Enzymatic Oxidation of Methane. Sirajuddin S and Rosenzweig AC. Biochemistry. 2015 April 14;54(14):2283-2294.

Michelle Hung^ (Leonard) Stabilization of Exosome-targeting Peptides via Engineered Glycosylation. Hung ME and Leonard JN. Journal of Biological Chemistry. 2015 March 27;290(13):8166-8172.

Taylor Poor^ (Lamb) On the Stability of Parainfluenza Virus 5 F Proteins. Poor TA, Song AS, Welch BD, Kors CA, Jardetzky TS, and Lamb RA. Journal of Virology. 2015 March;89(6):3438-3441.

Kirby Martinez-Fonts^ (Matouschek) Top-Down 193-nm Ultraviolet Photodissociation Mass Spectrometry for Simultaneous Determination of Polyubiquitin Chain Length and Topology. Cannon JR, Martinez-Fonts K, Robotham SA, Matouschek A, and Brodbelt JS. Analytical Chemistry. 2015 February 3;87(3):1812-1820.

Michelle Hung^ (Leonard) Therapeutic Applications of Extracellular Vesicles: Clinical Promise and Open Questions. György B, Hung ME, Breakefield XO, and Leonard JN. Annual Review of Pharmacology and Toxicology. 2015 January;55:439-464.

William Briley^ (Mirkin) Nanoflares as Probes for Cancer Diagnostics. Randeria PS, Briley WE, Chinen AB, Guan CM, Petrosko SH, and Mirkin CA. Cancer Treatment and Research. 2015;166:1-22.

Timothy Sita^ (Mirkin) Therapeutic Applications of Spherical Nucleic Acids. Barnaby SN, Sita TL, Petrosko SH, Stegh AH, and Mirkin CA. Cancer Treatment and Research. 2015;166:23-50.

Amanda Lewis^ (Raman) Resurgent current of voltage-gated Na+ channels. Lewis AH and Raman IM. Journal of Physiology. 2014 November 15;592(22):4825-4838.

Kara Nordin^ (LaBonne) Sox5 Is a DNA-Binding Cofactor for BMP R-Smads that Directs Target Specificity during Patterning of the Early Ectoderm. Nordin K and LaBonne C. Developmental Cell. 2014 November 10;31(3):374-382.

Annie Bruns^ (Horvath) Antiviral RNA recognition and assembly by RLR family innate immune sensors. Bruns AM and Horvath CM. Cytokine & Growth Factor Reviews. 2014 October;25(5):507-512.

Jia Wu (Bagheri) Dynamic transcription factor activity profiles reveal key regulatory interactions during megakaryocytic and erythroid differentiation. Duncan MT, Shin S, Wu JJ, Mays Z, Weng S, Bagheri N, Miller WM, and Shea LD. Biotechnology and Bioengineering. 2014 October;111(10):2082-2094.

Annie Bruns^ (Horvath) The Innate Immune Sensor LGP2 Activates Antiviral Signaling by Regulating MDA5-RNA Interaction and Filament Assembly. Bruns AM, Leser GP, Lamb RA, and Horvath CM. Molecular Cell. 2014 September 4;55(5):771-781.

Jonathan Freaney^ (Horvath) High-Density Nucleosome Occupancy Map of Human Chromosome 9p21–22 Reveals Chromatin Organization of the Type I Interferon Gene Cluster. Freaney JE, Zhang Q, Yigit E, Kim R, Widom J, Wang J-P, and Horvath CM. Journal of Interferon & Cytokine Research. 2014 September 2;34(9):676-685.

Sara Hurtado^ (Sontheimer) SPO24 Is a Transcriptionally Dynamic, Small ORF-Encoding Locus Required for Efficient Sporulation in Saccharomyces cerevisiae. Hurtado S, Kim Guisbert KS, and Sontheimer EJ. PLoS ONE. 2014 August 15;9(8):e105058.

Sarah Sirajuddin^ (Rosenzweig) Effects of Zinc on Particulate Methane Monooxygenase Activity and Structure. Sirajuddin S, Barupala D, Helling S, Marcus K, Stemmler TL, and Rosenzweig AC. Journal of Biological Chemistry. 2014 August 1;289(31):21782-21794.

Kenny Rodriguez^ (Horvath) MDA5 and LGP2: Accomplices and Antagonists of Antiviral Signal Transduction. Rodriguez KR, Bruns AM, and Horvath CM. Journal of Virology. 2014 August;88(15):8194-8200.

Austin Rice^ (Pinkett) Effects of lipid environment on the conformational changes of an ABC importer. Rice AJ, Alvarez FJD, Davidson AL, and Pinkett HW. Channels. 2014 July/August;8(4):327-333.

Renée Robbins^ (Beitel) Non-Canonical Roles for Yorkie and Drosophila Inhibitor of Apoptosis 1 in Epithelial Tube Size Control. Robbins RM, Gbur SC, and Beitel GJ. PLoS ONE. 2014 July 18;9(7):e101609.

Constanza Vásquez Doorman^ (Petersen) zic-1 Expression in Planarian Neoblasts after Injury Controls Anterior Pole Regeneration. Vásquez-Doorman C and Petersen CP. PLoS Genetics. 2014 July 3;10(7):e1004452.

Adam Hockenberry^ (Jewett) Quantifying Position-Dependent Codon Usage Bias. Hockenberry AJ, Sirer MI, Amaral LAN, and Jewett MC. Molecular Biology and Evolution. 2014 July;31(7):1880-1893.

Kenny Rodriguez^ (Horvath) Paramyxovirus V Protein Interaction with the Antiviral Sensor LGP2 Disrupts MDA5 Signaling Enhancement but Is Not Relevant to LGP2-Mediated RLR Signaling Inhibition. Rodriguez KR and Horvath CM. Journal of Virology. 2014 July;88(14):8180-8188.

Taylor Poor^ (Lamb) Probing the paramyxovirus fusion (F) protein-refolding event from pre- to postfusion by oxidative footprinting. Poor TA, Jones LM, Sood A, Leser GP, Plasencia MD, Rempel DL, Jardetzky TS, Woods RJ, Gross ML, and Lamb RA. PNAS. 2014 June 24;111(25):E2596-E2605.

Agustina D'Urso^ (Brickner) Mechanisms of epigenetic memory. D'Urso A and Brickner JH. Trends in Genetics. 2014 June;30(6):230-236.

Austin Rice^ (Pinkett) Small Substrate Transport and Mechanism of a Molybdate ATP Binding Cassette Transporter in a Lipid Environment. Rice AJ, Harrison A, Alvarez FJD, Davidson AL, and Pinkett HW. Journal of Biological Chemistry. 2014 May 23;289(21):15005-15013.

Sarah Romereim^ (Dudley) A dynamic cell adhesion surface regulates tissue architecture in growth plate cartilage. Romereim SM, Conoan NH, Chen B, and Dudley AT. Development. 2014 May;141(10):2085-2095.

Sayantan Bose^ (Lamb) Fusion Activation through Attachment Protein Stalk Domains Indicates a Conserved Core Mechanism of Paramyxovirus Entry into Cells. Bose S, Song AS, Jardetzky TS, and Lamb RA. Journal of Virology. 2014 April;88(8):3925-3941.

Varun Sood^ (Brickner) Nuclear pore interactions with the genome. Sood V and Brickner JH. Current Opinion in Genetics & Development. 2014 April;25:43-49.

Dallas Vanorny^ (Mayo) Notch Signaling Regulates Ovarian Follicle Formation and Coordinates Follicular Growth. Vanorny DA, Prasasya RD, Chalpe AJ, Kilen SM, and Mayo KE. Molecular Endocrinology. 2014 April;28(4):499-511.

Adam Seluzicki^ (Allada) Dual PDF Signaling Pathways Reset Clocks Via TIMELESS and Acutely Excite Target Neurons to Control Circadian Behavior. Seluzicki A, Flourakis M, Kula-Eversole E, Zhang L, Kilman V, and Allada R. PLoS Biology. 2014 March 18;12(3):e1001810.

Yolanda Stypula-Cyrus^ (Backman) Nanoscale changes in chromatin organization represent the initial steps of tumorigenesis: a transmission electron microscopy study. Cherkezyan L, Stypula-Cyrus Y, Subramanian H, White C, Dela Cruz M, Wali RK, Goldberg MJ, Bianchi LK, Roy HK, and Backman V. BMC Cancer. 2014 March 14;14:189.

Kenneth Durbin^ (Kelleher) Autopilot: An Online Data Acquisition Control System for the Enhanced High-Throughput Characterization of Intact Proteins. Durbin KR, Fellers RT, Ntai I, Kelleher NL, and Compton PD. Analytical Chemistry. 2014 February 4;86(3):1485-1492.

Sucharita Bhattacharyya^ (Matouschek) Regulated protein turnover: snapshots of the proteasome in action. Bhattacharyya S, Yu H, Mim C, and Matouschek A. Nature Reviews Molecular Cell Biology. 2014 February;15(2):122-133.

Jacob Keller^ (Dallos) Functional Regulation of the SLC26-Family Protein Prestin by Calcium/Calmodulin. Keller JP, Homma K, Duan C, Zheng J, Cheatham MA, and Dallos P. Journal of Neuroscience. 2014 January 22;34(4):1325-1332.

Antony Wanless^ (Weiss) Cell Morphogenesis Proteins Are Translationally Controlled through UTRs by the Ndr/LATS Target Ssd1. Wanless AG, Lin Y, and Weiss EL. PLoS ONE. 2014 January 21;9(1):e85212.

Ali Alhasan^ (Mirkin) Exosome Encased Spherical Nucleic Acid Gold Nanoparticle Conjugates as Potent MicroRNA Regulation Agents. Alhasan AH, Patel PC, Choi CHJ, and Mirkin CA. Small. 2014 January 15;10(1):186-192.

Nicolás Peláez^ (Carthew/Amaral) A comparative study of Pointed and Yan expression reveals new complexity to the transcriptional networks downstream of receptor tyrosine kinase signaling. Boisclair Lachance J-F, Peláez N, Cassidy JJ, Webber JL, Rebay I, and Carthew RW. Developmental Biology. 2014 January 15;385(2):263-278.

Justin Cassidy^ (Carthew) miR-9a Minimizes the Phenotypic Impact of Genomic Diversity by Buffering a Transcription Factor. Cassidy JJ, Jha AR, Posadas DM, Giri R, Venken KJT, Ji J, Jiang H, Bellen HJ, White KP, and Carthew RW. Cell. 2013 December 19;155(7):1556-1567.

Christopher Pope^ (Unger) Cellular distribution of copper to superoxide dismutase involves scaffolding by membranes. Pope CR, De Feo CJ, and Unger VM. PNAS. 2013 December 17;110(51):20491-20496.

Georgette Moyle-Heyrman^ (Widom) Chemical map of Schizosaccharomyces pombe reveals species-specific features in nucleosome positioning. Moyle-Heyrman G, Zaichuk T, Xi L, Zhang Q, Uhlenbeck OC, Holmgren R, Widom J, and Wang, J-P. PNAS. 2013 December 10;110(50):20158-20163.

Sayantan Bose^ (Lamb) Mutations in the Parainfluenza Virus 5 Fusion Protein Reveal Domains Important for Fusion Triggering and Metastability. Bose S, Heath CM, Shah PA, Alayyoubi M, Jardetzky TS, and Lamb RA. Journal of Virology. 2013 December;87(24):13520-13531.

Alison Affinati^ (Bass) Circadian Clock NAD+ Cycle Drives Mitochondrial Oxidative Metabolism in Mice. Peek CB, Affinati AH, Ramsey KM, Kuo H-Y, Yu W, Sena LA, Ilkayeva O, Marcheva B, Kobayashi Y, Omura C, Levine DC, Bacsik DJ, Gius D, Newgard CB, Goetzman E, Chandel NS, Denu JM, Mrksich M, and Bass J. Science. 2013 November 1;342(6158):1243417.

Jonathan Hsu^ (Weiss) Cell Cycle Regulated Interaction of a Yeast Hippo Kinase and Its Activator MO25/Hym1. Hsu J and Weiss EL. PLoS ONE. 2013 October 21;8(10):e78334.

Pei-Hsuan Wu^ (Carthew) Functionally Diverse MicroRNA Effector Complexes Are Regulated by Extracellular Signaling. Wu P-H, Isaji M, and Carthew RW. Molecular Cell. 2013 October 10;52(1):113-123.

Clarence Chan (Mondragón) Structure and function of the T-loop structural motif in noncoding RNAs. Chan CW, Chetnani B, and Mondragón A. Wiley Interdisciplinary Reviews: RNA. 2013 September/October;4(5):507-522.

William Light^ (Brickner) Nuclear pore proteins regulate chromatin structure and transcriptional memory by a conserved mechanism. Light WH and Brickner JH. Nucleus. 2013 September/October;4(5):357-360.

William Buggele^ (Horvath) Small RNA Profiling of Influenza A Virus-Infected Cells Identifies miR-449b as a Regulator of Histone Deacetylase 1 and Interferon Beta. Buggele WA, Krause KE, and Horvath CM. PLoS ONE. 2013 September 26;8(9):e76560.

Jonathan Freaney^ (Horvath) Extensive Cooperation of Immune Master Regulators IRF3 and NFκB in RNA Pol II Recruitment and Pause Release in Human Innate Antiviral Transcription. Freaney JE, Kim R, Mandhana R, and Horvath CM. Cell Reports. 2013 September 12;4(5):959-973.

Kenneth Durbin^ (Kelleher) Oncogene-induced cellular senescence elicits an anti-Warburg effect. Li M, Durbin KR, Sweet SMM, Tipton JD, Zheng Y, and Kelleher NL. Proteomics. 2013 September;13(17):2585-2596.

Amanda Lewis^ (Raman) Interactions among DIV voltage-sensor movement, fast inactivation, and resurgent Na current induced by the NaVβ4 open-channel blocking peptide. Lewis AH and Raman IM. Journal of General Physiology. 2013 September;142(3):191-206.

William Buggele^ (Horvath) MicroRNA Profiling of Sendai Virus-Infected A549 Cells Identifies miR-203 as an Interferon-Inducible Regulator of IFIT1/ISG56. Buggele WA and Horvath CM. Journal of Virology. 2013 August;87(16):9260-9270.

Austin Rice^ (Pinkett) EPR Spectroscopy of MolB2C2-A Reveals Mechanism of Transport for a Bacterial Type II Molybdate Importer. Rice AJ, Alvarez FJD, Schultz KM, Klug CS, Davidson AL, and Pinkett HW. Journal of Biological Chemistry. 2013 July 19;288(29):21228-21235.

Jacob Keller^ (Dallos) Pixels as ROIs (PAR): A Less-Biased and Statistically Powerful Approach for Gleaning Functional Information from Image Stacks. Keller JP, Homma K, and Dallos P. PLoS ONE. 2013 July 11;8(7):e69047.

Mingxuan Sun^ (Marko) The SMC1-SMC3 cohesin heterodimer structures DNA through supercoiling-dependent loop formation. Sun M, Nishino T, and Marko JF. Nucleic Acids Research. 2013 July 8;41(12):6149-6160.

Nancy Au Yeung (Horvath) Transcriptional regulation by STAT1 and STAT2 in the interferon JAK-STAT pathway. Au-Yeung N, Mandhana R, and Horvath CM. JAK-STAT. 2013 July;2(3):e23931.