Eisen:Publications

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[[Eisen | <font face="trebuchet ms" style="color:#ffffff"> '''Home''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
[[Eisen | <font face="trebuchet ms" style="color:#ffffff"> '''Home''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
[[Eisen:Contact | <font face="trebuchet ms" style="color:#ffffff"> '''Contact''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
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[[Eisen:Lab Members | <font face="trebuchet ms" style="color:#ffffff"> '''Lab Members''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
[[Eisen:Lab Members | <font face="trebuchet ms" style="color:#ffffff"> '''Lab Members''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
[[Eisen:Publications | <font face="trebuchet ms" style="color:#ffffff"> '''Publications''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
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[[Eisen:Research | <font face="trebuchet ms" style="color:#ffffff"> '''Research''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
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[[Eisen:Research | <font face="trebuchet ms" style="color:#ffffff"> '''Research Overview''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
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[[Eisen:CurrentProjects | <font face="trebuchet ms" style="color:#ffffff"> '''Current Projects''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
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[[Eisen:PastProjects | <font face="trebuchet ms" style="color:#ffffff"> '''Past Projects''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
[[Eisen:Talks | <font face="trebuchet ms" style="color:#ffffff"> '''Talks''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
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[[Eisen:RecentNews | <font face="trebuchet ms" style="color:#ffffff"> '''News''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
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[[Eisen:Downloads | <font face="trebuchet ms" style="color:#ffffff"> '''Downloads''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
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Revision as of 17:56, 15 July 2011


Home        Contact        Internal        Lab Members        Publications        Research Overview        Current Projects        Past Projects        Talks        News        Downloads       


Evolution Textbook

Journals and Book Chapters

  1. Hartman AL, Riddle S, McPhillips T, Ludäscher B, and Eisen JA. . pmid:20540779. PubMed HubMed [WATERS-2010]
  2. Morgan JL, Darling AE, and Eisen JA. . pmid:20419134. PubMed HubMed [Metasim-2010]
  3. Langille MG and Eisen JA. . pmid:20418944. PubMed HubMed [Biotorrents-2010]
  4. Hartman AL, Norais C, Badger JH, Delmas S, Haldenby S, Madupu R, Robinson J, Khouri H, Ren Q, Lowe TM, Maupin-Furlow J, Pohlschroder M, Daniels C, Pfeiffer F, Allers T, and Eisen JA. . pmid:20333302. PubMed HubMed [Haloferax-2010]
  5. Wu D, Hugenholtz P, Mavromatis K, Pukall R, Dalin E, Ivanova NN, Kunin V, Goodwin L, Wu M, Tindall BJ, Hooper SD, Pati A, Lykidis A, Spring S, Anderson IJ, D'haeseleer P, Zemla A, Singer M, Lapidus A, Nolan M, Copeland A, Han C, Chen F, Cheng JF, Lucas S, Kerfeld C, Lang E, Gronow S, Chain P, Bruce D, Rubin EM, Kyrpides NC, Klenk HP, and Eisen JA. . pmid:20033048. PubMed HubMed [GEBA-2009]
  6. Eisen JA and MacCallum CJ. . pmid:19855830. PubMed HubMed [PLOS-2009]
  7. Hartman AL, Lough DM, Barupal DK, Fiehn O, Fishbein T, Zasloff M, and Eisen JA. . pmid:19805153. PubMed HubMed [Hartman-2009]
  8. Yang JC, Madupu R, Durkin AS, Ekborg NA, Pedamallu CS, Hostetler JB, Radune D, Toms BS, Henrissat B, Coutinho PM, Schwarz S, Field L, Trindade-Silva AE, Soares CA, Elshahawi S, Hanora A, Schmidt EW, Haygood MG, Posfai J, Benner J, Madinger C, Nove J, Anton B, Chaudhary K, Foster J, Holman A, Kumar S, Lessard PA, Luyten YA, Slatko B, Wood N, Wu B, Teplitski M, Mougous JD, Ward N, Eisen JA, Badger JH, and Distel DL. . pmid:19568419. PubMed HubMed [Wang-2009]
  9. Woyke T, Xie G, Copeland A, González JM, Han C, Kiss H, Saw JH, Senin P, Yang C, Chatterji S, Cheng JF, Eisen JA, Sieracki ME, and Stepanauskas R. . pmid:19390573. PubMed HubMed [Woyke-2009]
  10. Campbell BJ, Smith JL, Hanson TE, Klotz MG, Stein LY, Lee CK, Wu D, Robinson JM, Khouri HM, Eisen JA, and Cary SC. . pmid:19197347. PubMed HubMed [Campbell-2009]
  11. Wu D, Raymond J, Wu M, Chatterji S, Ren Q, Graham JE, Bryant DA, Robb F, Colman A, Tallon LJ, Badger JH, Madupu R, Ward NL, and Eisen JA. . pmid:19148287. PubMed HubMed [Wu-2009]
  12. Valdés J, Pedroso I, Quatrini R, Dodson RJ, Tettelin H, Blake R 2nd, Eisen JA, and Holmes DS. . pmid:19077236. PubMed HubMed [Valdes-2008]
  13. Coyne RS, Thiagarajan M, Jones KM, Wortman JR, Tallon LJ, Haas BJ, Cassidy-Hanley DM, Wiley EA, Smith JJ, Collins K, Lee SR, Couvillion MT, Liu Y, Garg J, Pearlman RE, Hamilton EP, Orias E, Eisen JA, and Methé BA. . pmid:19036158. PubMed HubMed [Coyne-2008]
  14. Podar M, Anderson I, Makarova KS, Elkins JG, Ivanova N, Wall MA, Lykidis A, Mavromatis K, Sun H, Hudson ME, Chen W, Deciu C, Hutchison D, Eads JR, Anderson A, Fernandes F, Szeto E, Lapidus A, Kyrpides NC, Saier MH Jr, Richardson PM, Rachel R, Huber H, Eisen JA, Koonin EV, Keller M, and Stetter KO. . pmid:19000309. PubMed HubMed [Podar-2008]
  15. Wu M and Eisen JA. . pmid:18851752. PubMed HubMed [WuEisen-2008]
  16. Wu D, Hartman A, Ward N, and Eisen JA. . pmid:18596968. PubMed HubMed [Wu-2008]
  17. Chatterji S, Yamazaki I, Bai Z, Eisen JA. 2008. CompostBin: a DNA composition-based algorithm for binning environmental shotgun reads. RECOMB 2008. [Chatterji-2008]
  18. Eisen JA. . pmid:18303952. PubMed HubMed [Eisen-2008]
    My first editorial as the new Academic Editor in Chief of PLoS Biology

  19. Hazen TH, Wu D, Eisen JA, and Sobecky PA. . pmid:17921277. PubMed HubMed [Hazen-2007]
    A paper on sequencing and analysis of plasmids isolated from marine sediments. This was a collaboration with Patty Sobecky's lab at Georgia Tech.

  20. Pfarr K, Foster J, Slatko B, Hoerauf A, and Eisen JA. . pmid:17684235. PubMed HubMed [Pfarr-2007]
    A letter discussing the nomenclature for strains of Wolbachia.

  21. Maresca JA, Graham JE, Wu M, Eisen JA, and Bryant DA. . pmid:17606904. PubMed HubMed [Maresca-2007]
    A paper in which we used phylogenetic profiling to help identify a new type of gene involved in photosynthesis. This was a collaboration with Don Bryant's lab at Penn St.

  22. Norais C, Hawkins M, Hartman AL, Eisen JA, Myllykallio H, and Allers T. . pmid:17511521. PubMed HubMed [Norais-2007]
    A collaboration with Thorsten Allers' lab on identifying replication origins.

  23. Eisen JA. . pmid:17355177. PubMed HubMed [Eisen-2007]
    A review I wrote on methods for characterizing uncultured microbes, focusing on the lead in to metagenomics.

  24. Rusch DB, Halpern AL, Sutton G, Heidelberg KB, Williamson S, Yooseph S, Wu D, Eisen JA, Hoffman JM, Remington K, Beeson K, Tran B, Smith H, Baden-Tillson H, Stewart C, Thorpe J, Freeman J, Andrews-Pfannkoch C, Venter JE, Li K, Kravitz S, Heidelberg JF, Utterback T, Rogers YH, Falcón LI, Souza V, Bonilla-Rosso G, Eguiarte LE, Karl DM, Sathyendranath S, Platt T, Bermingham E, Gallardo V, Tamayo-Castillo G, Ferrari MR, Strausberg RL, Nealson K, Friedman R, Frazier M, and Venter JC. . pmid:17355176. PubMed HubMed [Rusch-2007]
    One of the papers from Craig Venter's group on the "Global Ocean Survey." This one focused on microbial diversity.

  25. Yooseph S, Sutton G, Rusch DB, Halpern AL, Williamson SJ, Remington K, Eisen JA, Heidelberg KB, Manning G, Li W, Jaroszewski L, Cieplak P, Miller CS, Li H, Mashiyama ST, Joachimiak MP, van Belle C, Chandonia JM, Soergel DA, Zhai Y, Natarajan K, Lee S, Raphael BJ, Bafna V, Friedman R, Brenner SE, Godzik A, Eisenberg D, Dixon JE, Taylor SS, Strausberg RL, Frazier M, and Venter JC. . pmid:17355171. PubMed HubMed [Yooseph-2007]
    Another of the papers from Craig Venter's group on the "Global Ocean Survey." This one focused on protein families.

  26. Newton IL, Woyke T, Auchtung TA, Dilly GF, Dutton RJ, Fisher MC, Fontanez KM, Lau E, Stewart FJ, Richardson PM, Barry KW, Saunders E, Detter JC, Wu D, Eisen JA, and Cavanaugh CM. . pmid:17303757. PubMed HubMed [Newton-2007]
    A collaboration with Colleen Cavanaugh's lab (she was my undergraduate advisor) and JGI on sequencing and analysis of the first genome of a chemosynthetic symbiont.

  27. Goldman BS, Nierman WC, Kaiser D, Slater SC, Durkin AS, Eisen JA, Ronning CM, Barbazuk WB, Blanchard M, Field C, Halling C, Hinkle G, Iartchuk O, Kim HS, Mackenzie C, Madupu R, Miller N, Shvartsbeyn A, Sullivan SA, Vaudin M, Wiegand R, and Kaplan HB. . pmid:17015832. PubMed HubMed [Goldman-2006]
  28. Eisen JA, Coyne RS, Wu M, Wu D, Thiagarajan M, Wortman JR, Badger JH, Ren Q, Amedeo P, Jones KM, Tallon LJ, Delcher AL, Salzberg SL, Silva JC, Haas BJ, Majoros WH, Farzad M, Carlton JM, Smith RK Jr, Garg J, Pearlman RE, Karrer KM, Sun L, Manning G, Elde NC, Turkewitz AP, Asai DJ, Wilkes DE, Wang Y, Cai H, Collins K, Stewart BA, Lee SR, Wilamowska K, Weinberg Z, Ruzzo WL, Wloga D, Gaertig J, Frankel J, Tsao CC, Gorovsky MA, Keeling PJ, Waller RF, Patron NJ, Cherry JM, Stover NA, Krieger CJ, del Toro C, Ryder HF, Williamson SC, Barbeau RA, Hamilton EP, and Orias E. . pmid:16933976. PubMed HubMed [Eisen-2006]
  29. Leebens-Mack J, Vision T, Brenner E, Bowers JE, Cannon S, Clement MJ, Cunningham CW, dePamphilis C, deSalle R, Doyle JJ, Eisen JA, Gu X, Harshman J, Jansen RK, Kellogg EA, Koonin EV, Mishler BD, Philippe H, Pires JC, Qiu YL, Rhee SY, Sjölander K, Soltis DE, Soltis PS, Stevenson DW, Wall K, Warnow T, and Zmasek C. . pmid:16901231. PubMed HubMed [Leebens-Mack-2006]
  30. Hamilton EP, Dear PH, Rowland T, Saks K, Eisen JA, and Orias E. . pmid:16782302. PubMed HubMed [Hamilton-2006]
  31. Dunning Hotopp JC, Lin M, Madupu R, Crabtree J, Angiuoli SV, Eisen JA, Seshadri R, Ren Q, Wu M, Utterback TR, Smith S, Lewis M, Khouri H, Zhang C, Niu H, Lin Q, Ohashi N, Zhi N, Nelson W, Brinkac LM, Dodson RJ, Rosovitz MJ, Sundaram J, Daugherty SC, Davidsen T, Durkin AS, Gwinn M, Haft DH, Selengut JD, Sullivan SA, Zafar N, Zhou L, Benahmed F, Forberger H, Halpin R, Mulligan S, Robinson J, White O, Rikihisa Y, and Tettelin H. . pmid:16482227. PubMed HubMed [Dunning-2006]
  32. Wu D, Daugherty SC, Van Aken SE, Pai GH, Watkins KL, Khouri H, Tallon LJ, Zaborsky JM, Dunbar HE, Tran PL, Moran NA, and Eisen JA. . pmid:16729848. PubMed HubMed [Wu-2006]
  33. Penn K, Wu D, Eisen JA, and Ward N. . pmid:16461727. PubMed HubMed [Penn-2006]
  34. Wu M, Ren Q, Durkin AS, Daugherty SC, Brinkac LM, Dodson RJ, Madupu R, Sullivan SA, Kolonay JF, Haft DH, Nelson WC, Tallon LJ, Jones KM, Ulrich LE, Gonzalez JM, Zhulin IB, Robb FT, and Eisen JA. . pmid:16311624. PubMed HubMed [Wu-2005]
  35. Robb FT, Gonzalez JM, Sokolova T, Chernyh N, Lebedinski A, Tallon LJ, Jones K, Wu M, Eisen JA. 2005. Primary energy metabolism in geothermal environments: the role of carbon monoxide. In “Geothermal biology and geochemistry in Yellowstone National Park. ” Inskeep WP and McDermott TR, pp. 163-170. Montana State University Thermal Biology Institute. [Robb-2005]
  36. Schmidt EW, Nelson JT, Rasko DA, Sudek S, Eisen JA, Haygood MG, and Ravel J. . pmid:15883371. PubMed HubMed [Schmidt-2005]
  37. Badger JH, Eisen JA, and Ward NL. . pmid:15879228. PubMed HubMed [Badger-2005]
  38. Desjardins C, Eisen JA, and Nene V. . pmid:15774035. PubMed HubMed [Desjardins-2005]
  39. Seshadri R, Adrian L, Fouts DE, Eisen JA, Phillippy AM, Methe BA, Ward NL, Nelson WC, Deboy RT, Khouri HM, Kolonay JF, Dodson RJ, Daugherty SC, Brinkac LM, Sullivan SA, Madupu R, Nelson KE, Kang KH, Impraim M, Tran K, Robinson JM, Forberger HA, Fraser CM, Zinder SH, and Heidelberg JF. . pmid:15637277. PubMed HubMed [Seshadri-2005]
  40. Moran MA, Buchan A, González JM, Heidelberg JF, Whitman WB, Kiene RP, Henriksen JR, King GM, Belas R, Fuqua C, Brinkac L, Lewis M, Johri S, Weaver B, Pai G, Eisen JA, Rahe E, Sheldon WM, Ye W, Miller TR, Carlton J, Rasko DA, Paulsen IT, Ren Q, Daugherty SC, Deboy RT, Dodson RJ, Durkin AS, Madupu R, Nelson WC, Sullivan SA, Rosovitz MJ, Haft DH, Selengut J, and Ward N. . pmid:15602564. PubMed HubMed [Moran-2004]
  41. Tanaka M, Earl AM, Howell HA, Park MJ, Eisen JA, Peterson SN, and Battista JR. . pmid:15454524. PubMed HubMed [Tanaka-2004]
  42. Ward N, Larsen Ø, Sakwa J, Bruseth L, Khouri H, Durkin AS, Dimitrov G, Jiang L, Scanlan D, Kang KH, Lewis M, Nelson KE, Methé B, Wu M, Heidelberg JF, Paulsen IT, Fouts D, Ravel J, Tettelin H, Ren Q, Read T, DeBoy RT, Seshadri R, Salzberg SL, Jensen HB, Birkeland NK, Nelson WC, Dodson RJ, Grindhaug SH, Holt I, Eidhammer I, Jonasen I, Vanaken S, Utterback T, Feldblyum TV, Fraser CM, Lillehaug JR, and Eisen JA. . pmid:15383840. PubMed HubMed [Ward-2004]
  43. Venter JC, Remington K, Heidelberg JF, Halpern AL, Rusch D, Eisen JA, Wu D, Paulsen I, Nelson KE, Nelson W, Fouts DE, Levy S, Knap AH, Lomas MW, Nealson K, White O, Peterson J, Hoffman J, Parsons R, Baden-Tillson H, Pfannkoch C, Rogers YH, and Smith HO. . pmid:15001713. PubMed HubMed [Venter-2004]
  44. Wu M, Sun LV, Vamathevan J, Riegler M, Deboy R, Brownlie JC, McGraw EA, Martin W, Esser C, Ahmadinejad N, Wiegand C, Madupu R, Beanan MJ, Brinkac LM, Daugherty SC, Durkin AS, Kolonay JF, Nelson WC, Mohamoud Y, Lee P, Berry K, Young MB, Utterback T, Weidman J, Nierman WC, Paulsen IT, Nelson KE, Tettelin H, O'Neill SL, and Eisen JA. . pmid:15024419. PubMed HubMed [Wu-2004]
  45. Ghedin E, Bringaud F, Peterson J, Myler P, Berriman M, Ivens A, Andersson B, Bontempi E, Eisen J, Angiuoli S, Wanless D, Von Arx A, Murphy L, Lennard N, Salzberg S, Adams MD, White O, Hall N, Stuart K, Fraser CM, and El-Sayed NM. . pmid:15003838. PubMed HubMed [Ghedin-2004]
  46. Seshadri R, Myers GS, Tettelin H, Eisen JA, Heidelberg JF, Dodson RJ, Davidsen TM, DeBoy RT, Fouts DE, Haft DH, Selengut J, Ren Q, Brinkac LM, Madupu R, Kolonay J, Durkin SA, Daugherty SC, Shetty J, Shvartsbeyn A, Gebregeorgis E, Geer K, Tsegaye G, Malek J, Ayodeji B, Shatsman S, McLeod MP, Smajs D, Howell JK, Pal S, Amin A, Vashisth P, McNeill TZ, Xiang Q, Sodergren E, Baca E, Weinstock GM, Norris SJ, Fraser CM, and Paulsen IT. . pmid:15064399. PubMed HubMed [Seshadri-2004]
  47. Heidelberg JF, Seshadri R, Haveman SA, Hemme CL, Paulsen IT, Kolonay JF, Eisen JA, Ward N, Methe B, Brinkac LM, Daugherty SC, Deboy RT, Dodson RJ, Durkin AS, Madupu R, Nelson WC, Sullivan SA, Fouts D, Haft DH, Selengut J, Peterson JD, Davidsen TM, Zafar N, Zhou L, Radune D, Dimitrov G, Hance M, Tran K, Khouri H, Gill J, Utterback TR, Feldblyum TV, Wall JD, Voordouw G, and Fraser CM. . pmid:15077118. PubMed HubMed [Heidelberg-2004]
  48. Methé BA, Nelson KE, Eisen JA, Paulsen IT, Nelson W, Heidelberg JF, Wu D, Wu M, Ward N, Beanan MJ, Dodson RJ, Madupu R, Brinkac LM, Daugherty SC, DeBoy RT, Durkin AS, Gwinn M, Kolonay JF, Sullivan SA, Haft DH, Selengut J, Davidsen TM, Zafar N, White O, Tran B, Romero C, Forberger HA, Weidman J, Khouri H, Feldblyum TV, Utterback TR, Van Aken SE, Lovley DR, and Fraser CM. . pmid:14671304. PubMed HubMed [Methe-2003]
  49. Nelson KE, Fleischmann RD, DeBoy RT, Paulsen IT, Fouts DE, Eisen JA, Daugherty SC, Dodson RJ, Durkin AS, Gwinn M, Haft DH, Kolonay JF, Nelson WC, Mason T, Tallon L, Gray J, Granger D, Tettelin H, Dong H, Galvin JL, Duncan MJ, Dewhirst FE, and Fraser CM. . pmid:12949112. PubMed HubMed [Nelson-2003]
  50. Miller ES, Heidelberg JF, Eisen JA, Nelson WC, Durkin AS, Ciecko A, Feldblyum TV, White O, Paulsen IT, Nierman WC, Lee J, Szczypinski B, and Fraser CM. . pmid:12923095. PubMed HubMed [Miller-2003]
  51. Yang RZ, Huang Q, Xu A, McLenithan JC, Eisen JA, Shuldiner AR, Alkan S, and Gong DW. . pmid:14550293. PubMed HubMed [Yang-2003]
  52. Alland D, Whittam TS, Murray MB, Cave MD, Hazbon MH, Dix K, Kokoris M, Duesterhoeft A, Eisen JA, Fraser CM, and Fleischmann RD. . pmid:12754238. PubMed HubMed [Alland-2003]
  53. Seshadri R, Paulsen IT, Eisen JA, Read TD, Nelson KE, Nelson WC, Ward NL, Tettelin H, Davidsen TM, Beanan MJ, Deboy RT, Daugherty SC, Brinkac LM, Madupu R, Dodson RJ, Khouri HM, Lee KH, Carty HA, Scanlan D, Heinzen RA, Thompson HA, Samuel JE, Fraser CM, and Heidelberg JF. . pmid:12704232. PubMed HubMed [Seshadri-2003]
  54. Eisen JA and Fraser CM. . pmid:12805538. PubMed HubMed [Eisen-and_Fraser-2003]
  55. Paulsen IT, Banerjei L, Myers GS, Nelson KE, Seshadri R, Read TD, Fouts DE, Eisen JA, Gill SR, Heidelberg JF, Tettelin H, Dodson RJ, Umayam L, Brinkac L, Beanan M, Daugherty S, DeBoy RT, Durkin S, Kolonay J, Madupu R, Nelson W, Vamathevan J, Tran B, Upton J, Hansen T, Shetty J, Khouri H, Utterback T, Radune D, Ketchum KA, Dougherty BA, and Fraser CM. . pmid:12663927. PubMed HubMed [Paulsen-2003]
  56. Ermolaeva MD, Wu M, Eisen JA, and Salzberg SL. . pmid:12777046. PubMed HubMed [Ermolaeva-2003]
  57. Shank T, Fornari D, Yoerger S, Humphries S, Bradley A, Hammond S, Lupton J, Schierer D, Collier R, Reysenbach A-L, Ding K, Seyfried W, Butterfield D, Olson E, Lilley M, Ward N, Eisen JA. 2003. Deep submergence synergy: Alvin and ABE explore the Galápagos Rift at 86°W. EOS 84: 425, 432-433. [Shank-2003]
  58. DiRuggiero J, Nandakumar R, Eisen JA, Schwartz M, Thomas R, Davila J, Ofman L, Robb FT. 2002. Genomic and physiological studies on extremophiles: model systems for exobiology. In “Frontiers of Astrobiology. Proceedings of the Astrobiology Workshop”, St Petersburg, Russia. Pavlov A. (Ed. ). [DiRuggiero-2002]
  59. Read TD, Peterson SN, Tourasse N, Baillie LW, Paulsen IT, Nelson KE, Tettelin H, Fouts DE, Eisen JA, Gill SR, Holtzapple EK, Okstad OA, Helgason E, Rilstone J, Wu M, Kolonay JF, Beanan MJ, Dodson RJ, Brinkac LM, Gwinn M, DeBoy RT, Madpu R, Daugherty SC, Durkin AS, Haft DH, Nelson WC, Peterson JD, Pop M, Khouri HM, Radune D, Benton JL, Mahamoud Y, Jiang L, Hance IR, Weidman JF, Berry KJ, Plaut RD, Wolf AM, Watkins KL, Nierman WC, Hazen A, Cline R, Redmond C, Thwaite JE, White O, Salzberg SL, Thomason B, Friedlander AM, Koehler TM, Hanna PC, Kolstø AB, and Fraser CM. . pmid:12721629. PubMed HubMed [Read-2002]
  60. Nelson KE, Weinel C, Paulsen IT, Dodson RJ, Hilbert H, Martins dos Santos VA, Fouts DE, Gill SR, Pop M, Holmes M, Brinkac L, Beanan M, DeBoy RT, Daugherty S, Kolonay J, Madupu R, Nelson W, White O, Peterson J, Khouri H, Hance I, Chris Lee P, Holtzapple E, Scanlan D, Tran K, Moazzez A, Utterback T, Rizzo M, Lee K, Kosack D, Moestl D, Wedler H, Lauber J, Stjepandic D, Hoheisel J, Straetz M, Heim S, Kiewitz C, Eisen JA, Timmis KN, Düsterhöft A, Tümmler B, and Fraser CM. . pmid:12534463. PubMed HubMed [Nelson-2002]
  61. Eisen JA. . pmid:11859347. PubMed HubMed [Eisen-2002]
  62. Eisen JA, Nelson KE, Paulsen IT, Heidelberg JF, Wu M, Dodson RJ, Deboy R, Gwinn ML, Nelson WC, Haft DH, Hickey EK, Peterson JD, Durkin AS, Kolonay JL, Yang F, Holt I, Umayam LA, Mason T, Brenner M, Shea TP, Parksey D, Nierman WC, Feldblyum TV, Hansen CL, Craven MB, Radune D, Vamathevan J, Khouri H, White O, Gruber TM, Ketchum KA, Venter JC, Tettelin H, Bryant DA, and Fraser CM. . pmid:12093901. PubMed HubMed [Eisen-2002]
  63. Eisen JA and Wu M. . pmid:12167367. PubMed HubMed [Eisen-2002]
  64. Heidelberg JF, Paulsen IT, Nelson KE, Gaidos EJ, Nelson WC, Read TD, Eisen JA, Seshadri R, Ward N, Methe B, Clayton RA, Meyer T, Tsapin A, Scott J, Beanan M, Brinkac L, Daugherty S, DeBoy RT, Dodson RJ, Durkin AS, Haft DH, Kolonay JF, Madupu R, Peterson JD, Umayam LA, White O, Wolf AM, Vamathevan J, Weidman J, Impraim M, Lee K, Berry K, Lee C, Mueller J, Khouri H, Gill J, Utterback TR, McDonald LA, Feldblyum TV, Smith HO, Venter JC, Nealson KH, and Fraser CM. . pmid:12368813. PubMed HubMed [Heidelberg-2002]
  65. Van Houten B, Eisen JA, and Hanawalt PC. . pmid:11880612. PubMed HubMed [VanHouten-2002]
  66. Gardner MJ, Hall N, Fung E, White O, Berriman M, Hyman RW, Carlton JM, Pain A, Nelson KE, Bowman S, Paulsen IT, James K, Eisen JA, Rutherford K, Salzberg SL, Craig A, Kyes S, Chan MS, Nene V, Shallom SJ, Suh B, Peterson J, Angiuoli S, Pertea M, Allen J, Selengut J, Haft D, Mather MW, Vaidya AB, Martin DM, Fairlamb AH, Fraunholz MJ, Roos DS, Ralph SA, McFadden GI, Cummings LM, Subramanian GM, Mungall C, Venter JC, Carucci DJ, Hoffman SL, Newbold C, Davis RW, Fraser CM, and Barrell B. . pmid:12368864. PubMed HubMed [Gardner-2002]
  67. Paulsen IT, Seshadri R, Nelson KE, Eisen JA, Heidelberg JF, Read TD, Dodson RJ, Umayam L, Brinkac LM, Beanan MJ, Daugherty SC, Deboy RT, Durkin AS, Kolonay JF, Madupu R, Nelson WC, Ayodeji B, Kraul M, Shetty J, Malek J, Van Aken SE, Riedmuller S, Tettelin H, Gill SR, White O, Salzberg SL, Hoover DL, Lindler LE, Halling SM, Boyle SM, and Fraser CM. . pmid:12271122. PubMed HubMed [Paulsen-2002]
  68. Fraser CM, Eisen JA, Nelson KE, Paulsen IT, and Salzberg SL. . pmid:12426324. PubMed HubMed [Fraser-2002]
  69. Fleischmann RD, Alland D, Eisen JA, Carpenter L, White O, Peterson J, DeBoy R, Dodson R, Gwinn M, Haft D, Hickey E, Kolonay JF, Nelson WC, Umayam LA, Ermolaeva M, Salzberg SL, Delcher A, Utterback T, Weidman J, Khouri H, Gill J, Mikula A, Bishai W, Jacobs Jr WR Jr, Venter JC, and Fraser CM. . pmid:12218036. PubMed HubMed [Fleischmann-2002]
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  72. Dassarma S, Kennedy SP, Berquist B, Victor Ng W, Baliga NS, Spudich JL, Krebs MP, Eisen JA, Johnson CH, and Hood L. . pmid:16228359. PubMed HubMed [Dassarma-2002]
  73. Ware J, Moran L, Foster J, Posfai J, Vincze T, Guiliano D, Blaxter M, Eisen J, and Slatko B. . pmid:11812492. PubMed HubMed [Ware-2001]
  74. Wood DW, Setubal JC, Kaul R, Monks DE, Kitajima JP, Okura VK, Zhou Y, Chen L, Wood GE, Almeida NF Jr, Woo L, Chen Y, Paulsen IT, Eisen JA, Karp PD, Bovee D Sr, Chapman P, Clendenning J, Deatherage G, Gillet W, Grant C, Kutyavin T, Levy R, Li MJ, McClelland E, Palmieri A, Raymond C, Rouse G, Saenphimmachak C, Wu Z, Romero P, Gordon D, Zhang S, Yoo H, Tao Y, Biddle P, Jung M, Krespan W, Perry M, Gordon-Kamm B, Liao L, Kim S, Hendrick C, Zhao ZY, Dolan M, Chumley F, Tingey SV, Tomb JF, Gordon MP, Olson MV, and Nester EW. . pmid:11743193. PubMed HubMed [Wood-2001]
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  82. Bevan M, Mayer K, White O, Eisen JA, Preuss D, Bureau T, Salzberg SL, and Mewes HW. . pmid:11228431. PubMed HubMed [Bevan-2001]
  83. Nelson KE, Eisen JA, and Fraser CM. . pmid:11210497. PubMed HubMed [Nelson-2001]
  84. Haft DH, Loftus BJ, Richardson DL, Yang F, Eisen JA, Paulsen IT, and White O. . pmid:11125044. PubMed HubMed [Haft-2000]
  85. Eisen JA. 2000. Microbial and plant genomics. Journal of Biolaw and Business, Special Supplement. 21-24. [Eisen-2000]
  86. Read TD, Brunham RC, Shen C, Gill SR, Heidelberg JF, White O, Hickey EK, Peterson J, Utterback T, Berry K, Bass S, Linher K, Weidman J, Khouri H, Craven B, Bowman C, Dodson R, Gwinn M, Nelson W, DeBoy R, Kolonay J, McClarty G, Salzberg SL, Eisen J, and Fraser CM. . pmid:10684935. PubMed HubMed [Read-2000]
  87. Arabidopsis Genome Initiative. . pmid:11130711. PubMed HubMed [AGI-2000]
  88. Nierman WC, Eisen JA, Fleischmann RD, and Fraser CM. . pmid:10851186. PubMed HubMed [Nierman-2000b]
  89. Tettelin H, Saunders NJ, Heidelberg J, Jeffries AC, Nelson KE, Eisen JA, Ketchum KA, Hood DW, Peden JF, Dodson RJ, Nelson WC, Gwinn ML, DeBoy R, Peterson JD, Hickey EK, Haft DH, Salzberg SL, White O, Fleischmann RD, Dougherty BA, Mason T, Ciecko A, Parksey DS, Blair E, Cittone H, Clark EB, Cotton MD, Utterback TR, Khouri H, Qin H, Vamathevan J, Gill J, Scarlato V, Masignani V, Pizza M, Grandi G, Sun L, Smith HO, Fraser CM, Moxon ER, Rappuoli R, and Venter JC. . pmid:10710307. PubMed HubMed [Tettelin-2000]
  90. Coleman MA, Eisen JA, and Mohrenweiser HW. . pmid:10857751. PubMed HubMed [Coleman-2000]
  91. Heidelberg JF, Eisen JA, Nelson WC, Clayton RA, Gwinn ML, Dodson RJ, Haft DH, Hickey EK, Peterson JD, Umayam L, Gill SR, Nelson KE, Read TD, Tettelin H, Richardson D, Ermolaeva MD, Vamathevan J, Bass S, Qin H, Dragoi I, Sellers P, McDonald L, Utterback T, Fleishmann RD, Nierman WC, White O, Salzberg SL, Smith HO, Colwell RR, Mekalanos JJ, Venter JC, and Fraser CM. . pmid:10952301. PubMed HubMed [Heidelberg-2000]
  92. Eisen JA, Heidelberg JF, White O, and Salzberg SL. . pmid:11178265. PubMed HubMed [Eisen-etal-2000]
  93. Pollock DD, Eisen JA, Doggett NA, and Cummings MP. . pmid:11110893. PubMed HubMed [Pollock-2000]
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  96. Fraser CM, Eisen J, Fleischmann RD, Ketchum KA, and Peterson S. . pmid:10998382. PubMed HubMed [Fraaser-2000b]
  97. Fraser CM, Eisen JA, and Salzberg SL. . pmid:10963611. PubMed HubMed [Fraser-2000a]
  98. Nierman W, Eisen JA, and Fraser CM. . pmid:10865951. PubMed HubMed [Nierman-2000]
  99. Lin X, Kaul S, Rounsley S, Shea TP, Benito MI, Town CD, Fujii CY, Mason T, Bowman CL, Barnstead M, Feldblyum TV, Buell CR, Ketchum KA, Lee J, Ronning CM, Koo HL, Moffat KS, Cronin LA, Shen M, Pai G, Van Aken S, Umayam L, Tallon LJ, Gill JE, Adams MD, Carrera AJ, Creasy TH, Goodman HM, Somerville CR, Copenhaver GP, Preuss D, Nierman WC, White O, Eisen JA, Salzberg SL, Fraser CM, and Venter JC. . pmid:10617197. PubMed HubMed [Lin-1999]
  100. Eisen JA and Hanawalt PC. . pmid:10606811. PubMed HubMed [Eisen-and-Hanawalt-1999]
  101. Eisen JA. . pmid:10419407. PubMed HubMed [Eisen-1999b]
  102. "Mechanistic basis for microsatelite instability in David B. Goldstein and Christian Schlötterer. Microsatellites. Oxford; Oxford University Press, 1999" isbn=0198504071 [Eisen-1999a-]
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  104. Nelson KE, Clayton RA, Gill SR, Gwinn ML, Dodson RJ, Haft DH, Hickey EK, Peterson JD, Nelson WC, Ketchum KA, McDonald L, Utterback TR, Malek JA, Linher KD, Garrett MM, Stewart AM, Cotton MD, Pratt MS, Phillips CA, Richardson D, Heidelberg J, Sutton GG, Fleischmann RD, Eisen JA, White O, Salzberg SL, Smith HO, Venter JC, and Fraser CM. . pmid:10360571. PubMed HubMed [Nelson-1999]
  105. Wei MH, Karavanova I, Ivanov SV, Popescu NC, Keck CL, Pack S, Eisen JA, and Lerman MI. . pmid:9799093. PubMed HubMed [Wei-1998]
  106. Eisen JA. . pmid:9521918. PubMed HubMed [Eisen-1998]
  107. Eisen JA. . pmid:9722651. PubMed HubMed [Eisen-1998]
  108. Gruber TM, Eisen JA, Gish K, and Bryant DA. . pmid:9595663. PubMed HubMed [Gruber-1998]
  109. White RB, Eisen JA, Kasten TL, and Fernald RD. . pmid:9419371. PubMed HubMed [White-1998]
  110. Eisen JA, Kaiser D, and Myers RM. . pmid:9334711. PubMed HubMed [Eisen-etal-1997]
  111. Eisen JA. . pmid:9089600. PubMed HubMed [Eisen-1997]
  112. Shafer RW, Eisen JA, Merigan TC, and Katzenstein DA. . pmid:9188616. PubMed HubMed [Shafer-1997]
  113. Eisen JA. . pmid:8587109. PubMed HubMed [Eisen-1995]
  114. Eisen JA, Sweder KS, and Hanawalt PC. . pmid:7651832. PubMed HubMed [Eisen-etal-1995]
  115. Eisen JA, Benito MI, and Walbot V. . pmid:8041625. PubMed HubMed [Eisen-1994]
  116. Liu SK, Eisen JA, Hanawalt PC, and Tessman I. . pmid:8407828. PubMed HubMed [Liu-1993]
  117. Eisen JA, Smith SW, and Cavanaugh CM. . pmid:1577710. PubMed HubMed [Eisen-1992]
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