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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
- Folding and Misfolding of Human Membrane Proteins in Health and Disease: From Single Molecules to Cellular Proteostasis.
Marinko JT, Huang H, Penn WD, Capra JA, Schlebach JP, Sanders CR
(2019) Chem Rev 119: 5537-5606 - Mechanism of free radical oxygenation of polyunsaturated fatty acids by cyclooxygenases.
Rouzer CA, Marnett LJ
(2003) Chem Rev 103: 2239-304 - An inhibitor of Bcl-2 family proteins induces regression of solid tumours.
Oltersdorf T, Elmore SW, Shoemaker AR, Armstrong RC, Augeri DJ, Belli BA, Bruncko M, Deckwerth TL, Dinges J, Hajduk PJ, Joseph MK, Kitada S, Korsmeyer SJ, Kunzer AR, Letai A, Li C, Mitten MJ, Nettesheim DG, Ng S, Nimmer PM, O'Connor JM, Oleksijew A, Petros AM, Reed JC, Shen W, Tahir SK, Thompson CB, Tomaselli KJ, Wang B, Wendt MD, Zhang H, Fesik SW, Rosenberg SH
(2005) Nature 435: 677-81 - Activation of NMDA receptors and the mechanism of inhibition by ifenprodil.
Tajima N, Karakas E, Grant T, Simorowski N, Diaz-Avalos R, Grigorieff N, Furukawa H
(2016) Nature 534: 63-8 - Programmable base editing of A•T to G•C in genomic DNA without DNA cleavage.
Gaudelli NM, Komor AC, Rees HA, Packer MS, Badran AH, Bryson DI, Liu DR
(2017) Nature 551: 464-471 - The 2.2 A crystal structure of transducin-alpha complexed with GTP gamma S.
Noel JP, Hamm HE, Sigler PB
(1993) Nature 366: 654-63 - Targeting Plasmodium PI(4)K to eliminate malaria.
McNamara CW, Lee MC, Lim CS, Lim SH, Roland J, Simon O, Yeung BK, Chatterjee AK, McCormack SL, Manary MJ, Zeeman AM, Dechering KJ, Kumar TS, Henrich PP, Gagaring K, Ibanez M, Kato N, Kuhen KL, Fischli C, Nagle A, Rottmann M, Plouffe DM, Bursulaya B, Meister S, Rameh L, Trappe J, Haasen D, Timmerman M, Sauerwein RW, Suwanarusk R, Russell B, Renia L, Nosten F, Tully DC, Kocken CH, Glynne RJ, Bodenreider C, Fidock DA, Diagana TT, Winzeler EA
(2013) Nature 504: 248-253 - Crystal structure of a G-protein beta gamma dimer at 2.1A resolution.
Sondek J, Bohm A, Lambright DG, Hamm HE, Sigler PB
(1996) Nature 379: 369-74 - Dominant protection from HLA-linked autoimmunity by antigen-specific regulatory T cells.
Ooi JD, Petersen J, Tan YH, Huynh M, Willett ZJ, Ramarathinam SH, Eggenhuizen PJ, Loh KL, Watson KA, Gan PY, Alikhan MA, Dudek NL, Handel A, Hudson BG, Fugger L, Power DA, Holt SG, Coates PT, Gregersen JW, Purcell AW, Holdsworth SR, La Gruta NL, Reid HH, Rossjohn J, Kitching AR
(2017) Nature 545: 243-247 - The 2.0 A crystal structure of a heterotrimeric G protein.
Lambright DG, Sondek J, Bohm A, Skiba NP, Hamm HE, Sigler PB
(1996) Nature 379: 311-9 - Structure of a bacterial ribonuclease P holoenzyme in complex with tRNA.
Reiter NJ, Osterman A, Torres-Larios A, Swinger KK, Pan T, Mondragón A
(2010) Nature 468: 784-9 - The TEL patch of telomere protein TPP1 mediates telomerase recruitment and processivity.
Nandakumar J, Bell CF, Weidenfeld I, Zaug AJ, Leinwand LA, Cech TR
(2012) Nature 492: 285-9 - NMR structure and mutagenesis of the inhibitor-of-apoptosis protein XIAP.
Sun C, Cai M, Gunasekera AH, Meadows RP, Wang H, Chen J, Zhang H, Wu W, Xu N, Ng SC, Fesik SW
(1999) Nature 401: 818-22 - Proof of principle for epitope-focused vaccine design.
Correia BE, Bates JT, Loomis RJ, Baneyx G, Carrico C, Jardine JG, Rupert P, Correnti C, Kalyuzhniy O, Vittal V, Connell MJ, Stevens E, Schroeter A, Chen M, Macpherson S, Serra AM, Adachi Y, Holmes MA, Li Y, Klevit RE, Graham BS, Wyatt RT, Baker D, Strong RK, Crowe JE, Johnson PR, Schief WR
(2014) Nature 507: 201-6 - TFIIA and the transactivator Rap1 cooperate to commit TFIID for transcription initiation.
Papai G, Tripathi MK, Ruhlmann C, Layer JH, Weil PA, Schultz P
(2010) Nature 465: 956-60 - Staphylocoagulase is a prototype for the mechanism of cofactor-induced zymogen activation.
Friedrich R, Panizzi P, Fuentes-Prior P, Richter K, Verhamme I, Anderson PJ, Kawabata S, Huber R, Bode W, Bock PE
(2003) Nature 425: 535-9 - Basis for a ubiquitin-like protein thioester switch toggling E1-E2 affinity.
Huang DT, Hunt HW, Zhuang M, Ohi MD, Holton JM, Schulman BA
(2007) Nature 445: 394-8 - 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 - Icosahedral bacteriophage ΦX174 forms a tail for DNA transport during infection.
Sun L, Young LN, Zhang X, Boudko SP, Fokine A, Zbornik E, Roznowski AP, Molineux IJ, Rossmann MG, Fane BA
(2014) Nature 505: 432-5 - Structure and ligand recognition of the phosphotyrosine binding domain of Shc.
Zhou MM, Ravichandran KS, Olejniczak EF, Petros AM, Meadows RP, Sattler M, Harlan JE, Wade WS, Burakoff SJ, Fesik SW
(1995) Nature 378: 584-92 - Solution structure of the cyclosporin A/cyclophilin complex by NMR.
Thériault Y, Logan TM, Meadows R, Yu L, Olejniczak ET, Holzman TF, Simmer RL, Fesik SW
(1993) Nature 361: 88-91 - Solution structure of a pleckstrin-homology domain.
Yoon HS, Hajduk PJ, Petros AM, Olejniczak ET, Meadows RP, Fesik SW
(1994) Nature 369: 672-5 - NMR structure and mutagenesis of the FADD (Mort1) death-effector domain.
Eberstadt M, Huang B, Chen Z, Meadows RP, Ng SC, Zheng L, Lenardo MJ, Fesik SW
(1998) Nature 392: 941-5 - Structural basis for binding of Smac/DIABLO to the XIAP BIR3 domain.
Liu Z, Sun C, Olejniczak ET, Meadows RP, Betz SF, Oost T, Herrmann J, Wu JC, Fesik SW
(2000) Nature 408: 1004-8 - NRMT is an alpha-N-methyltransferase that methylates RCC1 and retinoblastoma protein.
Tooley CE, Petkowski JJ, Muratore-Schroeder TL, Balsbaugh JL, Shabanowitz J, Sabat M, Minor W, Hunt DF, Macara IG
(2010) Nature 466: 1125-8 - Mutations in kelch-like 3 and cullin 3 cause hypertension and electrolyte abnormalities.
Boyden LM, Choi M, Choate KA, Nelson-Williams CJ, Farhi A, Toka HR, Tikhonova IR, Bjornson R, Mane SM, Colussi G, Lebel M, Gordon RD, Semmekrot BA, Poujol A, Välimäki MJ, De Ferrari ME, Sanjad SA, Gutkin M, Karet FE, Tucci JR, Stockigt JR, Keppler-Noreuil KM, Porter CC, Anand SK, Whiteford ML, Davis ID, Dewar SB, Bettinelli A, Fadrowski JJ, Belsha CW, Hunley TE, Nelson RD, Trachtman H, Cole TR, Pinsk M, Bockenhauer D, Shenoy M, Vaidyanathan P, Foreman JW, Rasoulpour M, Thameem F, Al-Shahrouri HZ, Radhakrishnan J, Gharavi AG, Goilav B, Lifton RP
(2012) Nature 482: 98-102 - The DNA glycosylase AlkD uses a non-base-flipping mechanism to excise bulky lesions.
Mullins EA, Shi R, Parsons ZD, Yuen PK, David SS, Igarashi Y, Eichman BF
(2015) Nature 527: 254-8 - Crystal structure of rhodopsin bound to arrestin by femtosecond X-ray laser.
Kang Y, Zhou XE, Gao X, He Y, Liu W, Ishchenko A, Barty A, White TA, Yefanov O, Han GW, Xu Q, de Waal PW, Ke J, Tan MH, Zhang C, Moeller A, West GM, Pascal BD, Van Eps N, Caro LN, Vishnivetskiy SA, Lee RJ, Suino-Powell KM, Gu X, Pal K, Ma J, Zhi X, Boutet S, Williams GJ, Messerschmidt M, Gati C, Zatsepin NA, Wang D, James D, Basu S, Roy-Chowdhury S, Conrad CE, Coe J, Liu H, Lisova S, Kupitz C, Grotjohann I, Fromme R, Jiang Y, Tan M, Yang H, Li J, Wang M, Zheng Z, Li D, Howe N, Zhao Y, Standfuss J, Diederichs K, Dong Y, Potter CS, Carragher B, Caffrey M, Jiang H, Chapman HN, Spence JC, Fromme P, Weierstall U, Ernst OP, Katritch V, Gurevich VV, Griffin PR, Hubbell WL, Stevens RC, Cherezov V, Melcher K, Xu HE
(2015) Nature 523: 561-7 - An unprecedented nucleic acid capture mechanism for excision of DNA damage.
Rubinson EH, Gowda AS, Spratt TE, Gold B, Eichman BF
(2010) Nature 468: 406-11 - NMR structure and mutagenesis of the Fas (APO-1/CD95) death domain.
Huang B, Eberstadt M, Olejniczak ET, Meadows RP, Fesik SW
(1996) Nature 384: 638-41 - Expression cloning of a cocaine- and antidepressant-sensitive human noradrenaline transporter.
Pacholczyk T, Blakely RD, Amara SG
(1991) Nature 350: 350-4 - Clinical efficacy of a RAF inhibitor needs broad target blockade in BRAF-mutant melanoma.
Bollag G, Hirth P, Tsai J, Zhang J, Ibrahim PN, Cho H, Spevak W, Zhang C, Zhang Y, Habets G, Burton EA, Wong B, Tsang G, West BL, Powell B, Shellooe R, Marimuthu A, Nguyen H, Zhang KY, Artis DR, Schlessinger J, Su F, Higgins B, Iyer R, D'Andrea K, Koehler A, Stumm M, Lin PS, Lee RJ, Grippo J, Puzanov I, Kim KB, Ribas A, McArthur GA, Sosman JA, Chapman PB, Flaherty KT, Xu X, Nathanson KL, Nolop K
(2010) Nature 467: 596-9 - Somatic mutations of the Parkinson's disease-associated gene PARK2 in glioblastoma and other human malignancies.
Veeriah S, Taylor BS, Meng S, Fang F, Yilmaz E, Vivanco I, Janakiraman M, Schultz N, Hanrahan AJ, Pao W, Ladanyi M, Sander C, Heguy A, Holland EC, Paty PB, Mischel PS, Liau L, Cloughesy TF, Mellinghoff IK, Solit DB, Chan TA
(2010) Nat Genet 42: 77-82 - Integrative genome analyses identify key somatic driver mutations of small-cell lung cancer.
Peifer M, Fernández-Cuesta L, Sos ML, George J, Seidel D, Kasper LH, Plenker D, Leenders F, Sun R, Zander T, Menon R, Koker M, Dahmen I, Müller C, Di Cerbo V, Schildhaus HU, Altmüller J, Baessmann I, Becker C, de Wilde B, Vandesompele J, Böhm D, Ansén S, Gabler F, Wilkening I, Heynck S, Heuckmann JM, Lu X, Carter SL, Cibulskis K, Banerji S, Getz G, Park KS, Rauh D, Grütter C, Fischer M, Pasqualucci L, Wright G, Wainer Z, Russell P, Petersen I, Chen Y, Stoelben E, Ludwig C, Schnabel P, Hoffmann H, Muley T, Brockmann M, Engel-Riedel W, Muscarella LA, Fazio VM, Groen H, Timens W, Sietsma H, Thunnissen E, Smit E, Heideman DA, Snijders PJ, Cappuzzo F, Ligorio C, Damiani S, Field J, Solberg S, Brustugun OT, Lund-Iversen M, Sänger J, Clement JH, Soltermann A, Moch H, Weder W, Solomon B, Soria JC, Validire P, Besse B, Brambilla E, Brambilla C, Lantuejoul S, Lorimier P, Schneider PM, Hallek M, Pao W, Meyerson M, Sage J, Shendure J, Schneider R, Büttner R, Wolf J, Nürnberg P, Perner S, Heukamp LC, Brindle PK, Haas S, Thomas RK
(2012) Nat Genet 44: 1104-10 - Structural basis for Marburg virus neutralization by a cross-reactive human antibody.
Hashiguchi T, Fusco ML, Bornholdt ZA, Lee JE, Flyak AI, Matsuoka R, Kohda D, Yanagi Y, Hammel M, Crowe JE, Saphire EO
(2015) Cell 160: 904-912 - Arp2/3 complex: advances on the inner workings of a molecular machine.
Cooper JA, Wear MA, Weaver AM
(2001) Cell 107: 703-5 - The polar T1 interface is linked to conformational changes that open the voltage-gated potassium channel.
Minor DL, Lin YF, Mobley BC, Avelar A, Jan YN, Jan LY, Berger JM
(2000) Cell 102: 657-70 - The 2.8 A crystal structure of visual arrestin: a model for arrestin's regulation.
Hirsch JA, Schubert C, Gurevich VV, Sigler PB
(1999) Cell 97: 257-69 - Structural basis for the recognition of DNA repair proteins UNG2, XPA, and RAD52 by replication factor RPA.
Mer G, Bochkarev A, Gupta R, Bochkareva E, Frappier L, Ingles CJ, Edwards AM, Chazin WJ
(2000) Cell 103: 449-56 - Broadly Neutralizing Alphavirus Antibodies Bind an Epitope on E2 and Inhibit Entry and Egress.
Fox JM, Long F, Edeling MA, Lin H, van Duijl-Richter MKS, Fong RH, Kahle KM, Smit JM, Jin J, Simmons G, Doranz BJ, Crowe JE, Fremont DH, Rossmann MG, Diamond MS
(2015) Cell 163: 1095-1107
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