Recent Publications

Clark HR, McKenney C, Livingston NM, Gershman A, Sajjan S, Chan IS, Ewald AJ, Timp W, Wu B, Singh A, Regot S, 2021, Epigenetically regulated digital signaling defines epithelial innate immunity at the tissue level, Nat Commun., 12(1):1836. doi: 10.1038/s41467-021-22070-x, PMCID: PMC7988009  PubMed

Workman, RE., Pammi, T., Nguyen, BTK., Graeff, LW., Smith, E., Sebald, SM., Stoltzfus, MJ., Euler, CW., Modell, JW., 2021, A natural single-guide RNA repurposes Cas9 to autoregulate CRISPR-Cas expression, Cell, 184(3):675-688.e19. doi: 10.1016/j.cell.2020.12.017. PMID: 33421369  PubMed

Pokrass MJ, Ryan KA, Xin T, Pielstick B, Timp W, Greco V, Regot S., 2020, Cell-Cycle-Dependent ERK Signaling Dynamics Direct Fate Specification in the Mammalian Preimplantation Embryo, Dev Cell., 55(3):328-340.e5. doi: 10.1016/j.devcel.2020.09.013. PMC7658051  PubMed

Aikin TJ, Peterson AF, Pokrass MJ, Clark HR, Regot S., 2020, MAPK activity dynamics regulate non-cell autonomous effects of oncogene expression, Elife., 9:e60541. doi: 10.7554/eLife.60541. PMCID: PMC7498266  PubMed

Thorpe J, Osei-Owusu IA, Avigdor BE, Tupler R, Pevsner J., Annu Rev Genet., 2020, ” Mosaicism in Human Health and Disease.” 2020 Sep 11. doi:10.1146/annurev-genet-041720-093403. Online ahead of print. PMID: 32916079 PubMed

Yeow, ZY., Lambrus, BG., Marlow, R., Zhan, KH., Durin, MA., Evans, LT., Scott, PM., Phan, T., Park, E., Ruiz, LA., Moralli, D., Knight, EG., Badder, LM., Novo, D., Haider, S., Green, CM., Tutt, ANJ., Lord, CJ., Chapman, JR., Holland, AJ., 2020, Targeting TRIM37-driven centrosome dysfunction in 17q23-amplified breast cancer, Nature, 585(7825):447-452. doi: 10.1038/s41586-020-2690-1. PMCID: PMC7597367   PubMed

Hanley CJ, Henriet E, Sirka OK, Thomas GJ, Ewald AJ., 2020, “Tumor resident stromal cells promote breast cancer invasion through regulation of the basal phenotype.” Mol Cancer Res. 2020 Aug 31:molcanres.0334.2020. doi: 10.1158/1541-7786.MCR-20-0334. Online ahead of print. PMID: 32868298 PubMed

Gandhi S, Baker RP, Cho S, Stanchev S, Strisovsky K, Urban S., 2020, “Designed Parasite-Selective Rhomboid Inhibitors Block Invasion and Clear Blood-Stage Malaria.” Cell Chem Biol. 2020 Aug 31:S2451-9456(20)30333-0. doi: 10.1016/j.chembiol.2020.08.011. Online ahead of print. PMID: 32888502 PubMed

Enam, SU., Zinshteyn, B., Goldman, DH., Cassani, M., Livingston, NM., Seydoux, G., Green, R., 2020, Puromycin reactivity does not accurately localize translation at the subcellular level, Elife., 9:e60303. doi: 10.7554/eLife.60303. PMCID: PMC7490009  PubMed

Thorpe J, Frelin LP, McCann M, Pardo CA, Cohen BA, Comi AM, Pevsner J., 2020, “Identification of a mosaic activating mutation in GNA11 in atypical Sturge-Weber Syndrome.” J Invest Dermatol. 2020 Aug 6:S0022-202X(20)31955-2. doi: 10.1016/j.jid.2020.03.978. Online ahead of print. PMID: 32771470 PubMed.

Ruan L, McNamara JT, Zhang X, Chang AC, Zhu J, Dong Y, Sun G, Peterson A, Na CH, Li R., 2020 “Solid-phase inclusion as a mechanism for regulating unfolded proteins in the mitochondrial matrix.” Sci Adv. 2020 Aug 5;6(32):eabc7288. doi: 10.1126/sciadv.abc7288. eCollection 2020 Aug. PMID: 32821848 PMCID: PMC7406381 PubMed.

Mihaljević L, Urban S., 2020, “Decoding the Functional Evolution of an Intramembrane Protease Superfamily by Statistical Coupling Analysis.” Structure. 2020 Aug 10:S0969-2126(20)30279-3. doi: 10.1016/j.str.2020.07.015. Online ahead of print. PMID: 32795403 PubMed.

Stewart AN, Little HC, Clark DJ, Zhang H, Wong GW., 2020, Protein Modifications Critical for Myonectin/Erythroferrone Secretion and Oligomer Assembly, Biochemistry, 59(29):2684-2697. doi: 10.1021/acs.biochem.0c00461. PMCID: PMC7683180. PubMed

Chin AC, Yovanno RA, Wied TJ, Gershman A, Lau AY. 2020, “D-Serine Potently Drives Ligand-Binding Domain Closure in the Ionotropic Glutamate Receptor GluD2.” Structure. 2020 Jul 28:S0969-2126(20)30238-0. doi: 10.1016/j.str.2020.07.005. Online ahead of print. PMID: 32735769 PubMed.

Padmanaban V, Grasset EM, Neumann NM, Fraser AK, Henriet E, Matsui W, Tran PT, Cheung KJ, Georgess D, Ewald AJ., 2020, “Organotypic culture assays for murine and human primary and metastatic-site tumors.” Nat Protoc. 2020 Aug;15(8):2413-2442. doi: 10.1038/s41596-020-0335-3. Epub 2020 Jul 20. PMID: 32690957 PubMed

Kodani A, Moyer T, Chen A, Holland A, Walsh CA, Reiter JF., 2019, “SFI1 promotes centriole duplication by recruiting USP9X to stabilize the microcephaly protein STIL.” J Cell Biol. 2019 Jul 1;218(7):2185-2197. doi: 10.1083/jcb.201803041. PMCID: PMC6605807 PubMed.

Poll BG, Cheema MU, Pluznick JL., 2020, “Gut Microbial Metabolites and Blood Pressure Regulation: Focus on SCFAs and TMAO.” Physiology (Bethesda). 2020 Jul 1;35(4):275-284. doi: 10.1152/physiol.00004.2020. PMID: 32490748 PubMed.

Shubin CB, Greider CW., “The Role of Rif1 in telomere length regulation is separable from its role in origin firing.” Elife. 2020 Jun 29;9. pii: e58066. doi: 10.7554/eLife.58066. PMCID: PMC7371424 PubMed.

Timmons A, Fray E, Kumar M, Wu F, Dai W, Bullen CK, Kim P, Hetzel C, Yang C, Beg S, Lai J, Pomerantz JL, Yukl SA, Siliciano JD, Siliciano RF., 2020 “HSF1 inhibition attenuates HIV-1 latency reversal mediated by several candidate LRAs In Vitro and Ex Vivo.” Proc Natl Acad Sci U S A. 2020 Jun 22. pii: 201916290. doi: 10.1073/pnas.1916290117. PMID: 32571938 PubMed.

Hunyara JL, Kolodkin AL., 2020, “Repurposing developmental mechanisms in the adult nervous system.” Curr Opin Genet Dev. 2020 May 30;65:14-21. doi: 10.1016/j.gde.2020.04.006. Review. PMID: 32485480 PubMed.

Vasavda C, Ho BK, Snyder SH., 2020, “Ease restrictions on U.S. blood donations.” Science. 2020 May 29;368(6494):957. doi: 10.1126/science.abc2322. No abstract available. PMID: 32467382 PubMed.

May, MR., Bettridge, JT., Desiderio, S., 2020, Binding and allosteric transmission of histone H3 Lys-4 trimethylation to the recombinase RAG-1 are separable functions of the RAG-2 plant homeodomain finger, J Biol Chem., 295(27):9052-9060. doi: 10.1074/jbc.RA120.014382. PMCID: PMC7335790  PubMed

Sadler E, Ryals MM, May LA, Martin D, Welsh N, Boger ET, Morell RJ, Hertzano R, Cunningham LL., 2020, “Cell-Specific Transcriptional Responses to Heat Shock in the Mouse Utricle Epithelium.” Front Cell Neurosci. 2020 May 15;14:123. doi: 10.3389/fncel.2020.00123. eCollection 2020. PMCID: PMC7247426 PubMed.

Chen MJ, Lummertz da Rocha E, Cahan P, Kubaczka C, Hunter P, Sousa P, Mullin NK, Fujiwara Y, Nguyen M, Tan Y, Landry S, Han A, Yang S, Lu YF, Jha DK, Vo LT, Zhou Y, North TE, Zon LI, Daley GQ, Schlaeger TM., 2020, Transcriptome Dynamics of Hematopoietic Stem Cell Formation Revealed Using a Combinatorial Runx1 and Ly6a Reporter System, Stem Cell Reports, 14(5):956-971. doi: 10.1016/j.stemcr.2020.03.020, PMCID: PMC7220988  PubMed

Dresselhaus EC, Meffert MK., 2020, “Cellular Specificity of NF-κB Function in the Nervous System.” Front Immunol. 2019 May 9;10:1043. doi: 10.3389/fimmu.2019.01043. PMID: 31143184; PMCID: PMC6520659. PubMed

Lariviere PJ, Mahone CR, Santiago-Collazo G, Howell M, Daitch AK, Zeinert R, Chien P, Brown PJB, Goley ED., 2019, “An Essential Regulator of Bacterial Division Links FtsZ to Cell Wall Synthase Activation”, Curr Biol. 2019 May 6;29(9):1460-1470.e4. doi: 10.1016/j.cub.2019.03.066. PMCID: PMC6504580 PubMed.

Cairns L, Patterson A, Weingartner KA, Koehler TJ, DeAngelis DR, Tripp KW, Bothner B, Kavran JM., 2020 May 1, “Biophysical characterization of SARAH domain-mediated multimerization of Hippo pathway complexes in Drosophila,” J Biol Chem. 295(18):6202-6213 doi: 10.1074/jbc.RA120.012679. PubMed.

Youngstrom DW, Zondervan RL, Doucet NR, Acevedo PK, Sexton HE, Gardner EA, Anderson JS, Kushwaha P, Little HC, Rodriguez S, Riddle RC, Kalajzic I, Wong GW, Hankenson KD. 2020, “CTRP3 Regulates Endochondral Ossification and Bone Remodeling During Fracture Healing,” J Orthop Res. 2020 May 01;38(5):996-1006. doi: 10.1002/jor.24553. Epub 2019 Dec 16. PMID: 31808575 PMCID: PMC7162724 PubMed.

White CJ, Lee J, Choi J, Chu T, Scafidi S, Wolfgang MJ. 2020, “Determining the Bioenergetic Capacity for Fatty Acid Oxidation in the Mammalian Nervous System.” Mol Cell Biol. 2020 Apr 28;40(10):e00037-20. doi: 10.1128/MCB.00037-20. Print 2020 Apr 28. PMID: 32123009 PMCID: PMC7189099 PubMed.

Jiao Z, Cai H, Long Y, Sirka OK, Padmanaban V, Ewald AJ, Devreotes PN., 2020, “Statin-induced GGPP depletion blocks macropinocytosis and starves cells with oncogenic defects,” Proc Natl Acad Sci U S A. 2020 Feb 25;117(8):4158-4168. doi: 10.1073/pnas.1917938117. Epub 2020 Feb 12. PubMed.

Jang Y, Elsayed Z, Eki R, He S, Du KP, Abbas T, Kai M., 2020, “Intrinsically disordered protein RBM14 plays a role in generation of RNA:DNA hybrids at double-strand break sites,” Proc Natl Acad Sci U S A. 2020 Feb 24. pii: 201913280. doi: 10.1073/pnas.1913280117. [Epub ahead of print] PubMed.

Padmanaban V, Tsehay Y, Cheung KJ, Ewald AJ, Bader JS. 2020 Jan 21. “Between-tumor and within-tumor heterogeneity in invasive potential.” PLoS Comput Biol.;16(1):e1007464. doi: 10.1371/journal.pcbi.1007464. PMCID: PMC6994152. PubMed.

Ruan, L., Wang, Y., Zhang, X., Tomaszewski, A., McNamara, JT., Li, R., 2020, Mitochondria-Associated Proteostasis, Annu Rev Biophys., 49:41-67. doi: 10.1146/annurev-biophys-121219-081604. PMID: 31928428 PubMed

Dobrowolski M, Cave C, Levy-Myers R, Lee C, Park S, Choi BR, Xiao B, Yang W, Sockanathan S. 2020 Jan 23. “GDE3 regulates oligodendrocyte precursor proliferation via release of soluble CNTFRα.” Development;147(2). pii: dev180695. doi: 10.1242/dev.180695. PMID: 31932351. PMCID: PMC6983723. PubMed.

Maynard KR, Kardian A, Hill JL, Mai Y, Barry B, Hallock HL, Jaffe AE, Martinowich K. 2020 Jan 13. “TrkB signaling influences gene expression in cortistatin-expressing interneurons.” eNeuro.. pii: ENEURO.0310-19.2019. doi: 10.1523/ENEURO.0310-19.2019. PMID: 31941661. PubMed.

Woldemeskel SA, Daitch AK, Alvarez L, Panis G, Zeinert R, Gonzalez D, Smith E, Collier J, Chien P, Cava F, Viollier PH, Goley ED. 2020 Jan 21 “The conserved transcriptional regulator CdnL is required for metabolic homeostasis and morphogenesis in Caulobacter.” PLoS Genet.;16(1):e1008591. doi: 10.1371/journal.pgen.1008591. PMCID: PMC6994171 PubMed.

Putnam A, Cassani M, Smith J, Seydoux G. 2020 Jan 2. “Author Correction: A gel phase promotes condensation of liquid P granules in Caenorhabditis elegans embryos.” Nat Struct Mol Biol. doi: 10.1038/s41594-019-0367-y. PMID: 31896770. PubMed.

Veltri AJ, D’Orazio KN, Green R. 2020 Jan 8. “Make or break: the ribosome as a regulator of mRNA decay.” Cell Res.. doi: 10.1038/s41422-019-0271-3. PMID: 31913358. PubMed.

Lee CS, Putnam A, Lu T, He S, Ouyang JPT, Seydoux G, 2020, Recruitment of mRNAs to P granules by condensation with intrinsically-disordered proteins, Elife, 9:e52896. doi: 10.7554/eLife.52896, PMCID: PMC7007223  PubMed

Park EM, Scott PM, Clutario K, Cassidy KB, Zhan K, Gerber SA, Holland AJ. 2020 Jan 6. “WBP11 is required for splicing the TUBGCP6 pre-mRNA to promote centriole duplication.” J Cell Biol.;219(1). pii: e201904203. doi: 10.1083/jcb.201904203. PMID: 31874114. PubMed.

Rodriguez S, Little HC, Daneshpajouhnejad P, Shepard BD, Tan SY, Wolfe A, Cheema MU, Jandu S, Woodward OM, Talbot CC Jr, Berkowitz DE, Rosenberg AZ, Pluznick JL, Wong GW. 2019 Dec 26 “Late-onset renal hypertrophy and dysfunction in mice lacking CTRP1.” FASEB J. doi: 10.1096/fj.201900558RR. PMID: 31908037. PubMed.

Howell M, Aliashkevich A, Sundararajan K, Daniel JJ, Lariviere PJ, Goley ED, Cava F, Brown PJB. 2019 Apr. “Agrobacterium tumefaciens divisome proteins regulate the transition from polar growth to cell division.” Mol Microbiol.;111(4):1074-1092. doi: 10.1111/mmi.14212. Epub 2019 Mar 4. PMID: 30693575. PMCID: PMC6482847. PubMed.

Mohammad F, Buskirk AR., 2019 Dec 20, “Protocol for Ribosome Profiling in Bacteria,” Bio Protoc.;9(24). pii: e3468. doi: 10.21769/BioProtoc.3468. PMCID: PMC7079819 PubMed

Mercey O, Levine MS, LoMastro GM, Rostaing P, Brotslaw E, Gomez V, Kumar A, Spassky N, Mitchell BJ, Meunier A, Holland AJ. 2019 Dec. “Massive centriole production can occur in the absence of deuterosomes in multiciliated cells.” Nat Cell Biol.;21(12):1544-1552. doi: 10.1038/s41556-019-0427-x. PMID: 31792378. PMCID: PMC6913274. PubMed.

Youngstrom DW, Zondervan RL, Doucet NR, Acevedo PK, Sexton HE, Gardner EA, Anderson JS, Kushwaha P, Little HC, Rodriguez S, Riddle RC, Kalajzic I, Wong GW, Hankenson KD. 2019 Dec 6. “CTRP3 Regulates Endochondral Ossification and Bone Remodeling During Fracture Healing.” J Orthop Res..doi:10.1002/jor.24553. [Epub ahead of print]. PMID: 31808575. PubMed.

Comert F, Greenwood A, Maramba J, Acevedo R, Lucas L, Kulasinghe T, Cairns LS, Wen Y, Fu R, Hammer J, Blazyk J, Sukharev S, Cotten ML, Mihailescu M., 2019, “The host-defense peptide piscidin P1 reorganizes lipid domains in membranes and decreases activation energies in mechanosensitive ion channels,” J Biol Chem. 2019 Dec 6;294(49):18557-18570. doi: 10.1074/jbc.RA119.010232. PMCID: PMC6901303 PubMed

Lee JH, Berger JM. 2019 Oct 30. “Cell Cycle-Dependent Control and Roles of DNA Topoisomerase II.” Genes (Basel).;10(11). pii: E859. doi: 10.3390/genes10110859. Review. PMCID: PMC6896119. PubMed.

Georgess D, Padmanaban V, Sirka OK, Coutinho K, Choi A, Frid G, Neumann NM, Inoue T, Ewald AJ.  2019 Nov 1 “Twist1-induced epithelial dissemination requires Prkd1 signaling.” Cancer Res. pii: canres.3241.2018. doi: 10.1158/0008-5472.CAN-18-3241. PMID: 31676574. PubMed.

Allen J, Hao S, Sears CL, Timp W. 2019 May 21. “Epigenetic Changes Induced by Bacteroides fragilis Toxin” Infect Immun.;87(6). pii: e00447-18. doi: 10.1128/IAI.00447-18. Print 2019 Jun. PMID: 30885929. PMCID: PMC6529667. PubMed.

Keener R, Connelly CJ, Greider CW. 2019 Dec. “Tel1 Activation by the MRX Complex Is Sufficient for Telomere Length Regulation but Not for the DNA Damage Response in Saccharomyces cerevisiae. Genetics. 213(4):1271-1288. doi: 10.1534/genetics.119.302713 PMCID: PMC6893380. PubMed

Bowman CE, Selen Alpergin ES, Cavagnini K, Smith DM, Scafidi S, Wolfgang MJ. 2019 Oct 29. “Maternal Lipid Metabolism Directs Fetal Liver Programming following Nutrient Stress.” Cell Rep.;29(5):1299-1310.e3. doi: 10.1016/j.celrep.2019.09.053. PMID: 31665641. PubMed.

Rodriguez S, Stewart AN, Lei X, Cao X, Little HC, Fong V, Sarver DC, Wong GW. 2019, “PRADC1: a novel metabolic-responsive secretory protein that modulates physical activity and adiposity.” FASEB J. 2019 Dec;33(12):14748-14759. doi: 10.1096/fj.201901279R.  PMCID: PMC6894076 PubMed

Le TT, Gao X, Park SH, Lee J, Inman JT, Lee JH, Killian JL, Badman RP, Berger JM, Wang MD., 2019, “Synergistic Coordination of Chromatin Torsional Mechanics and Topoisomerase Activity,” Cell. ;179(3):619-631.e15. doi: 10.1016/j.cell.2019.09.034 PMCID: PMC6899335 PubMed

Wang Z, Hutcherson SM, Yang C, Jattani RP, Tritapoe JM, Yang YK, Pomerantz JL., 2019, “Coordinated regulation of scaffold opening and enzymatic activity during CARD11 signaling,” J Biol Chem. 2019 Oct 4;294(40):14648-14660. doi: 10.1074/jbc.RA119.009551. PMCID: PMC6779434 PubMed

Kothari P, Johnson C, Sandone C, Iglesias PA, Robinson DN. 2019, “How the mechanobiome drives cell behavior, viewed through the lens of control theory.” J Cell Sci. 2020 Sep 2 132(17). pii: jcs234476. doi: 10.1242/jcs.234476. Review. PMID: 31477578. PMCID: PMC6771144  PubMed.

Frandolig JE, Matney CJ, Lee K, Kim J, Chevée M, Kim SJ, Bickert AA, Brown SP., 2019, “The Synaptic Organization of Layer 6 Circuits Reveals Inhibition as a Major Output of a Neocortical Sublamina.” Cell Rep. 2019 Sep 17;28(12):3131-3143.e5. doi:10.1016/j.celrep.2019.08.048. PMID: 31533036 PMCID: PMC6941480 PubMed

Padmanaban V, Krol I, Suhail Y, Szczerba BM, Aceto N, Bader JS, Ewald AJ. 2019 Sep. “E-cadherin is required for metastasis in multiple models of breast cancer.” Nature. 573(7774):439-444. doi: 10.1038/s41586-019-1526-3. Epub 2019 Sep 4. PMID: 31485072. PubMed.

Puddu F, Herzog M, Selivanova A, Wang S, Zhu J, Klein-Lavi S, Gordon M, Meirman R, Millan-Zambrano G, Ayestaran I, Salguero I, Sharan R, Li R, Kupiec M, Jackson SP. 2019 Sep. “Genome architecture and stability in the Saccharomyces cerevisiae knockout collection.” Nature. 573(7774):416-420. doi: 10.1038/s41586-019-1549-9. PMCID: PMC6774800. PubMed.

Ouyang JPT, Folkmann A, Bernard L, Lee CY, Seroussi U, Charlesworth AG, Claycomb JM, Seydoux G., 2019, “P Granules Protect RNA Interference Genes from Silencing by piRNAs.” Dev Cell. 2019 Sep 23;50(6):716-728.e6. doi: 10.1016/j.devcel.2019.07.026. PMCID: PMC6764750 PubMed

Surcel A, Schiffhauer ES, Thomas DG, Zhu Q, DiNapoli KT, Herbig M, Otto O, West-Foyle H, Jacobi A, Kräter M, Plak K, Guck J, Jaffee EM, Iglesias PA, Anders RA, Robinson DN., 2019, “Targeting mechanoresponsive proteins in pancreatic cancer: 4-hydroxyacetophenone blocks dissemination and invasion by activating MYH14.” Cancer Res. 2019 Sep 15;79(18):4665-4678. doi: 10.1158/0008-5472.CAN-18-3131., PMCID: PMC6744980 PubMed

Tan Y, Cahan P. 2019 Aug 28. “SingleCellNet: A Computational Tool to Classify Single Cell RNA-Seq Data Across Platforms and Across Species.” Cell Syst.;9(2):207-213.e2. doi: 10.1016/j.cels.2019.06.004. Epub 2019 Jul 31. PMID: 31377170. PMCID: PMC6715530.  PubMed

Vissers C, Kageyama R. 2019 Aug 19. “Bursting the Notch Bubble: New Insights into In Vivo Transcriptional Dynamics.” Dev Cell.;50(4):393-394. doi: 10.1016/j.devcel.2019.07.028. PMID: 31430449. PubMed.

Pike AM, Strong MA, Ouyang JPT, Greider CW. 2019 Aug 5. “TIN2 functions with TPP1/POT1 to stimulate telomerase processivity.” Mol Cell Biol.. pii: MCB.00593-18. doi: 10.1128/MCB.00593-18. PMCID: PMC6791651. PubMed

Pundir P, Liu R, Vasavda C, Serhan N, Limjunyawong N, Yee R, Zhan Y, Dong X, Wu X, Zhang Y, Snyder SH, Gaudenzio N, Vidal JE, Dong X. 2019 Jul 10. “A Connective Tissue Mast-Cell-Specific Receptor Detects Bacterial Quorum-Sensing Molecules and Mediates Antibacterial Immunity.” Cell Host Microbe.;26(1):114-122.e8. doi: 10.1016/j.chom.2019.06.003. Epub 2019 Jul 2. PMID: 31278040. PMCID: PMC6649664. PubMed.

Vasavda C, Kothari R, Malla AP, Tokhunts R, Lin A, Ji M, Ricco C, Xu R, Saavedra HG, Sbodio JI, Snowman AM, Albacarys L, Hester L, Sedlak TW, Paul BD, Snyder SH. 2019 Jul 23. “Bilirubin Links Heme Metabolism to Neuroprotection by Scavenging Superoxide.” Cell Chem Biol. pii: S2451-9456(19)30218-1. doi: 10.1016/j.chembiol.2019.07.006. [Epub ahead of print] PMID: 31353321. PubMed.

Bender AM, Simonetti FR, Kumar MR, Fray EJ, Bruner KM, Timmons AE, Tai KY, Jenike KM, Antar AAR, Liu PT, Ho YC, Raugi DN, Seydi M, Gottlieb GS, Okoye AA, Del Prete GQ, Picker LJ, Mankowski JL, Lifson JD, Siliciano JD, Laird GM, Barouch DH, Clements JE, Siliciano RF. 2019 Jul 10. “The Landscape of Persistent Viral Genomes in ART-Treated SIV, SHIV, and HIV-2 Infections.” Cell Host Microbe.;26(1):73-85.e4. doi: 10.1016/j.chom.2019.06.005. PMID: 31295427. PMCID: PMC6724192 PubMed.

Edens BM, Vissers C, Su J, Arumugam S, Xu Z, Shi H, Miller N, Rojas Ringeling F, Ming GL, He C, Song H, Ma YC. 2019 Jul 23. “FMRP Modulates Neural Differentiation through m6A-Dependent mRNA Nuclear Export.” Cell Rep.;28(4):845-854.e5. doi: 10.1016/j.celrep.2019.06.072. PMID: 31340148. PubMed.

Hayward D, Kouznetsova VL, Pierson HE, Hasan NM, Guzman ER, Tsigelny IF, Lutsenko S., 2019 Jul 23, “ANKRD9 is a metabolically-controlled regulator of IMPDH2 abundance and macro-assembly.” J Biol Chem. 2019 Sep 27;294(39):14454-14466. doi: 10.1074/jbc.RA119.008231. PMCID: PMC6768640 PubMed

Little HC, Rodriguez S, Lei X, Tan SY, Stewart AN, Sahagun A, Sarver DC, Wong GW., 2019, “Myonectin deletion promotes adipose fat storage and reduces liver steatosis” FASEB J. 2019 Jul;33(7):8666-8687. doi: 10.1096/fj.201900520R PMCID: PMC6593887 PubMed

Johnson DM, Andrew DJ. 2019 Jun 26. “Role of tbc1 in Drosophila embryonic salivary glands.” BMC Mol Cell Biol. 20(1):19. doi: 10.1186/s12860-019-0198-z. PMCID: PMC6595604. PubMed.

Allen J, Sears CL. 2019 Feb 25. “Impact of the gut microbiome on the genome and epigenome of colon epithelial cells: contributions to colorectal cancer development.” Genome Med. 20(1):19. doi: 10.1186/s12860-019-0198-z. PMID: 30803449. PMCID: PMC6388476. PubMed

Zhu L*, Liao SE*, Fukunaga R. 2019 Jun 23. “Drosophila Regnase-1 RNase is required for mRNA and miRNA profile remodelling during larva-to-adult metamorphosis.” RNA Biol. 1-15. doi: 10.1080/15476286.2019.1630799. [Epub ahead of print], PMCID: PMC6542536, *equal contribution. PubMed

Kodani A, Moyer T, Chen A, Holland A, Walsh CA, Reiter JF. 2019 Jun 13. “SFI1 promotes centriole duplication by recruiting USP9X to stabilize the microcephaly protein STIL.” J Cell Biol. pii: jcb.201803041. doi: 10.1083/jcb.201803041. [Epub ahead of print]. PMID: 31197030. PubMed.

D’Orazio KN, Wu CC, Sinha N, Loll-Krippleber R, Brown GW, Green R. 2019 Jun 20. “The endonuclease Cue2 cleaves mRNAs at stalled ribosomes during No Go Decay.” Elife. 8. pii: e49117. doi: 10.7554/eLife.49117. PMCID: PMC6598757. PubMed.

Zieman AG, Poll BG, Ma J, Coulombe PA. 2019 Jul 1. “Altered keratinocyte differentiation is an early driver of keratin mutation-based palmoplantar keratoderma.” Hum Mol Genet. 28(13):2255-2270. doi: 10.1093/hmg/ddz050. PMCID: PMC6602407. PubMed

Dresselhaus EC, Meffert MK., 2019 May 9. “Cellular Specificity of NF-κB Function in the Nervous System.” Front Immunol, 10:1043. doi: 10.3389/fimmu.2019.01043. eCollection 2019. Review. PMCID: PMC6520659. PubMed.

Weaver J, Mohammad F, Buskirk AR, Storz G, 2019 Mar 5. “Identifying Small Proteins by Ribosome Profiling with Stalled Initiation Complexes.” MBio, 10(2). pii: e02819-18. doi: 10.1128/mBio.02819-18. PMCID: PMC6401488. PubMed.

Meixiong J, Vasavda C, Snyder SH, Dong X., 2019 May 21. “MRGPRX4 is a G protein-coupled receptor activated by bile acids that may contribute to cholestatic pruritus.” Proc Natl Acad Sci USA, 116(21):10525-10530. doi: 10.1073/pnas.1903316116. PMCID: PMC6535009 PubMed.

DeFelice MM*, Clark HR*, Hughey JJ*, Maayan I, Kudo T, Gutschow MV, Covert MW, Regot S., 2019 Apr 30. “NF-κB signaling dynamics is controlled by a dose-sensing autoregulatory loop.” Sci Signal. 12(579). pii: eaau3568. doi: 10.1126/scisignal.aau3568. *equal contribution. PubMed.

Moyer TC, Holland AJ., 2019 May 22. “PLK4 promotes centriole duplication by phosphorylating STIL to link the procentriole cartwheel to the microtubule wall.” Elife, 8. pii: e46054. doi: 10.7554/eLife.46054. [Epub ahead of print]. PMCID: PMC6570480  PubMed.

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Jernberg, JN., Bowman, CE., Wolfgang, MJ., and Scafidi, SJ., 2017, “Developmental regulation and localization of Carnitine Palmitoyltransferases (CPTs) in rat brain,” Neurochem. PMCID: PMC5927624 PubMed

Ramachandran, K. and Margolis SS., 2017, “A mammalian nervous-system-specific plasma membrane proteasome complex that modulates neuronal function,” Nat Struct Mol Biol. PMCID: PMC5383508   PubMed

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Cox, E., Hwang, W., Uzoma, I., Hu, J., Guzzo, C., Jeong, J., Matunis, M., Qian, J., Zhu, H., and Blackshaw, S., 2017, “Global analysis of SUMO-binding proteins identifies SUMOylation as a key regulator of the INO80 chromatin remodeling complex,” Mol Cell Proteomics. pii: mcp.M116.063719. PMCID: PMC5417823 PubMed

Lu, YW., Acoba, MG., Selvaraju, K., Huang, TC., Nirujogi, RS., Sathe, G., Pandey, A.,and Claypool, SM., 2017, “Human adenine nucleotide translocases physically and functionally interact with respirasomes,” Mol Biol Cell. pii: mbc.E17-03-0195. PMCID: PMC5449148 PubMed

Goodrich, AC., Meyers, DJ. and Frueh, DP., 2-17, “Molecular Impact of Covalent Modifications on Nonribosomal Peptide Synthetase Carrier Protein Communication,” J Biol Chem. 2017 Apr 28. pii: jbc.M116.766220.PMCID: PMC5473208 PubMed

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Bowman, CE., Rodriguez, S., Selen Alpergin, ES., Acoba, MG., Zhao, L., Hartung, T., Claypool, SM., Watkins, PA., and Wolfgang, MJ., 2017, “The Mammalian Malonyl-CoA Synthetase ACSF3 Is Required for Mitochondrial Protein Malonylation and Metabolic Efficiency,” Cell Chem Biol. pii: S2451-9456(17)30109-5. PMCID: PMC5482780 PubMed

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Burr, R., Stewart, EV. and Espenshade, PJ., 2017, “Coordinate Regulation of Yeast Sterol Regulatory Element-Binding Protein (SREBP) and Mga2 Transcription Factors,” J Biol Chem. 2017 Feb 15. pii: jbc.M117.778209. PMCID: PMC5392677 PubMed

Mills, EW., Green, R. and Ingolia, NT., 2017, “Slowed decay of mRNAs enhances platelet specific translation,” Blood. pii: blood-2016-08-736108. PMCID: PMC5409447 PubMed

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El-Diwany, R., Cohen, VJ., Mankowski, MC., Wasilewski, LN., Brady, JK., Snider, AE., Osburn, WO., Murrell, B., Ray, SC., Bailey, JR., 2017, “Extra-epitopic hepatitis C virus polymorphisms confer resistance to broadly neutralizing antibodies by modulating binding to scavenger receptor B1,” PLoS Pathog. 13(2):e1006235. PMCID: PMC5342271 PubMed

Li, Z., Tseng, PY., Tiwari, V., Xu, Q., He, SQ., Wang, Y., Zheng, Q., Han, L., Wu, Z., Blobaum, AL., Cui, Y., Tiwari, V., Sun, S., Cheng, Y., Huang-Lionnet, JH., Geng, Y., Xiao, B., Peng, J., Hopkins, C., Raja, SN., Guan, Y. and Dong, X., 2017, “Targeting human Mas-related G protein-coupled receptor X1 to inhibit persistent pain,” Proc Natl Acad Sci U S A. pii: 201615255. PMCID: PMC5347560 PubMed

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König, G., Pickard, FC., Huang, J., Simmonett, AC., Tofoleanu, F., Lee, J., Dral, PO., Prasad, S., Jones, M., Shao, Y., Thiel, W., Brooks, BR., 2016, Calculating distribution coefficients based on multi-scale free energy simulations: an evaluation of MM and QM/MM explicit solvent simulations of water-cyclohexanetransfer in the SAMPL5 challenge, J Comput Aided Mol Des. 2016 Nov;30(11):989-1006. PMID: 27577746 PubMed

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Tan, SY., Little, HC., Lei, X., Li, S., Rodriguez, S. and Wong, GW., 2016, “Partial deficiency of CTRP12 alters hepatic lipid metabolism,” Physiol Genomics. :physiolgenomics.00111.2016.​ PubMed

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Chen, Z., Dempsey, DR., Thomas, SN., Hayward, D., Bolduc, DM. and Cole, PA., 2016, “Molecular Features of Phosphatase and Tensin Homolog (PTEN) Regulation by C-terminal Phosphorylation,” J Biol Chem. (27):14160-9. PMCID: PMC4933174 PubMed

Shen, Y., Stracquadanio, G., Wang, Y., Yang, K., Mitchell, LA., Xue, Y., Cai, Y., Chen, T., Dymond, JS., Kang, K., Gong, J., Zeng, X., Zhang, Y., Li, Y., Feng, Q., Xu, X., Wang, J., Wang, J., Yang, H., Boeke, JD. and Bader, JS., 2016, “SCRaMbLE generates designed combinatorial stochastic diversity in synthetic chromosomes,” Genome Res. 26(1):36-49. PMID: 26566658 ​PubMed

Lambrus, BG., Daggubati, V., Uetake, Y., Scott, PM., Clutario, KM., Sluder, G. and Holland, AJ., 2016, “A USP28-53BP1-p53-p21 signaling axis arrestsgrowth after centrosome loss or prolonged mitosis,” J Cell Biol. 214(2):143-53. PMID: 27432896 PubMed

Shamir, ER., Coutinho, K., Georgess, D., Auer, M. and Ewald, AJ., 2016, “Twist1+ epithelial cells retain adhesive and proliferative capacity throughout dissemination,” Biol Open. pii: bio.019703. PMID: 27402962 PubMed

Nomura, M., Liu, J., Rovira, II., Gonzalez-Hurtado, E., Lee, J., Wolfgang, MJ., Finkel, T., 2016, “Fatty acid oxidation in macrophage polarization,” Nat Immunol.17(3):216-7. PMID: 26882249 PubMed

Ellison, D., Mugler, A., Brennan, MD., Lee, SH., Huebner, RJ., Shamir, ER., Woo, LA., Kim, J., Amar, P., Nemenman, I., Ewald, AJ. and Levchenko, A., 2016, “Cell-cell communication enhances the capacity of cell ensembles to sense shallow gradients during morphogenesis,” Proc Natl Acad Sci U S A. 113(6):E679-88. PMID: 26792522 PubMed​

Mills, EW., Wangen, J., Green, R. and Ingolia, NT., 2016, “Dynamic Regulation of a Ribosome Rescue Pathway in Erythroid Cells and Platelets,” Cell Rep. 17(1):1-10. PMID: 27681415 PubMed​

Hwang, J., Ribbens, D., Raychaudhuri, S., Cairns, L., Gu, H., Frost, A., Urban, S. and Espenshade, PJ., 2016, “A Golgi rhomboid protease Rbd2 recruits Cdc48 to cleave yeast SREBP,” EMBO J. pii: e201693923. PMID: 27655872 PubMed

Freed, D. and Pevsner, J., 2016, “The Contribution of Mosaic Variants to Autism Spectrum Disorder,” PLoS Genet. 12(9):e1006245. doi: 10.1371/journal.pgen.1006245. PMID: 27632392 PubMed

Avin, BA., Umbricht, CB. and  Zeiger, MA., 2016, “Human telomerase reverse transcriptase regulation by DNA methylation, transcription factor binding and alternative splicing,” (Review), nt J Oncol. PMID: 27779655 PubMed

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Rodriguez, S., Lei, X., Petersen, PS., Tan, SY., Little, HC., Wong, GW., 2016, “Loss of CTRP1 disrupts glucose and lipid homeostasis,” Am J Physiol Endocrinol Metab. 23:ajpendo.00087.2016. PMID: 27555298 PubMed

Martin-Eauclaire, MF., Salvatierra, J., Bosmans, F. and Bougis, PE., 2016, “The scorpion toxin Bot IX is a potent member of the α-like family and has a unique N-terminal sequence extension,” FEBS Lett. PMID: 27528512 PubMed

Huebner, RJ., Neumann, NM., Ewald, AJ., 2016, “Mammary epithelial tubes elongate through MAPK-dependent coordination of cell migration,” Development. 143(6):983-93. PMID: 26839364 PubMed

Ma, Q., de Cuevas, M., Matunis, EL., “Chinmo is sufficient to induce male fate in somatic cells of the adult Drosophila ovary,” Development. 143(5):754-63. PMID: 26811385  PubMed

Moreno, A., Froehlig, JR., Bachas, S., Gunio, D., Alexander, T., Vanya, A. and Wade, H., 2016, “Solution Binding and Structural Analyses Reveal Potential Multidrug Resistance Functions for SAV2435 and CTR107 and Other GyrI-like Proteins,” Biochemistry. 55(34):4850-63. 18. PMID: 27505298 PubMed

Ferrandino, G., Nicola, JP., Sánchez, YE., Echeverria, I., Liu, Y., Amzel, LM. and Carrasco, N., 2016, “Na+ coordination at the Na2 site of the Na+/I- symporter,” Proc Natl Acad Sci U S A. pii: 201607231. PMID: 27562170 PubMed

Yuan, G., Peng, YJ., Khan, SA., Nanduri, J., Singh, A., Vasavda, C., Semenza, GL., Kumar, GK., Snyder, SH. and Prabhakar, NR., 2016, “H2S production by reactive oxygen species in the carotid body triggers hypertension in a rodent model of sleep apnea,” Sci Signal. 9(441):ra80. PMID: 27531649 PubMed

Laskey, SB., Pohlmeyer, CW., Bruner, KM. and Siliciano, RF., 2016, “Evaluating Clonal Expansion of HIV-Infected Cells: Optimization of PCR Strategies to Predict Clonality,”  PLoS Pathog. 12(8):e1005689. PMCID:PMC4975415 PubMed

Oh, Y., Cho, GS., Li, Z., Hong, I., Zhu, R., Kim, MJ., Kim, YJ., Tampakakis, E., Tung, L., Huganir, R., Dong, X., Kwon, C. and Lee, G., 2016, “Functional Coupling with Cardiac Muscle Promotes Maturation of hPSC-Derived Sympathetic Neurons,” Cell Stem Cell. PMID: 27320040 PubMed

Lee, J., Choi, J., Scafidi, S. and Wolfgang, MJ., 2016, “Hepatic Fatty Acid Oxidation Restrains Systemic Catabolism during Starvation,” Cell Rep. 16(1):201-12. PMID: 27320917  PubMed

Cho, S., Dickey, SW., and Urban, S., 2016, “Crystal Structures and Inhibition Kinetics Reveal a Two-Stage Catalytic Mechanism with Drug Design Implications for Rhomboid Proteolysis,” Mol Cell. pii: S1097-2765(15)00978-8. PubMed

Campbell, DP., Chrysostomou, E. and Doetzlhofer, A., 2016, “Canonical Notch signaling plays an instructive role in auditory supporting cell development,” Sci Rep. 6:19484. PMCID: PMC472625 PubMed

Calzada, E., Onguka, O. and Claypool, SM., 2016, “Phosphatidylethanolamine Metabolism in Health and Disease,” Int Rev Cell Mol Biol. 321:29-88. PubMed

Ellison, D., Mugler, A., Brennan, MD., Lee, SH., Huebner, RJ., Shamir, ER., Woo, LA., Kim, J., Amar, P., Nemenman, I., Ewald, AJ. and Levchenko, A., 2016, “Cell-cell communication enhances the capacity of cell ensembles to sense shallow gradients during morphogenesis,” Proc Natl Acad Sci U S A. pii: 201516503. PubMed

Goldschmidt, HL., Tu-Sekine, B., Volk, L., Anggono, V., Huganir, RL. and Raben, DM., 2016,  “DGKθ Catalytic Activity Is Required for Efficient Recycling of Presynaptic Vesicles at Excitatory Synapses,” Cell Rep. 14(2):200-7. PubMed

Mirsafian, H., Manda, SS., Mitchell, CJ., Sreenivasamurthy, S., Ripen, AM., Mohamad, SB., Merican, AF., and Pandey, A., 2016,  “Long non-coding RNA expression in human primary monocytes,” Genomics. pii: S0888-7543(16)30002-7. PubMed

Wasilewski, LN., El-Diwany, R., Munshaw, S., Snider, AE., Brady, JK., Osburn, WO., Ray, SC., and Bailey, JR., 2016, “A hepatitis C virus envelope polymorphism confers resistance to neutralization by polyclonal sera and broadly neutralizing monoclonal antibodies,” J Virol. pii: JVI.02837-15. PubMed

Pedersen, SM., Chan, W., Jattani, RP., Mackie, DS. and Pomerantz, JL., 2015, “Negative Regulation of CARD11 Signaling and Lymphoma Cell Survival by the E3 Ubiquitin Ligase RNF181,” Mol Cell Biol. pii: MCB.00876-15.  PubMed

Pedersen, SM., Chan, W., Jattani, RP., Mackie, DS., and Pomerantz, JL., 2016,  “Correction for Pedersen et al., Regulation of CARD11 Signaling and Lymphoma Cell Survival by the E3 Ubiquitin Ligase RNF181,” Mol Cell Biol. 36(8):1322.​​ PubMed

Jattani, RP., Tritapoe, JM., and Pomerantz, JL., 2016, “Intramolecular Interactions and Regulation of Cofactor Binding by the Four Repressive Elements in the Caspase Recruitment Domain-Containing Protein 11 (CARD11) Inhibitory Domain,” J Biol Chem. pii: jbc.M116.717322.​​PubMed

Lee, J., Choi, J., Aja, S., Scafidi, S., and Wolfgang, MJ., 2016, “Loss of Adipose Fatty Acid Oxidation Does Not Potentiate Obesity at Thermoneutrality,” Cell Rep. 14(6):1308-16.​ PMCID: PMC4758873 PubMed

Bachas, S., Kohr, B., and Wade, H., 2016, “Charge is Major Determinant of Activation of the Ligand-Responsive Multidrug Resistance Gene Regulator,” BmrR. C​hemMedChem. ​ PubMed

Shirley, MD., Frelin, L., López, JS., Jedlicka, A., Dziedzic, A., Frank-Crawford, MA., Silverman, W., Hagopian, L., and Pevsner, J., 2016, “Copy Number Variants Associated with 14 Cases of Self-Injurious Behavior,” PLoS One. 11(3):e0149646.​ ​ PubMed

Meier, EL., Razavi, S., Inoue, T., and Goley, ED., 2016, “A novel membrane anchor for FtsZ is linked to cell wall hydrolysis in Caulobacter crescentus,” Mol Microbiol.​ ​ PubMed

Salvatierra, J. and Bosmans, F., 2016, “A painful tale about synthetic scorpion toxins,” Channels (Austin). [Epub ahead of print]​ ​ PubMed​

Chamling, X., Sluch, VM., and Zack, DJ., 2016, “The Potential of Human Stem Cells for the Study and Treatment of Glaucoma,” Invest Ophthalmol Vis Sci. 57(5):ORSFi1-6.​ PubMed

Mitchell, CJ., Kim, MS., Zhong, J., Nirujogi, RS., Bose, AK., and Pandey, A., 2016, “Unbiased identification of substrates of protein tyrosine phosphatase ptp-3 in C. elegans,” Mol Oncol.  pii: S1574-7891(16)30010-2.​ PubMed​

Zitouni, S., Francia, ME., Leal, F., Montenegro Gouveia, S., Nabais, C., Duarte, P., Gilberto, S., Brito, D., Moyer, T., Kandels-Lewis, S., Ohta, M., Kitagawa, D., Holland, AJ., Karsenti, E., Lorca, T., Lince-Faria, M., Bettencourt-Dias, M., 2016, “CDK1 Prevents Unscheduled PLK4-STIL Complex Assembly in Centriole Biogenesis,”  Curr Biol. pii: S0960-9822(16)30300-1.​ PubMed

Lei, X., Rodriguez, S., Petersen, PS., Seldin, MM., Bowman, CE., Wolfgang, MJ., and Wong, GW., 2016, “Loss of CTRP5 improves insulin action and hepatic steatosis,” Am J Physiol Endocrinol Metab. ajpendo.00010.2016. PubMed

Bowman, CE., Zhao, L., Hartung, T., and Wolfgang, MJ., 2016, “Requirement for the Mitochondrial Pyruvate Carrier in Mammalian Development Revealed by a Hypomorphic Allelic Series,” Mol Cell Biol. 36(15):2089-104. PMCID: PMC4946427 PubMed 

Lin, X., Steinberg, S., Kandasamy, SK., Afzal, J., Mbiyangandu, B., Liao, SE., Guan, Y., Corona-Villalobos, CP., Matkovich, SJ.,  Epstein, N., Tripodi, D., Huo, Z., Cutting, G., Abraham, TP., Fukunaga, R., and Abraham, MR., 2016, “Common miR-590 Variant rs6971711 Present Only in African Americans Reduces miR-590 Biogenesis,” PLoS One. 11(5):e0156065. eCollection 2016.​  PubMed

Pokorná, L., Čermáková, P., Horváth, A., Baile, MG., Claypool, SM., Griač, P., Malínský, J. and Balážová, M., 2016, “Specific degradation of phosphatidylglycerol is necessary for proper mitochondrial morphology and function,” Biochim Biophys Acta. 1857(1):34-45. PMCID: PMC4690203  PubMed

Mitchell, CJ., Kim, MS., Na, CH., and Pandey, A., 2016, ” PyQuant: a versatile framework for analysis of quantitative mass spectrometry data,” Mol Cell Proteomics. pii: mcp.O115.056879  15(8):2829-38. PMCID: PMC4974355  PubMed​

Lee, J., Choi, J., Wong, GW., and Wolfgang, MJ., 2016, “Neurometabolic roles of ApoE and Ldl-R in mouse brain,” J Bioenerg Biomembr. ​48(1):13-21. PMCID: PMC4733629  PubMed

Maruotti, J., Sripathi, SR., Bharti, K., Fuller, J., Wahlin, KJ., Ranganathan, V., Sluch, VM., Berlinicke, CA., Davis, J., Kim, C., Zhao, L., Wan, J., Qian, J., Corneo, B., Temple, S., Dubey, R., Olenyuk, BZ., Bhutto, I., Lutty, GA., and Zack, DJ., 2015, “Small-molecule-directed, efficient generation of retinal pigment epithelium from human pluripotent stem cells,” Proc Natl Acad Sci U S A. 112(35):10950-5.​ PMCID: PMC4568212  PubMed

Lin, Q., Jia, B., Mitchell, LA., Luo, J., Yang, K., Zeller, KI., Zhang, W., Xu, Z., Stracquadanio, G., Bader, JS., Boeke, JD., and Yuan, YJ., 2015, “RADOM, an efficient in vivo method for assembling designed DNA fragments up to 10 kb long in Saccharomyces cerevisiae,” ACS Synth Biol. 4(3):213-20.​ PubMed

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Greenspan, LJ., de Cuevas, M. and Matunis, E., 2015, “Genetics of Gonadal Stem Cell Renewal,” Annu Rev Cell Dev Biol,31:291-315  PMCID: PMC4659427 PubMed

Garcia-Gonzalo FR*, Phua SC*, Roberson EC, Garcia III G, Abedin M, Schurmans S, Inoue T, Reiter JF. 2015. Phosphoinositides Regulate Ciliary Protein Trafficking to Modulate Hedgehog Signaling. Developmental Cell. 34: 400-409. (*co-first authors) PMCID: PMC4557815 PubMed

Phua, SC., Lin, YC. and Inoue, T., 2015, “An intelligent nano-antenna: Primary cilium harnesses TRP channels to decode polymodal stimuli,” Cell Calcium, 58: 415-422, Review. PMCID: PMC4564334 [Available on 2016-10-01] PubMed

Koutmou, KS., Schuller, AP., Brunelle, JL., Radhakrishnan, A., Djuranovic, S. and Green, R., 2015, “Ribosomes slide on lysine-encoding homopolymeric A stretches,” Elife, 4: e05534. PMCID: PMC4363877 PubMed

Goodrich, AC. and Frueh, DP., 2015, “A Nuclear Magnetic Resonance Method for Probing Molecular Influences of Substrate Loading in Nonribosomal Peptide Synthetase Carrier Proteins. Biochemistry, 54, 1154-6.  PMCID: PMC4378656 PubMed

Lu, YW. and Claypool, SM., 2015, “Disorders of phospholipid metabolism: an emerging class of mitochondrial disease due to defects in nuclear genes,” Front Genet. 2015 Feb 3;6:3 PMCID: PMC4315098

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Kowalinski, E., Schuller, A., Green, R. and Conti, E., 2015, “Saccharomyces cerevisiae Ski7 Is a GTP-Binding Protein Adopting the Characteristic Conformation of Active Translational GTPases,” Structure, 23(7):1336-43 PMCID: PMC4509514  PubMed

Sluch, VM., Davis, CH., Ranganathan, V., Kerr, JM., Krick, K., Martin, R., Berlinicke, CA., Marsh-Armstrong, N., Diamond, JS., Mao, HQ. and Zack, DJ., 2015, “Differentiation of human ESCs to retinal ganglion cells using a CRISPR engineered reporter cell line,” Sci Rep. 5:16595. PMCID: PMC4643248 PubMed

Cheng, YL. and Andrew, DJ., 2015, “Extracellular Mipp1 Activity Confers Migratory Advantage to Epithelial Cells during Collective Migration,” Cell Rep. 13(10):2174-88. PMCID: PMC4776642. PubMed

Goodrich, AC., Harden, BJ. and Frueh, DP., 2015, “Solution Structure of a Nonribosomal Peptide Synthetase Carrier Protein Loaded with Its Substrate Reveals Transient, Well-Defined Contacts,” J Am Chem Soc. PMID: 26334259​ PubMed

Sun, G. j, Zhou, Y., Ito, S., Bonaguidi, M. a, O’Brien, G. s, Kawasaki, N., Modak, N., Zhu, Y., Ming, G.-L., Song, H., “Latent tri-lineage potential of adult neural stem cells in the hippocampus revealed by Nf1 inactivation”, Nature Neuroscience, 2015 Dec;18(12):1722-4. PMID: 26523645 PubMed

Ward, MD. and Leahy, DJ., 2015, “Kinase activator-receiver preference in ErbB heterodimers is determined by intracellular regions and is not coupled to extracellular asymmetry,” J Biol Chem. 290(3):1570-9. PMCID: PMC4340403 PubMed

Deng, K., Pertea, M., Rongvaux, A., Wang, L., Durand, CM., Ghiaur, G., Lai, J., McHugh, HL., Hao, H., Zhang, H., Margolick, JB., Gurer, C., Murphy, AJ., Valenzuela, DM., Yancopoulos, GD., Deeks, SG., Strowig, T., Kumar, P., Siliciano, JD., Salzberg, SL., Flavell, RA., Shan, L. and Siliciano, RF, 2015, “Broad CTL response is required to clear latent HIV-1 due to dominance of escape mutations,” Nature.15;517(7534):381-5. PMCID: PMC4406054  PubMed

Multhaup, ML., Seldin, MM., Jaffe, AE., Lei, X., Kirchner, H., Mondal, P., Li, Y., Rodriguez, V., Drong, A., Hussain, M., Lindgren, C., McCarthy, M., Näslund, E., Zierath, JR., Wong, GW. and Feinberg, AP., 2015, “Mouse-human experimental epigenetic analysis unmasks dietary targets and genetic liability for diabetic phenotypes,” Cell Metab. 21(1):138-49. PMCID: PMC4340475  PubMed

Dancy, BM. and Cole, PA., 2015, “Protein Lysine Acetylation by p300/CBP,” Chem Rev, 115(6):2419-52. PMCID: PMC4378506 PubMed

Goodrich, AC. and Frueh, DP., 2015, “A Nuclear Magnetic Resonance Method for Probing Molecular Influences of Substrate Loading in Nonribosomal Peptide Synthetase Carrier Proteins. Biochemistry, 54, 1154-6.  PMCID: PMC4378656 PubMed

Harr, JC.*, Luperchio, TR.*, Wong, X.*, Cohen, E*., Wheelan, SJ. and Reddy, KL., 2015, “Directed targeting of chromatin to the nuclear lamina is mediated by chromatin state and A-type lamins,” J Cell Biol. 208(1):33-52. PMCID: PMC4284222 *equal contribution.​ PubMed​

Surcel, A., Ng, WP., West-Foyle, H., Zhu, Q., Ren, Y., Avery, LB., Krenc, AK., Meyers, DJ., Rock, RS., Anders, RA., Freel, Meyers, CL. and Robinson, DN., 2015, “Pharmacological activation of myosin II paralogs to correct cell mechanics defects,” Proc Natl Acad Sci USA, 112(5):1428-33.  PMCID: PMC4321244 PubMed​

Clister, T., Mehta, S. and Zhang, J., 2015, “Single-cell Analysis of G-protein Signal Transduction,” J Biol Chem, 290(11):6681-8. PMCID: PMC4358091 PubMed

Koutmou, K.S., Schuller, A.P., Brunelle, J.L., Radhakrishnan, A., Djuranovic, S. & Green, R. Ribosomes slide on lysine-encoding homopolymeric A stretches. eLife, e05534 (2015). . PMCID: PMC4363877 PubMed​

Lu, YW. and Claypool, SM., 2015, “Disorders of phospholipid metabolism: an emerging class of mitochondrial disease due to defects in nuclear genes,” Front Genet. 2015 Feb 3;6:3 PMCID: PMC4315098  PubMed​

Lei, X.*, Li, Q., Rodriguez, S.*, Tan, SY.*, Seldin, MM.*, McLenithan, JC., Jia, W. and Wong, GW., 2015, “Thromboxane synthase deficiency improves insulin action and attenuates adipose tissue fibrosis,” Am J Physiol Endocrinol Metab. 308(9):E792-804 *equal contribution PubMed

Cox, E., Uzoma, I., Guzzo, C., Jeong, JS., Matunis, M., Blackshaw, S. and Zhu, H., 2015, “Identification of SUMO E3 Ligase-Specific Substrates Using the HuProt Human Proteome Microarray,” Methods Mol Biol. 1295:455-63. PMCID: unknown PubMed

Zhou, X., Clister, TL., Lowry, PR., Seldin, MM., Wong, GW. and Zhang, J., 2015, “Dynamic Visualization of mTORC1 Activity in Living Cells,” Cell Rep. pii: S2211-1247(15)00177-1. PMCID: PMC4567530  PubMed

Eginton C, Cressman WJ, Bachas S, Wade H, Beckett D. Allosteric Coupling via Distant Disorder-to-Order Transitions. J Mol Biol. 2015 Apr 24;427(8):1695-1704. doi: 10.1016/j.jmb.2015.02.021. Epub 2015 Mar 4. PubMed

Deng, H., Wang, W., Yu, J., Zheng, Y., Qing, Y., and Pan, D., 2015, “Spectrin regulates Hippo signaling by modulating cortical actomyosin activity,”  ELife, 4:e06567.  PMCID: PMC4412106  PubMed

Yoo, SW., Motari, MG., Susuki, K., Prendergast, J., Mountney, A., Hurtado, A. and Schnaar, RL., 2015 “Sialylation regulates brain structure and function,” FASEB J. 29(7):3040-53. PMCID: PMC4478807 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-1 in patients with undetectable viral loads,” J Infect Dis. 212:1387-1396. PMCID: PMC4601916 ​ PubMed

Onguka, O., Calzada, E., Ogunbona, OB. and Claypool, SM., 2015, “Phosphatidylserine Decarboxylase 1 Autocatalysis and Function Does Not Require a Mitochondrial-specific Factor,” J Biol Chem, 290: 12744-52  PMCID: PMC4432291  PubMed​

Li, Z., He, SQ., Tseng, PY., Xu, Q., Tiwari, V., Yang, F., Shu, B., Zhang, T., Tang, Z., Raja, SN., Wang, Y., Dong, X. and Guan, Y., 2015, “The inhibition of high-voltage-activated calcium current by activation of MrgC11 involves phospholipase C-dependent mechanisms,” Neuroscience, 300:393-403. PMCID: PMC4485588  PubMed​

Zhang, W., Wu, J., Ward, MD., Yang, S., Chuang, YA., Xiao, M., Li, R., Leahy, DJ. and Worley, PF., 2015, “Structural basis of arc binding to synaptic proteins: implications for cognitive disease.” Neuron. 22;86(2):490-500. PMCID: PMC4409568 PubMed

Kurbanov, F., Kim, Y., Latanich, R., Chaudhari, P., El-Diwany, R., Knabel, M., Kandathil, AJ., Cameron, A., Cox, A., Jang, YY., Thomas, DL. and Balagopal, A., 2015, “IFNL3 genotype is associated with differential induction of IFNL3 in primary human hepatocytes,” Antivir Ther. doi: 10.3851/IMP2974. [Epub ahead of print]  PMCID: unknownPubMed

Hasan, S., Hétié, P amd Matunis, EL., 2015, “Niche signaling promotes stem cell survival in the Drosophila testis via the JAK-STAT target DIAP1,” Dev Biol, 404(1):27-39 PMCID: PMC4469572 PubMed

Westerbeck, JW. and Machamer, CE., 2015, “A Coronavirus E Protein is Present in Two Distinct Pools with Different Effects on Assembly and the Secretory Pathway,” J Virol., 89:18.  PMCID: PMC4542375  PubMed

Zhou, Y., Williams, J., Smallwood, PM. and Nathans, J., 2015, “Sox7, Sox17, and Sox18 Cooperatively Regulate Vascular Development in the Mouse Retina,” PLoS One. 10(12):e0143650.​ ​ PubMed

Lim, C., Gandhi, S., Biniossek, ML., Feng, L., Schilling, O., Urban, S., and Chen, X., 2015, “An Aminopeptidase in the Drosophila Testicular Niche Acts in Germline Stem Cell Maintenance and Spermatogonial Dedifferentiation,” Cell Rep. 13(2):315-25. PMCID: PMC4607668 PubMed

Subramanian, M., Timmerman, CK., Schwartz, J.L., Pham, DL. and Meffert, MK., 2015, “Characterizing autism spectrum disorders by key biochemical pathways,” Front Neurosci. 9:313.  Review. PMCID: PMC4586332 . PubMed

Lambrus, BG., Uetake, Y., Clutario, KM., Daggubati, V., Snyder, M., Sluder, G. and Holland, AJ., 2015, “p53 protects against genome instability following centriole duplication failure,” J Cell Biol., 210(1):63-77. PMCID: PMC4494000  PubMed

Hobbs, RP., DePianto, DJ., Jacob, JT., Han, MC., Chung, BM., Batazzi, AS., Poll, BG., Guo, Y., Han, J., Ong, S., Zheng, W., Taube, JM., Čiháková, D., Wan, F. and Coulombe, PA. 2015, “Keratin-dependent regulation of Aire and gene expression in skin tumor keratinocytes,” Nat Genet. 47(8):933-8. PMCID: PMC4520766 ​PubMed​

Moore,CD.*, Ajala, OZ.* and Zhu, H., 2015, “Applications in high-content functional protein microarrays,” Curr Opin Chem Biol. 30:21-27.  Review. *equal contribution PubMed

Echeverria, I., Liu, Y., Gabelli, SB., and Amzel, LM., 2015, “Oncogenic mutations weaken the interactions that stabilize the p110α-p85α heterodimer in phosphatidylinositol 3-kinase α,” FEBS J. 282(18):3528-42.​ PMCID: PMC4573839 PubMed

Margolis, SS., Sell, GL., Zbinden, MA., and Bird, LM., 2015, “Angelman Syndrome,” Neurotherapeutics. 12(3):641-50.​ ​ PubMed

Ellis, JM., Bowman, CE. and Wolfgang, MJ., 2015, “Metabolic and tissue-specific regulation of acyl-CoA metabolism,” PLoS One. 10(3):e0116587.​ ​ PubMed

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. *equal contribution  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

de la Peña, AH., Suarez, A., Duong-Ly, KC., Schoeffield, AJ., Pizarro-Dupuy, MA., Zarr, M., Pineiro, SA., Amzel, LM. and Gabelli, SB., 2015, “Structural and Enzymatic Characterization of a Nucleoside Diphosphate Sugar Hydrolase from Bdellovibrio bacteriovorus,” PLoS One, PMID: 26524597 PubMed

Baras, AS., Mitchell, CJ., Myers, JR., Gupta, S., Weng, LC., Ashton, JM., Cornish, TC., Pandey, A. and  Halushka, MK., 2015, “miRge – A Multiplexed Method of Processing Small RNA-Seq Data to Determine MicroRNA Entropy,” PLoS One. PMID: 26571139  PubMed

Phua, SC., Lin, YC. and Inoue, T., 2015, “An intelligent nano-antenna: Primary cilium harnesses TRP channels to decode polymodal stimuli,” Cell Calcium. 58(4):415-22. Review. PMID: 25828566 PubMed​

Lim, C., Gandhi, S., Biniossek, ML., Feng, L., Schilling, O., Urban, S., Chen, X., 2015, An Aminopeptidase in the Drosophila Testicular Niche Acts in Germline Stem Cell Maintenance and Spermatogonial Dedifferentiation. Cell Rep. 13(2):315-25. PMID: 26440886  PubMed

Sundararajan, K.*, Miguel, A., Desmarais, SM., Meier, EL*., Casey, Huang, K. and Goley, ED.*, 2015, “The bacterial tubulin FtsZ requires its intrinsically disordered linker to direct robust cell wall construction,” Nat Commun. 6:7281. PMCID: PMC4532373 *equal contribution​ PubMed

Kurbanov, F., Kim, Y., Latanich, R., Chaudhari, P., El-Diwany, R., Knabel, M., Kandathil, AJ., Cameron, A., Cox, A., Jang, YY., Thomas, DL. and Balagopal, A., 2015, “IFNL3 genotype is associated with differential induction of IFNL3 in primary human hepatocytes,” Antivir Ther. doi: 10.3851/IMP2974. [Epub ahead of print]  PMCID: unknown PubMed

Greenspan, LJ., de Cuevas, M. and Matunis, E., 2015, “Genetics of gonadal stem cell renewal,” Annu Rev Cell Dev Biol. 31:291-315. PMID: 26355592 PubMed​

Lee, CF., Lo, YC., Cheng, CH., Furtmüller, GJ., Oh, B., Andrade-Oliveira, V., Thomas, AG., Bowman, CE., Slusher, BS., Wolfgang, MJ., Brandacher, G., Powell, JD., 2015, “Preventing Allograft Rejection by Targeting Immune Metabolism,” Cell Rep. 13(4):760-70. PMID: 26489460 PubMed

Mitchell, CJ., Getnet, D., Kim, MS., Manda, SS., Kumar, P., Huang, TC., Pinto, SM., Nirujogi, RS., Iwasaki, M., Shaw, PG., Wu, X., Zhong, J., Chaerkady, R., Marimuthu, A., Muthusamy, B., Sahasrabuddhe, NA., Raju, R., Bowman, C., Danilova, L., Cutler, J., Kelkar, DS., Drake, CG., Prasad, TS., Marchionni, L., Murakami, PN., Scott, AF., Shi, L., Thierry-Mieg, J., Thierry-Mieg, D., Irizarry, R., Cope, L., Ishihama, Y., Wang, C., Gowda, H. and Pandey, A., 2015, “A multi-omic analysis of human naïve CD4+ T cells,” BMC Syst Biol. 9:75. PMID: 26542228 PubMed

Goodrich, A.C., Nichols, S.R., and Frueh, D.P, 2014, “Resonance Assignments and Structure Determination of Large and Challenging Proteins,” Encyclopedia of Magnetic Resonance. 3. 

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

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. pii: S0014-2999(14)00463-4. 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., 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

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​

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., Jeon, S., Caterina, MJ. and Nathans, J., 2014, “Frizzled3 is required for the development of multiple axon tracts in the mouse central nervous system,” Proc Natl Acad Sci U S A. 111(29):E3005-14.  PMCID: PMC4115534​ 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  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

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​

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  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 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​

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 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

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

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 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. 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

Freed, D., Stevens, EL. and Pevsner, J., 2014, “Somatic mosaicism in the human genome,” Genes (Basel). 5(4):1064-94. Review. PMCID: PMC4276927 PubMed

• Lee J, Ellis JM, Wolfgang MJ. Adipose Fatty Acid Oxidation Is Required for Thermogenesis and Potentiates Oxidative Stress-Induced Inflammation. Cell Rep. 2015 Jan 7. pii: S2211-1247(14)01052-3. doi: 10.1016/j.celrep.2014.12.023. [Epub ahead of print] PubMed​

Suarez, A., Ueno, T., Huebner, R., McCaffery, JM. and Inoue, T., 2014, “Bin/Amphiphysin/Rvs (BAR) family members bend membranes in cells,” Sci Rep. 4:4693.   PubMed

Cross, BM., Breitwieser, GE., Reinhardt, TA. and Rao, R., 2014, “Cellular calcium dynamics in lactation and breast cancer: from physiology to pathology,” Am J Physiol Cell Physiol. 306(6):C515-26. PMCID: PMC3948975 PubMed​

Wong, X., Luperchio, TR. and Reddy, KL., 2014, “NET gains and losses: the role of changing nuclear envelope proteomes in genome regulation,” Curr Opin Cell Biol. 28C:105-120.  Review.​ PubMed

Colis, L., Peltonen, K., Sirajuddin, P., Liu, H., Sanders, S., Ernst, G., Barrow, JC. and Laiho, M., 2014, “DNA intercalator BMH-21 inhibits RNA polymerase I independent of DNA damage response,” Oncotarget, 5(12):4361-4369. PMCID: PMC4147329 PubMed

Davis, CH., Kim, KY., Bushong, EA., Mills, EA., Boassa, D., Shih, T., Kinebuchi, M., Phan, S., Zhou, Y., Bihlmeyer, NA., Nguyen, JV., Jin, Y., Ellisman, MH. and Marsh-Armstrong, N., 2014, “Transcellular degradation of axonal mitochondria,” Proc Natl Acad Sci U S A. 111(26):9633-8.  PMCID: PMC4084443 PubMed

Guzzo, CM., Ringel, A., Cox, E., Uzoma, I., Zhu, H., Blackshaw, S., Wolberger, C. and Matunis, MJ., 2014, “Characterization of the SUMO-Binding Activity of the Myeloproliferative and Mental Retardation (MYM)-Type Zinc Fingers in ZNF261 and ZNF198,” PLoS One. 9(8):e105271. PMCID: PMC4136804​ PubMed

Kuang, Z., Cai, L., Zhang, X., Ji, H., Tu, BP. and Boeke, JD., 2014, “High-temporal-resolution view of transcription and chromatin states across distinct metabolic states in budding yeast,” Nat Struct Mol Biol. 21(10):854-63  PMCID: PMC4190017 ​ PubMed

Papazyan, R., Voronina, E., Chapman, JR., Luperchio, TR., Gilbert, TM., Meier, E., Mackintosh, SG., Shabanowitz, J., Tackett, AJ., Reddy, KL., Coyne, RS., Hunt, DF., Liu, Y. and Taverna, SD., 2014, “Methylation of histone H3K23 blocks DNA damage in pericentric heterochromatin during meiosis,” Elife. 3:e02996. PMCID: PMC4141274 PubMed

Cieniewicz, AM., Moreland, L., Ringel, AE., Mackintosh, SG., Raman, A., Gilbert, TM., Wolberger, C., Tackett, AJ. and Taverna, SD., 2014, “The bromodomain of Gcn5 regulates site-specificity of lysine acetylation on histone H3,” Mol Cell Proteomics,13(11):2896-910.  PMCID: PMC4223480 PubMed

Gilbert, TM., McDaniel, SL., Byrum, SD., Cades, JA., Dancy, BC., Wade, H., Tackett, AJ., Strahl, BD. and Taverna, SD., 2014, “An H3K36me3 binding PWWP protein targets the NuA3 acetyltransferase complex to coordinate transcriptional elongation at coding regions,” Mol Cell Proteomics, 13(11):2883-95. PMCID: PMC4223479​ PubMed

Li, Y., Ma, Q., Cherry, CM. and Matunis, EL., 2014, “Steroid signaling promotes stem cell maintenance in the Drosophila testis,” Dev Biol. 394(1):129-41.  PMCID: PMC4165524​ PubMed

Kim, YS., Chu, Y., Han, L., Li, M., Li, Z., Lavinka, PC., Sun, S., Tang, Z., Park, K., Caterina, MJ., Ren, K., Dubner, R., Wei, F. and Dong, X., 2014, “Central Terminal Sensitization of TRPV1 by Descending Serotonergic Facilitation Modulates Chronic Pain,” Neuron, 81(4):873-87.  PMCID: PMC3943838 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 

Colis, L., Ernst, G., Sanders, S., Liu, H., Sirajuddin, P., Peltonen, K., DePasquale, M., Barrow, JC. and Laiho, M., 2014, “Design, synthesis, and structure-activity relationships of pyridoquinazolinecarboxamides as RNA polymerase I inhibitors,” J Med Chem 57(11):4950-61.​ PMCID: PMC4059246​ PubMed 

Prendergast, J., Umanah, GK., Yoo, SW., Lagerlöf, O., Motari, MG., Cole, RN., Huganir, RL., Dawson, TM., Dawson, VL. and Schnaar, RL., 2014, “Ganglioside regulation of AMPA receptor trafficking,” J Neurosci. 34(39):13246-58. PMCID: PMC4172811  PubMed

Paix, A., Wang, Y., Smith, H., Lee, CY., Calidas, D., Lu, T., Smith, J., Schmidt, H., Krause, M. and Seydoux, G., 2014, “Scalable and Versatile Genome Editing Using Linear DNAs with Micro-homology to Cas9 Sites in Caenorhabditis elegans,” Genetics, 198(4):1347-56.  PMCID: PMC4256755 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

Gilbert, CE., Zuckerman, DM., Currier, PL. and Machamer, CE., 2014, “Three basic residues of intracellular loop 3 of the Beta-1 adrenergic receptor are required for golgin-160-dependent trafficking,” Int J Mol Sci. 15(2):2929-45. PMCID: PMC3958891 PubMed

Brubaker, SW., Gauthier, AE., Mills, EW., Ingolia, NT. and Kagan, JC.,  2014, “A Bicistronic MAVS Transcript Highlights a Class of Truncated Variants in Antiviral Immunity,” Cell. 2014 Feb 13;156(4):800-11. doi: 10.1016/j.cell.2014.01.021. PMCID: PMC3959641 PubMed

Meier, EL. and Goley, ED., 2014, “Form and function of the bacterial cytokinetic ring,” Curr Opin Cell Biol. 26C:19-27.  PubMed

Oldach, L. and Zhang, J., 2014, “Genetically Encoded Fluorescent Biosensors for Live-Cell Visualization of Protein Phosphorylation,” Chem Biol. 21(2):186-197. PMCID: PMC4050661  PubMed

Luperchio, TR., Wong, X. and Reddy, KL., 2014, “Genome regulation at the peripheral zone: lamina associated domains in development and disease,” Curr Opin Genet Dev. 25C:50-61.  Review. PubMed

Huebner, RJ. and Ewald, AJ., 2014, “Cellular foundations of mammary tubulogenesis,” Semin Cell Dev Biol, 31:124-31. Review.​ PMCID: PMC4116098 PubMed

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Hodge, DL., Berthet, C., Coppola, V., Kastenmüller, W., Buschman, MD., Schaughency, PM., Shirota, H., Scarzello, AJ., Subleski, JJ., Anver, MR., Ortaldo, JR., Lin, F., Reynolds, DA., Sanford, ME., Kaldis, P., Tessarollo, L., Klinman, DM. and Young, HA., 2014, “IFN-gamma AU-rich element removal promotes chronic IFN-gamma expression and autoimmunity in mice,” J Autoimmun. 53:33-45. PMCID: PMC4148478 PubMed

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Sluch, VM. and Zack, DJ. 2014, “Stem cells, retinal ganglion cells and glaucoma,” Dev Ophthalmol. 53:111-21. PMCID: PMC4547935  PubMed

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Eyler, DE., Wehner, KA. and Green, R., 2013, “Eukaryotic release factor 3 is required for multiple turnovers of peptide release catalysis by eukaryotic release factor 1,” J Biol Chem., 288(41):29530-8. PMCID: PMC3795251  PubMed

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Lessard, JC. and Coulombe, PA., 2012, “Keratin 16-null mice develop palmoplantar keratoderma, a hallmark feature of pachyonychia congenita and related disorders,” J Invest Dermatol,132(5):1384-91. PMCID: PMC3326191 Pubmed 

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West-Foyle, H. and Robinson, DN., 2012, “Cytokinesis mechanics and mechanosensing,” Cytoskeleton, 69(10):700-709. PMCID: PMC3477504 Pubmed 

Herb, BR., Wolschin, F., Hansen, KD., Aryee, MJ., Langmead, B., Irizarry, R., Amdam, GV., and Feinberg, AP., 2012, “Reversible switching between epigenetic states in honeybee behavioral subcastes,” Nat Neurosci. 15(10):1371-3. PMCID: PMC3518384Pubmed 

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Jilek, BL., Zarr, M., Sampah, ME., Rabi, SA., Bullen, CK., Lai, J., Shen, L. and Siliciano, RF., 2012, “A quantitative basis for antiretroviral therapy for HIV-1 infection,” Nat Med. 18(3):446-51. PMCID: PMC3296892 Pubmed

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Rotty, JD. and Coulombe PA., 2012, “A wound-induced keratin inhibits Src activity during keratinocyte migration and tissue repair,” J Cell Biol,197(3):381-9. PMCID: PMC3341159  Pubmed

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Ruch, TR. and Machamer, CE., 2012, “A single polar residue and distinct membrane topologies impact the function of the infectious bronchitis coronavirus E protein,” PLoS Pathog., 2012;8(5):e1002674. PMCID: PMC3343006  Pubmed 

Stevens, EL., Heckenberg, G., Baugher, JD., Roberson, ED., Downey, TJ. and Pevsner, J., 2012, “Consanguinity in Centre d’Étude du Polymorphisme Humain (CEPH) pedigrees,” Eur J Hum Genet. 20(6):657-67. PMCID: PMC3355261 Pubmed  

Alammar Zaritsky, L., Gama, L. and Clements, JE., 2012, “Canonical type I IFN signaling in simian immunodeficiency virus-infected macrophages is disrupted by astrocyte-secreted CCL2,” J Immunol. 188(8):3876-85. PMCID: PMC3343693 Pubmed 

Shoemaker, CJ. and Green, R., 2012, “Translation drives mRNA quality control,” Nat Struct Mol Biol. 19(6):594-601. PMCID: PMC4299859 Pubmed 

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Simon, DN., Domaradzki, T., Hofmann, WA. and Wilson, KL., 2013, “Lamin A tail modification by SUMO1 is disrupted by familial partial lipodystrophy-causing mutations,” Mol Biol Cell., 24(3):342-50. PMCID: PMC3564541  Pubmed 

Huster, D., Kühne, A., Bhattacharjee, A., Raines, L., Jantsch, V., Noe, J., Schirrmeister, W., Sommerer, I., Sabri, O., Berr, F., Mössner, J., Stieger, B., Caca, K. and Lutsenko, S., 2012, “Diverse functional properties of Wilson disease ATP7B variants,” Gastroenterology. 142(4), 947-956. PMCID: PMC3461965 Pubmed 

Currier, DG., Polk, RC. and Reeves, RH., 2012, “A Sonic hedgehog (Shh) response deficit in trisomic cells may be a common denominator for multiple features of Down syndrome,” Prog Brain Res. 197:223-36. PMCID: PMC4405118 Pubmed 

Rodriguez, S. and Wolfgang, MJ., 2012, “Targeted chemical-genetic regulation of protein stability in vivo,” Chem Biol. 19(3):391-8. PMCID: PMC3314227 Pubmed 

DeRose, R., Pohlmeyer, C., Umeda, N., Ueno, T., Nagano, T., Kuo, S. and Inoue, T., 2012, “Spatio-temporal manipulation of small GTPase activity at subcellular level and on timescale of seconds in living cells,” J Vis Exp. (61). pii: 3794. PMCID: PMC3460574 Pubmed 

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Miyamoto, T., DeRose, R., Suarez, A., Ueno, T., Chen, M., Sun, TP., Wolfgang, MJ., Mukherjee, C., Meyers, DJ. and Inoue, T., 2012, “Rapid and orthogonal logic gating with a gibberellin-induced dimerization system,” Nat Chem Biol. 8(5):465-70. PMCID: PMC3368803 Pubmed 

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Schaughency, P., Merran, J. and Corden, JL., 2010, “Genome-Wide Mapping of Yeast RNA Polymerase II Termination,” PLoS Genet. 10(10):e1004632.  PMCID: PMC4191890  PubMed

Nguyen-Ngoc, KV., Cheung, KJ., Brenot, A., Shamir, ER., Gray, RS., Hines, WC., Yaswen, P., Werb, Z. and Ewald, AJ., 2012, “ECM microenvironment regulates collective migration and local dissemination in normal and malignant mammary epithelium,” Proc Natl Acad Sci U S A. 109(39):E2595-604. Epub 2012 Aug 23, PMCID: PMC3465416 PubMed

Wang, JT. and Seydoux, G., 2013, “Germ cell specification,” Adv Exp Med Biol. 757:17-39. Review, PMCID: unknown  Pubmed​

Chan, W., Schaffer, TB. and Pomerantz, JL., 2013, “A quantitative signaling screen identifies CARD11 mutations in the CARD and LATCH domains that induce Bcl10 ubiquitination and human lymphoma cell survival,” Mol Cell Biol. 33(2):429-43. PMCID: PMC3554118 Pubmed

Shilagardi, K., Li, S., Luo, F., Marikar, F., Duan, R., Jin, P., Kim, JH., Murnen, K. and Chen, EH., 2013, “Actin-propelled invasive membrane protrusions promote fusogenic protein engagement during cell-cell fusion,” Science. PMCID: PMC3631436 PubMed

Huang, Q., Purzycka, KJ., Lusvarghi, S., Li, D., Legrice, SF. and Boeke, JD., 2013,  “Retrotransposon Ty1 RNA contains a 5′-terminal long-range pseudoknot required for efficient reverse transcription,” RNA. 19(3):320-32. PMCID: PMC3677243 PubMed

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Stine, RR. and Matunis, EL., 2013,  ‘JAK-STAT signaling in stem cells, ‘ Adv Exp Med Biol. 786:247-67. PMID: 23696361 PubMed

Baile, MG., Whited, K. and Claypool, SM., 2013, “Deacylation on the matrix side of the mitochondrial inner membrane regulates cardiolipin remodeling,” Mol Biol Cell. ;24(12):2008-20. PMCID: PMC3681703  PubMed

Zhao, X., Tang, Z., Zhang, H., Atianjoh, FE., Zhao, JY., Liang, L., Wang, W., Guan, X., Kao, SC., Tiwari, V., Gao, YJ., Hoffman, PN., Cui, H., Li, M., Dong, X. and Tao, YX., 2013, “A long noncoding RNA contributes to neuropathic pain by silencing Kcna2 in primary afferent neurons,” Nat Neurosci. 16(8):1024-31 PMCID:  PMC3742386 PubMed

Baugher, JD., Baugher, BD., Shirley, MD and Pevsner, J., 2013, “Sensitive and specific detection of mosaic chromosomal abnormalities using the Parent-of-Origin-based Detection (POD) method,” BMC Genomics. 14:367. PMCID: PMC3680018 PubMed