丁香园AV

Baillie Lab

• Simms et al. A strawberry notch homolog, let-765/nsh-1, positively regulates lin-3/egf expression to promote RAS-dependent vulval induction in C. elegans.
  Dev Biol 2010
• Mah et al. Characterization of the octamer, a cis-regulatory element that modulates excretory cell gene-expression in Caenorhabditis elegans.
  BMC Mol Biol 2010
• Jones et al. Quality High resolution molecular analysis of deficiencies affecting recombination in C. elegans.
  Mol Genet Genomics 2009

Beh Lab

• Beh, C.T. et al. A detour for yeast oxysterol-binding proteins.
• Johansen et al. Vesicle trafficking from a lipid perspective: Lipid regulation of exocytosis in Saccharomyces cerevisiae.
• Alfaro et al. The sterol-binding protein Kes1/Osh4p is a regulator of polarized exocytosis.

Brandhorst Lab

• Bishop, C.D., and B.P. Brandhorst. Development of nitric oxide synthase-defined neurons in the sea urchin larval ciliary band and evidence for a chemosensory function during metamorphosis.
• Burke et al. A genomic view of the sea urchin nervous system.
• Bishop, C.D., and B.P. Brandhorst. On nitric oxide signaling, metamporphosis, and the evolution of life cycles.

 

Brinkman Lab

• Dhillon et al. IslandViewer 3: more flexible, interactive genomic island discovery, visualization and analysis.
• Achtman et al. Effective adjunctive therapy by an innate defense regulatory peptide in a preclinical model of severe malaria.
• Gardy et al. Whole-genome sequencing and social-network analysis of a tuberculosis outbreak.

Brockman Lab

• Kuang XT, Li X, Anmole G, Mwimanzi P, Shahid A, Le AQ, Chong L, Qian H, Miura T, Markle T, Baraki B, Connick E, Daar ES, Jessen H, Kelleher AD, Little S, Markowitz M, Pereyra F, Rosenberg ES, Walker BD, Ueno T, Brumme ZL, and Brockman MA. Impaired Nef function is associated with early control of HIV-1 viremia.
• Cotton LA, Kuang XT, Le AQ, Carlson JM, Chan B, Chopera DR, Brumme CJ, Markle TJ, Martin E, Shahid A, Anmole G, Mwimanzi P, Nassab P, Penney KA, Rahman MA, Milloy MJ, Schechter MT, Markowitz M, Carrington M, Walker BD, Wagner T, Buchbinder S, Fuchs J, Koblin B, Mayer KH, Harrigan PR, Brockman MA, Poon AF, and Brumme ZL. Genotypic and functional impact of HIV-1 adaptation to its host population during the North American epidemic.
• Mwimanzi P, Markle TJ, Martin E, Ogata Y, Kuang XT, Tokunaga M, Mahiti M, Pereyra F, Miura T, Walker BD, Brumme ZL, Brockman MA, and Ueno T. Attenuation of multiple Nef functions in HIV-1 elite controllers.

Chen Lab

• Vergara I, Tarailo-Graovac M, Frech C, Wang J, Qin Z, Zhang T, She R, Chu JSC, Wang K, Chen N. Genome-wide variations in a natural isolate of the nematode
• Zou S, Li J, Zhou H, Frech C, Jiang X, Chu JS, Zhao X, Li Y, Li Q, Wang H, Hu J, Kong G, Wu M, Ding C, Chen N, Hu H. Mutational landscape of intrahepatic cholangiocarcinoma.
• Uyar et al. RNA-seq analysis of the C. briggsae transcriptome.

Choy Lab

• von Rossum A et al. Bim regulates alloimmune-mediated vascular injury through effects on T cell activation and death. Arterioscler Thromb Vasc Biol. 2014
• Lee M and Choy JC. Positive feedback regulation of human inducible nitric oxide synthase expression by Ras S-nitrosylation.
  
• von Rossum et al. Inflammatory cytokines determine the susceptibility of human CD8 T cells to Fas-mediated activation-induced cell death through modulation of FasL and c-FLIP expression.
  

Cornell Lab

• Cornell, R. B. Membrane lipid compositional sensing by the inducible amphipathic helix of CCT.
• Lee, J., Taneva, S.G., Holland, B., Tieleman, D.P., and Cornell, R.B. Structural basis for auto-inhibition of CTP: phosphocholine cytidylyltransferase (CCT), the regulatory enzyme in phosphatidylcholine synthesis.
• Huang HK, Taneva SG, Lee J, Silva LP, Schriemer DC, Cornell RB. The Membrane-Binding Domain of an Amphitropic Enzyme Suppresses Catalysis by Contact with an Amphipathic Helix Flanking Its Active Site.
  

Craig Lab

• Ford et al. Crystal Structures of CTX-phi pIII Unbound and in Complex with Vibrio cholerae TolA Reveal Novel Interaction Interfaces.
• Kolappan et al. Structural Characterization of CFA/III and Longus Type IVb pili from enterotoxigenic Escherichia coli.
• Li et al. Structure of the Vibrio cholerae Type IVb pilus and stability comparison with the Neisseria gonorrhoeae Type IVa pilus.

Davidson Lab

• Gutierrez, Yanez, Fukui, Swift and Davidson. Genome-wide association study (GWAS) for growth rate and age at sexual maturation in Atlantic salmon (Salmo salar).
• Tessarolo, Tabesh, Nesbitt and Davidson. Genomic organization and evolution of the trace amine-associated receptor (TAAR) repertoire in Atlantic salmon (Salmo salar).
• Eisbrenner, Botwright, Cook, Davidson, Dominik, Elliott, Henshall, Jones, Kube, Lubieniecki, Peng and Davidson. Evidence for multiple sex-determining loci in Tasmanian Atlantic salmon (Salmo salar).

 

Gorski Lab

• Chittaranjan et al. Steroid hormone control of cell death and cell survival: molecular insights using RNAi.
• Hou et al. Effector caspase Dcp-1 and IAP protein Bruce regulate starvation-induced autophagy during Drosophila melanogaster oogenesis.
• Qadir et al. Macroautophagy inhibition sensitizes tamoxifen-resistant breast cancer cells and enhances mitochondrial depolarization.

Harden Lab

• Bahri et al. The leading edge during dorsal closure as a model for epithelial plasticity: Pak is required for recruitment of the Scribble complex and septate junction formation.
  Development 2010
• Zahedi et al. Leading edge-secreted Dpp cooperates with ACK-dependent signaling from the amnioserosa to regulate myosin levels during dorsal closure.
  Dev Dyn 2008
• Conder et al. The serine/threonine kinase dPak is required for polarized assembly of F-actin bundles and apical-basal polarity in the Drosophila follicular epithelium.
  Dev Biol 2007

Hawkins Lab

• Hingwing et al. CWN-1 functions with DSH-2 to regulate C. elegans asymmetric neuroblast division in a 脽-catenin independent Wnt pathway.
• King et al. The N- or C-terminal domains of DSH-2 can activate the C. elegans Wnt/脽-catenin asymmetry pathway.

Holt Lab

• Warren RL, Holt RA. A census of predicted mutational epitopes suitable for immunologic cancer control.
• Mead et al. Cytosolic protein interactions of the schizophrenia susceptibility gene dysbindin.
• Freeman et al. Profiling the T-cell receptor beta-chain repertoire
  by massively parallel sequencing.

Honda Lab

• Sinclair et al.Drosophila O-GlcNAc transferase (OGT) is encoded by the Polycomb group (PcG) gene, super sex combs (sxc).
• Hallson et al. The Drosophila cohesin subunit Rad21 is a trithorax group (trxG) protein.
• Schulze et al.Heterochromatic genes in Drosophila: a comparative analysis of two genes.

Jones Lab

• Diguistini et al. De novo genome sequence assembly of a filamentous fungus using Sanger, 454 and Illumina sequence data.
• Birol et al. De novo transcriptome assembly with ABySS.
• Robertson et al. Genome-wide relationship between histone H3 lysine 4 mono- and tri-methylation and transcription factor binding.

Leroux Lab

• Jensen et al. Formation of the transition zone by Mks5/Rpgrip1L establishes a ciliary zone of exclusion (CIZE) that compartmentalises ciliary ciliary abundance.
• Sung and Leroux. The roles of evolutionarily conserved functional modules in cilia-related trafficking.
• Mohan et al. Striated rootlet and nonfilamentous forms of rootletin maintain ciliary function.

Morin Lab

• Morin et al. Mutational and structural analysis of diffuse large B-cell lymphoma using whole genome sequencing.
• Trinh et al. Analysis of FOXO1 mutations in diffuse large B-cell lymphoma.
• Roberts et al. Genetic alterations activating kinase and cytokine receptor signaling in high-risk acute lymphoblastic leukaemia.

Paetzel Lab

• Zhang et. al. Structural Characterization of the C3 Domain of Cardiac Myosin Binding Protein-C and its Hypertrophic Cardiomyopathy-Related R502W Mutant.
• Nam & Paetzel. Structure of signal peptide peptidase A with C-termini bound in the active sites: insights into specificity, self-processing and regulation.
• Chung & Paetzel. Crystal structure of Yellowtail ascites virus VP4 protease: trapping an internal cleavage site trans acyl-enzyme complex in a native Ser/Lys dyad active site.

Pio Lab

• Yan et al. RPA nucleic acid-binding properties of IFI16-HIN200.
• Dalal K, Pio F. Thermodynamics and stability of the PAAD/DAPIN/PYRIN domain of IFI-16.

• Cooper et al. Aedes Dronc: a novel ecdysone-inducible caspase in the yellow fever mosquito, Aedes aegypti.

Quarmby Lab

• Parker et al. Centrioles are Freed From Cilia by Severing Prior to Mitosis.
• Rasi et al. Katanin Knockdown Supports a Role for Microtubule Severing in Release of Basal Bodies before Mitosis in Chlamydomonas.
• Hilton et al. The NIMA-related kinase NEK1 cycles through the nucleus.

Scott Lab

• van Houten et al. Engineering filamentous phage carriers to improve focusing of antibody
  responses against peptides.
• Montero et al. The Membrane-Proximal External Region of the Human Immunodeficiency Virus Type 1 Envelope: Dominant Site of Antibody Neutralization and Target for Vaccine Design.
• Scott JK, Smith GP. Searching for peptide ligands with an epitope library.

Sen Lab

• Huang Y.C. and Sen D. A contractile electronic switch made of DNA. 
• Lee H.W. et al. Reversible Photo-Regulation of a Hammerhead Ribozyme using a Diffusible Effector.
• Chinnapen, D. J.-F. and Sen, D. A Deoxyribozyme that Harnesses Light to Repair Thymine Dimers in DNA. 

Thewalt Lab

• Leung SSW, Busto JV, Keyvanloo A, Go帽i FM, and Thewalt J. Insights into Sphingolipid Miscibility: Separate Observation of Sphingomyelin and Ceramide N-Acyl Chain Melting.
• Kwak S, Brief E, Langlais D, Kitson N, Lafleur M, Thewalt J. Ethanol perturbs lipid organization in models of stratum corneum membranes: an investigation combining differential scanning calorimetry, infrared and 2H-NMR spectroscopy.
• Hsueh et al. Deuterium NMR study of the effect of ergosterol on POPE membranes.

Unrau Lab

• SSS Panchapakesan, SCY Jeng, PJ Unrau. RNA complex purification using high-affinity fluorescent RNA aptamer tags.
• EV Dolgosheina, SCY Jeng, SSS Panchapakesan, R Cojocaru et al. RNA Mango Aptamer-Fluorophore: A Bright, High-Affinity Complex for RNA Labeling and Tracking.
• SSS Panchapakesan, PJ Unrau. E. coli 6S RNA release from RNA polymerase requires s70 ejection by scrunching and is orchestrated by a conserved RNA hairpin.

Verheyen Lab

• Swarup et al. Genome-wide in vivo identification of kinases and phosphatases that regulate Wnt signaling.
• Fernandes et al. Integrins regulate apical constriction via microtubule stabilization in the Drosophila eye disc epithelium.
• Pradhan-Sundd, T. and E.M. Verheyen. The role of Bro1 domain-containing protein Myopic in endosomal trafficking of Wnt/Wingless.

Vocadlo Lab

• Zhu Y, Liu TW, Cecioni S, Eskandari R, Zandberg WF, Vocadlo DJ. O-GlcNAc occurs cotranslationally to stabilize nascent polypeptide chains.
• Zhu Y, Liu TW, Cecioni S, Madden Z, Yuzwa, SA, Murray, K, Zandberg, WF, Vocadlo DJ. Post-translational O-GlcNAcylation is essential for nuclear pore integrity and maintenance of the pore selectivity filter.
  Journal of Molecular Cell Biology 2015. In the press.
• Yuzwa SA, Shan X, Macauley MS, Clark T, Skorobogatko Y, Vosseller K, Vocadlo DJ. Increasing O-GlcNAc slows neurodegeneration and stabilizes tau against aggregation.

Young Lab

• Chan et al. Bimodal agonism in heteromeric cyclic nucleotide-gated channels.
• Wicks et al. Sensitivity of HCN channel deactivation to cAMP is amplified by an S4 mutation combined with activation mode shift.
• Wicks et al. The cytoplasmic cAMP-sensing domain of pacemaker HCN channels uses two structurally distinct mechanisms to regulate voltage-gating. [Refereed presentation]
  Circulation 120: S664 2009