Recent Publications

2015

Yuan, G., Vasavda, C., Peng, YJ., Makarenko, VV., Raghuraman, G., Nanduri, J., Gadalla, MM., Semenza, GL., Kumar, GK., Snyder, SH. and Prabhakar, NR., 2015, "Protein kinase G-regulated production of H2S governs oxygen sensing," Sci Signal. 8(373):ra37. PubMed​
Mohammad, F., Woolstenhulme, CJ., Green, R., and Buskirk, AR., 2015, "Clarifying the Translational Pausing Landscape in Bacteria by Ribosome Profiling," Cell Rep. pii: S2211-1247(15)01529-6.​  PubMed
Metcalf Pate, KA., Pohlmeyer, CW., Walker-Sperling, VE., Foote, JB., Najarro, KM., Cryer, CG., Salgado, M., Gama, L., Engle, EL., Shirk, EN., Queen, SE., Chioma, S., Vermillion, MS., Bullock, B., Li, M., Lyons, CE., Adams, RJ., Zink, MC., Clements, JE., Mankowski, JL., and Blankson, JN., 2015, "A Murine Viral Outgrowth Assay to Detect Residual HIV Type 1 in Patients With Undetectable Viral Loads," J Infect Dis. 212(9):1387-96. PubMed
Nguyen-Ngoc, KV., Shamir, ER., Huebner, RJ., Beck, JN., Cheung, KJ. and Ewald, AJ., 2015, "3D culture assays of murine mammary branching morphogenesis and epithelial invasion," Methods Mol Biol. 1189:135-62. ​ PubMed

2014

Zhang, H., Zou, B., Du, F., Xu, K. and Li, M., 2014, "Reporting Sodium Channel Activity using Calcium Flux: Pharmacological Promiscuity of Cardiac Nav1.5," Mol Pharmacol.87(2):207-17  PMCID: PMC4293450 PubMed
Van den Elzen, A.M.G., Schuller, A., Green, R. and Séraphin, B., 2014, "Dom34-Hbs1 mediated dissociation of inactive 80S ribosomes promotes restart of translation after stress.," EMBO J. 33, 265-276 (2014). PMCID: PMC3989619 ​PubMed
Davis, C.-H.O., Kim, K.-Y., Bushong, E. a, Mills, E. a, Boassa, D., Shih, T., Kinebuchi, M., Phan, S., Zhou, Y., Bihlmeyer, N. a, Nguyen, J.V., Jin, Y., Ellisman, M.H., Marsh-Armstrong, N., "Transcellular degradation of axonal mitochondria", Proc Natl Acad Sci U S A. 2014 Jul 1;111(26):9633-8. PMID: 24979790 PubMed
Wang, JT. and Seydoux, G., 2014, "P granules," Curr Biol. 24(14):R637-8. PubMed
Li, Z., He, SQ., Xu, Q., Yang, F., Tiwari, V., Liu, Q., Tang, Z., Han, L., Chu, YX., Wang, Y., Hin, N., Tsukamoto, T., Slusher, B., Guan, X., Wei, F., Raja, SN., Dong, X. and Guan, Y., 2014, "Activation of MrgC receptor inhibits N-type calcium channels in small-diameter primary sensory neurons in mice," Pain, 155(8):1613-21. PMCID: PMC4104261  PubMed
Kelkar, DS., Provost, E., Chaerkady, R., Muthusamy, B., Manda, SS., Subbannayya, T., Selvan, LD., Wang, CH., Datta, KK., Woo, S., Dwivedi, SB., Renuse, S., Getnet, D., Huang, TC., Kim, MS.,, Pinto, SM., Mitchell, CJ., Madugundu, AK., Kumar, P., Sharma, J., Advani, J., Dey, G., Balakrishnan, L., Syed, N., Nanjappa, V., Subbannayya, Y., Goel, R., Keshava Prasad, TS., Bafna, V., Sirdeshmukh, R., Gowda, H., Wang, C., Leach, SD. and Pandey, A., 2014, "Annotation of the Zebrafish Genome through an Integrated Transcriptomic and Proteomic Analysis," Mol Cell Proteomics. 13(11):3184-98. PMCID: PMC4223501 PubMed
Debeljak, M., Freed, DN., Welch, JA., Haley, L., Beierl, K., Iglehart, BS., Pallavajjala, A., Gocke, CD., Leffell, MS., Lin, MT., Pevsner, J., Wheelan, SJ and Eshleman, JR., 2014, "Haplotype counting by next-generation sequencing for ultrasensitive human DNA detection," J Mol Diagn. 16(5):495-503.     PubMed.​
Kavran, JM., McCabe, JM., Byrne, PO., Connacher, MK., Wang, Z., Ramek, A., Sarabipour, S., Shan, Y., Shaw, DE., Hristova, K., Cole, PA., and Leahy, DJ., 2014, "How IGF-1 activates its receptor," Elife. 3.​ PubMed
Schaughency, P., Merran, J., and Corden, JL., 2014, "Genome-wide mapping of yeast RNA polymerase II termination," PLoS Genet. 10(10):e1004632.​ PubMed
Bruner, JK., Zou, B., Zhang, H., Zhang, Y., Schmidt, K., and Li, M., 2014, "Identification of novel small molecule modulators of K2P18.1 two-pore potassium channel," Eur J Pharmacol. 740:603-10.  PubMed
Clayton, AM., Dong, Y. and Dimopoulos, G., 2014, "The Anopheles innate immune system in the defense against malaria infection," J Innate Immun. 6(2):169-81. PMCID: PMC3939431 PubMed
Baile, MG., Sathappa, M., Lu, YW., Pryce, E., Whited, K., McCaffery, JM., Han, X., Alder, NN. and Claypool, SM., 2014, "Unremodeled and remodeled cardiolipin are functionally indistinguishable in yeast," J Biol Chem.289(3):1768-78. PMCID: PMC3894353  PubMed
Baile, MG., Lu, YW. and Claypool, SM., 2014, "The topology and regulation of cardiolipin biosynthesis and remodeling in yeast," Chem Phys Lipids, 179:25-31. PMCID: PMC3947685   PubMed
Wang, Y., Wang, JT., Rasoloson, D., Stitzel, ML., O'Connell, KF., Smith, HE. and Seydoux, G., 2014, "Identification of Suppressors of mbk-2/DYRK by Whole-Genome Sequencing," G3 (Bethesda), 4(2):231-41.  PMCID: PMC3931558  PubMed
Hétié, P., de Cuevas, M. and Matunis, E., 2014, "Conversion of quiescent niche cells to somatic stem cells causes ectopic niche formation in the Drosophila testis," Cell Rep. 7(3):715-21. PMCID: PMC4080611​ PubMed
Shamir, ER. and Ewald, AJ., 2014, "Three-dimensional organotypic culture: experimental models of mammalian biology and disease," Nat Rev Mol Cell Biol. 15(10):647-64. PMCID: PMC4352326 PubMed
Petersen, PS., Lei, X., Seldin, MM., Rodriguez, S., Byerly, MS., Wolfe, A., Whitlock, S. and Wong, GW., 2014, "Dynamic and extensive metabolic state-dependent regulation of cytokine expression and circulating levels," Am J Physiol Regul Integr Comp Physiol. 307(12):R1458-70. PMCID: PMC4269668  PubMed
Herb, BR., 2014, "Epigenetics as an answer to Darwin's "special difficulty"," Front Genet. 5:321. PMCID: PMC4162389 PubMed
Chen, BC., Legant, WR., Wang, K., Shao, L., Milkie, DE., Davidson, MW., Janetopoulos, C., Wu, XS., Hammer, JA. 3rd, Liu, Z., English, BP., Mimori-Kiyosue, Y., Romero, DP., Ritter, AT., Lippincott-Schwartz, J., Fritz-Laylin, L., Mullins, RD., Mitchell, DM., Bembenek, JN., Reymann, AC., Böhme, R., Grill, SW., Wang, JT., Seydoux, G., Tulu, US., Kiehart, DP. and Betzig, E., 2014, "Lattice light-sheet microscopy: imaging molecules to embryos at high spatiotemporal resolution," Science. 346(6208):1257998. PMCID: PMC4336192 PubMed​
Hua, ZL., Chang, H., Wang, Y., Smallwood, PM. and Nathans, J., 2014, "Partial interchangeability of Fz3 and Fz6 in tissue polarity signaling for epithelial orientation and axon growth and guidance," Development. 141(20):3944-54. PMCID: PMC4197693 PubMed
Ren, Y*., West-Foyle, H.*, Surcel, A*., Miller, C. and Robinson, DN., 2014, "Genetic suppression of a phosphomimic myosin II identifies system-level factors that promote myosin II cleavage furrow accumulation," Mol Biol Cell. 25(25):4150-65.  PMCID: PMC4263456 *equal contribution.   PubMed
Salgado, M., Gandhi, S., Buckheit, RW., Berkenblit, GV. and Blankson, JN., 2014, "Evolution of an attenuated HIV-1 isolate in an elite suppressor," AIDS Res Hum Retroviruses. 30(3):284-8. Epub 2013 Nov 13. PubMed
Cox, PM. and Bumpus, NN., 2014, "Structure-Activity Studies Reveal the Oxazinone Ring Is a Determinant of Cytochrome P450 2B6 Activity Toward Efavirenz," ACS Med Chem Lett. 5(10):1156-1161. PMCID: PMC4191608 PubMed​
Levine, MS. and Holland, AJ., 2014, "Polo-like kinase 4 shapes up," Structure, 22(8):1071-3.  PubMed
Kalia, J., Milescu, M., Salvatierra, J., Wagner, J., Klint, JK., King, GF., Olivera, BM. and Bosmans, F., 2014, "From Foe to Friend: Using Animal Toxins to Investigate Ion Channel Function," J Mol Biol. 427(1):158-75, Review. PMCID: PMC4277912 PubMed
Lee, DA., Yoo, S., Pak, T., Salvatierra, J., Velarde, E., Aja, S. and Blackshaw, S., 2014, "Dietary and sex-specific factors regulate hypothalamic neurogenesis in young adult mice," Front Neurosci. 8:157. PMCID: PMC4056383 PubMed
Bende, NS., Dziemborowicz, S., Mobli, M., Herzig, V., Gilchrist, J., Wagner, J., Nicholson, GM., King, GF. and Bosmans, F., 2014, "A distinct sodium channel voltage-sensor locus determines insect selectivity of the spider toxin Dc1a," Nat Commun. 5:4350. PMCID: PMC4115291 PubMed
Stine, RR.*, Greenspan, LJ.*, Ramachandran, KV.* and Matunis, EL.*, 2014, "Coordinate Regulation of Stem Cell Competition by Slit-Robo and JAK-STAT Signaling in the Drosophila Testis," PLoS Genet. 10(11):e1004713. PMCID: PMC4222695 *equal contribution PubMed
Cleveland, TE 4th*., McCabe, JM.* and Leahy, DJ., 2014, "Detergent-solubilized Patched purified from Sf9 cells fails to interact strongly with cognate Hedgehog or Ihog homologs," Protein Expr Purif, 104C, 92-102. PMCID: PMC4380871 *equal contribution PubMed
Kavran, JM.*, McCabe, JM.*, Byrne, PO.*, Connacher, MK., Wang, Z., Ramek, A., Sarabipour, S., Shan, Y., Shaw, DE., Hristova, K., Cole, PA. and Leahy, DJ.*, 2014, "How IGF-1 activates its receptor," Elife. 3. PMCID: PMC4381924 *equal contribution PubMed 
Kelkar, DS., Provost, E., Chaerkady, R., Muthusamy, B., Manda, SS., Subbannayya, T., Selvan, LD., Wang, CH., Datta, KK., Woo, S., Dwivedi, SB., Renuse, S., Getnet, D., Huang, TC., Kim, MS.,, Pinto, SM., Mitchell, CJ., Madugundu, AK., Kumar, P., Sharma, J., Advani, J., Dey, G., Balakrishnan, L., Syed, N., Nanjappa, V., Subbannayya, Y., Goel, R., Keshava Prasad, TS., Bafna, V., Sirdeshmukh, R., Gowda, H., Wang, C., Leach, SD. and Pandey, A., 2014, "Annotation of the Zebrafish Genome through an Integrated Transcriptomic and Proteomic Analysis," Mol Cell Proteomics. 13(11):3184-98. PMCID: PMC4223501 PubMed
Qing, Y., Yin, F., Wang, W., Zheng, Y., Guo, P., Schozer, F., Deng, H., and Pan, D., 2014, "The Hippo effector Yorkie activates transcription by interacting with a histone methyltransferase complex through Ncoa6," Elife, 3.  PMCID: PMC4118621   PubMed
Mehta, S.*, Aye-Han, NN.*, Ganesan, A., Oldach, L., Gorshkov, K. and Zhang, J., 2014, "Calmodulin-controlled spatial decoding of oscillatory Ca2+ signals by calcineurin," Elife. 3:e03765. PMCID: PMC4141273 * equal contribution PubMed
Berk, JM., Simon, DN., Jenkins-Houk, CR., Westerbeck, JW., Grønning-Wang, LM., Carlson, CR. and Wilson, KL., 2014, "The molecular basis of emerin-emerin and emerin-BAF interactions," J Cell Sci. 127(Pt 18):3956-69. PMCID: PMC4163644 PubMed
Zhou, Y. and Nathans, J., 2014, "Gpr124 controls CNS angiogenesis and blood-brain barrier integrity by promoting ligand-specific canonical wnt signaling," Dev Cell. 31(2):248-56. PMCID: PMC4223636  PubMed
Rodriguez, S., Ellis, JM. and Wolfgang, MJ., 2014, "Chemical-genetic induction of Malonyl-CoA decarboxylase in skeletal muscle," BMC Biochem. 15:20.  PMCID: PMC4236586 ​PubMed​
Rattner, A., Wang, Y., Zhou, Y., Williams, J. and Nathans, JH., 2014, "The role of the hypoxia response in shaping retinal vascular development in the absence of Norrin/Frizzled4 signaling," Invest Ophthalmol Vis Sci. 55(12):8614-25. PMCID: PMC4280883  PubMed
Zhang, H., Zou, B., Du, F., Xu, K. and Li, M., 2014, "Reporting Sodium Channel Activity using Calcium Flux: Pharmacological Promiscuity of Cardiac Nav1.5," Mol Pharmacol.87(2):207-17  PMCID: PMC4293450 PubMed
Wang, J. T.*, Smith, J.*, Chen, B.-C., Schmidt, H.*, Rasoloson, D.*, Paix, A.*, Lambrus, BG.*, Calidas, D.*, Betzig, E., and Seydoux, G., 2014, "Regulation of RNA granule dynamics by phosphorylation of serine-rich, intrinsically-disordered proteins in C. elegans," eLife, 3: e04591. PMCID: PMC4296509 PubMed
Heydarian, M.*, Luperchio, TR.*, Cutler, J., Mitchell, CJ., Kim, M., Pandey, A., Sollner-Webb, B. and Reddy, K.*, 2014, "Prediction of Gene Activity in Early B Cell Development Based on an Integrative Multi-Omics Analysis," J Proteomics Bioinform. 7. pii: 1000302. PMCID: PMC4276347 *equal contribution  PubMed
Ma, Q., Wawersik, M. and Matunis, EL., 2014, "The Jak-STAT target Chinmo prevents sex transformation of adult stem cells in the Drosophila testis niche," Dev Cell, 31(4):474-86. PMCID: PMC4254588  PubMed​
Tu-Sekine, B.*, Goldschmidt, H.* and Raben, DM., 2014, "Diacylglycerol, phosphatidic acid, and their metabolic enzymes in synaptic vesicle recycling," Adv Biol Regul, 57:147-52.  *equal contribution​ PubMed
Lu, C., Ward, A., Bettridge, J., Liu, Y. and Desiderio, S., 2014, "An Autoregulatory Mechanism Imposes Allosteric Control on the V(D)J Recombinase by Histone H3 Methylation," Cell Rep.10(1):29-38 PMCID: PMC4308961 PubMed
McCabe, JM. and Leahy, DJ., 2014, "Smoothened Goes Molecular: New Pieces in the Hedgehog Signaling Puzzle." J Biol Chem, 6: 3500-7 PMCID: PMC4319017 PubMed​
Freed, D., Stevens, EL. and Pevsner, J., 2014, "Somatic mosaicism in the human genome," Genes (Basel). 5(4):1064-94. Review. PMCID: PMC4276927 PubMed
Salvatierra, J., Lee, DA., Zibetti, C., Duran-Moreno, M., Yoo, S., Newman, EA., Wang, H., Bedont, JL., de Melo, J., Miranda-Angulo, AL., Gil-Perotin, S., Garcia-Verdugo, JM. and Blackshaw, S., 2014, "The LIM Homeodomain Factor Lhx2 Is Required for Hypothalamic Tanycyte Specification and Differentiation," J Neurosci. 34(50):16809-20. PMCID: PMC4261103 PubMed​

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