PUBLICATIONS

Muffat J, Li Y, Omer A, Durbin A, Bosch I, Bakiasi G, Richards E, Meyer A, Gehrke L, Jaenisch R. Human induced pluripotent stem cell-derived glial cells and neural progenitors display divergent responses to Zika and dengue infections. Proc Natl Acad Sci U S A. 2018 Jul 3;115(27):7117-7122 doi: 10.1073/pnas.1719266115. Epub 2018 Jun 18. PubMed PMID: 29915057; PubMed Central PMCID: PMC6142255. Link

Myhrvold C, Freije CA, Gootenberg JS, Abudayyeh OO, Metsky HC, Durbin AF, Kellner MJ, Tan AL, Paul LM, Parham LA, Garcia KF, Barnes KG, Chak B, Mondini A, Nogueira ML, Isern S, Michael SF, Lorenzana I, Yozwiak NL, MacInnis BL, Bosch I, Gehrke L, Zhang F, Sabeti PC. Field-deployable viral diagnostics using CRISPR-Cas13. Science. 2018 Apr 27;360(6387):444-448. doi: 10.1126/science.aas8836. PubMed PMID: 29700266; PubMed Central PMCID: PMC6197056. Link

Khajuria RK, Munschauer M, Ulirsch JC, Fiorini C, Ludwig LS, McFarland SK, Abdulhay NJ, Specht H, Keshishian H, Mani DR, Jovanovic M, Ellis SR, Fulco CP, Engreitz JM, Schütz S, Lian J, Gripp KW, Weinberg OK, Pinkus GS, Gehrke L, Regev A, Lander ES, Gazda HT, Lee WY, Panse VG, Carr SA, Sankaran VG. Ribosome Levels Selectively Regulate Translation and Lineage Commitment in Human Hematopoiesis. Cell. 2018 Mar 22;173(1):90-103.e19. doi: 10.1016/j.cell.2018.02.036. Epub 2018 Mar 15. PubMed PMID: 29551269; PubMed Central PMCID: PMC5866246. Link

de Puig H, Bosch I, Gehrke L, Hamad-Schifferli K. Challenges of the Nano-Bio Interface in Lateral Flow and Dipstick Immunoassays. Trends Biotechnol. 2017 Dec;35(12):1169-1180. doi: 10.1016/j.tibtech.2017.09.001. Epub 2017 Sep 28. Review. PubMed PMID: 28965747; PubMed Central PMCID: PMC5696013. 

Sánchez-Purrà M, Carré-Camps M, de Puig H, Bosch I, Gehrke L, Hamad-Schifferli K. Surface-Enhanced Raman Spectroscopy-Based Sandwich Immunoassays for Multiplexed Detection of Zika and Dengue Viral Biomarkers. ACS Infect Dis. 2017 Oct 13;3(10):767-776. doi: 10.1021/acsinfecdis.7b00110. Epub 2017 Sep 6. PubMed PMID: 28875696. 

Bosch I, de Puig H, Hiley M, Carré-Camps M, Perdomo-Celis F, Narváez CF, Salgado DM, Senthoor D, O'Grady M, Phillips E, Durbin A, Fandos D, Miyazaki H, Yen CW, Gélvez-Ramírez M, Warke RV, Ribeiro LS, Teixeira MM, Almeida RP, Muñóz-Medina JE, Ludert JE, Nogueira ML, Colombo TE, Terzian ACB, Bozza PT, Calheiros AS, Vieira YR, Barbosa-Lima G, Vizzoni A, Cerbino-Neto J, Bozza FA, Souza TML, Trugilho MRO, de Filippis AMB, de Sequeira PC, Marques ETA, Magalhaes T, Díaz FJ, Restrepo BN, Marín K, Mattar S, Olson D, Asturias EJ, Lucera M, Singla M, Medigeshi GR, de Bosch N, Tam J, Gómez-Márquez J, Clavet C, Villar L, Hamad-Schifferli K, Gehrke L. Rapid antigen tests for dengue virus serotypes and Zika virus in patient serum. Sci Transl Med. 2017 Sep 27;9(409). doi: 10.1126/scitranslmed.aan1589. PubMed PMID: 28954927; NIHMSID:NIHMS998594. Link

Metsky HC, Matranga CB, Wohl S, Schaffner SF, Freije CA, Winnicki SM, West K, Qu J, Baniecki ML, Gladden-Young A, Lin AE, Tomkins-Tinch CH, Ye SH, Park DJ, Luo CY, Barnes KG, Shah RR, Chak B, Barbosa-Lima G, Delatorre E, Vieira YR, Paul LM, Tan AL, Barcellona CM, Porcelli MC, Vasquez C, Cannons AC, Cone MR, Hogan KN, Kopp EW, Anzinger JJ, Garcia KF, Parham LA, Ramírez RMG, Montoya MCM, Rojas DP, Brown CM, Hennigan S, Sabina B, Scotland S, Gangavarapu K, Grubaugh ND, Oliveira G, Robles-Sikisaka R, Rambaut A, Gehrke L, Smole S, Halloran ME, Villar L, Mattar S, Lorenzana I, Cerbino-Neto J, Valim C, Degrave W, Bozza PT, Gnirke A, Andersen KG, Isern S, Michael SF, Bozza FA, Souza TML, Bosch I, Yozwiak NL, MacInnis BL, Sabeti PC. Zika virus evolution and spread in the Americas. Nature. 2017 Jun 15;546(7658):411-415. doi: 10.1038/nature22402. Epub 2017 May 24. PubMed PMID: 28538734; PubMed Central PMCID: PMC5563848. Link

Li Y, Muffat J, Omer A, Bosch I, Lancaster MA, Sur M, Gehrke L, Knoblich JA, Jaenisch R. Induction of Expansion and Folding in Human Cerebral Organoids. Cell Stem Cell. 2017 Mar 2;20(3):385-396.e3. doi: 10.1016/j.stem.2016.11.017. Epub 2016 Dec 29. PubMed PMID: 28041895. Link

de Puig H, Bosch I, Carré-Camps M, Hamad-Schifferli K. Effect of the Protein Corona on Antibody-Antigen Binding in Nanoparticle Sandwich Immunoassays. Bioconjug Chem. 2017 Jan 18;28(1):230-238. doi: 10.1021/acs.bioconjchem.6b00523. Epub 2016 Dec 8. PubMed PMID: 28095684; PubMed Central PMCID: PMC5245486. Link

Tam JO, de Puig H, Yen CW, Bosch I, Gómez-Márquez J, Clavet C, Hamad-Schifferli K, Gehrke L. A comparison of nanoparticle-antibody conjugation strategies in sandwich immunoassays. J Immunoassay Immunochem.2017;38(4):355-377. doi: 10.1080/15321819.2016.1269338. Epub 2016 Dec 16. PubMed PMID: 27982728; PubMed Central PMCID: PMC6202116. 

Durbin AF, Wang C, Marcotrigiano J, Gehrke L. RNAs Containing Modified Nucleotides Fail To Trigger RIG-I Conformational Changes for Innate Immune Signaling. MBio. 2016 Sep 20;7(5). doi: 10.1128/mBio.00833-16. PubMed PMID: 27651356; PubMed Central PMCID: PMC5030355. Link

Pardee K, Green AA, Takahashi MK, Braff D, Lambert G, Lee JW, Ferrante T, Ma D, Donghia N, Fan M, Daringer NM, Bosch I, Dudley DM, O'Connor DH, Gehrke L, Collins JJ. Rapid, Low-Cost Detection of Zika Virus Using Programmable Biomolecular Components. Cell. 2016 May 19;165(5):1255-1266. doi: 10.1016/j.cell.2016.04.059. Epub 2016 May 6. PubMed PMID: 27160350; NIHMSID:NIHMS785100. Link 

de Puig H, Tam JO, Yen CW, Gehrke L, Hamad-Schifferli K. Extinction Coefficient of Gold Nanostars. J Phys Chem C Nanomater Interfaces. 2015 Jul 30;119(30):17408-17415. doi: 10.1021/acs.jpcc.5b03624. Epub 2015 Jul 15. PubMed PMID: 28018519; PubMed Central PMCID: PMC5176261. 

Yen CW, de Puig H, Tam JO, Gómez-Márquez J, Bosch I, Hamad-Schifferli K, Gehrke L. Multicolored silver nanoparticles for multiplexed disease diagnostics: distinguishing dengue, yellow fever, and Ebola viruses. Lab Chip. 2015 Apr 7;15(7):1638-41. doi: 10.1039/c5lc00055f. PubMed PMID: 25672590; PubMed Central PMCID: PMC4375736. 

Odendall C, Dixit E, Stavru F, Bierne H, Franz KM, Durbin AF, Boulant S, Gehrke L, Cossart P, Kagan JC. Diverse intracellular pathogens activate type III interferon expression from peroxisomes. Nat Immunol. 2014 Aug;15(8):717-26. doi: 10.1038/ni.2915. Epub 2014 Jun 22. PubMed PMID: 24952503; PubMed Central PMCID: PMC4106986. 

Pickett BE, Liu M, Sadat EL, Squires RB, Noronha JM, He S, Jen W, Zaremba S, Gu Z, Zhou L, Larsen CN, Bosch I, Gehrke L, McGee M, Klem EB, Scheuermann RH. Metadata-driven comparative analysis tool for sequences (meta-CATS): an automated process for identifying significant sequence variations that correlate with virus attributes. Virology. 2013 Dec;447(1-2):45-51. doi: 10.1016/j.virol.2013.08.021. Epub 2013 Sep 14. PubMed PMID: 24210098; PubMed Central PMCID: PMC5040469. 

Schmidt DJ, Pickett BE, Camacho D, Comach G, Xhaja K, Lennon NJ, Rizzolo K, de Bosch N, Becerra A, Nogueira ML, Mondini A, da Silva EV, Vasconcelos PF, Muñoz-Jordán JL, Santiago GA, Ocazionez R, Gehrke L, Lefkowitz EJ, Birren BW, Henn MR, Bosch I. A phylogenetic analysis using full-length viral genomes of South American dengue serotype 3 in consecutive Venezuelan outbreaks reveals a novel NS5 mutation. Infect Genet Evol. 2011 Dec;11(8):2011-9. doi: 10.1016/j.meegid.2011.09.010. Epub 2011 Sep 23. PubMed PMID: 21964598; PubMed Central PMCID: PMC3565618. 

Gomila RC, Martin GW, Gehrke L. NF90 binds the dengue virus RNA 3' terminus and is a positive regulator of dengue virus replication. PLoS One. 2011 Feb 28;6(2):e16687. doi: 10.1371/journal.pone.0016687. PubMed PMID: 21386893; PubMed Central PMCID: PMC3046124. 

Simon AE, Gehrke L. RNA conformational changes in the life cycles of RNA viruses, viroids, and virus-associated RNAs.Biochim Biophys Acta. 2009 Sep-Oct;1789(9-10):571-83. doi: 10.1016/j.bbagrm.2009.05.005. Epub 2009 Jun 6. Review. PubMed PMID: 19501200; PubMed Central PMCID: PMC2784224. 

Uzri D, Gehrke L. Nucleotide sequences and modifications that determine RIG-I/RNA binding and signaling activities. J Virol. 2009 May;83(9):4174-84. doi: 10.1128/JVI.02449-08. Epub 2009 Feb 18. PubMed PMID: 19224987; PubMed Central PMCID: PMC2668486. 

Gomila RC, Gehrke L. Biochemical approaches for characterizing RNA-protein complexes in preparation for high resolution structure analysis. Methods Mol Biol. 2008;451:279-91. doi: 10.1007/978-1-59745-102-4_20. PubMed PMID: 18370263. 

Reichert VL, Choi M, Petrillo JE, Gehrke L. Alfalfa mosaic virus coat protein bridges RNA and RNA-dependent RNA polymerase in vitro. Virology. 2007 Jul 20;364(1):214-26. doi: 10.1016/j.virol.2007.02.026. Epub 2007 Apr 2. PubMed PMID: 17400272; PubMed Central PMCID: PMC2583179. 

Boyce M, Scott F, Guogas LM, Gehrke L. Base-pairing potential identified by in vitro selection predicts the kinked RNA backbone observed in the crystal structure of the alfalfa mosaic virus RNA-coat protein complex. J Mol Recognit. 2006 Jan-Feb;19(1):68-78. doi: 10.1002/jmr.759. PubMed PMID: 16312015. 

Guogas LM, Laforest SM, Gehrke L. Coat protein activation of alfalfa mosaic virus replication is concentration dependent.J Virol. 2005 May;79(9):5752-61. doi: 10.1128/JVI.79.9.5752-5761.2005. PubMed PMID: 15827190; PubMed Central PMCID: PMC1082755. 

Petrillo JE, Rocheleau G, Kelley-Clarke B, Gehrke L. Evaluation of the conformational switch model for alfalfa mosaic virus RNA replication. J Virol. 2005 May;79(9):5743-51. doi: 10.1128/JVI.79.9.5743-5751.2005. PubMed PMID: 15827189; PubMed Central PMCID: PMC1082754. 

Guogas LM, Filman DJ, Hogle JM, Gehrke L. Cofolding organizes alfalfa mosaic virus RNA and coat protein for replication.Science. 2004 Dec 17;306(5704):2108-11. doi: 10.1126/science.1103399. PubMed PMID: 15604410; PubMed Central PMCID: PMC1500904. 

Rocheleau G, Petrillo J, Guogas L, Gehrke L. Degenerate in vitro genetic selection reveals mutations that diminish alfalfa mosaic virus RNA replication without affecting coat protein binding. J Virol. 2004 Aug;78(15):8036-46. doi: 10.1128/JVI.78.15.8036-8046.2004. PubMed PMID: 15254175; PubMed Central PMCID: PMC446135. 

Laforest SM, Gehrke L. Spatial determinants of the alfalfa mosaic virus coat protein binding site. RNA. 2004 Jan;10(1):48-58. PubMed PMID: 14681584; PubMed Central PMCID: PMC1370517. 

Schneider R, Agol VI, Andino R, Bayard F, Cavener DR, Chappell SA, Chen JJ, Darlix JL, Dasgupta A, Donzé O, Duncan R, Elroy-Stein O, Farabaugh PJ, Filipowicz W, Gale M Jr, Gehrke L, Goldman E, Groner Y, Harford JB, Hatzglou M, He B, Hellen CU, Hentze MW, Hershey J, Hershey P, Hohn T, Holcik M, Hunter CP, Igarashi K, Jackson R, Jagus R, Jefferson LS, Joshi B, Kaempfer R, Katze M, Kaufman RJ, Kiledjian M, Kimball SR, Kimchi A, Kirkegaard K, Koromilas AE, Krug RM, Kruys V, Lamphear BJ, Lemon S, Lloyd RE, Maquat LE, Martinez-Salas E, Mathews MB, Mauro VP, Miyamoto S, Mohr I, Morris DR, Moss EG, Nakashima N, Palmenberg A, Parkin NT, Pe'ery T, Pelletier J, Peltz S, Pestova TV, Pilipenko EV, Prats AC, Racaniello V, Read GS, Rhoads RE, Richter JD, Rivera-Pomar R, Rouault T, Sachs A, Sarnow P, Scheper GC, Schiff L, Schoenberg DR, Semler BL, Siddiqui A, Skern T, Sonenberg N, Sossin W, Standart N, Tahara SM, Thomas AA, Toulmé JJ, Wilusz J, Wimmer E, Witherell G, Wormington M. New ways of initiating translation in eukaryotes. Mol Cell Biol. 2001 Dec;21(23):8238-46. PubMed PMID: 11710333; PubMed Central PMCID: PMC99989. 

Ansel-McKinney P, Gehrke L. RNA determinants of a specific RNA-coat protein peptide interaction in alfalfa mosaic virus: conservation of homologous features in ilarvirus RNAs. J Mol Biol. 1998 May 15;278(4):767-85. doi: 10.1006/jmbi.1998.1656. PubMed PMID: 9614941. 

Swanson MM, Ansel-McKinney P, Houser-Scott F, Yusibov V, Loesch-Fries LS, Gehrke L. Viral coat protein peptides with limited sequence homology bind similar domains of alfalfa mosaic virus and tobacco streak virus RNAs. J Virol. 1998 Apr;72(4):3227-34. PubMed PMID: 9525649; PubMed Central PMCID: PMC109790. 

MacBeth KJ, Ro YT, Gehrke L, Patterson JL. Cleavage site mapping and substrate-specificity of Leishmaniavirus 2-1 capsid endoribonuclease activity. J Biochem. 1997 Jul;122(1):193-200. PubMed PMID: 9276688. 

Hann LE, Webb AC, Cai JM, Gehrke L. Identification of a competitive translation determinant in the 3' untranslated region of alfalfa mosaic virus coat protein mRNA. Mol Cell Biol. 1997 Apr;17(4):2005-13. PubMed PMID: 9121448; PubMed Central PMCID: PMC232047. 

Houser-Scott F, Ansel-McKinney P, Cai JM, Gehrke L. In vitro genetic selection analysis of alfalfa mosaic virus coat protein binding to 3'-terminal AUGC repeats in the viral RNAs. J Virol. 1997 Mar;71(3):2310-9. PubMed PMID: 9032367; PubMed Central PMCID: PMC191340. 

Ansel-McKinney P, Scott SW, Swanson M, Ge X, Gehrke L. A plant viral coat protein RNA binding consensus sequence contains a crucial arginine. EMBO J. 1996 Sep 16;15(18):5077-84. PubMed PMID: 8890181; PubMed Central PMCID: PMC452247. 

Rousseau D, Kaspar R, Rosenwald I, Gehrke L, Sonenberg N. Translation initiation of ornithine decarboxylase and nucleocytoplasmic transport of cyclin D1 mRNA are increased in cells overexpressing eukaryotic initiation factor 4E.Proc Natl Acad Sci U S A. 1996 Feb 6;93(3):1065-70. PubMed PMID: 8577715; PubMed Central PMCID: PMC40031. 

Rosenwald IB, Kaspar R, Rousseau D, Gehrke L, Leboulch P, Chen JJ, Schmidt EV, Sonenberg N, London IM. Eukaryotic translation initiation factor 4E regulates expression of cyclin D1 at transcriptional and post-transcriptional levels. J Biol Chem. 1995 Sep 8;270(36):21176-80. PubMed PMID: 7673150. 

Gray ML, Burstein D, Lesperance LM, Gehrke L. Magnetization transfer in cartilage and its constituent macromolecules.Magn Reson Med. 1995 Sep;34(3):319-25. PubMed PMID: 7500869. 

Hann LE, Gehrke L. mRNAs containing the unstructured 5' leader sequence of alfalfa mosaic virus RNA 4 translate inefficiently in lysates from poliovirus-infected HeLa cells. J Virol. 1995 Aug;69(8):4986-93. PubMed PMID: 7609069; PubMed Central PMCID: PMC189315. 

Chefalo PJ, Yang JM, Ramaiah KV, Gehrke L, Chen JJ. Inhibition of protein synthesis in insect cells by baculovirus-expressed heme-regulated eIF-2 alpha kinase. J Biol Chem. 1994 Oct 14;269(41):25788-94. PubMed PMID: 7929284. 

Kaspar RL, Gehrke L. Peripheral blood mononuclear cells stimulated with C5a or lipopolysaccharide to synthesize equivalent levels of IL-1 beta mRNA show unequal IL-1 beta protein accumulation but similar polyribosome profiles. J Immunol. 1994 Jul 1;153(1):277-86. PubMed PMID: 8207242. 

Houser-Scott F, Baer ML, Liem KF Jr, Cai JM, Gehrke L. Nucleotide sequence and structural determinants of specific binding of coat protein or coat protein peptides to the 3' untranslated region of alfalfa mosaic virus RNA 4. J Virol. 1994 Apr;68(4):2194-205. PubMed PMID: 8139004; PubMed Central PMCID: PMC236695. 

Baer ML, Houser F, Loesch-Fries LS, Gehrke L. Specific RNA binding by amino-terminal peptides of alfalfa mosaic virus coat protein. EMBO J. 1994 Feb 1;13(3):727-35. PubMed PMID: 8313916; PubMed Central PMCID: PMC394864. 

Auron PE, Quigley GJ, Rosenwasser LJ, Gehrke L. Multiple amino acid substitutions suggest a structural basis for the separation of biological activity and receptor binding in a mutant interleukin-1 beta protein. Biochemistry. 1992 Jul 28;31(29):6632-8. PubMed PMID: 1386253. 

Webb AC, Bradley MK, Phelan SA, Wu JQ, Gehrke L. Use of the polymerase chain reaction for screening and evaluation of recombinant baculovirus clones. Biotechniques. 1991 Oct;11(4):512-9. PubMed PMID: 1793586. 

Conca W, Auron PE, Aoun-Wathne M, Bennett N, Seckinger P, Welgus HG, Goldring SR, Eisenberg SP, Dayer JM, Krane SM.An interleukin 1 beta point mutant demonstrates that jun/fos expression is not sufficient for fibroblast metalloproteinase expression. J Biol Chem. 1991 Sep 5;266(25):16265-8. PubMed PMID: 1909326. 

Chen JJ, Throop MS, Gehrke L, Kuo I, Pal JK, Brodsky M, London IM. Cloning of the cDNA of the heme-regulated eukaryotic initiation factor 2 alpha (eIF-2 alpha) kinase of rabbit reticulocytes: homology to yeast GCN2 protein kinase and human double-stranded-RNA-dependent eIF-2 alpha kinase. Proc Natl Acad Sci U S A. 1991 Sep 1;88(17):7729-33. PubMed PMID: 1679235; PubMed Central PMCID: PMC52376. 

Tumer NE, Kaniewski W, Haley L, Gehrke L, Lodge JK, Sanders P. The second amino acid of alfalfa mosaic virus coat protein is critical for coat protein-mediated protection. Proc Natl Acad Sci U S A. 1991 Mar 15;88(6):2331-5. PubMed PMID: 11607167; PubMed Central PMCID: PMC51225. 

Chen JJ, Pal JK, Petryshyn R, Kuo I, Yang JM, Throop MS, Gehrke L, London IM. Amino acid microsequencing of internal tryptic peptides of heme-regulated eukaryotic initiation factor 2 alpha subunit kinase: homology to protein kinases.Proc Natl Acad Sci U S A. 1991 Jan 15;88(2):315-9. PubMed PMID: 1671169; PubMed Central PMCID: PMC50801. 

Gehrke L, Jobling SA, Paik LS, McDonald B, Rosenwasser LJ, Auron PE. A point mutation uncouples human interleukin-1 beta biological activity and receptor binding. J Biol Chem. 1990 Apr 15;265(11):5922-5. PubMed PMID: 2138611.

GEHRKE lab

Where Viruses Meet Stem Cells

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