Recent Publications

 

 

2020

Gliech CR, Holland AJ., 2020, ” Keeping track of time: The fundamentals of cellular clocks.” J Cell Biol. 2020 Nov 2;219(11):e202005136. doi: 10.1083/jcb.202005136. PMID: 32902596 PubMed
Aikin TJ, Peterson AF, Pokrass MJ, Clark HR, Regot S., 2020, “MAPK activity dynamics regulate non-cell autonomous effects of oncogene expression.” Elife. 2020 Sep 17;9:e60541. doi: 10.7554/eLife.60541. PMID: 32940599 PMCID: PMC7498266 PubMed
Silverman D, Chai Z, Yue WWS, Ramisetty SK, Bekshe Lokappa S, Sakai K, Frederiksen R, Bina P, Tsang SH, Yamashita T, Chen J, Yau KW., 2020, “Dark noise and retinal degeneration from D190N-rhodopsin.” Proc Natl Acad Sci U S A. 2020 Sep 15;117(37):23033-23043. doi: 10.1073/pnas.2010417117. Epub 2020 Sep 1. PMID: 32873651 PMCID: PMC7502766 (available on 2021-03-01) 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., “Targeting TRIM37-driven centrosome dysfunction in 17q23-amplified breast cancer.” Nature. 2020 Sep 9;585(7825):447-452. doi: 10.1038/s41586-020-2690-1. Epub 2020 Sep 9. PMID: 32908313 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  
Bryan DS, Stack M, Krysztofiak K, Cichoń U, Thomas DG, Surcel A, Schiffhauer ES, Beckett MA, Khodarev NN, Xue L, Poli EC, Pearson AT, Posner MC, Robinson DN, Rock RS, Weichselbaum RR., 2020 “4-Hydroxyacetophenone modulates the actomyosin cytoskeleton to reduce metastasis,” Proc Natl Acad Sci U S A. 2020 Aug 26:202014639. doi: 10.1073/pnas.2014639117. Online ahead of print. PMID: 32848073 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. 2020 Aug 26;9:e60303. doi: 10.7554/eLife.60303. Online ahead of print. PMID: 32844748 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.  
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
May MR, Bettridge JT, Desiderio S., 2020, "Binding and allosteric transmission of histone 3 Lys-4 trimethylation to the recombinase RAG-1 are separable functions of the RAG-2 PHD finger," J Biol Chem. 2020 Jul 3;295(27):9052-9060. doi: 10.1074/jbc.RA120.014382. PMCID: PMC7335790 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.  
Tan SY, Little HC, Sarver DC, Watkins PA, Wong GW., 2020 “CTRP12 inhibits triglyceride synthesis and export in hepatocytes by suppressing HNF-4α and DGAT2 expression.” FEBS Lett. 2020 Aug 4. doi: 10.1002/1873-3468.13895. Online ahead of print. PMID: 32749667 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.  
Bian Q, Cheng YH, Wilson JP, Su EY, Kim DW, Wang H, Yoo S, Blackshaw S, Cahan P., 2020, "A single cell transcriptional atlas of early synovial joint development," Development. 2020 Jun 24. pii: dev.185777. doi: 10.1242/dev.185777. [Epub ahead of print] PMCID: PMC7390639 PubMed.
Zhang R, Lee DM, Jimah JR, Gerassimov N, Yang C, Kim S, Luvsanjav D, Winkelman J, Mettlen M, Abrams ME, Kalia R, Keene P, Pandey P, Ravaux B, Kim JH, Ditlev JA, Zhang G, Rosen MK, Frost A, Alto NM, Gardel M, Schmid SL, Svitkina TM, Hinshaw JE, Chen EH., 2020, “Dynamin regulates the dynamics and mechanical strength of the actin cytoskeleton as a multifilament actin-bundling protein.” Nat Cell Biol. 2020 Jun;22(6):674-688. doi: 10.1038/s41556-020-0519-7. Epub 2020 May 25. PMID: 32451441 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.
Wang TS, Coppens I, Saorin A, Brady NR, Hamacher-Brady A., 2020, "Endolysosomal Targeting of Mitochondria Is Integral to BAX-Mediated Mitochondrial Permeabilization during Apoptosis Signaling," Dev Cell. 2020 Jun 22;53(6):627-645.e7. doi: 10.1016/j.devcel.2020.05.014. PubMed.  
Zinshteyn B, Wangen JR, Hua B, Green R., 2020, "Nuclease-mediated depletion biases in ribosome footprint profiling libraries," RNA. 2020 Jun 5. pii: rna.075523.120. doi: 10.1261/rna.075523.120. PubMed.  
Gelsinger DR, Dallon E, Reddy R, Mohammad F, Buskirk AR, DiRuggiero J., 2020, "Ribosome profiling in archaea reveals leaderless translation, novel translational initiation sites, and ribosome pausing at single codon resolution," Nucleic Acids Res.2020 Jun 4;48(10):5201-5216. doi: 10.1093/nar/gkaa304 PMCID: PMC7261190 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.
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.  
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.  
Xu Z, Green B, Benoit N, Schatz M, Wheelan S, Cormack B., 2020, “De novo genome assembly of Candida glabrata reveals cell wall protein complement and structure of dispersed tandem repeat arrays,” Mol Microbiol. 2020 Feb 18. doi: 10.1111/mmi.14488 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 Jan 13. “Mitochondria-Associated Proteostasis.” Annu Rev Biophys.. doi: 10.1146/annurev-biophys-121219-081604. PMID: 31928428. PubMed.  
Barrows JM, Sundararajan K, Bhargava A, Goley ED. 2020 Jan 13. “FtsA regulates Z-ring morphology and cell wall metabolism in an FtsZ C-terminal linker dependent manner in C. crescentus.” J Bacteriol. pii: JB.00693-19. doi: 10.1128/JB.00693-19. PMID: 31932314. 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.  
Lee CS, Putnam A, Lu T, He S, Ouyang JPT, Seydoux G. 2020 Jan 24. “Recruitment of mRNAs to P granules by condensation with intrinsically-disordered proteins.” Elife.;9. pii: e52896. doi: 10.7554/eLife.52896. PMID: 31975687. 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.  
Wangen JR, Green R. 2020 Jan 23. “Stop codon context influences genome-wide stimulation of termination codon readthrough by aminoglycosides. Elife.;9. pii: e52611. doi: 10.7554/eLife.52611. PMID: 31971508. 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.  
Renuse S, Madugundu AK, Jung JH, Byeon SK, Goldschmidt HL, Tahir R, Meyers D, Kim DI, Cutler J, Kim KP, Wu X, Huganir RL, Pandey A. 2020 Jan 13. “Signature Fragment Ions of Biotinylated Peptides.” J Am Soc Mass Spectrom. PMID: 31939678. 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.  

2019

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  

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