Eisen:Publications



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= Evolution Textbook=


 * Amazon Page
 * Book site at Cold Spring Harbor Press

=Journals and Book Chapters=


 * 1) WATERS-2010 pmid=20540779
 * 2) Metasim-2010 pmid=20419134
 * 3) Biotorrents-2010 pmid=20418944
 * 4) Haloferax-2010 pmid=20333302


 * 1) GEBA-2009 pmid=20033048
 * 2) PLOS-2009 pmid=19855830
 * 3) Hartman-2009 pmid=19805153
 * 4) Wang-2009 pmid=19568419
 * 5) Woyke-2009 pmid=19390573
 * 6) Campbell-2009 pmid=19197347
 * 7) Wu-2009 pmid=19148287

// My first editorial as the new Academic Editor in Chief of PLoS Biology
 * 1) Valdes-2008 pmid=19077236
 * 2) Coyne-2008 pmid=19036158
 * 3) Podar-2008 pmid=19000309
 * 4) WuEisen-2008 pmid=18851752
 * 5) Wu-2008 pmid=18596968
 * 6) Chatterji-2008 Chatterji S, Yamazaki I, Bai Z, Eisen JA. 2008. CompostBin: a DNA composition-based algorithm for binning environmental shotgun reads. RECOMB 2008.
 * 7) Eisen-2008 pmid=18303952

//A paper on sequencing and analysis of plasmids isolated from marine sediments. This was a collaboration with Patty Sobecky's lab at Georgia Tech. //A letter discussing the nomenclature for strains of Wolbachia. //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. // A collaboration with Thorsten Allers' lab on identifying replication origins. //A review I wrote on methods for characterizing uncultured microbes, focusing on the lead in to metagenomics. //One of the papers from Craig Venter's group on the "Global Ocean Survey." This one focused on microbial diversity. //Another of the papers from Craig Venter's group on the "Global Ocean Survey." This one focused on protein families. //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.
 * 1) Hazen-2007 pmid=17921277
 * 1) Pfarr-2007 pmid=17684235
 * 1) Maresca-2007 pmid=17606904
 * 1) Norais-2007 pmid=17511521
 * 1) Eisen-2007 pmid=17355177
 * 1) Rusch-2007 pmid=17355176
 * 1) Yooseph-2007 pmid=17355171
 * 1) Newton-2007 pmid=17303757


 * 1) Goldman-2006 pmid=17015832
 * 2) Eisen-2006 pmid=16933976
 * 3) Leebens-Mack-2006 pmid=16901231
 * 4) Hamilton-2006 pmid=16782302
 * 5) Dunning-2006 pmid=16482227
 * 6) Wu-2006 pmid=16729848
 * 7) Penn-2006 pmid=16461727


 * 1) Wu-2005 pmid=16311624
 * 2) Robb-2005 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.
 * 3) Schmidt-2005 pmid=15883371
 * 4) Badger-2005 pmid=15879228
 * 5) Desjardins-2005 pmid=15774035
 * 6) Seshadri-2005 pmid=15637277


 * 1) Moran-2004 pmid=15602564
 * 2) Tanaka-2004 pmid=15454524
 * 3) Ward-2004 pmid=15383840
 * 4) Venter-2004 pmid=15001713
 * 5) Wu-2004 pmid=15024419
 * 6) Ghedin-2004 pmid=15003838
 * 7) Seshadri-2004 pmid=15064399
 * 8) Heidelberg-2004 pmid=15077118


 * 1) Methe-2003 pmid=14671304
 * 2) Nelson-2003 pmid=12949112
 * 3) Miller-2003 pmid=12923095
 * 4) Yang-2003 pmid=14550293
 * 5) Alland-2003 pmid=12754238
 * 6) Seshadri-2003 pmid=12704232
 * 7) Eisen-and_Fraser-2003 pmid=12805538
 * 8) Paulsen-2003 pmid=12663927
 * 9) Ermolaeva-2003 pmid=12777046
 * 10) Shank-2003 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.


 * 1) DiRuggiero-2002 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. ).
 * 2) Read-2002 pmid=12721629
 * 3) Nelson-2002 pmid=12534463
 * 4) Eisen-2002 pmid=12167367
 * 5) Heidelberg-2002 pmid=12368813
 * 6) VanHouten-2002 pmid=11880612
 * 7) Gardner-2002 pmid=12368864
 * 8) Paulsen-2002 pmid=12271122
 * 9) Fraser-2002 pmid=12426324
 * 10) Fleischmann-2002 pmid=12218036
 * 11) Tettelin-2002 pmid=12200547
 * 12) Beja-2002 pmid=11832943
 * 13) Eisen-2002 pmid=12093901
 * 14) Dassarma-2002 pmid=16228359
 * 15) Eisen-2002 pmid=11859347


 * 1) Ware-2001 pmid=11812492
 * 2) Wood-2001 pmid=11743193
 * 3) Eisen-2001 Eisen JA. 2001. Response to Mackiewicz et al. Genome Biology, 2 (12): interactions1004. 1-1004.
 * 4) Tettelin-2001 pmid=11463916
 * 5) Ward-2001 pmid=11700527
 * 6) Nierman-2001 pmid=11259647
 * 7) Salzberg-2001b pmid=11503638
 * 8) Salzberg-2001a pmid=11358996
 * 9) Bevan-2001 pmid=11228431
 * 10) Nelson-2001 pmid=11210497
 * 11) Eisen-2001 pmid=11206526


 * 1) Haft-2000 pmid=11125044
 * 2) Eisen-2000 Eisen JA. 2000. Microbial and plant genomics. Journal of Biolaw and Business, Special Supplement. 21-24.
 * 3) Read-2000 pmid=10684935
 * 4) AGI-2000 pmid=11130711
 * 5) Nierman-2000b pmid=10851186
 * 6) Tettelin-2000 pmid=10710307
 * 7) Coleman-2000 pmid=10857751
 * 8) Heidelberg-2000 pmid=10952301
 * 9) Eisen-etal-2000 pmid=11178265
 * 10) Pollock-2000 pmid=11110893
 * 11) Eisen-2000b pmid=11088009
 * 12) Eisen-2000a pmid=11050445
 * 13) Fraaser-2000b pmid=10998382
 * 14) Fraser-2000a pmid=10963611
 * 15) Nierman-2000 pmid=10865951


 * 1) Lin-1999 pmid=10617197
 * 2) Eisen-and-Hanawalt-1999 pmid=10606811
 * 3) Eisen-1999b pmid=10419407
 * 4) Eisen-1999a-"Mechanistic basis for microsatelite instability in David B. Goldstein and Christian Schlötterer. Microsatellites. Oxford; Oxford University Press, 1999" isbn=0198504071
 * 5) White-1999 pmid=10567266
 * 6) Nelson-1999 pmid=10360571


 * 1) Wei-1998 pmid=9799093
 * 2) Eisen-1998 pmid=9722651
 * 3) Gruber-1998 pmid=9595663
 * 4) Eisen-1998 pmid=9521918
 * 5) White-1998 pmid=9419371


 * 1) Eisen-etal-1997 pmid=9334711
 * 2) Eisen-1997 pmid=9089600
 * 3) Shafer-1997 pmid=9188616
 * 4) Eisen-1995 pmid=8587109
 * 5) Eisen-etal-1995 pmid=7651832
 * 6) Eisen-1994 pmid=8041625
 * 7) Liu-1993 pmid=8407828
 * 8) Eisen-1992 pmid=1577710

= SIGS articles =