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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 - Mechanism of free radical oxygenation of polyunsaturated fatty acids by cyclooxygenases.
Rouzer CA, Marnett LJ
(2003) Chem Rev 103: 2239-304 - 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 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 - Pleckstrin homology domains bind to phosphatidylinositol-4,5-bisphosphate.
Harlan JE, Hajduk PJ, Yoon HS, Fesik SW
(1994) Nature 371: 168-70 - 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 - 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 - Association analysis identifies 65 new breast cancer risk loci.
Michailidou K, Lindström S, Dennis J, Beesley J, Hui S, Kar S, Lemaçon A, Soucy P, Glubb D, Rostamianfar A, Bolla MK, Wang Q, Tyrer J, Dicks E, Lee A, Wang Z, Allen J, Keeman R, Eilber U, French JD, Qing Chen X, Fachal L, McCue K, McCart Reed AE, Ghoussaini M, Carroll JS, Jiang X, Finucane H, Adams M, Adank MA, Ahsan H, Aittomäki K, Anton-Culver H, Antonenkova NN, Arndt V, Aronson KJ, Arun B, Auer PL, Bacot F, Barrdahl M, Baynes C, Beckmann MW, Behrens S, Benitez J, Bermisheva M, Bernstein L, Blomqvist C, Bogdanova NV, Bojesen SE, Bonanni B, Børresen-Dale AL, Brand JS, Brauch H, Brennan P, Brenner H, Brinton L, Broberg P, Brock IW, Broeks A, Brooks-Wilson A, Brucker SY, Brüning T, Burwinkel B, Butterbach K, Cai Q, Cai H, Caldés T, Canzian F, Carracedo A, Carter BD, Castelao JE, Chan TL, David Cheng TY, Seng Chia K, Choi JY, Christiansen H, Clarke CL, NBCS Collaborators, Collée M, Conroy DM, Cordina-Duverger E, Cornelissen S, Cox DG, Cox A, Cross SS, Cunningham JM, Czene K, Daly MB, Devilee P, Doheny KF, Dörk T, Dos-Santos-Silva I, Dumont M, Durcan L, Dwek M, Eccles DM, Ekici AB, Eliassen AH, Ellberg C, Elvira M, Engel C, Eriksson M, Fasching PA, Figueroa J, Flesch-Janys D, Fletcher O, Flyger H, Fritschi L, Gaborieau V, Gabrielson M, Gago-Dominguez M, Gao YT, Gapstur SM, García-Sáenz JA, Gaudet MM, Georgoulias V, Giles GG, Glendon G, Goldberg MS, Goldgar DE, González-Neira A, Grenaker Alnæs GI, Grip M, Gronwald J, Grundy A, Guénel P, Haeberle L, Hahnen E, Haiman CA, Håkansson N, Hamann U, Hamel N, Hankinson S, Harrington P, Hart SN, Hartikainen JM, Hartman M, Hein A, Heyworth J, Hicks B, Hillemanns P, Ho DN, Hollestelle A, Hooning MJ, Hoover RN, Hopper JL, Hou MF, Hsiung CN, Huang G, Humphreys K, Ishiguro J, Ito H, Iwasaki M, Iwata H, Jakubowska A, Janni W, John EM, Johnson N, Jones K, Jones M, Jukkola-Vuorinen A, Kaaks R, Kabisch M, Kaczmarek K, Kang D, Kasuga Y, Kerin MJ, Khan S, Khusnutdinova E, Kiiski JI, Kim SW, Knight JA, Kosma VM, Kristensen VN, Krüger U, Kwong A, Lambrechts D, Le Marchand L, Lee E, Lee MH, Lee JW, Neng Lee C, Lejbkowicz F, Li J, Lilyquist J, Lindblom A, Lissowska J, Lo WY, Loibl S, Long J, Lophatananon A, Lubinski J, Luccarini C, Lux MP, Ma ESK, MacInnis RJ, Maishman T, Makalic E, Malone KE, Kostovska IM, Mannermaa A, Manoukian S, Manson JE, Margolin S, Mariapun S, Martinez ME, Matsuo K, Mavroudis D, McKay J, McLean C, Meijers-Heijboer H, Meindl A, Menéndez P, Menon U, Meyer J, Miao H, Miller N, Taib NAM, Muir K, Mulligan AM, Mulot C, Neuhausen SL, Nevanlinna H, Neven P, Nielsen SF, Noh DY, Nordestgaard BG, Norman A, Olopade OI, Olson JE, Olsson H, Olswold C, Orr N, Pankratz VS, Park SK, Park-Simon TW, Lloyd R, Perez JIA, Peterlongo P, Peto J, Phillips KA, Pinchev M, Plaseska-Karanfilska D, Prentice R, Presneau N, Prokofyeva D, Pugh E, Pylkäs K, Rack B, Radice P, Rahman N, Rennert G, Rennert HS, Rhenius V, Romero A, Romm J, Ruddy KJ, Rüdiger T, Rudolph A, Ruebner M, Rutgers EJT, Saloustros E, Sandler DP, Sangrajrang S, Sawyer EJ, Schmidt DF, Schmutzler RK, Schneeweiss A, Schoemaker MJ, Schumacher F, Schürmann P, Scott RJ, Scott C, Seal S, Seynaeve C, Shah M, Sharma P, Shen CY, Sheng G, Sherman ME, Shrubsole MJ, Shu XO, Smeets A, Sohn C, Southey MC, Spinelli JJ, Stegmaier C, Stewart-Brown S, Stone J, Stram DO, Surowy H, Swerdlow A, Tamimi R, Taylor JA, Tengström M, Teo SH, Beth Terry M, Tessier DC, Thanasitthichai S, Thöne K, Tollenaar RAEM, Tomlinson I, Tong L, Torres D, Truong T, Tseng CC, Tsugane S, Ulmer HU, Ursin G, Untch M, Vachon C, van Asperen CJ, Van Den Berg D, van den Ouweland AMW, van der Kolk L, van der Luijt RB, Vincent D, Vollenweider J, Waisfisz Q, Wang-Gohrke S, Weinberg CR, Wendt C, Whittemore AS, Wildiers H, Willett W, Winqvist R, Wolk A, Wu AH, Xia L, Yamaji T, Yang XR, Har Yip C, Yoo KY, Yu JC, Zheng W, Zheng Y, Zhu B, Ziogas A, Ziv E, ABCTB Investigators, ConFab/AOCS Investigators, Lakhani SR, Antoniou AC, Droit A, Andrulis IL, Amos CI, Couch FJ, Pharoah PDP, Chang-Claude J, Hall P, Hunter DJ, Milne RL, García-Closas M, Schmidt MK, Chanock SJ, Dunning AM, Edwards SL, Bader GD, Chenevix-Trench G, Simard J, Kraft P, Easton DF
(2017) Nature 551: 92-94 - 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 - Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures.
Stark A, Lin MF, Kheradpour P, Pedersen JS, Parts L, Carlson JW, Crosby MA, Rasmussen MD, Roy S, Deoras AN, Ruby JG, Brennecke J, Harvard FlyBase curators, Berkeley Drosophila Genome Project, Hodges E, Hinrichs AS, Caspi A, Paten B, Park SW, Han MV, Maeder ML, Polansky BJ, Robson BE, Aerts S, van Helden J, Hassan B, Gilbert DG, Eastman DA, Rice M, Weir M, Hahn MW, Park Y, Dewey CN, Pachter L, Kent WJ, Haussler D, Lai EC, Bartel DP, Hannon GJ, Kaufman TC, Eisen MB, Clark AG, Smith D, Celniker SE, Gelbart WM, Kellis M
(2007) Nature 450: 219-32 - Subunit arrangement and phenylethanolamine binding in GluN1/GluN2B NMDA receptors.
Karakas E, Simorowski N, Furukawa H
(2011) Nature 475: 249-53 - 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 - Structure of RNA and RNA binding site in tobacco mosaic virus from 4-A map calculated from X-ray fibre diagrams.
Stubbs G, Warren S, Holmes K
(1977) Nature 267: 216-21 - Human fibrinogen possesses binding site for staphyococci on Aalpha and Bbeta polypeptide chains.
Hawiger J, Hammond DK, Timmons S
(1975) Nature 258: 643-5 - 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 - Prostacyclin inhibits mobilisation of fibrinogen-binding sites on human ADP- and thrombin-treated platelets.
Hawiger J, Parkinson S, Timmons S
(1980) Nature 283: 195-7 - A TALE nuclease architecture for efficient genome editing.
Miller JC, Tan S, Qiao G, Barlow KA, Wang J, Xia DF, Meng X, Paschon DE, Leung E, Hinkley SJ, Dulay GP, Hua KL, Ankoudinova I, Cost GJ, Urnov FD, Zhang HS, Holmes MC, Zhang L, Gregory PD, Rebar EJ
(2011) Nat Biotechnol 29: 143-8 - PIQ-ing into chromatin architecture.
Rieck S, Wright C
(2014) Nat Biotechnol 32: 138-40 - Interactions between heterologous helix-loop-helix proteins generate complexes that bind specifically to a common DNA sequence.
Murre C, McCaw PS, Vaessin H, Caudy M, Jan LY, Jan YN, Cabrera CV, Buskin JN, Hauschka SD, Lassar AB
(1989) Cell 58: 537-44 - 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 - 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 - Mus81-Eme1 are essential components of a Holliday junction resolvase.
Boddy MN, Gaillard PHL, McDonald WH, Shanahan P, Yates JR, Russell P
(2001) Cell 107: 537-48 - Phosphoinositide binding domains: embracing 3-phosphate.
Fruman DA, Rameh LE, Cantley LC
(1999) Cell 97: 817-20 - The power of pumping together; deconstructing the engine of a DNA replication machine.
Eichman BF, Fanning E
(2004) Cell 119: 3-4 - Competition for related but nonidentical binding sites on the glycoprotein IIb-IIIa complex by peptides derived from platelet adhesive proteins.
Santoro SA, Lawing WJ
(1987) Cell 48: 867-73 - Identification of a naturally occurring peroxidase-lipoxygenase fusion protein.
Koljak R, Boutaud O, Shieh BH, Samel N, Brash AR
(1997) Science 277: 1994-6 - A phenylalanine clamp catalyzes protein translocation through the anthrax toxin pore.
Krantz BA, Melnyk RA, Zhang S, Juris SJ, Lacy DB, Wu Z, Finkelstein A, Collier RJ
(2005) Science 309: 777-81 - Discovering high-affinity ligands for proteins: SAR by NMR.
Shuker SB, Hajduk PJ, Meadows RP, Fesik SW
(1996) Science 274: 1531-4 - Structure of a class C GPCR metabotropic glutamate receptor 1 bound to an allosteric modulator.
Wu H, Wang C, Gregory KJ, Han GW, Cho HP, Xia Y, Niswender CM, Katritch V, Meiler J, Cherezov V, Conn PJ, Stevens RC
(2014) Science 344: 58-64 - Role of Rpn11 metalloprotease in deubiquitination and degradation by the 26S proteasome.
Verma R, Aravind L, Oania R, McDonald WH, Yates JR, Koonin EV, Deshaies RJ
(2002) Science 298: 611-5 - Immunological origins of binding and catalysis in a Diels-Alderase antibody.
Romesberg FE, Spiller B, Schultz PG, Stevens RC
(1998) Science 279: 1929-33 - Tertiary and quaternary structural changes in Gi alpha 1 induced by GTP hydrolysis.
Mixon MB, Lee E, Coleman DE, Berghuis AM, Gilman AG, Sprang SR
(1995) Science 270: 954-60 - A "Trojan horse" bispecific-antibody strategy for broad protection against ebolaviruses.
Wec AZ, Nyakatura EK, Herbert AS, Howell KA, Holtsberg FW, Bakken RR, Mittler E, Christin JR, Shulenin S, Jangra RK, Bharrhan S, Kuehne AI, Bornholdt ZA, Flyak AI, Saphire EO, Crowe JE, Aman MJ, Dye JM, Lai JR, Chandran K
(2016) Science 354: 350-354 - Structural biology. Controlling the caspases.
Fesik SW, Shi Y
(2001) Science 294: 1477-8 - Natural ligand of mouse CD1d1: cellular glycosylphosphatidylinositol.
Joyce S, Woods AS, Yewdell JW, Bennink JR, De Silva AD, Boesteanu A, Balk SP, Cotter RJ, Brutkiewicz RR
(1998) Science 279: 1541-4 - Site of G protein binding to rhodopsin mapped with synthetic peptides from the alpha subunit.
Hamm HE, Deretic D, Arendt A, Hargrave PA, Koenig B, Hofmann KP
(1988) Science 241: 832-5 - The amyloid precursor protein has a flexible transmembrane domain and binds cholesterol.
Barrett PJ, Song Y, Van Horn WD, Hustedt EJ, Schafer JM, Hadziselimovic A, Beel AJ, Sanders CR
(2012) Science 336: 1168-71 - Structural changes in bacteriorhodopsin during ion transport at 2 angstrom resolution.
Luecke H, Schobert B, Richter HT, Cartailler JP, Lanyi JK
(1999) Science 286: 255-61 - Structures of active conformations of Gi alpha 1 and the mechanism of GTP hydrolysis.
Coleman DE, Berghuis AM, Lee E, Linder ME, Gilman AG, Sprang SR
(1994) Science 265: 1405-12 - Molecular basis for interactions of G protein betagamma subunits with effectors.
Ford CE, Skiba NP, Bae H, Daaka Y, Reuveny E, Shekter LR, Rosal R, Weng G, Yang CS, Iyengar R, Miller RJ, Jan LY, Lefkowitz RJ, Hamm HE
(1998) Science 280: 1271-4
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