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Creative Data Solutions (CDS) is a Vanderbilt Shared Resource and has extensive experience in providing effective and robust solutions to challenges pertaining to research data using modern informatics and bioinformatics approaches.
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Publications
- Molecular architecture of the Goodpasture autoantigen in anti-GBM nephritis.
Pedchenko V, Bondar O, Fogo AB, Vanacore R, Voziyan P, Kitching AR, Wieslander J, Kashtan C, Borza DB, Neilson EG, Wilson CB, Hudson BG
(2010) N Engl J Med 363: 343-54 - Neutralizing human antibodies prevent Zika virus replication and fetal disease in mice.
Sapparapu G, Fernandez E, Kose N, Bin Cao , Fox JM, Bombardi RG, Zhao H, Nelson CA, Bryan AL, Barnes T, Davidson E, Mysorekar IU, Fremont DH, Doranz BJ, Diamond MS, Crowe JE
(2016) Nature 540: 443-447 - Cross-Reactive and Potent Neutralizing Antibody Responses in Human Survivors of Natural Ebolavirus Infection.
Flyak AI, Shen X, Murin CD, Turner HL, David JA, Fusco ML, Lampley R, Kose N, Ilinykh PA, Kuzmina N, Branchizio A, King H, Brown L, Bryan C, Davidson E, Doranz BJ, Slaughter JC, Sapparapu G, Klages C, Ksiazek TG, Saphire EO, Ward AB, Bukreyev A, Crowe JE
(2016) Cell 164: 392-405 - Epitope mapping of the protective antigen of B. anthracis by using nanoclusters presenting conformational peptide epitopes.
Gerdon AE, Wright DW, Cliffel DE
(2006) Angew Chem Int Ed Engl 45: 594-8 - H7N9 influenza virus neutralizing antibodies that possess few somatic mutations.
Thornburg NJ, Zhang H, Bangaru S, Sapparapu G, Kose N, Lampley RM, Bombardi RG, Yu Y, Graham S, Branchizio A, Yoder SM, Rock MT, Creech CB, Edwards KM, Lee D, Li S, Wilson IA, García-Sastre A, Albrecht RA, Crowe JE
(2016) J Clin Invest 126: 1482-94 - Human antibodies that neutralize respiratory droplet transmissible H5N1 influenza viruses.
Thornburg NJ, Nannemann DP, Blum DL, Belser JA, Tumpey TM, Deshpande S, Fritz GA, Sapparapu G, Krause JC, Lee JH, Ward AB, Lee DE, Li S, Winarski KL, Spiller BW, Meiler J, Crowe JE
(2013) J Clin Invest 123: 4405-9 - Rapid antigen tests for dengue virus serotypes and Zika virus in patient serum.
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
(2017) Sci Transl Med 9: - Structural basis for nonneutralizing antibody competition at antigenic site II of the respiratory syncytial virus fusion protein.
Mousa JJ, Sauer MF, Sevy AM, Finn JA, Bates JT, Alvarado G, King HG, Loerinc LB, Fong RH, Doranz BJ, Correia BE, Kalyuzhniy O, Wen X, Jardetzky TS, Schief WR, Ohi MD, Meiler J, Crowe JE
(2016) Proc Natl Acad Sci U S A 113: E6849-E6858 - The immunodominant myeloperoxidase T-cell epitope induces local cell-mediated injury in antimyeloperoxidase glomerulonephritis.
Ooi JD, Chang J, Hickey MJ, Borza DB, Fugger L, Holdsworth SR, Kitching AR
(2012) Proc Natl Acad Sci U S A 109: E2615-24 - Quaternary epitopes of α345(IV) collagen initiate Alport post-transplant anti-GBM nephritis.
Olaru F, Luo W, Wang XP, Ge L, Hertz JM, Kashtan CE, Sado Y, Segal Y, Hudson BG, Borza DB
(2013) J Am Soc Nephrol 24: 889-95 - Antibodies to α5 chain of collagen IV are pathogenic in Goodpasture's disease.
Cui Z, Zhao MH, Jia XY, Wang M, Hu SY, Wang SX, Yu F, Brown KL, Hudson BG, Pedchenko V
(2016) J Autoimmun 70: 1-11 - Autoreactive T-cells in Goodpasture's syndrome recognize the N-terminal NC1 domain on alpha 3 type IV collagen.
Merkel F, Kalluri R, Marx M, Enders U, Stevanovic S, Giegerich G, Neilson EG, Rammensee HG, Hudson BG, Weber M
(1996) Kidney Int 49: 1127-33 - Hepatitis C virus NS3/NS4A DNA vaccine induces multiepitope T cell responses in rhesus macaques mimicking human immune responses [corrected].
Lang Kuhs KA, Ginsberg AA, Yan J, Wiseman RW, Khan AS, Sardesai NY, O'Connor DH, Weiner DB
(2012) Mol Ther 20: 669-78 - Epitope and Paratope Mapping Reveals Temperature-Dependent Alterations in the Dengue-Antibody Interface.
Lim XX, Chandramohan A, Lim XE, Crowe JE, Lok SM, Anand GS
(2017) Structure 25: 1391-1402.e3 - Changes in expression of monoclonal antibody epitopes on laminin-5r induced by cell contact.
Plopper G, Falk-Marzillier J, Glaser S, Fitchmun M, Giannelli G, Romano T, Jones JC, Quaranta V
(1996) J Cell Sci 109 ( Pt 7): 1965-73 - Localization of isoketal adducts in vivo using a single-chain antibody.
Davies SS, Talati M, Wang X, Mernaugh RL, Amarnath V, Fessel J, Meyrick BO, Sheller J, Roberts LJ
(2004) Free Radic Biol Med 36: 1163-74 - Multiple Antibody Lineages in One Donor Target the Glycan-V3 Supersite of the HIV-1 Envelope Glycoprotein and Display a Preference for Quaternary Binding.
Longo NS, Sutton MS, Shiakolas AR, Guenaga J, Jarosinski MC, Georgiev IS, McKee K, Bailer RT, Louder MK, O'Dell S, Connors M, Wyatt RT, Mascola JR, Doria-Rose NA
(2016) J Virol 90: 10574-10586 - Dengue Virus prM-Specific Human Monoclonal Antibodies with Virus Replication-Enhancing Properties Recognize a Single Immunodominant Antigenic Site.
Smith SA, Nivarthi UK, de Alwis R, Kose N, Sapparapu G, Bombardi R, Kahle KM, Pfaff JM, Lieberman S, Doranz BJ, de Silva AM, Crowe JE
(2016) J Virol 90: 780-9 - A broadly neutralizing human monoclonal antibody that recognizes a conserved, novel epitope on the globular head of the influenza H1N1 virus hemagglutinin.
Krause JC, Tsibane T, Tumpey TM, Huffman CJ, Basler CF, Crowe JE
(2011) J Virol 85: 10905-8 - Mapping the Human Memory B Cell and Serum Neutralizing Antibody Responses to Dengue Virus Serotype 4 Infection and Vaccination.
Nivarthi UK, Kose N, Sapparapu G, Widman D, Gallichotte E, Pfaff JM, Doranz BJ, Weiskopf D, Sette A, Durbin AP, Whitehead SS, Baric R, Crowe JE, de Silva AM
(2017) J Virol 91: - Use of a neutralizing antibody helps identify structural features critical for binding of toxin TcdA to the host cell surface.
Kroh HK, Chandrasekaran R, Rosenthal K, Woods R, Jin X, Ohi MD, Nyborg AC, Rainey GJ, Warrener P, Spiller BW, Lacy DB
(2017) J Biol Chem 292: 14401-14412 - The alloantigenic sites of alpha3alpha4alpha5(IV) collagen: pathogenic X-linked alport alloantibodies target two accessible conformational epitopes in the alpha5NC1 domain.
Kang JS, Kashtan CE, Turner AN, Heidet L, Hudson BG, Borza DB
(2007) J Biol Chem 282: 10670-7 - The Goodpasture autoantigen. Structural delineation of two immunologically privileged epitopes on alpha3(IV) chain of type IV collagen.
Kalluri R, Sun MJ, Hudson BG, Neilson EG
(1996) J Biol Chem 271: 9062-8 - Epitope mapping of function-blocking monoclonal antibody CM6 suggests a "weak" integrin binding site on the laminin-332 LG2 domain.
Yamashita H, Shang M, Tripathi M, Jourquin J, Georgescu W, Liu S, Weidow B, Quaranta V
(2010) J Cell Physiol 223: 541-8 - Antigenic diversity among Helicobacter pylori vacuolating toxins.
Vinion-Dubiel AD, McClain MS, Cao P, Mernaugh RL, Cover TL
(2001) Infect Immun 69: 4329-36 - Functional analysis of neutralizing antibodies against Clostridium perfringens epsilon-toxin.
McClain MS, Cover TL
(2007) Infect Immun 75: 1785-93 - Definition of Human Epitopes Recognized in Tetanus Toxoid and Development of an Assay Strategy to Detect Ex Vivo Tetanus CD4+ T Cell Responses.
da Silva Antunes R, Paul S, Sidney J, Weiskopf D, Dan JM, Phillips E, Mallal S, Crotty S, Sette A, Lindestam Arlehamn CS
(2017) PLoS One 12: e0169086 - Increased breadth of HIV-1 neutralization achieved by diverse antibody clones each with limited neutralization breadth.
Chukwuma VU, Kose N, Sather DN, Sapparapu G, Falk R, King H, Singh V, Lampley R, Malherbe DC, Ditto NT, Sullivan JT, Barnes T, Doranz BJ, Labranche CC, Montefiori DC, Kalams SA, Haigwood NL, Crowe JE
(2018) PLoS One 13: e0209437 - The susceptible HLA class II alleles and their presenting epitope(s) in Goodpasture's disease.
Xie LJ, Cui Z, Chen FJ, Pei ZY, Hu SY, Gu QH, Jia XY, Zhu L, Zhou XJ, Zhang H, Liao YH, Lai LH, Hudson BG, Zhao MH
(2017) Immunology 151: 395-404 - Strong HCV NS3- and NS4A-specific cellular immune responses induced in mice and Rhesus macaques by a novel HCV genotype 1a/1b consensus DNA vaccine.
Lang KA, Yan J, Draghia-Akli R, Khan A, Weiner DB
(2008) Vaccine 26: 6225-31 - Fine mapping of the H-kininogen binding site in plasma prekallikrein apple domain 2.
Renné T, Sugiyama A, Gailani D, Jahnen-Dechent W, Walter U, Müller-Esterl W
(2002) Int Immunopharmacol 2: 1867-73 - Identification of potential human respiratory syncytial virus and metapneumovirus T cell epitopes using computational prediction and MHC binding assays.
Rock MT, McKinney BA, Yoder SM, Prudom CE, Wright DW, Crowe JE
(2011) J Immunol Methods 374: 13-7 - Autoepitopes and alloepitopes of type IV collagen: role in the molecular pathogenesis of anti-GBM antibody glomerulonephritis.
Borza DB
(2007) Nephron Exp Nephrol 106: e37-43 - In Vivo Delivery of Synthetic Human DNA-Encoded Monoclonal Antibodies Protect against Ebolavirus Infection in a Mouse Model.
Patel A, Park DH, Davis CW, Smith TRF, Leung A, Tierney K, Bryan A, Davidson E, Yu X, Racine T, Reed C, Gorman ME, Wise MC, Elliott STC, Esquivel R, Yan J, Chen J, Muthumani K, Doranz BJ, Saphire EO, Crowe JE, Broderick KE, Kobinger GP, He S, Qiu X, Kobasa D, Humeau L, Sardesai NY, Ahmed R, Weiner DB
(2018) Cell Rep 25: 1982-1993.e4
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