Recent Publications

Here are some recent publications by our faculty, postdocs, and graduate students.  These publications reflect the broad interests of our department, and collaborative environment our department and UCSF provide.


Dema A, Charafeddine RA, van Haren J, Rahgozar S, Viola G, Jacobs KA, Kutys ML, Wittmann T. Doublecortin reinforces microtubules to promote growth cone advance in soft environments. bioRxiv [Preprint]. 2024 Feb 29:2024.02.28.582626. doi: 10.1101/2024.02.28.582626. PMID: 38464100; PMCID: PMC10925279

Wang X, Leung FS, Bush JO, Conti M. Alternative cleavage and polyadenylation of the Ccnb1 mRNA defines accumulation of cyclin protein during the meiotic cell cycle. Nucleic Acids Res. 2024 Feb 9;52(3):1258-1271. doi: 10.1093/nar/gkad1151. PMID: 38048302; PMCID: PMC10853788

Casey-Clyde T, Liu SJ, Serrano JAC, Teng C, Jang YG, Vasudevan HN, Bush JO, Raleigh DR. Eed controls craniofacial osteoblast differentiation and mesenchymal proliferation from the neural crest. bioRxiv [Preprint]. 2024 Mar 14:2024.03.13.584903. doi: 10.1101/2024.03.13.584903. PMID: 38558995; PMCID: PMC10979956

Sutanto R, Neahring L, Serra Marques A, Jacobo Jacobo M, Kilinc S, Goga A, Dumont S. The oncogene cyclin D1 promotes bipolar spindle integrity under compressive force. PLoS One. 2024 Mar 13;19(3):e0296779. doi: 10.1371/journal.pone.0296779. PMID: 38478555; PMCID: PMC10936824. 

Lanza E, Lucente V, Nicoletti M, Schwartz S, Cavallo IF, Caprini D, Connor CW, Saifuddin MFA, Miller JM, L'Etoile ND, Folli V. See Elegans: Simple-to-use, accurate, and automatic 3D detection of neural activity from densely packed neurons. PLoS One. 2024 Mar 22;19(3):e0300628. doi: 10.1371/journal.pone.0300628. PMID: 38517838; PMCID: PMC10959381.

Liboy-Lugo JM, Espinoza CA, Sheu-Gruttadauria J, Park JE, Xu A, Jowhar Z, Gao AL, Carmona-Negrón JA, Wittmann T, Jura N, Floor SN. Protein-protein interactions with G3BPs drive stress granule condensation and gene expression changes under cellular stress. bioRxiv [Preprint]. 2024 Feb 7:2024.02.06.579149. doi: 10.1101/2024.02.06.579149. PMID: 38370785; PMCID: PMC10871250.

Turpin R, Liu R, Munne PM, Peura A, Rannikko JH, Philips G, Boeckx B, Salmelin N, Hurskainen E, Suleymanova I, Aung J, Vuorinen EM, Lehtinen L, Mutka M, Kovanen PE, Niinikoski L, Meretoja TJ, Mattson J, Mustjoki S, Saavalainen P, Goga A, Lambrechts D, Pouwels J, Hollmén M, Klefström J. Respiratory complex I regulates dendritic cell maturation in explant model of human tumor immune microenvironment. J Immunother Cancer. 2024 Apr 11;12(4):e008053. doi: 10.1136/jitc-2023-008053. PMID: 38604809; PMCID: PMC11015234. 


Garner RM, Molines AT, Theriot JA, Chang F. Vast heterogeneity in cytoplasmic diffusion rates revealed by nanorheology and Doppelgänger simulations. Biophys J. 2023 Mar 7;122(5):767-783. doi: 10.1016/j.bpj.2023.01.040. Epub 2023 Feb 3. PubMed PMID: 36739478; PubMed Central PMCID: PMC10027447

Chandra R, Farah F, Muñoz-Lobato F, Bokka A, Benedetti KL, Brueggemann C, Saifuddin MFA, Miller JM, Li J, Chang E, Varshney A, Jimenez V, Baradwaj A, Nassif C, Alladin S, Andersen K, Garcia AJ, Bi V, Nordquist SK, Dunn RL, Garcia V, Tokalenko K, Soohoo E, Briseno F, Kaur S, Harris M, Guillen H, Byrd D, Fung B, Bykov AE, Odisho E, Tsujimoto B, Tran A, Duong A, Daigle KC, Paisner R, Zuazo CE, Lin C, Asundi A, Churgin MA, Fang-Yen C, Bremer M, Kato S, VanHoven MK, L'Étoile ND. Sleep is required to consolidate odor memory and remodel olfactory synapses. Cell. 2023 Jun 22;186(13):2911-2928.e20. doi: 10.1016/j.cell.2023.05.006. Epub 2023 Jun 2. PubMed PMID: 37269832; PubMed Central PMCID: PMC10354834

Wald T, Verma A, Cooley V, Marangoni P, Cazares O, Sharir A, Sandoval EJ, Sung D, Najibi H, Drennon TY, Bush JO, Joester D, Klein OD. A Suite of Mouse Reagents for Studying Amelogenesis. bioRxiv. 2023 Apr 2;. doi: 10.1101/2023.03.30.534992. PubMed PMID: 37034814; PubMed Central PMCID: PMC10081212

Saroya G, Hu J, Hu M, Panaretos C, Mann J, Kim S, Bush JO, Kaartinen V. Periderm Fate during Palatogenesis: TGF-β and Periderm Dedifferentiation. J Dent Res. 2023 Apr;102(4):459-466. doi: 10.1177/00220345221146454. Epub 2023 Feb 7. PubMed PMID: 36751050; PubMed Central PMCID: PMC10041600.

Chendke GS, Kharbikar BN, Ashe S, Faleo G, Sneddon JB, Tang Q, Hebrok M, Desai TA. Replenishable prevascularized cell encapsulation devices increase graft survival and function in the subcutaneous space. Bioeng Transl Med 2023 May 19;8)4):e10520. PMID: 37476069 PMCID: PMC10354771.  

de la O S, Yao X, Chang S, Liu Z, Sneddon JB. Single-cell chromatin accessibility of developing murine pancreas identifies cell state-specific gene regulatory programs. Mol Metab. 2023 Jul;73:101735. doi: 10.1016/j.molmet.2023.101735. Epub 2023 May 11. PMID: 37178817; PMCID: PMC10230264

Barlow HR, Ahuja N, Bierschenk T, Htike Y, Fasseta L, Azizoglu DB, Flores J, Gao N, de la O S, Sneddon JB, Marciano DK, Cleaver O. Rab11 is essential to pancreas morphogenesis, lumen formation and endocrine mass. Dev Biol. 2023 Jul;499:59-74. PMID: 37172642. 

Patzek S, Liu Z, de la O S, Chang S, Byrnes LE, Zhang X, Ornitz DM, Sneddon JB. Loss of Fgf9 in mice leads to pancreatic hypoplasia and asplenia. iScience 2023 Mar 25;26(4):106500. PMID: 37096042. 

Guzman-Espinoza M, Kim M, Ow C, Hutchins EJ. "Beyond transcription: How post-transcriptional mechanisms drive neural crest EMT". Genesis. 2023 Sep 21:e23553. doi: 10.1002/dvg.23553. Epub ahead of print. PMID: 37735882

Gadek M, Sherr EH, Floor SN. The variant landscape and function of DDX3X in cancer and neurodevelopmental disorders. Trends Mol Med. 2023 Sep;29(9):726-739. doi: 10.1016/j.molmed.2023.06.003. Epub 2023 Jul 6. PMID: 37422363

Jowhar Z, Xu A, Venkataramanan S, Hoye ML, Silver DL, Floor SN, Calviello L. A ubiquitous GC content signature underlies multimodal mRNA regulation by DDX3X. bioRxiv [Preprint]. 2023 May 12:2023.05.11.540322. doi: 10.1101/2023.05.11.540322. PMID: 37214951; PMCID: PMC10197686

Campbell AE, Dyle MC, Albanese R, Matheny T, Sudheendran K, Cortázar MA, Forman T, Fu R, Gillen AE, Caruthers MH, Floor SN, Calviello L, Jagannathan S. Compromised nonsense-mediated RNA decay results in truncated RNA-binding protein production upon DUX4 expression. Cell Rep. 2023 Jun 13;42(6):112642. doi: 10.1016/j.celrep.2023.112642. Epub ahead of print. PMID: 37314931. 

Liu Y, Reyes E, Castillo-Azofeifa D, Klein OD, Nystul T, Barber DL. Intracellular pH dynamics regulates intestinal stem cell lineage specification. Nat Commun. 2023 Jun 23;14(1):3745. doi: 10.1038/s41467-023-39312-9. PMID: 37353491; PMCID: PMC10290085. 

Delcroix V, Mauduit O, Lee HS, Ivanova A, Umazume T, Knox SM, de Paiva CS, Dartt DA, Makarenkova HP. The First Transcriptomic Atlas of the Adult Lacrimal Gland Reveals Epithelial Complexity and Identifies Novel Progenitor Cells in Mice. Cells. 2023 May 21;12(10):1435. doi: 10.3390/cells12101435. PMID: 37408269; PMCID: PMC10216974. 

Aw WY, Cho C, Wang H, Cooper AH, Doherty EL, Rocco D, Huang SA, Kubik S, Whitworth CP, Armstrong R, Hickey AJ, Griffith B, Kutys ML, Blatt J, Polacheck WJ. Microphysiological model of PIK3CA-driven vascular malformations reveals a role of dysregulated Rac1 and mTORC1/2 in lesion formation. Sci Adv. 2023 Feb 15;9(7):eade8939. doi: 10.1126/sciadv.ade8939. Epub 2023 Feb 15. PMID: 36791204; PMCID: PMC9931220. 

Stashko C, Hayward MK, Northey JJ, Pearson N, Ironside AJ, Lakins JN, Oria R, Goyette MA, Mayo L, Russnes HG, Hwang ES, Kutys ML, Polyak K, Weaver VM. A convolutional neural network STIFMap reveals associations between stromal stiffness and EMT in breast cancer. Nat Commun. 2023 Jun 15;14(1):3561. doi: 10.1038/s41467-023-39085-1. PMID: 37322009; PMCID: PMC10272194. 

Adler FR, Anderson ARA, Bhushan A, Bogdan P, Bravo-Cordero JJ, Brock A, Chen Y, Cukierman E, DelGiorno KE, Denis GV, Ferrall-Fairbanks MC, Gartner ZJ, Germain RN, Gordon DM, Hunter G, Jolly MK, Karacosta LG, Mythreye K, Katira P, Kulkarni RP, Kutys ML, Lander AD, Laughney AM, Levine H, Lou E, Lowenstein PR, Masters KS, Pe'er D, Peyton SR, Platt MO, Purvis JE, Quon G, Richer JK, Riddle NC, Rodriguez A, Snyder JC, Lee Szeto G, Tomlin CJ, Yanai I, Zervantonakis IK, Dueck H. Modeling collective cell behavior in cancer: Perspectives from an interdisciplinary conversation. Cell Syst. 2023 Apr 19;14(4):252-257. doi: 10.1016/j.cels.2023.03.002. PMID: 37080161; PMCID: PMC10760508. 

White MJ, Singh T, Wang E, Smith Q, Kutys ML. 'Chip'-ing away at morphogenesis - application of organ-on-chip technologies to study tissue morphogenesis. J Cell Sci. 2023 Oct 1;136(19):jcs261130. doi: 10.1242/jcs.261130. Epub 2023 Oct 5. PMID: 37795818; PMCID: PMC10565497. 

White MJ, Jacobs KA, Singh T, Kutys ML. Notch1 cortical signaling regulates epithelial architecture and cell-cell adhesion. bioRxiv [Preprint]. 2023 Jan 23:2023.01.23.524428. doi: 10.1101/2023.01.23.524428. Update in: J Cell Biol. 2023 Dec 4;222(12): PMID: 36747830; PMCID: PMC9900753

Dema A, Charafeddine R, Rahgozar S, van Haren J, Wittmann T. Growth cone advance requires EB1 as revealed by genomic replacement with a light-sensitive variant. Elife. 2023 Jan 30;12:e84143. doi: 10.7554/eLife.84143. PMID: 36715499; PMCID: PMC9917429. 

Subramanian A, Wang L, Moss T, Voorhies M, Sangwan S, Stevenson E, Pulido EH, Kwok S, Chalkley RJ, Li KH, Krogan NJ, Swaney DL, Burlingame AL, Floor SN, Sil A, Walter P, Mukherjee S. A Legionella toxin exhibits tRNA mimicry and glycosyl transferase activity to target the translation machinery and trigger a ribotoxic stress response. Nat Cell Biol. 2023 Nov;25(11):1600-1615. doi: 10.1038/s41556-023-01248-z. Epub 2023 Oct 19. PMID: 37857833; PMCID: PMC11005034. 


Lemière J, Real-Calderon P, Holt LJ, Fai TG, Chang F. Control of nuclear size by osmotic forces in Scizosaccharomyces pombe.Elife. 2022 Jul 20;11. doi: 10.7554/eLife.76075. PubMed PMID: 35856499; PubMed Central PMCID: PMC9410708

Molines AT, Lemière J, Gazzola M, Steinmark IE, Edrington CH, Hsu CT, Real-Calderon P, Suhling K, Goshima G, Holt LJ, Thery M, Brouhard GJ, Chang F. Physical properties of the cytoplasm modulate the rates of microtubule polymerization and depolymerization. Dev Cell. 2022 Feb 28;57(4):466-479.e6. doi: 10.1016/j.devcel.2022.02.001. PubMed PMID: 35231427; PubMed Central PMCID: PMC9319896

Spanogiannopoulos P, Kyaw TS, Guthrie BGH, Bradley PH, Lee JV, Melamed J, Malig YNA, Lam KN, Gempis D, Sandy M, Kidder W, Van Blarigan EL, Atreya CE, Venook A, Gerona RR, Goga A, Pollard KS, Turnbaugh PJ. Host and gut bacteria share metabolic pathways for anti-cancer drug metabolism. Nat Microbiol. 2022 Oct;7(10):1605-1620. doi: 10.1038/s41564-022-01226-5. Epub 2022 Sep 22. PMID: 36138165; PMCID: PMC9530025

Deng N, Minoche A, Harvey K, Li M, Winkler J, Goga A, Swarbrick A. Deep whole genome sequencing identifies recurrent genomic alterations in commonly used breast cancer cell lines and patient-derived xenograft models. Breast Cancer Res. 2022 Sep 24;24(1):63. doi: 10.1186/s13058-022-01540-0. PMID: 36153537; PMCID: PMC9509640

Li Z, Ferguson L, Deol KK, Roberts MA, Magtanong L, Hendricks JM, Mousa GA, Kilinc S, Schaefer K, Wells JA, Bassik MC, Goga A, Dixon SJ, Ingolia NT, Olzmann JA. Ribosome stalling during selenoprotein translation exposes a ferroptosis vulnerability. Nat Chem Biol. 2022 Jul;18(7):751-761. doi: 10.1038/s41589-022-01033-3. Epub 2022 May 30. PMID: 35637349; PMCID: PMC9469796

Lee JV, Housley F, Yau C, Nakagawa R, Winkler J, Anttila JM, Munne PM, Savelius M, Houlahan KE, Van de Mark D, Hemmati G, Hernandez GA, Zhang Y, Samson S, Baas C, Kok M, Esserman LJ, van 't Veer LJ, Rugo HS, Curtis C, Klefström J, Matloubian M, Goga A. Combinatorial immunotherapies overcome MYC-driven immune evasion in triple negative breast cancer. Nat Commun. 2022 Jun 27;13(1):3671. doi: 10.1038/s41467-022-31238-y. Erratum in: Nat Commun. 2022 Nov 21;13(1):7140. PMID: 35760778; PMCID: PMC9237085

Bui TBV, Burgering BMT, Goga A, Rugo HS, van 't Veer LJ. Biomarkers for Cyclin-Dependent Kinase 4/6 Inhibitors in the Treatment of Hormone Receptor-Positive/Human Epidermal Growth Factor Receptor 2-Negative Advanced/Metastatic Breast Cancer: Translation to Clinical Practice. JCO Precis Oncol. 2022 Jun;6:e2100473. doi: 10.1200/PO.21.00473. PMID: 35666959

Samson S, Northey JJ, Acerbi I, Goga A, Flink CL, Weaver VM, LaBarge MA. NCI's publication affiliation conundrum: Reframing innovation to incentivize an equitable path for advocate representation. Transl Oncol. 2022 Feb;16:101325. doi: 10.1016/j.tranon.2021.101325. Epub 2021 Dec 30. PMID: 34974281; PMCID: PMC8728534

Sy MR, Chauhan J, Prescott K, Imam A, Kraus A, Beleza A, Salkeld L, Hosdurga S, Parker M, Vasudevan P, Islam L, Goel H, Bain N, Park SM, Mohammed S, Dieterich K, Coutton C, Satre V, Vieville G, Donaldson A, Beneteau C, Ghoumid J, Van Den Bogaert K, Boogaerts A, Boudry E, Vanlerberghe C, Petit F, Bernardini L, Torres B, Mattina T, Carli D, Mandrile G, Pinelli M, Brunetti-Pierri N, Neas K, Beddow R, Tørring PM, Faletra F, Spedicati B, Gasparini P, Mussa A, Ferrero GB, Lampe A, Lam W, Bi W, Bacino CA, Kuwahara A, Bush JO, Zhao X, Luna PN, Shaw CA, Rosenfeld JA, Scott DA. Exome sequencing efficacy and phenotypic expansions involving esophageal atresia/tracheoesophageal fistula plus. Am J Med Genet A. 2022 Dec;188(12):3492-3504. doi: 10.1002/ajmg.a.62976. Epub 2022 Sep 22. PubMed PMID: 36135330; PubMed Central PMCID: PMC9669235. 

Mincer ST, Niethamer TK, Teng T, Bush JO, Percival CJ. Investigating the effects of compound paralogous EPHB receptor mutations on mouse facial development. Dev Dyn. 2022 Jul;251(7):1138-1155. doi: 10.1002/dvdy.454. Epub 2022 Jan 27. PubMed PMID: 35025117; PubMed Central PMCID: PMC9924224. 

Teng T, Teng CS, Kaartinen V, Bush JO. A unique form of collective epithelial migration is crucial for tissue fusion in the secondary palate and can overcome loss of epithelial apoptosis. Development. 2022 May 15;149(10). doi: 10.1242/dev.200181. Epub 2022 May 26. PubMed PMID: 35593401; PubMed Central PMCID: PMC9188751. 

Lewis AE, Kuwahara A, Franzosi J, Bush JO. Tracheal separation is driven by NKX2-1-mediated repression of Efnb2 and regulation of endodermal cell sorting. Cell Rep. 2022 Mar 15;38(11):110510. doi: 10.1016/j.celrep.2022.110510. PubMed PMID: 35294885; PubMed Central PMCID: PMC9033272. 

Bush JO. Cellular and molecular mechanisms of EPH/EPHRIN signaling in evolution and development.  Curr Top Dev Biol. 2022;149:153-201. doi: 10.1016/bs.ctdb.2022.02.005. Epub 2022 Mar 7. Review. PubMed PMID: 35606056. 

Hutchins EJ, Gandhi S, Chacon J, Piacentino M, Bronner ME. RNA-binding protein Elavl1/HuR is required for maintenance of cranial neural crest specification. Elife. 2022 Oct 3;11:e63600. doi: 10.7554/eLife.63600. PMID: 36189921; PMCID: PMC9529247

Piacentino ML, Hutchins EJ, Andrews CJ, Bronner ME. Temporal changes in plasma membrane lipid content induce endocytosis to regulate developmental epithelial-to-mesenchymal transition. Proc Natl Acad Sci U S A. 2022 Dec 20;119(51):e2212879119. doi: 10.1073/pnas.2212879119. Epub 2022 Dec 12. PMID: 36508654; PMCID: PMC9907157

Wilkins KC, Venkataramanan S, Floor SN. Lysate and cell-based assays to probe the translational role of RNA helicases. Methods Enzymol. 2022;673:141-168. doi: 10.1016/bs.mie.2022.03.032. Epub 2022 Apr 19. PMID: 35965005. 

Yu T, Cazares O, Tang AD, Kim HY, Wald T, Verma A, Liu Q, Barcellos-Hoff MH, Floor SN, Jung HS, Brooks AN, Klein OD. SRSF1 governs progenitor-specific alternative splicing to maintain adult epithelial tissue homeostasis and renewal. Dev Cell. 2022 Mar 14;57(5):624-637.e4. doi: 10.1016/j.devcel.2022.01.011. Epub 2022 Feb 23. PMID: 35202586; PMCID: PMC8974236

Tsai K, Stojković V, Noda-Garcia L, Young ID, Myasnikov AG, Kleinman J, Palla A, Floor SN, Frost A, Fraser JS, Tawfik DS, Fujimori DG. Directed evolution of the rRNA methylating enzyme Cfr reveals molecular basis of antibiotic resistance. Elife. 2022 Jan 11;11:e70017. doi: 10.7554/eLife.70017. PMID: 35015630; PMCID: PMC8752094

Pajic P, Shen S, Qu J, May AJ, Knox S, Ruhl S, Gokcumen O. A mechanism of gene evolution generating mucin function. Sci Adv. 2022 Aug 26;8(34):eabm8757. doi: 10.1126/sciadv.abm8757. Epub 2022 Aug 26. PMID: 36026444; PMCID: PMC9417175. 

Viswanathan V, Cao H, Saiki J, Jiang D, Mattingly A, Nambiar D, Bloomstein J, Li Y, Jiang S, Chamoli M, Sirjani D, Kaplan M, Holsinger FC, Liang R, Von Eyben R, Jiang H, Guan L, Lagory E, Feng Z, Nolan G, Ye J, Denko N, Knox S, Rosen DM, Le QT. Aldehyde dehydrogenase 3A1 deficiency leads to mitochondrial dysfunction and impacts salivary gland stem cell phenotype. PNAS Nexus. 2022 Jun 9;1(2):pgac056. doi: 10.1093/pnasnexus/pgac056. PMID: 35707206; PMCID: PMC9186046

Hoye ML, Calviello L, Poff AJ, Ejimogu NE, Newman CR, Montgomery MD, Ou J, Floor SN, Silver DL. Aberrant cortical development is driven by impaired cell cycle and translational control in a DDX3X syndrome model. Elife. 2022 Jun 28;11:e78203. doi: 10.7554/eLife.78203. PMID: 35762573; PMCID: PMC9239684.  

Aloisio FM, Barber DL. Arp2/3 complex activity is necessary for mouse ESC differentiation, times formative pluripotency, and enables lineage specification. Stem Cell Reports. 2022 Jun 14;17(6):1318-1333. doi: 10.1016/j.stemcr.2022.05.002. Epub 2022 Jun 2. PMID: 35658973; PMCID: PMC9214060

Mayo LN, Kutys ML. Conversation before crossing: dissecting metastatic tumor-vascular interactions in microphysiological systems. Am J Physiol Cell Physiol. 2022 Nov 1;323(5):C1333-C1344. doi: 10.1152/ajpcell.00173.2022. Epub 2022 Sep 19. PMID: 36121131; PMCID: PMC9602802. 

Stormo AED, Shavarebi F, FitzGibbon M, Earley EM, Ahrendt H, Lum LS, Verschueren E, Swaney DL, Skibinski G, Ravisankar A, van Haren J, Davis EJ, Johnson JR, Von Dollen J, Balen C, Porath J, Crosio C, Mirescu C, Iaccarino C, Dauer WT, Nichols RJ, Wittmann T, Cox TC, Finkbeiner S, Krogan NJ, Oakes SA, Hiniker A. The E3 ligase TRIM1 ubiquitinates LRRK2 and controls its localization, degradation, and toxicity. J Cell Biol. 2022 Apr 4;221(4):e202010065. doi: 10.1083/jcb.202010065. Epub 2022 Mar 10. PMID: 35266954; PMCID: PMC8919618. 

Dema A, van Haren J, Wittmann T. Optogenetic EB1 inactivation shortens metaphase spindles by disrupting cortical force-producing interactions with astral microtubules. Curr Biol. 2022 Mar 14;32(5):1197-1205.e4. doi: 10.1016/j.cub.2022.01.017. Epub 2022 Jan 31. PMID: 35090591; PMCID: PMC8930524. 

Dema A, Rahgozar S, Siquier L, van Haren J, Wittmann T. Controlling Cell Shape and Microtubule Organization by Extracellular Matrix Micropatterning. Methods Mol Biol. 2022;2430:467-481. doi: 10.1007/978-1-0716-1983-4_29. PMID: 35476350. 

May AJ, Mattingly AJ, Gaylord EA, Griffin N, Sudiwala S, Cruz-Pacheco N, Emmerson E, Mohabbat S, Nathan S, Sinada H, Lombaert IMA, Knox SM. Neuronal-epithelial cross-talk drives acinar specification via NRG1-ERBB3-mTORC2 signaling. Dev Cell. 2022 Nov 21;57(22):2550-2565.e5. doi: 10.1016/j.devcel.2022.10.011. PMID: 36413949; PMCID: PMC9727910. 

May, A.J., Mattingly, A.J., Gaylord, E.A., Griffin, N., Sudiwala, S., Cruz Pacheco, N., Emmerson, E., Sudiwala, S., Mohabbat, S., Nathan, S., Sinada, H., Lombaert I.M., and Knox, S.M. Programmatic Building of a Secretory Acinus is Driven by Neuronal-Epithelial NRG1-ERBB3-mTORC2 Signaling. Developmental Cell, 57 (22), P2550-2565., 2022 

Li, J., Sudiwala, S., Berthoin, L., Chang, J-C., Hooshfar, S., Jeon, O., Mohabbat, S., Gaylord, E., Cruz Pacheco, N., Yom, S., Ha, P., Alsberg, E., Bahney, C., Knox, S.M. An injectable alginate hydrogel for restoring salivary gland function after radiation. Science  Advances, 8(51):eadc8753. doi: 10.1126/sciadv.adc8753, 2022 

Efraim, Y., Chen, FY., Cheong, K.N., Gaylord, E., McNamara, N., Knox, S.M. A synthetic tear protein restores the architecture and sensory innervation of the diseased cornea without dampening inflammation. Cell Reports, 40, 11130 doi: 10.1016/j.celrep.2022.111307, 2022 

Lin, Yizhu, Samentha Kwok, Bao Quoc Thai, Yewande Alabi, Megan S. Ostrowski, Ke Wu, and Stephen N Floor (2022). “Single molecule co-occupancy of RNA-binding proteins with an evolved RNA deaminase.” bioRxiv. doi: 10.1101/2022.09.06.506853. Accepted at Nature Methods 


Budi EH, Schaub JR, Decaris M, Turner S, Derynck R. TGF-β as a driver of fibrosis: physiological roles and therapeutic opportunities. J Pathol. 2021 Jul;254(4):358-373. doi: 10.1002/path.5680. Epub 2021 May 19. PMID: 33834494.

Manoli SS, Kisor K, Webb BA, Barber DL. Ethyl isopropyl amiloride decreases oxidative phosphorylation and increases mitochondrial fusion in clonal untransformed and cancer cells. Am J Physiol Cell Physiol. 2021 Jul 1;321(1):C147-C157. doi: 10.1152/ajpcell.00001.2021. Epub 2021 May 26. PMID: 34038242.

Sesanto R, Kuehn JF, Barber DL, White KA. Low pH Facilitates Heterodimerization of Mutant Isocitrate Dehydrogenase IDH1-R132H and Promotes Production of 2-Hydroxyglutarate. Biochemistry. 2021 Jun 29;60(25):1983-1994. doi: 10.1021/acs.biochem.1c00059. Epub 2021 Jun 18. PMID: 34143606; PMCID: PMC8246651.

Kilinc S, Paisner R, Camarda R, Gupta S, Momcilovic O, Kohnz RA, Avsaroglu B, L'Etoile ND, Perera RM, Nomura DK, Goga A. Oncogene-regulated release of extracellular vesicles. Dev Cell. 2021 Jul 12;56(13):1989-2006.e6. doi: 10.1016/j.devcel.2021.05.014. Epub 2021 Jun 11. PMID: 34118203; PMCID: PMC8292920 (available on 2022-07-12).

Shi H, Westfall CS, Kao J, Odermatt PD, Anderson SE, Cesar S, Sievert M, Moore J, Gonzalez CG, Zhang L, Elias JE, Chang F, Huang KC, Levin PA. Starvation induces shrinkage of the bacterial cytoplasm. Proc Natl Acad Sci U S A. 2021 Jun 15;118(24):e2104686118. doi: 10.1073/pnas.2104686118. PMID: 34117124; PMCID: PMC8214708 (available on 2021-12-11).

Kindberg AA, Srivastava V, Muncie JM, Weaver VM, Gartner ZJ, Bush JO. EPH/EPHRIN regulates cellular organization by actomyosin contractility effects on cell contacts. J Cell Biol. 2021 Jun 7;220(6):e202005216. doi: 10.1083/jcb.202005216. PMID: 33798261; PMCID: PMC8025214 (available on 2021-12-07).

Calviello L, Venkataramanan S, Rogowski KJ, Wyler E, Wilkins K, Tejura M, Thai B, Krol J, Filipowicz W, Landthaler M, Floor SN. DDX3 depletion represses translation of mRNAs with complex 5' UTRs. Nucleic Acids Res. 2021 May 21;49(9):5336-5350. doi: 10.1093/nar/gkab287. PMID: 33905506; PMCID: PMC8136831.

Peaslee C, Esteva-Font C, Su T, Munoz-Howell A, Duwaerts C, Liu Z, Rao S, Liu K, Medina M, Sneddon JB, Maher JJ, Mattis AN. Doxycycline Significantly Enhances Induction of iPSCs to Endoderm by Enhancing survival via AKT Phosphorylation. Hepatology. 2021 May 12. doi: 10.1002/hep.31898. Epub ahead of print. PMID: 33982322.

Nnabue OE, Pletcher SD, Gurrola JG 2nd, Goldberg AN, Jordan KM, Knox SM, May AJ. Septum submucosal glands exhibit aberrant morphology and reduced mucin production in chronic rhinosinusitis. Int Forum Allergy Rhinol. 2021 May 6. doi: 10.1002/alr.22801. Epub ahead of print. PMID: 33956392.

Zhang B, Kim MY, Elliot G, Zhou Y, Zhao G, Li D, Lowdon RF, Gormley M, Kapidzic M, Robinson JF, McMaster MT, Hong C, Mazor T, Hamilton E, Sears RL, Pehrsson EC, Marra MA, Jones SJM, Bilenky M, Hirst M, Wang T, Costello JF, Fisher SJ. Human placental cytotrophoblast epigenome dynamics over gestation and alterations in placental disease. Dev Cell. 2021 May 3;56(9):1238-1252.e5. doi: 10.1016/j.devcel.2021.04.001. Epub 2021 Apr 22. PMID: 33891899.

Chen M, Asanuma M, Takahashi M, Shichino Y, Mito M, Fujiwara K, Saito H, Floor SN, Ingolia NT, Sodeoka M, Dodo K, Ito T, Iwasaki S. Dual targeting of DDX3 and eIF4A by the translation inhibitor rocaglamide A. Cell Chem Biol. 2021 Apr 15;28(4):475-486.e8. doi: 10.1016/j.chembiol.2020.11.008. Epub 2020 Dec 8. PMID: 33296667; PMCID: PMC8052261 (available on 2022-04-15).

Migliorini A, Nostro MC, Sneddon JB. Human pluripotent stem cell-derived insulin-producing cells: A regenerative medicine perspective. Cell Metab. 2021 Apr 6;33(4):721-731. doi: 10.1016/j.cmet.2021.03.021. PMID: 33826915; PMCID: PMC8117263 (available on 2022-04-06).

Ferkey DM, Sengupta P, L'Etoile ND. Chemosensory signal transduction in Caenorhabditis elegans. Genetics. 2021 Mar 31;217(3):iyab004. doi: 10.1093/genetics/iyab004. PMID: 33693646; PMCID: PMC8045692.

Shi H, Hu Y, Odermatt PD, Gonzalez CG, Zhang L, Elias JE, Chang F, Huang KC. Precise regulation of the relative rates of surface area and volume synthesis in bacterial cells growing in dynamic environments. Nat Commun. 2021 Mar 30;12(1):1975. doi: 10.1038/s41467-021-22092-5. PMID: 33785742; PMCID: PMC8009875.

Katsuno Y, Derynck R. Epithelial plasticity, epithelial-mesenchymal transition, and the TGF-β family. Dev Cell. 2021 Mar 22;56(6):726-746. doi: 10.1016/j.devcel.2021.02.028. PMID: 33756119.

Zhou J, Lin Y, Huynh T, Noguchi H, Bush JO, Pleasure SJ. NMDA receptors control development of somatosensory callosal axonal projections. Elife. 2021 Mar 4;10:e59612. doi: 10.7554/eLife.59612. PMID: 33661095; PMCID: PMC7959694.

Hsu TY, Zhang B, L'Etoile ND, Juang BT. C. elegans orthologs MUT-7/CeWRN-1 of Werner syndrome protein regulate neuronal plasticity. Elife. 2021 Mar 1;10:e62449. doi: 10.7554/eLife.62449. PMID: 33646120; PMCID: PMC7946423.

Jiang X, Prabhakar A, Van der Voorn SM, Ghatpande P, Celona B, Venkataramanan S, Calviello L, Lin C, Wang W, Black BL, Floor SN, Lagna G, Hata A. Control of ribosomal protein synthesis by the Microprocessor complex. Sci Signal. 2021 Feb 23;14(671):eabd2639. doi: 10.1126/scisignal.abd2639. PMID: 33622983; PMCID: PMC8012103 (available on 2021-08-23).

Bautista JL, Cramer NT, Miller CN, Chavez J, Berrios DI, Byrnes LE, Germino J, Ntranos V, Sneddon JB, Burt TD, Gardner JM, Ye CJ, Anderson MS, Parent AV. Single-cell transcriptional profiling of human thymic stroma uncovers novel cellular heterogeneity in the thymic medulla. Nat Commun. 2021 Feb 17;12(1):1096. doi: 10.1038/s41467-021-21346-6. PMID: 33597545; PMCID: PMC7889611.

Frumm SM, Yu SK, Chang J, Artichoker JA, Scaria SM, Lee KP, Byrnes LE, Sneddon JB, Tward AD. A Hierarchy of Proliferative and Migratory Keratinocytes Maintains the Tympanic Membrane. Cell Stem Cell. 2021 Feb 4;28(2):315-330.e5. doi: 10.1016/j.stem.2020.10.006. Epub 2020 Nov 11. PMID: 33181078.

Madonna MC, Duer JE, Lee JV, Williams J, Avsaroglu B, Zhu C, Deutsch R, Wang R, Crouch BT, Hirschey MD, Goga A, Ramanujam N. In Vivo Optical Metabolic Imaging of Long-Chain Fatty Acid Uptake in Orthotopic Models of Triple-Negative Breast Cancer. Cancers (Basel). 2021 Jan 5;13(1):148. doi: 10.3390/cancers13010148. PMID: 33466329; PMCID: PMC7794847.

Webb BA, Aloisio FM, Charafeddine RA, Cook J, Wittmann T, Barber DL. pHLARE: a new biosensor reveals decreased lysosome pH in cancer cells. Mol Biol Cell. 2021 Jan 15;32(2):131-142. doi: 10.1091/mbc.E20-06-0383. Epub 2020 Nov 25. PMID: 33237838; PMCID: PMC8120692.

Derynck R, Turley SJ, Akhurst RJ. TGFβ biology in cancer progression and immunotherapy. Nat Rev Clin Oncol. 2021 Jan;18(1):9-34. doi: 10.1038/s41571-020-0403-1. Epub 2020 Jul 24. PMID: 32710082.

Komoll RM, Hu Q, Olarewaju O, von Döhlen L, Yuan Q, Xie Y, Tsay HC, Daon J, Qin R, Manns MP, Sharma AD, Goga A, Ott M, Balakrishnan A. MicroRNA-342-3p is a potent tumour suppressor in hepatocellular carcinoma. J Hepatol. 2021 Jan;74(1):122-134. doi: 10.1016/j.jhep.2020.07.039. Epub 2020 Jul 30. PMID: 32738449.


van Haren J, Adachi LS, Wittmann T. Optogenetic Control of Microtubule Dynamics. Methods Mol Biol. 2020;2101:211-234. doi: 10.1007/978-1-0716-0219-5_14. PMID: 31879907; PMCID: PMC7278073.

Zhang J, Velmeshev D, Hashimoto K, Huang YH, Hofmann JW, Shi X, Chen J, Leidal AM, Dishart JG, Cahill MK, Kelley KW, Liddelow SA, Seeley WW, Miller BL, Walther TC, Farese RV Jr, Taylor JP, Ullian EM, Huang B, Debnath J, Wittmann T, Kriegstein AR, Huang EJ. Neurotoxic microglia promote TDP-43 proteinopathy in progranulin deficiency. Nature. 2020 Dec;588(7838):459-465. doi: 10.1038/s41586-020-2709-7. Epub 2020 Aug 31. PMID: 32866962; PMCID: PMC7746606.

Saitou M, Gaylord EA, Xu E, May AJ, Neznanova L, Nathan S, Grawe A, Chang J, Ryan W, Ruhl S, Knox SM, Gokcumen O. Functional Specialization of Human Salivary Glands and Origins of Proteins Intrinsic to Human Saliva. Cell Rep. 2020 Nov 17;33(7):108402. doi: 10.1016/j.celrep.2020.108402. PMID: 33207190; PMCID: PMC7703872.

Rust K, Byrnes LE, Yu KS, Park JS, Sneddon JB, Tward AD, Nystul TG. A single-cell atlas and lineage analysis of the adult Drosophila ovary. Nat Commun. 2020 Nov 6;11(1):5628. doi: 10.1038/s41467-020-19361-0. PMID: 33159074; PMCID: PMC7648648.

Goodwin AF, Chen CP, Vo NT, Bush JO, Klein OD. YAP/TAZ Regulate Elevation and Bone Formation of the Mouse Secondary Palate. J Dent Res. 2020 Nov;99(12):1387-1396. doi: 10.1177/0022034520935372. Epub 2020 Jul 6. PMID: 32623954; PMCID: PMC7580170 (available on 2021-11-01).

Yang J, Antin P, Berx G, Blanpain C, Brabletz T, Bronner M, Campbell K, Cano A, Casanova J, Christofori G, Dedhar S, Derynck R, Ford HL, Fuxe J, García de Herreros A, Goodall GJ, Hadjantonakis AK, Huang RJY, Kalcheim C, Kalluri R, Kang Y, Khew-Goodall Y, Levine H, Liu J, Longmore GD, Mani SA, Massagué J, Mayor R, McClay D, Mostov KE, Newgreen DF, Nieto MA, Puisieux A, Runyan R, Savagner P, Stanger B, Stemmler MP, Takahashi Y, Takeichi M, Theveneau E, Thiery JP, Thompson EW, Weinberg RA, Williams ED, Xing J, Zhou BP, Sheng G; EMT International Association (TEMTIA). Guidelines and definitions for research on epithelial-mesenchymal transition. Nat Rev Mol Cell Biol. 2020 Jun;21(6):341-352. doi: 10.1038/s41580-020-0237-9. Epub 2020 Apr 16. PMID: 32300252; PMCID: PMC7250738.

Wittmann T, Dema A, van Haren J. Lights, cytoskeleton, action: Optogenetic control of cell dynamics. Curr Opin Cell Biol. 2020 Oct;66:1-10. doi: 10.1016/ Epub 2020 May 1. PMID: 32371345; PMCID: PMC7577957 (available on 2021-10-01).

Kindberg A, Hu JK, Bush JO. Forced to communicate: Integration of mechanical and biochemical signaling in morphogenesis. Curr Opin Cell Biol. 2020 Oct;66:59-68. doi: 10.1016/ Epub 2020 Jun 20. PMID: 32569947; PMCID: PMC7577940 (available on 2021-10-01).

Luna LA, Lesecq Z, White KA, Hoang A, Scott DA, Zagnitko O, Bobkov AA, Barber DL, Schiffer JM, Isom DG, Sohl CD. An acidic residue buried in the dimer interface of isocitrate dehydrogenase 1 (IDH1) helps regulate catalysis and pH sensitivity. Biochem J. 2020 Aug 28;477(16):2999-3018. doi: 10.1042/BCJ20200311. PMID: 32729927; PMCID: PMC7996970.

Liu Y, White KA, Barber DL. Intracellular pH Regulates Cancer and Stem Cell Behaviors: A Protein Dynamics Perspective. Front Oncol. 2020 Aug 26;10:1401. doi: 10.3389/fonc.2020.01401. PMID: 32983969; PMCID: PMC7479815.

Efraim Y, Chen FYT, Stashko C, Cheong KN, Gaylord E, McNamara N, Knox SM. Alterations in corneal biomechanics underlie early stages of autoimmune-mediated dry eye disease. J Autoimmun. 2020 Nov;114:102500. doi: 10.1016/j.jaut.2020.102500. Epub 2020 Jun 18. PMID: 32565048; PMCID: PMC8269964 (available on 2021-11-01).

Gordon DE, Jang GM, Bouhaddou M, Xu J, Obernier K, White KM, O'Meara MJ, Rezelj VV, Guo JZ, Swaney DL, Tummino TA, Hüttenhain R, Kaake RM, Richards AL, Tutuncuoglu B, Foussard H, Batra J, Haas K, Modak M, Kim M, Haas P, Polacco BJ, Braberg H, Fabius JM, Eckhardt M, Soucheray M, Bennett MJ, Cakir M, McGregor MJ, Li Q, Meyer B, Roesch F, Vallet T, Mac Kain A, Miorin L, Moreno E, Naing ZZC, Zhou Y, Peng S, Shi Y, Zhang Z, Shen W, Kirby IT, Melnyk JE, Chorba JS, Lou K, Dai SA, Barrio-Hernandez I, Memon D, Hernandez-Armenta C, Lyu J, Mathy CJP, Perica T, Pilla KB, Ganesan SJ, Saltzberg DJ, Rakesh R, Liu X, Rosenthal SB, Calviello L, Venkataramanan S, Liboy-Lugo J, Lin Y, Huang XP, Liu Y, Wankowicz SA, Bohn M, Safari M, Ugur FS, Koh C, Savar NS, Tran QD, Shengjuler D, Fletcher SJ, O'Neal MC, Cai Y, Chang JCJ, Broadhurst DJ, Klippsten S, Sharp PP, Wenzell NA, Kuzuoglu-Ozturk D, Wang HY, Trenker R, Young JM, Cavero DA, Hiatt J, Roth TL, Rathore U, Subramanian A, Noack J, Hubert M, Stroud RM, Frankel AD, Rosenberg OS, Verba KA, Agard DA, Ott M, Emerman M, Jura N, von Zastrow M, Verdin E, Ashworth A, Schwartz O, d'Enfert C, Mukherjee S, Jacobson M, Malik HS, Fujimori DG, Ideker T, Craik CS, Floor SN, Fraser JS, Gross JD, Sali A, Roth BL, Ruggero D, Taunton J, Kortemme T, Beltrao P, Vignuzzi M, García-Sastre A, Shokat KM, Shoichet BK, Krogan NJ. A SARS-CoV-2 protein interaction map reveals targets for drug repurposing. Nature. 2020 Jul;583(7816):459-468. doi: 10.1038/s41586-020-2286-9. Epub 2020 Apr 30. PMID: 32353859; PMCID: PMC7431030.

Kuwahara A, Lewis AE, Coombes C, Leung FS, Percharde M, Bush JO. Delineating the early transcriptional specification of the mammalian trachea and esophagus. Elife. 2020 Jun 9;9:e55526. doi: 10.7554/eLife.55526. PMID: 32515350; PMCID: PMC7282815.

Lennox AL, Hoye ML, Jiang R, Johnson-Kerner BL, Suit LA, Venkataramanan S, Sheehan CJ, Alsina FC, Fregeau B, Aldinger KA, Moey C, Lobach I, Afenjar A, Babovic-Vuksanovic D, Bézieau S, Blackburn PR, Bunt J, Burglen L, Campeau PM, Charles P, Chung BHY, Cogné B, Curry C, D'Agostino MD, Di Donato N, Faivre L, Héron D, Innes AM, Isidor B, Keren B, Kimball A, Klee EW, Kuentz P, Küry S, Martin-Coignard D, Mirzaa G, Mignot C, Miyake N, Matsumoto N, Fujita A, Nava C, Nizon M, Rodriguez D, Blok LS, Thauvin-Robinet C, Thevenon J, Vincent M, Ziegler A, Dobyns W, Richards LJ, Barkovich AJ, Floor SN, Silver DL, Sherr EH. Pathogenic DDX3X Mutations Impair RNA Metabolism and Neurogenesis during Fetal Cortical Development. Neuron. 2020 May 6;106(3):404-420.e8. doi: 10.1016/j.neuron.2020.01.042. Epub 2020 Mar 4. PMID: 32135084; PMCID: PMC7331285.

Wall E, Scoles J, Joo A, Klein O, Quinonez C, Bush JO, Martin GR, Laird DJ. The UCSF Mouse Inventory Database Application, an Open Source Web App for Sharing Mutant Mice Within a Research Community. G3 (Bethesda). 2020 May 4;10(5):1503-1510. doi: 10.1534/g3.120.401086. PMID: 32152007; PMCID: PMC7202022.

Monje M, Borniger JC, D'Silva NJ, Deneen B, Dirks PB, Fattahi F, Frenette PS, Garzia L, Gutmann DH, Hanahan D, Hervey-Jumper SL, Hondermarck H, Hurov JB, Kepecs A, Knox SM, Lloyd AC, Magnon C, Saloman JL, Segal RA, Sloan EK, Sun X, Taylor MD, Tracey KJ, Trotman LC, Tuveson DA, Wang TC, White RA, Winkler F. Roadmap for the Emerging Field of Cancer Neuroscience. Cell. 2020 Apr 16;181(2):219-222. doi: 10.1016/j.cell.2020.03.034. PMID: 32302564; PMCID: PMC7286095.

Rohrberg J, Van de Mark D, Amouzgar M, Lee JV, Taileb M, Corella A, Kilinc S, Williams J, Jokisch ML, Camarda R, Balakrishnan S, Shankar R, Zhou A, Chang AN, Chen B, Rugo HS, Dumont S, Goga A. MYC Dysregulates Mitosis, Revealing Cancer Vulnerabilities. Cell Rep. 2020 Mar 10;30(10):3368-3382.e7. doi: 10.1016/j.celrep.2020.02.041. PMID: 32160543; PMCID: PMC7085414.

Niethamer TK, Teng T, Franco M, Du YX, Percival CJ, Bush JO. Aberrant cell segregation in the craniofacial primordium and the emergence of facial dysmorphology in craniofrontonasal syndrome. PLoS Genet. 2020 Feb 24;16(2):e1008300. doi: 10.1371/journal.pgen.1008300. PMID: 32092051; PMCID: PMC7058351.

Puerta-Guardo H, Tabata T, Petitt M, Dimitrova M, Glasner DR, Pereira L, Harris E. Zika Virus Nonstructural Protein 1 Disrupts Glycosaminoglycans and Causes Permeability in Developing Human Placentas. J Infect Dis. 2020 Jan 2;221(2):313-324. doi: 10.1093/infdis/jiz331. PMID: 31250000; PMCID: PMC6936002.


Niethamer TK, Bush JO. Getting direction(s): The Eph/ephrin signaling system in cell positioning. Dev Biol. 2019 Mar 1;447(1):42-57. doi: 10.1016/j.ydbio.2018.01.012. Epub 2018 Jan 31. PMID: 29360434; PMCID: PMC6066467.

van Haren J, Wittmann T. Microtubule Plus End Dynamics - Do We Know How Microtubules Grow?: Cells boost microtubule growth by promoting distinct structural transitions at growing microtubule ends. Bioessays. 2019 Mar;41(3):e1800194. doi: 10.1002/bies.201800194. Epub 2019 Feb 7. PMID: 30730055; PMCID: PMC7021488.

Jeffrey van Haren, Torsten Wittmann. Microtubule Plus End Dynamics - Do We Know How Microtubules Grow?: Cells boost microtubule growth by promoting distinct structural transitions at growing microtubule ends. Bioessays. 2019 Mar;41(3):e1800194. doi: 10.1002/bies.201800194. Epub 2019 Feb 7. PMCID: .

Facchetti G, Knapp B, Flor-Parra I, Chang F, Howard M. Reprogramming Cdr2-Dependent Geometry-Based Cell Size Control in Fission Yeast. Curr Biol. 2019 Jan 21;29(2):350-358.e4. doi: 10.1016/j.cub.2018.12.017. Epub 2019 Jan 10. PMID: 30639107; PMCID: PMC6345630.

Budi EH, Mamai O, Hoffman S, Akhurst RJ, Derynck R. Enhanced TGF-β Signaling Contributes to the Insulin-Induced Angiogenic Responses of Endothelial Cells. iScience. 2019 Jan 25;11:474-491. doi: 10.1016/j.isci.2018.12.038. Epub 2019 Jan 3. PMID: 30684493; PMCID: PMC6348203.

Kindberg AA, Bush JO. Cellular organization and boundary formation in craniofacial development. Genesis. 2019 Jan;57(1):e23271. doi: 10.1002/dvg.23271. Epub 2019 Jan 12. PMID: 30548771; PMCID: PMC6503678.

Peters JM, Koo BM, Patino R, Heussler GE, Hearne CC, Qu J, Inclan YF, Hawkins JS, Lu CHS, Silvis MR, Harden MM, Osadnik H, Peters JE, Engel JN, Dutton RJ, Grossman AD, Gross CA, Rosenberg OS. Enabling genetic analysis of diverse bacteria with Mobile-CRISPRi. Nat Microbiol. 2019 Feb;4(2):244-250. doi: 10.1038/s41564-018-0327-z. Epub 2019 Jan 7. PMID: 30617347; PMCID: PMC6424567.

Chen Y, Ikeda K, Yoneshiro T, Scaramozza A, Tajima K, Wang Q, Kim K, Shinoda K, Sponton CH, Brown Z, Brack A, Kajimura S. Thermal stress induces glycolytic beige fat formation via a myogenic state. Nature. 2019 Jan;565(7738):180-185. doi: 10.1038/s41586-018-0801-z. Epub 2018 Dec 19. PMID: 30568302; PMCID: PMC6328316.

Obimbo MM, Zhou Y, McMaster MT, Cohen CR, Qureshi Z, Ong'ech J, Ogeng'o JA, Fisher SJ. Placental Structure in Preterm Birth Among HIV-Positive Versus HIV-Negative Women in Kenya. J Acquir Immune Defic Syndr. 2019 Jan 1;80(1):94-102. doi: 10.1097/QAI.0000000000001871. PMID: 30272633; PMCID: PMC6289800.

Sudiwala S, Knox SM. The emerging role of cranial nerves in shaping craniofacial development. Genesis. 2019 Jan;57(1):e23282. doi: 10.1002/dvg.23282. PMID: 30628162.


Fish L, Zhang S, Yu JX, Culbertson B, Zhou AY, Goga A, Goodarzi H. Cancer cells exploit an orphan RNA to drive metastatic progression. Nat Med. 2018 Nov;24(11):1743-1751. doi: 10.1038/s41591-018-0230-4. Epub 2018 Nov 5. PMID: 30397354; PMCID: PMC6223318.

Chen FY, Gaylord E, McNamara N, Knox S. Deciphering Molecular and Phenotypic Changes Associated with Early Autoimmune Disease in the Aire-Deficient Mouse Model of Sjögren's Syndrome. Int J Mol Sci. 2018 Nov 17;19(11):3628. doi: 10.3390/ijms19113628. PMID: 30453645; PMCID: PMC6274681.

May AJ, Cruz-Pacheco N, Emmerson E, Gaylord EA, Seidel K, Nathan S, Muench MO, Klein OD, Knox SM. Diverse progenitor cells preserve salivary gland ductal architecture after radiation-induced damage. Development. 2018 Nov 5;145(21):dev166363. doi: 10.1242/dev.166363. PMID: 30305288; PMCID: PMC6240316.

White KA, Grillo-Hill BK, Esquivel M, Peralta J, Bui VN, Chire I, Barber DL. β-Catenin is a pH sensor with decreased stability at higher intracellular pH. J Cell Biol. 2018 Nov 5;217(11):3965-3976. doi: 10.1083/jcb.201712041. Epub 2018 Oct 12. PMID: 30315137; PMCID: PMC6219716.

Pereira L. Congenital Viral Infection: Traversing the Uterine-Placental Interface. Annual Review of Virology. 2018 Sep 29;5(1):273-299. doi: 10.1146/annurev-virology-092917-043236. Epub 2018 Jul 26. PMID: 30048217.

Elting MW, Suresh P, Dumont S. The Spindle: Integrating Architecture and Mechanics across Scales. Trends in Cell Biology. 2018 Nov;28(11):896-910. doi: 10.1016/j.tcb.2018.07.003. Epub 2018 Aug 6. PMID: 30093097.

Richardson CD, Kazane KR, Feng SJ, Zelin E, Bray NL, Schäfer AJ, Floor SN, Corn JE. CRISPR-Cas9 genome editing in human cells occurs via the Fanconi anemia pathway. Nature Genetics. 2018 Aug;50(8):1132-1139. doi: 10.1038/s41588-018-0174-0. Epub 2018 Jul 27. PMID: 30054595.

Sponton CHKajimura S. Multifaceted Roles of Beige Fat in Energy Homeostasis Beyond UCP1. Endocrinology. 2018 Jul 1;159(7):2545-2553. doi: 10.1210/en.2018-00371. PMID: 29757365.

Rana MK, Aloisio FM, Choi C, Barber DL. Formin-dependent TGF-β signaling for epithelial to mesenchymal transition. Molecular Biology of the Cell. 2018 Jun 15;29(12):1465-1475. doi: 10.1091/mbc.E17-05-0325. Epub 2018 Apr 18. PMID: 29668357

Flor-Parra I, Iglesias-Romero AB, Chang F. The XMAP215 Ortholog Alp14 Promotes Microtubule Nucleation in Fission Yeast. Current Biology. 2018 Jun 4;28(11):1681-1691.e4. doi: 10.1016/j.cub.2018.04.008. Epub 2018 May 17. PMID: 29779879.

Katsuno Y, Qin J, Oses-Prieto JA, Wang H, Jackson-Weaver O, Zhang T, Lamouille S, Wu J, Burlingame ALL, Xu J, Derynck R. Arginine methylation of Smad7 by PRMT1 in TGF-β-induced epithelial-mesenchymal transition and epithelial stem cell generation. Journal of Biological Chemistry. 2018 Jun 15. pii: jbc.RA118.002027. doi: 10.1074/jbc.RA118.002027. [Epub ahead of print]. PMID: 29907569.

Emmerson E, Knox SM. Salivary gland stem cells: A review of development, regeneration and cancer. Genesis. 2018 May;56(5):e23211. doi: 10.1002/dvg.23211. Epub 2018 May 4. PMCID: PMC5980780.

Venkataramanan SFloor SN. The Traffic Jam: Polyamine Prevalence Pauses Protein Production. Molecular Cell. 2018 Apr 19;70(2):191-192. doi: 10.1016/j.molcel.2018.04.005. PMID: 29677487.

Zhang Y, Burkhardt DH, Rouskin S, Li GW, Weissman JS, Gross CA. A Stress Response that Monitors and Regulates mRNA Structure Is Central to Cold Shock Adaptation. Molecular Cell. 2018 Apr 19;70(2):274-286.e7. doi: 10.1016/j.molcel.2018.02.035. Epub 2018 Apr 5. PMCID: PMC5910227.

Tabata TPetitt M, Puerta-Guardo H, Michlmayr D, Harris E, Pereira L. Zika Virus Replicates in Proliferating Cells in Explants From First-Trimester Human Placentas, Potential Sites for Dissemination of Infection. Journal of Infectious Diseases. 2018 Mar 28;217(8):1202-1213. doi: 10.1093/infdis/jix552. PMID: 29106643

van Haren JCharafeddine RA, Ettinger A, Wang H, Hahn KM, Wittmann T. Local control of intracellular microtubule dynamics by EB1 photodissociation. Nature Cell Biology. 2018 Mar;20(3):252-261. doi: 10.1038/s41556-017-0028-5. Epub 2018 Jan 29. PMCID: PMC5826794.

Niethamer TK, Bush JO.Getting direction(s): The Eph/ephrin signaling system in cell positioning. Developmental Biology. 2018 Jan 30. pii: S0012-1606(17)30664-4. doi: 10.1016/j.ydbio.2018.01.012. [Epub ahead of print]. PMCID: PMC6066467.

Ikeda K, Maretich P, Kajimura S. The Common and Distinct Features of Brown and Beige Adipocytes. Trends in Endocrinology and Metabolism. 2018 Mar;29(3):191-200. doi: 10.1016/j.tem.2018.01.001. Epub 2018 Jan 20. PMCID: PMC5826798.

Du D, Katsuno Y, Meyer D, Budi EH, Chen SH, Koeppen H, Wang H, Akhurst RJ, Derynck R. Smad3-mediated recruitment of the methyltransferase SETDB1/ESET controls Snail1 expression and epithelial-mesenchymal transition. EMBO Reports. 2018 Jan;19(1):135-155. doi: 10.15252/embr.201744250. Epub 2017 Dec 12. PMCID: PMC5757214.

Emmerson EMay AJBerthoin LCruz-Pacheco NNathan SMattingly AJ, Chang JL, Ryan WR, Tward AD, Knox SM. Salivary glands regenerate after radiation injury through SOX2-mediated secretory cell replacement. EMBO Molecular Medicine. 2018 Jan 15. pii: e8051. doi: 10.15252/emmm.201708051. [Epub ahead of print]. PMID: 29335337.

Hasegawa Y, Ikeda KChen Y, Alba DL, Stifler D, Shinoda K, Hosono T, Maretich P, Yang Y, Ishigaki Y, Chi J, Cohen P, Koliwad SK, Kajimura S. Repression of Adipose Tissue Fibrosis through a PRDM16-GTF2IRD1 Complex Improves Systemic Glucose Homeostasis. Cell Metabolism. 2018 Jan 9;27(1):180-194.e6. doi: 10.1016/j.cmet.2017.12.005. PMCID: PMC5765755


Tatapudy S, Aloisio FBarber D, Nystul T. Cell fate decisions: emerging roles for metabolic signals and cell morphology. EMBO Reports. 2017 Dec;18(12):2105-2118. doi: 10.15252/embr.201744816. Epub 2017 Nov 20. PMCID: PMC5709733.

Ikeda K, Kang Q, Yoneshiro T, Camporez JP, Maki H, Homma M, Shinoda K, Chen Y, Lu X, Maretich P, Tajima K, Ajuwon KM, Soga T, Kajimura S. UCP1-independent signaling involving SERCA2b-mediated calcium cycling regulates beige fat thermogenesis and systemic glucose homeostasis. Nature Medicine. 2017 Dec;23(12):1454-1465. doi: 10.1038/nm.4429. Epub 2017 Nov 13. PMCID: PMC5727902.

Petitt MTabata T, Puerta-Guardo H, Harris E, Pereira L. Zika virus infection of first-trimester human placentas: utility of an explant model of replication to evaluate correlates of immune protection ex vivo. Current Opinion in Virology. 2017 Dec;27:48-56. doi: 10.1016/j.coviro.2017.11.008. PMCID: PMC5723543.

Hueschen C, Kenny SJ,  Xu K, Dumont S. NuMA recruits dynein activity to microtubule minus-ends at mitosis. eLife, 2017 Nov 29;6. pii: e29328. doi: 10.7554/eLife.29328.  PMCID: PMC5706958.

Blair JD, Hockemeyer D, Doudna JA, Bateup HS, Floor SN. Widespread Translational Remodeling during Human Neuronal Differentiation. Cell Reports. 2017 Nov 14;21(7):2005-2016. doi: 10.1016/j.celrep.2017.10.095. PMCID: PMC5759054

Shin PJ, Zhu Z, Camarda R, Bok RA, Zhou AY, Kurhanewicz J, Goga A, Vigneron DB. Cancer recurrence monitoring using hyperpolarized [1-13C]pyruvate metabolic imaging in murine breast cancer model. Magnetic Resonance Imaging, 2017 Nov;43:105-109. doi: 10.1016/j.mri.2017.07.014. Epub 2017 Jul 15. PMCID: PMC5632580.

Pereira LTabata TPetitt MFang-Hoover J. Congenital cytomegalovirus infection undermines early development and functions of the human placenta. Placenta, 2017 Nov;59 Suppl 1:S8-S16. doi: 10.1016/j.placenta.2017.04.020. PMID: 28477968

Blair JD, Hockemeyer D, Doudna JA, Bateup HS, Floor SN. Widespread Translational Remodeling during Human Neuronal Differentiation. Cell Reports, 2017 Nov 14;21(7):2005-2016. doi: 10.1016/j.celrep.2017.10.095. PMCID: PMC5759054.

Ikeda K, Kang Q, Yoneshiro T, Camporez JP, Maki H, Homma M, Shinoda K, Chen YLu X, Maretich P, Tajima K, Ajuwon KM, Soga T, Kajimura S. UCP1-independent signaling involving SERCA2b-mediated calcium cycling regulates beige fat thermogenesis and systemic glucose homeostasis. Nature Medicine, 2017 Nov 13. doi: 10.1038/nm.4429. PMCID: PMC5727902.

Aran D, Camarda R, Odegaard J, Paik H, Oskotsky B, Krings G, Goga A, Sirota M, Butte AJ. Comprehensive analysis of normal adjacent to tumor transcriptomes. Nature Communications, 2017 Oct 20;8(1):1077. doi: 10.1038/s41467-017-01027-z. PMCID: PMC5651823.

Wei Y, Kim TJ, Peng DH, Duan D, Gibbons DL, Yamauchi M, Jackson JR, Le Saux CJ, Calhoun C, Peters J, Derynck R, Backes BJ, Chapman HA. Fibroblast-specific inhibition of TGF-β1 signaling attenuates lung and tumor fibrosis. The Journal of Clinical Investigation,  2017 Oct 2;127(10):3675-3688. doi: 10.1172/JCI94624. PMCID: PMC5617667.

Vercoulen Y, Kondo Y, Iwig JS, Janssen AB, White KA, Amini M, Barber DL, Kuriyan J, Roose JP. A Histidine pH sensor regulates activation of the Ras-specific guanine nucleotide exchange factor RasGRP1. eLife, 2017 Sep 27;6. pii: e29002. doi: 10.7554/eLife.29002. PMCID: PMC5643099

Chen FY, Lee A, Ge S, Nathan SKnox SM, McNamara NA. Aire-deficient mice provide a model of corneal and lacrimal gland neuropathy in Sjögren's syndrome. PLoS One, 2017 Sep 19;12(9):e0184916. doi: 10.1371/journal.pone.0184916. PMCID: PMC5605119.

Tran A, Tang A, O'Loughlin CT, Balistreri A, Chang E, Coto Villa D, Li J, Varshney A, Jimenez V, Pyle J, Tsujimoto B, Wellbrook C, Vargas C, Duong A, Ali N, Matthews SY, Levinson S, Woldemariam S, Khuri S, Bremer M, Eggers DK, L'Etoile N, Miller Conrad LC, VanHoven MK. C. elegans avoids toxin-producing Streptomyces using a seven transmembrane domain chemosensory receptor. eLife, 2017 Sep 5;6. pii: e23770. doi: 10.7554/eLife.23770. PMCID: PMC5584987.

White KA, Ruiz DG, Szpiech ZA, Strauli NB, Hernandez RD, Jacobson MP, Barber DL. Cancer-associated arginine-to-histidine mutations confer a gain in pH sensing to mutant proteins. Science Signaling, 2017 Sep 5;10(495). pii: eaam9931. doi: 10.1126/scisignal.aam9931. PMID: 28874603

Budi EHDuan DDerynck R. Transforming Growth Factor-β Receptors and Smads: Regulatory Complexity and Functional Versatility. Trends in Cell Biology, 2017 Sep;27(9):658-672. doi: 10.1016/j.tcb.2017.04.005. PMID: 28552280.

Szpiech ZA, Strauli NB, White KA, Garrido Ruiz D, Jacobson MP, Barber DL, Hernandez RD. Prominent Features Of The Amino Acid Mutation Landscape In Cancer. PLoS One. 2017 Aug 24;12(8):e0183273. doi: 10.1371/journal.pone.0183273. eCollection 2017. PMCID: PMC5570307.

Inagaki T, Sakai J, Kajimura S. Transcriptional and epigenetic control of brown and beige adipose cell fate and function. Nature Reviews-Molecular Cell Biology, 2017 Aug;18(8):527. doi: 10.1038/nrm.2017.72. PMID: 28698600.

Hussmann JAOsadnik HGross CA. Ribosomal Architecture: Constraints Imposed by the Need for Self-Production. Current Biology, 2017 Aug 21;27(16):R798-R800. doi: 10.1016/j.cub.2017.06.080. PMID: 28829964

Sponton CHKajimura S. Burning Fat and Building Bone by FSH Blockade. Cell Metabolism, 2017 Aug 1;26(2):285-287. doi: 10.1016/j.cmet.2017.07.018. PMID: 28768167

Kim S, Prochazka J, Bush JO. Live Imaging of Mouse Secondary Palate Fusion. JoVE, 2017 Jul 27;(125). doi: 10.3791/56041. PMID: 28784960.

Makhijani K, Alexander B, Rao D, Petraki S, Herboso LKukar KBatool I, Wachner S, Gold KS, Wong C, O'Connor MB, Brückner K. Regulation of Drosophila hematopoietic sites by Activin-β from active sensory neurons. Nature Communications, 2017 Jul 27;8:15990. doi: 10.1038/ncomms15990. PMCID: PMC5537569.

Chang F. Forces that shape fission yeast cells. Molecular Biology of the Cell, 2017 Jul 7;28(14):1819-1824. doi: 10.1091/mbc.E16-09-0671. PMCID: PMC5541833

Guild J, Ginzberg MB, Hueschen CL, Mitchison TJ, Dumont S. Increased lateral microtubule contact at the cell cortex is sufficient to drive mammalian spindle elongation. Molecular Biology of the Cell, 2017 Jul 7;28(14):1975-1983. doi: 10.1091/mbc.E17-03-0171. PMCID: PMC5541847.

Farmer DT, Finley JK, Chen FY, Tarifeño-Saldivia E, McNamara NA, Knox SM, McManus MT. miR-205 is a critical regulator of lacrimal gland development. Developmental Biology, 2017 Jul 1;427(1):12-20. doi: 10.1016/j.ydbio.2017.05.012. PMID: 28511845.

Elting MW, Prakash M, Udy DBDumont S.  Mapping Load-Bearing in the Mammalian Spindle Reveals Local Kinetochore Fiber Anchorage that Provides Mechanical Isolation and Redundancy.  Current Biology, 2017 Jun 29. pii: S0960-9822(17)30720-0. doi: 10.1016/j.cub.2017.06.018.  PMID: 28690110bioRxiv doi: 10.1101/103572 (2017).  

Webb, BA, Dosey AM, Wittmann T, Killman JM, Barber DL.  The glycolytic enzyme phosphofructokinase-1 assembles into filaments.  The Journal of Cell Biology, 2017 Jun 23. pii: jcb.201701084. doi: 10.1083/jcb.201701084.  PMID: 28646105.  

Emmerson E, May AJNathan SCruz-Pacheco N, Lizama CO, Maliskova L, Zovein AC, Shen Y, Muench MO, Knox SM.  SOX2 regulates acinar cell development in the salivary gland.  eLife, 2017 Jun 17;6. pii: e26620. doi: 10.7554/eLife.26620.  PMCID: PMC5498133.  

Long AFUdy DBDumont S. Hec1 Tail Phosphorylation Differentially Regulates Mammalian Kinetochore Coupling to Polymerizing and Depolymerizing Microtubules. Current Biology, 2017 Jun 5;27(11):1692-1699.e3. doi: 10.1016/j.cub.2017.04.058. PMCID: PMC5502739bioRxiv doi: 10.1101/105916 (2017).

Kuhn JDumont S. Spindle assembly checkpoint satisfaction occurs via end-on but not lateral attachments under tension. The Journal of Cell Biology, 2017 Jun 5;216(6):1533-1542. doi: 10.1083/jcb.201611104. PMCID: PMC5461026bioRxiv doi: 10.1101/105460 (2017).

Karg T, Elting MW, Vicars H, Dumont S, Sullivan W. The chromokinesin Klp3a and microtubules facilitate acentric chromosome segregation. The Journal of Cell Biology, 2017 Jun 5;216(6):1597-1608. doi: 10.1083/jcb.201604079. PMCID: PMC5461011

Farmer D, Nathan SFinley J, Yu KS, Emmerson E, Byrnes L, Sneddon J, McManus M, Tward A, Knox S. Defining epithelial cell dynamics and lineage relationships in the developing lacrimal gland. Development, 2017 Jun 2. pii: dev.150789. doi: 10.1242/dev.150789. PMCID: PMC5536870.

Budi EHDuan DDerynck R. Transforming Growth Factor-β Receptors and Smads: Regulatory Complexity and Functional Versatility. Trends in Cell Biology, 2017 May 25. pii: S0962-8924(17)30063-6. doi: 10.1016/j.tcb.2017.04.005. PMID: 28552280.

Anderton BCamarda R, Balakrishnan S, Balakrishnan A, Kohnz RA, Lim L, Evason KJMomcilovic OKruttwig K, Huang Q, Xu G, Nomura DK, Goga A. MYC-driven inhibition of the glutamate-cysteine ligase promotes glutathione depletion in liver cancer. EMBO Reports, 2017 Apr;18(4):569-585. doi: 10.15252/embr.201643068.  PMCID: PMC5376764.

Pemble H, Kumar P, van Haren JWittmann T. GSK3-mediated CLASP2 phosphorylation modulates kinetochore dynamics. Journal of Cell Science, 2017 Apr 15;130(8):1404-1412. doi: 10.1242/jcs.194662.  PMCID: PMC5399784.

Camarda R, Williams J, Goga A. In vivo Reprogramming of Cancer Metabolism by MYC. Frontiers in Cell and Developmental Biology, 2017 Apr 11;5:35. doi: 10.3389/fcell.2017.00035. PMCID: PMC5386977.

Koo BM, Kritikos G, Farelli JD, Todor H, Tong K, Kimsey H, Wapinski I, Galardini M, Cabal A, Peters JM, Hachmann AB, Rudner DZ, Allen KN, Typas A, Gross CA. Construction and Analysis of Two Genome-Scale Deletion Libraries for Bacillus subtilis. Cell Systems, 2017 Mar 22;4(3):291-305.e7. doi: 10.1016/j.cels.2016.12.013. PMCID: PMC5400513

Baggett NE, Zhang Y, Gross CA. Global analysis of translation termination in E. coli. PLoS Genetics, 2017 Mar 16;13(3):e1006676. doi: 10.1371/journal.pgen.1006676. PMCID: PMC5373646.

Niethamer TKLarson AR, O'Neill AK, Bershteyn M, Hsiao EC, Klein OD, Pomerantz JH, Bush JO. EPHRIN-B1 Mosaicism Drives Cell Segregation in Craniofrontonasal Syndrome hiPSC-Derived Neuroepithelial Cells. Stem Cell Reports, 2017 Mar 14;8(3):529-537. doi: 10.1016/j.stemcr.2017.01.017. PMCID: PMC5355632.

O'Halloran DM, Altshuler-Keylin S, Zhang XD, He C, Morales-Phan C, Yu Y, Kaye JA, Brueggemann C, Chen TY, L'Etoile ND. Contribution of the cyclic nucleotide gated channel subunit, CNG-3, to olfactory plasticity in Caenorhabditis elegans. Scientific Reports, Epub 2017 Mar 13. 2017 Dec;7(1):169. doi: 10.1038/s41598-017-00126-7. PMCID: PMC5427828.

Altshuler-Keylin SKajimura S. Mitochondrial homeostasis in adipose tissue remodeling. Science Signaling, 2017 Feb 28;10(468). pii: eaai9248. doi: 10.1126/scisignal.aai9248. PMCID: PMC5465966.

White KA, Grillo-Hill BK, Barber DL. Cancer cell behaviors mediated by dysregulated pH dynamics at a glance. Journal of Cell Science, 2017 Feb 15;130(4):663-669. doi: 10.1242/jcs.195297. PMCID: PMC5339414.

Kajimura S. Adipose tissue in 2016: Advances in understanding of adipose tissue biology. Nature Reviews Endocrinology, 2017 Feb;13(2):69-70. doi: 10.1038/nrendo.2016.211. Epub 2017 Jan 4. PMCID: PMC5465959.

Burkhardt DH, Rouskin S, Zhang Y, Li GW, Weissman JS, Gross CA. Operon mRNAs are organized into ORF-centric structures that predict translation efficiency. eLife, 2017 Jan 31;6. pii: e22037. doi: 10.7554/eLife.22037. PMCID: PMC5318159.

van Haren J, Ettinger A, Wang H, Hahn K, Wittmann T. Local Control of Intracellular Microtubule Dynamics by End Binding Protein 1 (EB1) Photo-Dissociation. bioRxiv doi: 10.1101/099598 (2017).


Webb BA, White KA, Grillo-Hill BK, Schonichen A, Cho C, Barber DL. A histidine cluster in the cytoplasmic domain of the Na-H exchanger NHE1 confers pH-sensitive phospholipid binding and regulates transporter activity. Journal of Biological Chemistry, 2016 Nov 11;291(46):24096-24104. PMCID: PMC5104935.

Ulmschneider B, Grillo-Hill BK, Benitez M, Azimova D, Barber DL, Nystul TG. Increased intracellular pH is necessary for adult epithelial and embryonic stem cell differentiation. Journal of Cell Biology, 2016 Nov 7;215(3):345-355. PMCID: PMC51000294.

Tabata TPetitt MFang-Hoover J, Zydek M, Pereira L. Persistent cytomegalovirus infection in amniotic membranes of the human placenta. American Journal of Pathology, 2016 Nov;186(11):2970-2986. PMCID: PMC5222962.

Horiuchi DCamarda RZhou AY, Yau C, Momcilovic O, Balakrishnan S, Corella AN, Eyob HKessenbrock K, Lawson DA, Marsh LA, Anderton BNRohrberg J, Kunder R, Bazarov AV, Yaswen P, McManus MT, Rugo HS, Werb Z, Goga A. PIM1 kinase inhibition as a targeted therapy against triple-negative breast tumors with elevated MYC expression. Nature Medicine 2016 Nov;22(11):1321-1329. doi: 10.1038/nm.4213. PMCID: PMC5341692.

O'Neill AK, Kindberg AA, Neithamer TK, Larson AR, Ho HH, Greenberg ME, Bush JO. Unidirectional Eph/ephrin signaling creates a cortical actomyosin differential to drive cell segregation. Journal of Cell Biology, 2016 Oct 24;215(2):217-229. PMCID: PMC5084648.

He C, Altshuler-Keylin S, Daniel D, L'Etoile ND, O'Halloran D. The cyclic nucleotide gated channel subunit CNG-1 instructs behavioral outputs in Caenorhabditis elegans by coincidence detection of nutritional status and olfactory input. Neuroscience Letters, 2016 Oct 6;632:71-78. doi: 10.1016/j.neulet.2016.08.037.  PMID: 27561605.

Altshuler-Keylin SShinoda KHasegawa YIkeda KHong HKang QYang Y, Perera RM, Debnath J, Kajimura S. Beige adipocyte maintenance is regulated by autophagy-induced mitochondrial clearance. Cell Metabolism, 2016 Aug 24;24(3):402-19. PMID: 27568548.

Kohnz RA, Roberts LS, DeTomaso D, Bideyan L, Yan P, Bandyopadhyay S, Goga A, Yosef N, Nomura DK. Protein Sialylation Regulates a Gene Expression Signature that Promotes Breast Cancer Cell Pathogenicity. ACS Chemical Biology, 2016 Aug 19;11(8):2131-9. doi: 10.1021/acschembio.6b00433. PMCID: PMC4994060.

Ingaki T, Sakai J, Kajimura S. Transcriptional and epigenetic control of brown and beige adipose cell fate function. Nature Review Molecular Cell Biology, 2016 Aug;17(8): 480-95. PMCID: PMC4956538.

Tabata TPetitt M, Puerta-Guardo H, Michlmayr D, Wang C, Fang-Hoover J, Harris E, Pereira L. Zika virus targets different primary human placental cells, suggesting two routes of vertical transmission. Cell Host & Microbe, 2016 Jul 18;20(2):155-66. PMID: 27443522.

Cho CE, Brueggermann CL'Eotile ND, Bargmann CI. Parallel encoding of sensory history and behavioral preference during Caenorhabdities elegans olfactory learning. elife, 2016 Jul 6; doi:10.7554/eLife.14000. PMCID: PMC4935464.

Moses HL, Roberts AB, Derynck R. The discovery and early days of TGF-β: a historical perspective. Cold Spring Harbor Perspectives in Biology, 2016 July 1:8(7) doi:10.1101/cshperspect.a021865. PMID: 27328871.

Shiver AL, Osadnik H, Kritikos G, Li B, Krogan N, Typas A, Gross CA. A chemical-genomic screen of neglected antibiotics reveals illicit transport of Kasugamycin and Blasticidin S. PLoS Genetics, 2016 Jun 29:12(6): e1006124. PMCID: PMC4927156.

Iwasaki S, Floor SN, Ingolia NT. Rocaglates convert DEAD-box protein eIF4A into a sequence-selective translational repressor. Nature, 2016 Jun 23;534(7608):558-61. doi: 10.1038/nature17978. PMCID: PMC4946961

Ettinger Avan Haren J, Ribeiro S, Wittmann T. Doublecortin is excluded from growing microtubule ends and recognizes the GDP-Microtubule lattice. Current Biology, 2016 Jun 20;26(20): 1549-55. PMCID: PMC5023073.

Chondronikola M, Volp E, Børsheim E, Porter C, Saraf MK, Annamalai P, Yafanti C, Chao T, Wong DShinoda K, Labbė SM, Hurren NM, Cesani F, Kajimura S, Sidossis LS. Brown adipose tissue activation is linked to distinct systemic effects on lipid metabolism in humans. Cell Metabolism, 2016 Jun 14;23(6): 1200-6. PMID: 27238638.

Peters JM, Colavin A, Shi H, Czamy TL, Larson MH, Wong S, Hawkins JS, Lu CH, Koo BM, Marta E, Shiver AL, Whitehead EH, Weissman JS, Brown ED, Qi LS, Huang KC, Gross CA. A comprehensive, CRISPR-based functional analysis of essential genes in bacteria. Cell, 2016 Jun 2;165(6): 1493-506. PMCID: PMC4894308.

Louie SM, Grossman EA, Crawford LA, Ding L, Camarda R, Huffman TR, Miyamoto DK, Goga A, Weerapana E, Nomura DK. GSTP1 Is a Driver of Triple-Negative Breast Cancer Cell Metabolism and Pathogenicity. Cell Chemical Biology, 2016 May 19;23(5):567-78. doi: 10.1016/j.chembiol.2016.03.017. PMCID: PMC4876719.

Ohyama K, Nogusa Y, Shinoda K, Suzuki K, Bannai M, Kajimura S. A synergistic antiobesity effect by a combination of capsinoids and cold temperature through promoting beige adipocyte biogenesis. Diabetes, 2016 May;65(5): 1410-23. PMCID: PMC4839206.

Humtsoe JO, Pham E, Louie RJ, Chan DA, Kramer RH. ErbB3 upregulation by the HNSCC 3D microenvironment modulates cell survival and growth. Oncogene, 2016 Mar 24;35(12): 1554-64. PMID: 26073080.

Camarda R, Zhou AY, Kohnz RA, Balakrishnan S, Mahieu C, Anderton B, Eyob H, Kajimura S, Tward A, Krings G, Nomura DK, Goga A. Inhibition of fatty acid oxidation as a therapy for MYC-overexpressing triple-negative breast cancer. Nature Medicine, 2016 Mar 7; doi:10.1038/nm.4055. PMCID: PMC4892846.

Budi EHXu JDerynck R. Regulation of TGF-β receptors. Method in Molecular Biology, 2016;1344:1-33. PMID: 26520115.


Prochazka J, Prochazkova M, Du W, Spoutil F, Tureckova J, Hoch R, Shimogori T, Sedlacek R, Rubenstein JL, Wittmann T, Klein OD. Migration of founder epithelial cells drives proper molar tooth positioning and morphogenesis. Developmental Cell, 2015 Dec 21;35(6):713-24. PMCID: PMC4710359.

Muthusamy BPBudi EHKatsuno Y, Lee MK, Smith SM, Mirza AM, Akhurst RJ, Derynck R. ShcA protects against epithlial-mesenchymal transition through compartmentalized inhibition of TGF-β induce Smad activation. PLoS Biology, 2015 Dec 17;13(12):e1002325. PMCID: PMC4682977.

Parshin A, Shiver AL, Lee J, Ozerova M, Schneidman-Duhovny D, Gross CA, Borukhov S. DksA regulates RNA polymerase in Escherichia coli through a network of interactions in the secondary channel that includes sequence insertion 1. PNAS, 2015 Dec 15;112(50): E6862-71. PMCID: PMC4687573.

Shinoda KOhyama KHasegawa Y, Chang HY, Ogura M, Sato A, Hong HHosono TSharp LZScheel DW, Graham M, Ishihama Y, Kajimura S. Phosphoproteomics identifies CK2 as a negative regulator of beige adipocyte thermogenesis and energy expenditures. Cell Metabolism, 2015 Dec 1;22(6): 997-1008. PMCID: PMC4670581.

Gold KBrückner K. Macrophages and cellular immunity in Drosophila melanogaster. Seminars in Immunology, 2015 Dec; 27(6): 357-368. PMID: 27117654.

Mattingly AFinley JKKnox SM. Salivary gland development and disease. Wiley Interdisciplinary Reviews: Developmental Biology, 2015 Nov/Dec;4(6): 573-590. PMID: 25970268.

Petraki S, Alexander BBrückner K. Assaying blood cell populations of the Drosophila melanogaster larva. Journal of Visualized Experiments, 2015 Nov 11;(105). PMCID: PMC4692709.

Shinoda K, Ohyama K, Hasegawa Y, Chang HY, Ogura M, Sato A, Hong H, Hosono T, Sharp LZ, Scheel DW, Graham M, Ishihama Y, Kajimura S. Phosphoproteomics identifies CK2 as a negative regulator of beige adipocyte thermogenesis and energy expenditure. Cell Metabolism, 2015 Oct 29;S1550-4131(15)00516-1. PMCID: PMC4670581.

Lewis AE, Hwa J, Wang R, Soriano P, Bush JO. Neural crest defects in ephrin-B2 mutant mice are non-autonomous and originate from defects in the vasculature. Developmental Biology, 2015 Oct 15;406(2):186-95. PMCID: PMC4639416.

Kajimura S, Spiegelman BM, Seale P. Brown and beige fat: physiological roles beyond heat generation. Cell Metabolism, 2015 Oct 6;22(4):546-59. PMCID: PMC4613812.

Lawson DA, Bhakta NR, Kessenbrock K, Prummel KD, Yu Y, Takai K, Zhou AEyob HBalakrishnan S, Wang CY, Yaswen P, Goga* A, Werb* Z. Single-cell analysis reveals a stem-cell program in human metastatic breast cancer cells. Nature, 2015 Oct 1;526(7571):131-5. PMCID: PMC4648562.

Peters JM, SIlvis MR, Zhao D, Hawkins JS, Gross CA, Qi LS. Bacterial CRISPR: accomplishments and prospects. Current Opinion in Microbiology, 2015 Oct;27:121-6. PMCID: PMC4659716.

Gray AN, Koo BM, Shiver AL, Peters JM, Osadnik H, Gross CA. High-throughput bacterial functional genomics in the sequencing era. Current Opinion in Microbiology, 2015 Oct;27:86-95. PMCID: PMC4659725.

Budi EH, Muthusamy BP, Derynck R. The insulin response integrates increased TGF-β signaling through Akt-induced enhancement of cell surface delivery of TGF-β receptors. Science Signaling, 2015 Sept 29;RA96. PMCID: PMC4669960.   

Atilgan E, Magidson V, Khodjakov A, Chang F. Morphogenesis of the fission yeast cell through cell wall expansion. Current Biology, 2015 Aug 17;25(16):2150-7. PMCID: PMC4627367.

Lane AB, Strzelecka M, Ettinger A, Grenfell AW, Wittmann T, Heald R. Enzymatically generated CRISPR libraries of genome labeling and screening. Developmental Cell, 2015 Aug 10;34(3):373-8. PMCID: PMC4536113.

Udy DB, Voorhies M, Chan PP, Lowe TM, Dumont S. Draft de novo transcriptome of the rat kangaroo potorous tridactylus as a tool for cell biology. PLoS One, 2015 Aug 7;10(8):e0134738. PMCID: PMC4529305.

Webb* BA, Forouhar* F, Szu FE, Seetharaman J, Tong* L, Barber* DL. Structures of human phosphofructokinase-1 and atomic basis of cancer-associated mutations. Nature, 2015 May 18;523(7558):111-4. PMCID: PMC4510984

Gray AN, Egan AJ, Van't Veer IL, Verheul J, Colavin A, Koumoutsi A, Biboy J, Altelaar AF, Damen MJ, Huang KC, Simorre JP, Breukink E, den Blaauwen T, Typas A, Gross CA, Vollmer W. Coordination of peptidoglycan synthesis and outer membrane constriction during Escherichia coli cell division. eLife, 2015 May 7;4. PMCID: PMC4458516.

Tabata TPetitt M, Zydek M, Fang-Hoover J, Larocque N, Tsuge M, Gormley M, Kauvar LM, Pereira L. Human cytomegalovirus infection interferes with the maintenance and differentiation of trophoblast progenitor cells of the human placenta. Journal of Virology, 2015 May;89(9):5134-47. PMCID: PMC4403461.

Shinoda K, Luijten IH, Hasegawa Y, Hong H, Sonne SB, Kim M, Xue R, Chondronikola M, Cypess AM, Tseng YH, Nedergaard J, Sidossis LS, Kajimura S. Genetic and functional characterization of clonally derived adult human brown adipocytes. Nature Medicine, 2015 Apr;21(4):389-94. PMCID: PMC4427356

Kim SLewis AE, Singh V, Ma X, Adelstein R, Bush JO. Convergence and extrusion are require for normal fusion of the mammalian secondary palate. PLOS Biology, 2015 Apr;13(4), e1002122. PMCID: PMC4388528.

Knosp WM, Knox SM, Lombaert IM, Haddox CL, Patel VN, Hoffman MP. Submandibular parasympathetic gangliogenesis requires sprouty-dependent Wnt signals from epithelial progenitors. Develomental Cell, 2015 Mar 23;32(6):667-77. PMCID: PMC4374127.

Grillo-Hill BK, Choi C, Jiminez-Vidal M, Barber DL. Increased H+ efflux is sufficient to induce dysplasia and necessary for viability with oncogene expression. eLife, 2015 Mar 20;4. PMCID: PMC4392478

Rana* MKSrivastava* J, Yang M, Chen CS, Barber DL. Hypoxia increases the abundance but not the assembly of extracellular fibronectin during epithelial cell transdifferentiation. Journal of Cell Science, 2015 Mar 15;128(6):1083-9. PMCID: PMC4359919.

Huskey NE, Guo T, Evason KJ, Momcilovic O, Pardo D, Creasman KJ, Judson RL, Blelloch R, Oakes SA, Hebrok M, Goga A. CDK1 inhibition targets the p53-NOXA-MCL1 axis, selectively kills embryonic stem cells, and prevents teratoma formation. Stem Cell Reports, 2015 Mar 10;4(3):374-89. PMCID: PMC4375943.

Sopko R, Lin YB, Makhijani K, Alexander B, Perrimon N, Brückner K. A systems-level interrogation identifies regulators of Drosophila blood cell number and survival. PLOS Genetics, 2015 Mar 6;11(3):e1005056. PMCID: PMC4352040.

Kauvar LM, Liu K, Park M, DeChene N, Stephenson R, Tenorio E, Ellsworth SL, Tabata TPetitt M, Tsuge M, Fang-Hoover J, Adler SP, Cui X, McVoy MA, Pereira L. A high-affinity native human antibody neutralizes human cytomegalovirus infection of diverse cell types. Antimicrobial Agents and Chemotherapy, 2015 Mar;59(3):1558-68. PMCID: PMC4325823.

Martins MM, Zhou AY, Corella A, Horiuchi D, Yau C, Rakshandehroo T, Gordan JD, Levin RS, Johnson J, Jascur J, Shales M, Sorrentino A, Cheah J, Clemons PA, Shamji AF, Schreiber SL, Krogan NJ, Shokat KM, McCormick F, Goga* A, Bandyopadhyay* S. Linking tumor mutations to drug responses via a quantitative chemical-genetic interaction map. Cancer Discovery, 2015 Feb;5(2):154-67. PMCID: PMC4407699

LeClaire LL, Rana M, Baumgartner M, Barber DL. The Nck-interacting kinase NIK increases Arp2/3 complex activity by phosphorylating the Arp2 subunit. Journal of Cell Biology, 2015 Jan 19;208(2):161-70. PMCID: PMC4298681.

Zhou Z, Munteanu EL, He J, Ursell T, Bathe M, Huang KC, Chang F. The contractile ring coordinates curvature-dependent septum assembly during fission yeast cytokineses. Molecular Biology of the Cell, 2015 Jan 1;26(1):78-90. PMCID: PMC4279231.


Xu P, Bailey-Bucktrout S, Xi Y, Xu D, Du D, Zhang Q, Xhang W, Liu J, Melton A, Sheppard D, Chapman HA, Bluestone JA, Derynck R. Innate antiviral host defense attenuates TGF-β Function through IRF3-mediated suppression of smad signaling. Molecular Cell, 2014 Dec 18;56(6):723-37. PMCID: PMC4273650

Galmozzi A, Sonne SB, Altshuler-Keylin S, Hasegawa Y, Shinoda K, Luijten IH, Chang JW, Sharp LZ, Cravatt BF, Saez E, Kajimura S. ThermoMouse: an in vivo model to identify modulators of UCP1 expression in brown adipose tissue. Cell Reports, 2014 Dec 11;9(5):1584-93. PMCID: PMC4268417.

Agrawal P, Wang M, Kim S, Lewis AE, Bush JO. Embryonic expression of EphA receptor genes in mice supports their candidacy for involvement in cleft lip and palate. Developmental Dynamics, 2014 Nov;243(11):1470-6. PMCID: PMC4404412.

Juang BT, Ludwig A, Benedetti KGu C, Collins K, Morales C, Asundi AWittmann T, L'Etoile N, Hagerman PJ. Expression of an expanded CCG-repeat RNA in a single pair of primary senesory neurons impairs olfactory adaptation in Caenorhabditis elegans. Human Molecular Genetics, 2014 Sept 15;23(18):4945-59. PMCID: PMC4140470.

Gold KS, Brückner K. Drosophila as a model for the two myeloid blood cell systems in vertebrates. Experimental Hematology, 2014 Aug;42(8):717-27. PMID: 24946019.

Nevedsky* PI, Emmerson* E, Finley JK, Ettinger ACruz-Pacheco N, Prochazka J, Haddox CL, Northrup E, Hodges C, Mostov KE, Hoffmann M, Knox S. Parasympathetic Innervation Regulates Tubulogenesis in the Developing Salivary Gland. Developmental Cell, 2014 Aug 25;30(4):449-62. PMCID: PMC4155578.

Elting MW*, Hueschen CL*, Udy DB, Dumont S. Force on spindle microtubule minus-ends moves chromosomes. The Journal of Cell Biology, 2014 Jul 21;206(2):245-56. PMCID: PMC4107791.

Stehbens SJ, Paszek M, Pemble H, Ettinger A, Gierke S, Wittmann T. CLASPs link focal-adhesion-associated microtubule capture to localized exocytosis and adhesion site turnover. Nature Cell Biology, 2014 Jun;16(6):561-73. PMCID: PMC4108447.

Guo MS, Gross CA. Stress-induced remodeling of the bacterial proteome. Current Biology, 2014 May 19;24(10):R424-34. PMCID: PMC4089988.

Ozeki N, Mogi M, Yamaguchi H, Hiyama T, Kawai R, Hase N, Nakata K, Nakamura H, Kramer RH. Differentiation of human skeletal muscle stem cells into odontoblasts is dependent on induction of alpha-1 intergrin expression. Journal of Biological Chemistry, 2014 May 16;289(20):14380-91. PMCID: PMC4022904.

Lamouille S, Xu J, Derynck R. Molecular mechanisms of epithelial-mesenchymal transition. Nature Reviews Molecular Cell Biology, 2014 Mar;15(3):178-96. PMCID: PMC4240281.

Lim L, Balakrishnan A, Huskey N, Jones KD, Jodari M, Ng R, Song G, Riordan J, Anderton B, Cheung ST, Willenbring H, Dupuy A, Chen X, Brown D, Chang AN, Goga A. MicroRNA-494 within an oncogenic microRNA megacluster regulates G1/S transition in liver tumorigenesis through suppression of mutated in colorectal cancer. Hepatology, 2014 Jan;59(1):202-15. PMCID: PMC3877416.