Most Recent Publications


Please contact Jennifer Santini if you have a recent publication from work performed in the core so it can be added to this list.

Wu S, Turner KM, Nguyen N, Raviram R, Erb M, Santini J, Luebeck J, Rajkumar U, Diao Y, Li B, Zhang W, Jameson N, Corces MR, Granja JM, Chen X, Coruh C, Abnousi A, Houston J, Ye Z, Hu R, Yu M, Kim H, Law JA, Verhaak RGW, Hu M, Furnari FB, Chang HY, Ren B, Bafna V, Mischel PS. Circular ecDNA promotes accessible chromatin and high oncogene expression. Nature. 2019 Nov 20. PMID:31748743

https://www.nytimes.com/2019/11/20/science/dna-genetics-cancer.html

Baumgartel K, Green A, Hornberger D, Lapira J, Rex C, Wheeler DG, Peters M. PDE4D regulates Spine Plasticity and Memory in the Retrosplenial Cortex. Sci Rep 2018;8(1):3895. PMCID: PMC5832851.

Boogerd CJ, Zhu X, Aneas I, Sakabe N, Zhang L, Sobreira DR, Montefiori L, Bogomolovas J, Joslin AC, Zhou B, Chen J, Nobrega MA, Evans SM. Tbx20 Is Required in Mid-Gestation Cardiomyocytes and Plays a Central Role in Atrial Development. Circ Res 2018;123(4):428-42. PMCID: PMC6092109.

Breuss MW, Nguyen A, Song Q, Nguyen T, Stanley V, James KN, Musaev D, Chai G, Wirth SA, Anzenberg P, George RD, Johansen A, Ali S, Zia-Ur-Rehman M, Sultan T, Zaki MS, Gleeson JG. Mutations in LNPK, Encoding the Endoplasmic Reticulum Junction Stabilizer Lunapark, Cause a Recessive Neurodevelopmental Syndrome. Am J Hum Genet 2018;103(2):296-304. PMCID: PMC6080764.

Bustamante MF, Oliveira PG, Garcia-Carbonell R, Croft AP, Smith JM, Serrano RL, Sanchez-Lopez E, Liu X, Kisseleva T, Hay N, Buckley CD, Firestein GS, Murphy AN, Miyamoto S, Guma M. Hexokinase 2 as a novel selective metabolic target for rheumatoid arthritis. Ann Rheum Dis 2018;77(11):1636-43. PMCID: PMC6328432.

Chen M, Geoffroy CG, Meves JM, Narang A, Li Y, Nguyen MT, Khai VS, Kong X, Steinke CL, Carolino KI, Elziere L, Goldberg MP, Jin Y, Zheng B. Leucine Zipper-Bearing Kinase Is a Critical Regulator of Astrocyte Reactivity in the Adult Mammalian CNS. Cell Rep 2018;22(13):3587-97. PMCID: PMC5905706.

Choi SH, Wallace AM, Schneider DA, Burg E, Kim J, Alekseeva E, Ubags ND, Cool CD, Fang L, Suratt BT, Miller YI. AIBP augments cholesterol efflux from alveolar macrophages to surfactant and reduces acute lung inflammation. JCI Insight 2018;3(16). PMCID: PMC6141166.

Clark AE, Sabalza M, Gordts P, Spector DH. Human Cytomegalovirus Replication Is Inhibited by the Autophagy-Inducing Compounds Trehalose and SMER28 through Distinctively Different Mechanisms. J Virol 2018;92(6). PMCID: PMC5827393.

De La Zerda DJ, Stokes JA, Do J, Go A, Fu Z, Powell FL. Ibuprofen does not reverse ventilatory acclimatization to chronic hypoxia. Respir Physiol Neurobiol 2018;256:29-35.

Eguchi A, Koyama Y, Wree A, Johnson CD, Nakamura R, Povero D, Kneiber D, Tameda M, Contreras P, Spada A, Feldstein AE. Emricasan, a pan-caspase inhibitor, improves survival and portal hypertension in a murine model of common bile-duct ligation. J Mol Med (Berl) 2018;96(6):575-83. PMCID: PMC6347405.

Friedman B, Whitney MA, Savariar EN, Caneda C, Steinbach P, Xiong Q, Hingorani DV, Crisp J, Adams SR, Kenner M, Lippert CN, Nguyen QT, Guma M, Tsien RY, Corr M. Detection of Subclinical Arthritis in Mice by a Thrombin Receptor-Derived Imaging Agent. Arthritis Rheumatol 2018;70(1):69-79. PMCID: PMC5745304.

Guemez-Gamboa A, Caglayan AO, Stanley V, Gregor A, Zaki MS, Saleem SN, Musaev D, McEvoy-Venneri J, Belandres D, Akizu N, Silhavy JL, Schroth J, Rosti RO, Copeland B, Lewis SM, Fang R, Issa MY, Per H, Gumus H, Bayram AK, Kumandas S, Akgumus GT, Erson-Omay EZ, Yasuno K, Bilguvar K, Heimer G, Pillar N, Shomron N, Weissglas-Volkov D, Porat Y, Einhorn Y, Gabriel S, Ben-Zeev B, Gunel M, Gleeson JG. Loss of Protocadherin-12 Leads to Diencephalic-Mesencephalic Junction Dysplasia Syndrome. Ann Neurol 2018;84(5):638-47. PMCID: PMC6510237.

Hingorani DV, Lippert CN, Crisp JL, Savariar EN, Hasselmann JPC, Kuo C, Nguyen QT, Tsien RY, Whitney MA, Ellies LG. Impact of MMP-2 and MMP-9 enzyme activity on wound healing, tumor growth and RACPP cleavage. PLoS One 2018;13(9):e0198464. PMCID: PMC6152858 Biosciences, which has licensed the ACPP technology from the University of California Regents. This affiliation does not alter our adherence to PLOS ONE policies on sharing data and materials. The remaining authors declare that they have no other competing interests.

Holland ND. Formation of the initial kidney and mouth opening in larval amphioxus studied with serial blockface scanning electron microscopy (SBSEM). Evodevo 2018;9:16. PMCID: PMC6013890.

Hu M, Dailamy A, Lei XY, Parekh U, McDonald D, Kumar A, Mali P. Facile Engineering of Long-Term Culturable Ex Vivo Vascularized Tissues Using Biologically Derived Matrices. Adv Healthc Mater 2018;7(23):e1800845. PMCID: PMC6478398.

Huang ML, Michalak AL, Fisher CJ, Christy M, Smith RAA, Godula K. Small Molecule Antagonist of Cell Surface Glycosaminoglycans Restricts Mouse Embryonic Stem Cells in a Pluripotent State. Stem Cells 2018;36(1):45-54. PMCID: PMC6237099.

Kalyanaraman H, Schwaerzer G, Ramdani G, Castillo F, Scott BT, Dillmann W, Sah RL, Casteel DE, Pilz RB. Protein Kinase G Activation Reverses Oxidative Stress and Restores Osteoblast Function and Bone Formation in Male Mice With Type 1 Diabetes. Diabetes 2018;67(4):607-23. PMCID: PMC5860855.

Kyriakakis P, Catanho M, Hoffner N, Thavarajah W, Hu VJ, Chao SS, Hsu A, Pham V, Naghavian L, Dozier LE, Patrick GN, Coleman TP. Biosynthesis of Orthogonal Molecules Using Ferredoxin and Ferredoxin-NADP(+) Reductase Systems Enables Genetically Encoded PhyB Optogenetics. ACS Synth Biol 2018;7(2):706-17. PMCID: PMC5820651.

Lagarrigue F, Gingras AR, Paul DS, Valadez AJ, Cuevas MN, Sun H, Lopez-Ramirez MA, Goult BT, Shattil SJ, Bergmeier W, Ginsberg MH. Rap1 binding to the talin 1 F0 domain makes a minimal contribution to murine platelet GPIIb-IIIa activation. Blood Adv 2018;2(18):2358-68. PMCID: PMC6156890.

Loureiro ME, Zorzetto-Fernandes AL, Radoshitzky S, Chi X, Dallari S, Marooki N, Leger P, Foscaldi S, Harjono V, Sharma S, Zid BM, Lopez N, de la Torre JC, Bavari S, Zuniga E. DDX3 suppresses type I interferons and favors viral replication during Arenavirus infection. PLoS Pathog 2018;14(7):e1007125. PMCID: PMC6042795.

Ma X, Yu C, Wang P, Xu W, Wan X, Lai CSE, Liu J, Koroleva-Maharajh A, Chen S. Rapid 3D bioprinting of decellularized extracellular matrix with regionally varied mechanical properties and biomimetic microarchitecture. Biomaterials 2018;185:310-21. PMCID: PMC6186504.

Maricic I, Marrero I, Eguchi A, Nakamura R, Johnson CD, Dasgupta S, Hernandez CD, Nguyen PS, Swafford AD, Knight R, Feldstein AE, Loomba R, Kumar V. Differential Activation of Hepatic Invariant NKT Cell Subsets Plays a Key Role in Progression of Nonalcoholic Steatohepatitis. J Immunol 2018;201(10):3017-35. PMCID: PMC6219905.

Marin-Valencia I, Novarino G, Johansen A, Rosti B, Issa MY, Musaev D, Bhat G, Scott E, Silhavy JL, Stanley V, Rosti RO, Gleeson JW, Imam FB, Zaki MS, Gleeson JG. A homozygous founder mutation in TRAPPC6B associates with a neurodevelopmental disorder characterised by microcephaly, epilepsy and autistic features. J Med Genet 2018;55(1):48-54. PMCID: PMC6056005.

McCall LI, Tripathi A, Vargas F, Knight R, Dorrestein PC, Siqueira-Neto JL. Experimental Chagas disease-induced perturbations of the fecal microbiome and metabolome. PLoS Negl Trop Dis 2018;12(3):e0006344. PMCID: PMC5864088.

Meves JM, Geoffroy CG, Kim ND, Kim JJ, Zheng B. Oligodendrocytic but not neuronal Nogo restricts corticospinal axon sprouting after CNS injury. Exp Neurol 2018;309:32-43. PMCID: PMC6139267.

Narang A, Zheng B. To Scar or Not to Scar. Trends Mol Med 2018;24(6):522-4. PMCID: PMC5975241.

Naticchia MR, Laubach LK, Tota EM, Lucas TM, Huang ML, Godula K. Embryonic Stem Cell Engineering with a Glycomimetic FGF2/BMP4 Co-Receptor Drives Mesodermal Differentiation in a Three-Dimensional Culture. ACS Chem Biol 2018;13(10):2880-7. PMCID: PMC6252183.

Nelson KN, Meyer AN, Wang CG, Donoghue DJ. Oncogenic driver FGFR3-TACC3 is dependent on membrane trafficking and ERK signaling. Oncotarget 2018;9(76):34306-19. PMCID: PMC6188140.

Niederholtmeyer H, Chaggan C, Devaraj NK. Communication and quorum sensing in non-living mimics of eukaryotic cells. Nat Commun 2018;9(1):5027. PMCID: PMC6261949.

Patel A, Li Z, Canete P, Strobl H, Dulin J, Kadoya K, Gibbs D, Poplawski GHD. AxonTracer: a novel ImageJ plugin for automated quantification of axon regeneration in spinal cord tissue. BMC Neurosci 2018;19(1):8. PMCID: PMC5845359.

Poplawski G, Ishikawa T, Brifault C, Lee-Kubli C, Regestam R, Henry KW, Shiga Y, Kwon H, Ohtori S, Gonias SL, Campana WM. Schwann cells regulate sensory neuron gene expression before and after peripheral nerve injury. Glia 2018;66(8):1577-90. PMCID: PMC6129445.

Proetto MT, Callmann CE, Cliff J, Szymanski CJ, Hu D, Howell SB, Evans JE, Orr G, Gianneschi NC. Tumor Retention of Enzyme-Responsive Pt(II) Drug-Loaded Nanoparticles Imaged by Nanoscale Secondary Ion Mass Spectrometry and Fluorescence Microscopy. ACS Cent Sci 2018;4(11):1477-84. PMCID: PMC6276039.

Ramdani G, Schall N, Kalyanaraman H, Wahwah N, Moheize S, Lee JJ, Sah RL, Pfeifer A, Casteel DE, Pilz RB. cGMP-dependent protein kinase-2 regulates bone mass and prevents diabetic bone loss. J Endocrinol 2018;238(3):203-19. PMCID: PMC6086127.

Schaffer AE, Breuss MW, Caglayan AO, Al-Sanaa N, Al-Abdulwahed HY, Kaymakcalan H, Yilmaz C, Zaki MS, Rosti RO, Copeland B, Baek ST, Musaev D, Scott EC, Ben-Omran T, Kariminejad A, Kayserili H, Mojahedi F, Kara M, Cai N, Silhavy JL, Elsharif S, Fenercioglu E, Barshop BA, Kara B, Wang R, Stanley V, James KN, Nachnani R, Kalur A, Megahed H, Incecik F, Danda S, Alanay Y, Faqeih E, Melikishvili G, Mansour L, Miller I, Sukhudyan B, Chelly J, Dobyns WB, Bilguvar K, Jamra RA, Gunel M, Gleeson JG. Biallelic loss of human CTNNA2, encoding alphaN-catenin, leads to ARP2/3 complex overactivity and disordered cortical neuronal migration. Nat Genet 2018;50(8):1093-101. PMCID: PMC6072555.

Stroud MJ, Fang X, Zhang J, Guimaraes-Camboa N, Veevers J, Dalton ND, Gu Y, Bradford WH, Peterson KL, Evans SM, Gerace L, Chen J. Luma is not essential for murine cardiac development and function. Cardiovasc Res 2018;114(3):378-88. PMCID: PMC6019056.

Stubelius A, Sheng W, Lee S, Olejniczak J, Guma M, Almutairi A. Disease-Triggered Drug Release Effectively Prevents Acute Inflammatory Flare-Ups, Achieving Reduced Dosing. Small 2018;14(32):e1800703. PMCID: PMC6165597.

Sugie J, Intaglietta M, Sung LA. Water transport and homeostasis as a major function of erythrocytes. Am J Physiol Heart Circ Physiol 2018;314(5):H1098-H107. PMCID: PMC6008142.

Veevers J, Farah EN, Corselli M, Witty AD, Palomares K, Vidal JG, Emre N, Carson CT, Ouyang K, Liu C, van Vliet P, Zhu M, Hegarty JM, Deacon DC, Grinstein JD, Dirschinger RJ, Frazer KA, Adler ED, Knowlton KU, Chi NC, Martin JC, Chen J, Evans SM. Cell-Surface Marker Signature for Enrichment of Ventricular Cardiomyocytes Derived from Human Embryonic Stem Cells. Stem Cell Reports 2018;11(3):828-41. PMCID: PMC6135222.

Wree A, McGeough MD, Inzaugarat ME, Eguchi A, Schuster S, Johnson CD, Pena CA, Geisler LJ, Papouchado BG, Hoffman HM, Feldstein AE. NLRP3 inflammasome driven liver injury and fibrosis: Roles of IL-17 and TNF in mice. Hepatology 2018;67(2):736-49. PMCID: PMC5849484.

Yan J, Chen SA, Local A, Liu T, Qiu Y, Dorighi KM, Preissl S, Rivera CM, Wang C, Ye Z, Ge K, Hu M, Wysocka J, Ren B. Histone H3 lysine 4 monomethylation modulates long-range chromatin interactions at enhancers. Cell Res 2018;28(2):204-20. PMCID: PMC5799818.

Zhao Y, Harrison DL, Song Y, Ji J, Huang J, Hui E. Antigen-Presenting Cell-Intrinsic PD-1 Neutralizes PD-L1 in cis to Attenuate PD-1 Signaling in T Cells. Cell Rep 2018;24(2):379-90 e6. PMCID: PMC6093302.

Zhu W, Tringale KR, Woller SA, You S, Johnson S, Shen H, Schimelman J, Whitney M, Steinauer J, Xu W, Yaksh TL, Nguyen QT, Chen S. Rapid continuous 3D printing of customizable peripheral nerve guidance conduits. Mater Today (Kidlington) 2018;21(9):951-9. PMCID: PMC6538503.

Ackermann BE, Debelouchina GT. Heterochromatin Protein HP1alpha Gelation Dynamics Revealed by Solid-State NMR Spectroscopy. Angew Chem Int Ed Engl 2019;58(19):6300-5. PMCID: PMC6482055.

Aladesuyi Arogundade O, Stauffer JE, Saberi S, Diaz-Garcia S, Malik S, Basilim H, Rodriguez MJ, Ohkubo T, Ravits J. Antisense RNA foci are associated with nucleoli and TDP-43 mislocalization in C9orf72-ALS/FTD: a quantitative study. Acta Neuropathol 2019;137(3):527-30. PMCID: PMC6397670.

Bi J, Ichu TA, Zanca C, Yang H, Zhang W, Gu Y, Chowdhry S, Reed A, Ikegami S, Turner KM, Zhang W, Villa GR, Wu S, Quehenberger O, Yong WH, Kornblum HI, Rich JN, Cloughesy TF, Cavenee WK, Furnari FB, Cravatt BF, Mischel PS. Oncogene Amplification in Growth Factor Signaling Pathways Renders Cancers Dependent on Membrane Lipid Remodeling. Cell Metab 2019;30(3):525-38 e8. PMCID: PMC6742496.

Blondelle J, Marrocco V, Clark M, Desmond P, Myers S, Nguyen J, Wright M, Bremner S, Pierantozzi E, Ward S, Esteve E, Sorrentino V, Ghassemian M, Lange S. Murine obscurin and Obsl1 have functionally redundant roles in sarcolemmal integrity, sarcoplasmic reticulum organization, and muscle metabolism. Commun Biol 2019;2:178. PMCID: PMC6509138.

Blondelle J, Tallapaka K, Seto JT, Ghassemian M, Clark M, Laitila JM, Bournazos A, Singer JD, Lange S. Cullin-3 dependent deregulation of ACTN1 represents a new pathogenic mechanism in nemaline myopathy. JCI Insight 2019;5. PMCID: PMC6542616.

Courchesne E, Pramparo T, Gazestani VH, Lombardo MV, Pierce K, Lewis NE. The ASD Living Biology: from cell proliferation to clinical phenotype. Mol Psychiatry 2019;24(1):88-107. PMCID: PMC6309606.

Gasset-Rosa F, Lu S, Yu H, Chen C, Melamed Z, Guo L, Shorter J, Da Cruz S, Cleveland DW. Cytoplasmic TDP-43 De-mixing Independent of Stress Granules Drives Inhibition of Nuclear Import, Loss of Nuclear TDP-43, and Cell Death. Neuron 2019;102(2):339-57 e7. PMCID: PMC6548321.

Gonen A, Choi SH, Miu P, Agatisa-Boyle C, Acks D, Taylor AM, McNamara CA, Tsimikas S, Witztum JL, Miller YI. A monoclonal antibody to assess oxidized cholesteryl esters associated with apoAI and apoB-100 lipoproteins in human plasma. J Lipid Res 2019;60(2):436-45. PMCID: PMC6358287.

Guichard A, Haque T, Bobik M, Xu XS, Klanseck C, Kushwah RBS, Berni M, Kaduskar B, Gantz VM, Bier E. Efficient allelic-drive in Drosophila. Nat Commun 2019;10(1):1640. PMCID: PMC6456580.

Khanna N, Zhang Y, Lucas JS, Dudko OK, Murre C. Chromosome dynamics near the sol-gel phase transition dictate the timing of remote genomic interactions. Nat Commun 2019;10(1):2771. PMCID: PMC6591236.

Lange S, Banerjee I, Carrion K, Serrano R, Habich L, Kameny R, Lengenfelder L, Dalton N, Meili R, Borgeson E, Peterson K, Ricci M, Lincoln J, Ghassemian M, Fineman JR, Del Alamo JC, Nigam V. miR-486 is modulated by stretch and increases ventricular growth. JCI Insight 2019.

Lange S, Pinotsis N, Agarkova I, Ehler E. The M-band: The underestimated part of the sarcomere. Biochim Biophys Acta Mol Cell Res 2019.

Lopez-Ramirez MA, Pham A, Girard R, Wyseure T, Hale P, Yamashita A, Koskimaki J, Polster S, Saadat L, Romero IA, Esmon CT, Lagarrigue F, Awad IA, Mosnier LO, Ginsberg MH. Cerebral cavernous malformations form an anticoagulant vascular domain in humans and mice. Blood 2019;133(3):193-204. PMCID: PMC6337879.

Ly P, Brunner SF, Shoshani O, Kim DH, Lan W, Pyntikova T, Flanagan AM, Behjati S, Page DC, Campbell PJ, Cleveland DW. Chromosome segregation errors generate a diverse spectrum of simple and complex genomic rearrangements. Nat Genet 2019;51(4):705-15. PMCID: PMC6441390.

Ma X, Dewan S, Liu J, Tang M, Miller KL, Yu C, Lawrence N, McCulloch AD, Chen S. 3D printed micro-scale force gauge arrays to improve human cardiac tissue maturation and enable high throughput drug testing. Acta Biomater 2019;95:319-27. PMCID: PMC6584548.

Nair SJ, Yang L, Meluzzi D, Oh S, Yang F, Friedman MJ, Wang S, Suter T, Alshareedah I, Gamliel A, Ma Q, Zhang J, Hu Y, Tan Y, Ohgi KA, Jayani RS, Banerjee PR, Aggarwal AK, Rosenfeld MG. Phase separation of ligand-activated enhancers licenses cooperative chromosomal enhancer assembly. Nat Struct Mol Biol 2019;26(3):193-203. PMCID: PMC6709854.

Neri T, Hiriart E, van Vliet PP, Faure E, Norris RA, Farhat B, Jagla B, Lefrancois J, Sugi Y, Moore-Morris T, Zaffran S, Faustino RS, Zambon AC, Desvignes JP, Salgado D, Levine RA, de la Pompa JL, Terzic A, Evans SM, Markwald R, Puceat M. Human pre-valvular endocardial cells derived from pluripotent stem cells recapitulate cardiac pathophysiological valvulogenesis. Nat Commun 2019;10(1):1929. PMCID: PMC6486645.

Povero D, Pinatel EM, Leszczynska A, Goyal NP, Nishio T, Kim J, Kneiber D, de Araujo Horcel L, Eguchi A, Ordonez PM, Kisseleva T, Feldstein AE. Human induced pluripotent stem cell-derived extracellular vesicles reduce hepatic stellate cell activation and liver fibrosis. JCI Insight 2019;5. PMCID: PMC6675559.

Schwaerzer GK, Kalyanaraman H, Casteel DE, Dalton ND, Gu Y, Lee S, Zhuang S, Wahwah N, Schilling JM, Patel HH, Zhang Q, Makino A, Milewicz DM, Peterson KL, Boss GR, Pilz RB. Aortic pathology from protein kinase G activation is prevented by an antioxidant vitamin B12 analog. Nat Commun 2019;10(1):3533. PMCID: PMC6684604.

Tecle E, Reynoso HS, Wang R, Gagneux P. The female reproductive tract contains multiple innate sialic acid-binding immunoglobulin-like lectins (Siglecs) that facilitate sperm survival. J Biol Chem 2019;294(31):11910-9. PMCID: PMC6682739.

Yu C, Ma X, Zhu W, Wang P, Miller KL, Stupin J, Koroleva-Maharajh A, Hairabedian A, Chen S. Scanningless and continuous 3D bioprinting of human tissues with decellularized extracellular matrix. Biomaterials 2019;194:1-13. PMCID: PMC6339581.

Zhang Y, Chopp M, Rex CS, Simmon VF, Sarraf ST, Zhang ZG, Mahmood A, Xiong Y. A Small Molecule Spinogenic Compound Enhances Functional Outcome and Dendritic Spine Plasticity in a Rat Model of Traumatic Brain Injury. J Neurotrauma 2019;36(4):589-600. PMCID: PMC6354611.

Zheng B, Lorenzana AO, Ma L. Understanding the axonal response to injury by in vivo imaging in the mouse spinal cord: A tale of two branches. Exp Neurol 2019;318:277-85. PMCID: PMC6588497.

 

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