My functional genomics journal watch - year 2003 Jul-Dec [ this week | 2004 Jul-Dec | 2004 Jan-Jun | 2003 Jul-Dec | 2003 Jan-Jun | 2002 | 2001 | 2000 | 1999 | 1998 ]

General
Genome 
   Blochmannia floridanus
   Caenorhabditis briggsae
   Cryptosporidium parvum
   Homo Sapiens/ Human
   Photorhabdus luminescens
   Prochlorococcus marinus
   Pseudomonas syringae
   Rice
   Synechococcus
   Tropheryma whipplei
   Trypanosoma brucei
Comparative Genomics
Population Genomics/Evolutionary Genomics
Network/pathway reconstruction and analysis
Metabolomics
Pharmacogenomics
Toxicogenomics
System Biology
Database
Applications
Single Nucleotide Polymorphisms (SNPs) & haplotyping (typing, validation and mapping)
Techniques & Tools
Ethical, Legal and Social issues		 Can't find the functional genomics article published in 2003 in my site? 
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General

  1. Oliver S. Functional Genomics: all the king's horses and all the king's men can put Humpty together again. Mol Cell. 2003 Dec;12(6):1343-4. [PubMed]
  2. Taddei F. Sources of genetic and phenotypic variability. Bioinformatics. 2003 Oct;19 Suppl 2:II226. [PubMed]
  3. Hilson P, Small I, Kuiper MT. European consortia building integrated resources for Arabidopsis functional genomics. Curr Opin Plant Biol. 2003 Oct;6(5):426-429. [PubMed]

Genome

  1. Brosius J. How significant is 98.5% 'junk' in mammalian genomes? Bioinformatics. 2003 Oct;19 Suppl 2:II35. [PubMed]
  2. Gregory TR. Is small indel bias a determinant of genome size? Trends Genet. 2003 Sep;19(9):485-8.  [PubMed]

Blochmannia floridanus

  1. Gil R, Silva FJ, Zientz E, Delmotte F, Gonzalez-Candelas F, Latorre A, Rausell C, Kamerbeek J, Gadau J, Holldobler B, Van Ham RC, Gross R, Moya A. The genome sequence of Blochmannia floridanus: Comparative analysis of reduced genomes. Proc Natl Acad Sci U S A. 2003 Aug 5;100(16):9388-93. [PubMed][pdf][web supplement]

Caenorhabditis briggsae

  1. Gupta BP, Sternberg PW. The draft genome sequence of the nematode Caenorhabditis briggsae, a companion to C. elegans. Genome Biol. 2003;4(12):238. [PubMed]
  2. Stein LD, Bao Z, Blasiar D, Blumenthal T, Brent MR, Chen N, Chinwalla A, Clarke L, Clee C, Coghlan A, Coulson A, D'Eustachio P, Fitch DH, Fulton LA, Fulton RE, Griffiths-Jones S, Harris TW, Hillier LW, Kamath R, Kuwabara PE, Mardis ER, Marra MA, Miner TL, Minx P, Mullikin JC, Plumb RW, Rogers J, Schein JE, Sohrmann M, Spieth J, Stajich JE, Wei C, Willey D, Wilson RK, Durbin R, Waterston RH. The Genome Sequence of Caenorhabditis briggsae: A Platform for Comparative Genomics. PLoS Biol. 2003 Nov;1(2):E45. [PubMed]

Cryptosporidium parvum

  1. Bankier AT, Spriggs HF, Fartmann B, Konfortov BA, Madera M, Vogel C, Teichmann SA, Ivens A, Dear PH. Integrated Mapping, Chromosomal Sequencing and Sequence Analysis of Cryptosporidium parvum. Genome Res. 2003 Aug;13(8):1787-99. [PubMed][pdf][web supplement]

Homo Sapiens/ Human

  1. Versteeg R, Van Schaik BD, Van Batenburg MF, Roos M, Monajemi R, Caron H, Bussemaker HJ, Van Kampen AH. The Human Transcriptome Map Reveals Extremes in Gene Density, Intron Length, GC Content, and Repeat Pattern for Domains of Highly and Weakly Expressed Genes. Genome Res. 2003 Sep;13(9):1998-2004. [PubMed][pdf] web supplement[1][2][3][4][5]
  2. Hillier LW, Fulton RS, Fulton LA, Graves TA, Pepin KH, Wagner-McPherson C, Layman D, Maas J, Jaeger S, Walker R, Wylie K, Sekhon M, Becker MC, O'Laughlin MD, Schaller ME, Fewell GA, Delehaunty KD, Miner TL, Nash WE, Cordes M, Du H, Sun H, Edwards J, Bradshaw-Cordum H, Ali J, Andrews S, Isak A, Vanbrunt A, Nguyen C, Du F, Lamar B, Courtney L, Kalicki J, Ozersky P, Bielicki L, Scott K, Holmes A, Harkins R, Harris A, Strong CM, Hou S, Tomlinson C, Dauphin-Kohlberg S, Kozlowicz-Reilly A, Leonard S, Rohlfing T, Rock SM, Tin-Wollam AM, Abbott A, Minx P, Maupin R, Strowmatt C, Latreille P, Miller N, Johnson D, Murray J, Woessner JP, Wendl MC, Yang SP, Schultz BR, Wallis JW, Spieth J, Bieri TA, Nelson JO, Berkowicz N, Wohldmann PE, Cook LL, Hickenbotham MT, Eldred J, Williams D, Bedell JA, Mardis ER, Clifton SW, Chissoe SL, Marra MA, Raymond C, Haugen E, Gillett W, Zhou Y, James R, Phelps K, Iadanoto S, Bubb K, Simms E, Levy R, Clendenning J, Kaul R, Kent WJ, Furey TS, Baertsch RA, Brent MR, Keibler E, Flicek P, Bork P, Suyama M, Bailey JA, Portnoy ME, Torrents D, Chinwalla AT, Gish WR, Eddy SR, McPherson JD, Olson MV, Eichler EE, Green ED, Waterston RH, Wilson RK. The DNA sequence of human chromosome 7. Nature. 2003 Jul 10;424(6945):157-64. [PubMed]

Photorhabdus luminescens

  1. Williamson VM, Kaya HK. Sequence of a symbiont. Nat Biotechnol. 2003 Nov;21(11):1294-5. [PubMed]
  2. Duchaud E, Rusniok C, Frangeul L, Buchrieser C, Givaudan A, Taourit S, Bocs S, Boursaux-Eude C, Chandler M, Charles JF, Dassa E, Derose R, Derzelle S, Freyssinet G, Gaudriault S, Medigue C, Lanois A, Powell K, Siguier P, Vincent R, Wingate V, Zouine M, Glaser P, Boemare N, Danchin A, Kunst F. The genome sequence of the entomopathogenic bacterium Photorhabdus luminescens. Nat Biotechnol. 2003 Nov;21(11):1307-13. [PubMed][web supplement]

Prochlorococcus marinus

  1. Dufresne A, Salanoubat M, Partensky F, Artiguenave F, Axmann IM, Barbe V, Duprat S, Galperin MY, Koonin EV, Le Gall F, Makarova KS, Ostrowski M, Oztas S, Robert C, Rogozin IB, Scanlan DJ, De Marsac NT, Weissenbach J, Wincker P, Wolf YI, Hess WR. Genome sequence of the cyanobacterium Prochlorococcus marinus SS120, a nearly minimal oxyphototrophic genome. Proc Natl Acad Sci U S A. 2003 Aug 19;100(17):10020-10025. [PubMed][pdf][web supplement]

Pseudomonas syringae

  1. Buell CR, Joardar V, Lindeberg M, Selengut J, Paulsen IT, Gwinn ML, Dodson RJ, Deboy RT, Durkin AS, Kolonay JF, Madupu R, Daugherty S, Brinkac L, Beanan MJ, Haft DH, Nelson WC, Davidsen T, Zafar N, Zhou L, Liu J, Yuan Q, Khouri H, Fedorova N, Tran B, Russell D, Berry K, Utterback T, Van Aken SE, Feldblyum TV, D'Ascenzo M, Deng WL, Ramos AR, Alfano JR, Cartinhour S, Chatterjee AK, Delaney TP, Lazarowitz SG, Martin GB, Schneider DJ, Tang X, Bender CL, White O, Fraser CM, Collmer A. The complete genome sequence of the Arabidopsis and tomato pathogen Pseudomonas syringae pv. tomato DC3000. Proc Natl Acad Sci U S A. 2003 Sep 2;100(18):10181-6. [PubMed][pdf][web supplement]

Rice

  1. Kikuchi S, Satoh K, Nagata T, Kawagashira N, Doi K, Kishimoto N, Yazaki J, Ishikawa M, Yamada H, Ooka H, Hotta I, Kojima K, Namiki T, Ohneda E, Yahagi W, Suzuki K, Li CJ, Ohtsuki K, Shishiki T, Otomo Y, Murakami K, Iida Y, Sugano S, Fujimura T, Suzuki Y, Tsunoda Y, Kurosaki T, Kodama T, Masuda H, Kobayashi M, Xie Q, Lu M, Narikawa R, Sugiyama A, Mizuno K, Yokomizo S, Niikura J, Ikeda R, Ishibiki J, Kawamata M, Yoshimura A, Miura J, Kusumegi T, Oka M, Ryu R, Ueda M, Matsubara K, Kawai J, Carninci P, Adachi J, Aizawa K, Arakawa T, Fukuda S, Hara A, Hashidume W, Hayatsu N, Imotani K, Ishii Y, Itoh M, Kagawa I, Kondo S, Konno H, Miyazaki A, Osato N, Ota Y, Saito R, Sasaki D, Sato K, Shibata K, Shinagawa A, Shiraki T, Yoshino M, Hayashizaki Y; Rice Full-Length cDNA Consortium; National Institute of Agrobiological Sciences Rice Full-Length cDNA Project Team; Foundation of Advancement of International Science Genome Sequencing & Analysis Group; RIKEN. Collection, Mapping, and Annotation of Over 28,000 cDNA Clones from japonica Rice. Science 2003 Jul 18; 376-379. [PubMed]

Synechococcus

  1. Fuhrman J. Genome sequences from the sea. Nature. 2003 Aug 28;424(6952):1001-2. [PubMed]
  2. Palenik B, Brahamsha B, Larimer FW, Land M, Hauser L, Chain P, Lamerdin J, Regala W, Allen EE, McCarren J, Paulsen I, Dufresne A, Partensky F, Webb EA, Waterbury J. The genome of a motile marine Synechococcus. Nature. 2003 Aug 28;424(6952):1037-42. [PubMed][web supplement]

Tropheryma whipplei

  1. Raoult D, Ogata H, Audic S, Robert C, Suhre K, Drancourt M, Claverie JM. Tropheryma whipplei Twist: A Human Pathogenic Actinobacteria With a Reduced Genome. Genome Res. 2003 Aug;13(8):1800-9. [PubMed][pdf][web supplement]

Trypanosoma brucei

  1. Hall N, Berriman M, Lennard NJ, Harris BR, Hertz-Fowler C, Bart-Delabesse EN, Gerrard CS, Atkin RJ, Barron AJ, Bowman S, Bray-Allen SP, Bringaud F, Clark LN, Corton CH, Cronin A, Davies R, Doggett J, Fraser A, Gruter E, Hall S, Harper AD, Kay MP, Leech V, Mayes R, Price C, Quail MA, Rabbinowitsch E, Reitter C, Rutherford K, Sasse J, Sharp S, Shownkeen R, MacLeod A, Taylor S, Tweedie A, Turner CM, Tait A, Gull K, Barrell B, Melville SE. The DNA sequence of chromosome I of an African trypanosome: gene content, chromosome organisation, recombination and polymorphism. Nucleic Acids Res. 2003 Aug 15;31(16):4864-73. [PubMed][pdf][web supplement]
  2. El-Sayed NM, Ghedin E, Song J, MacLeod A, Bringaud F, Larkin C, Wanless D, Peterson J, Hou L, Taylor S, Tweedie A, Biteau N, Khalak HG, Lin X, Mason T, Hannick L, Caler E, Blandin G, Bartholomeu D, Simpson AJ, Kaul S, Zhao H, Pai G, Van Aken S, Utterback T, Haas B, Koo HL, Umayam L, Suh B, Gerrard C, Leech V, Qi R, Zhou S, Schwartz D, Feldblyum T, Salzberg S, Tait A, Turner CM, Ullu E, White O, Melville S, Adams MD, Fraser CM, Donelson JE. The sequence and analysis of Trypanosoma brucei chromosome II. Nucleic Acids Res. 2003 Aug 15;31(16):4856-63. [PubMed][pdf][web supplement]

Comparative Genomics

  1. Dennis C. Genomics: Compare and contrast. Nature. 2003 Dec 18;426(6968):750-1. [PubMed]
  2. Zhang R. et al., Identification of genomic islands in the genome of Bacillus cereus by comparative analysis with Bacillus anthracis. Physiol. Genomics. Dec 16; 16: 19-23. [PubMed]
  3. Margulies EH, Blanchette M, NISC Comparative Sequencing Program, Haussler D, Green ED. Identification and Characterization of Multi-Species Conserved Sequences. Genome Res. 2003 Dec;  13: 2507-2518. [PubMed]
  4. Blaxter M. Comparative genomics: Two worms are better than one. Nature. 2003 Nov 27;426(6965):395-6. [PubMed]
  5. Hardison RC. Comparative Genomics. PLoS Biol. 2003 Nov;1(2):E58.  [PubMed]
  6. Stein LD, Bao Z, Blasiar D, Blumenthal T, Brent MR, Chen N, Chinwalla A, Clarke L, Clee C, Coghlan A, Coulson A, D'Eustachio P, Fitch DH, Fulton LA, Fulton RE, Griffiths-Jones S, Harris TW, Hillier LW, Kamath R, Kuwabara PE, Mardis ER, Marra MA, Miner TL, Minx P, Mullikin JC, Plumb RW, Rogers J, Schein JE, Sohrmann M, Spieth J, Stajich JE, Wei C, Willey D, Wilson RK, Durbin R, Waterston RH. The Genome Sequence of Caenorhabditis briggsae: A Platform for Comparative Genomics. PLoS Biol. 2003 Nov;1(2):E45. [PubMed]
  7. Rio RV, Lefevre C, Heddi A, Aksoy S. Comparative genomics of insect-symbiotic bacteria: influence of host environment on microbial genome composition. Appl Environ Microbiol. 2003 Nov;69(11):6825-32. [PubMed]
  8. Furlong RF, Yang Z. Comparative genomics: Comparative genomics coming of age. Heredity. 2003 Oct 22 [Epub ahead of print] [PubMed]
  9. Mirotsou M, Watanabe CM, Schultz PG, Pratt RE, Dzau VJ. Elucidating the molecular mechanism of cardiac remodeling using a comparative genomic approach. Physiol Genomics. 2003 Oct 17; [PubMed][web supplement]
  10. Handa H. The complete nucleotide sequence and RNA editing content of the mitochondrial genome of rapeseed (Brassica napus L.): comparative analysis of the mitochondrial genomes of rapeseed and Arabidopsis thaliana. Nucleic Acids Res. 2003 Oct 15;31(20):5907-16. [PubMed]
  11. Ilic K, SanMiguel PJ, Bennetzen JL. A complex history of rearrangement in an orthologous region of the maize, sorghum, and rice genomes. Proc Natl Acad Sci U S A. 2003 Oct 14;100(21):12265-70. [PubMed][pdf][web supplement]
  12. Rijnkels M, Elnitski L, Miller W, Rosen JM. Multispecies comparative analysis of a mammalian-specific genomic domain encoding secretory proteins. Genomics. 2003 Oct;82(4):417-32.  [PubMed]
  13. Davila AM, Majiwa PA, Grisard EC, Aksoy S, Melville SE. Comparative genomics to uncover the secrets of tsetse and livestock-infective trypanosomes. Trends Parasitol. 2003 Oct;19(10):436-9. [PubMed]
  14. Waters A. Comparative genomics of malaria parasites and its exploitation in a rodent malaria model. Bioinformatics. 2003 Oct;19 Suppl 2:II245. [PubMed]
  15. Hendrix RW. Bacteriophage genomics. Curr Opin Microbiol. 2003 Oct;6(5):506-11. [PubMed]
  16. Tauch A, Puhler A, Kalinowski J, Thierbach G. Plasmids in Corynebacterium glutamicum and their molecular classification by comparative genomics. J Biotechnol. 2003 Sep 4;104(1-3):27-40. [PubMed]
  17. Niimura Y, Terabe M, Gojobori T, Miura K. Comparative analysis of the base biases at the gene terminal portions in seven eukaryote genomes. Nucleic Acids Res. 2003 Sep 1;31(17):5195-201. [PubMed]
  18. Miller ES, Heidelberg JF, Eisen JA, Nelson WC, Durkin AS, Ciecko A, Feldblyum TV, White O, Paulsen IT, Nierman WC, Lee J, Szczypinski B, Fraser CM. Complete Genome Sequence of the Broad-Host-Range Vibriophage KVP40: Comparative Genomics of a T4-Related Bacteriophage. J Bacteriol. 2003 Sep;185(17):5220-33. [PubMed]
  19. Parkhill J, Sebaihia M, Preston A, Murphy LD, Thomson N, Harris DE, Holden MT, Churcher CM, Bentley SD, Mungall KL, Cerdeno-Tarraga AM, Temple L, James K, Harris B, Quail MA, Achtman M, Atkin R, Baker S, Basham D, Bason N, Cherevach I, Chillingworth T, Collins M, Cronin A, Davis P, Doggett J, Feltwell T, Goble A, Hamlin N, Hauser H, Holroyd S, Jagels K, Leather S, Moule S, Norberczak H, O'Neil S, Ormond D, Price C, Rabbinowitsch E, Rutter S, Sanders M, Saunders D, Seeger K, Sharp S, Simmonds M, Skelton J, Squares R, Squares S, Stevens K, Unwin L, Whitehead S, Barrell BG, Maskell DJ.  Comparative analysis of the genome sequences of Bordetella pertussis, Bordetella parapertussis and Bordetella bronchiseptica. Nat Genet. 2003 Sep;35(1):32-40. [PubMed][web supplement]
  20. McCormack TJ. Comparison of K+-channel genes within the genomes of Anopheles gambiae and Drosophila melanogaster. Genome Biol. 2003;4(9):R58.[PubMed]
  21. Rocap G, Larimer FW, Lamerdin J, Malfatti S, Chain P, Ahlgren NA, Arellano A, Coleman M, Hauser L, Hess WR, Johnson ZI, Land M, Lindell D, Post AF, Regala W, Shah M, Shaw SL, Steglich C, Sullivan MB, Ting CS, Tolonen A, Webb EA, Zinser ER, Chisholm SW. Genome divergence in two Prochlorococcus ecotypes reflects oceanic niche differentiation. Nature. 2003 Aug 28;424(6952):1042-7. [PubMed][web supplement]
  22. Wood L. Questions about comparative genomics of SARS coronavirus isolates. Lancet. 2003 Aug 16;362(9383):578; author reply 578-9. [PubMed]
  23. Thomas JW, Touchman JW, Blakesley RW, Bouffard GG, Beckstrom-Sternberg SM, Margulies EH, Blanchette M, Siepel AC, Thomas PJ, McDowell JC, Maskeri B, Hansen NF, Schwartz MS, Weber RJ, Kent WJ, Karolchik D, Bruen TC, Bevan R, Cutler DJ, Schwartz S, Elnitski L, Idol JR, Prasad AB, Lee-Lin SQ, Maduro VV, Summers TJ, Portnoy ME, Dietrich NL, Akhter N, Ayele K, Benjamin B, Cariaga K, Brinkley CP, Brooks SY, Granite S, Guan X, Gupta J, Haghighi P, Ho SL, Huang MC, Karlins E, Laric PL, Legaspi R, Lim MJ, Maduro QL, Masiello CA, Mastrian SD, McCloskey JC, Pearson R, Stantripop S, Tiongson EE, Tran JT, Tsurgeon C, Vogt JL, Walker MA, Wetherby KD, Wiggins LS, Young AC, Zhang LH, Osoegawa K, Zhu B, Zhao B, Shu CL, De Jong PJ, Lawrence CE, Smit AF, Chakravarti A, Haussler D, Green P, Miller W, Green ED. Comparative analyses of multi-species sequences from targeted genomic regions. Nature. 2003 Aug 14;424(6950):788-793. [PubMed][web supplement]
  24. Hoopengardner B, Bhalla T, Staber C, Reenan R. Nervous system targets of RNA editing identified by comparative genomics. Science. 2003 Aug 8;301(5634):832-6. [PubMed][web supplement]
  25. Daubin V, Moran NA, Ochman H. Phylogenetics and the cohesion of bacterial genomes. Science. 2003 Aug 8;301(5634):829-32. [PubMed]
  26. Panina EM, Mironov AA, Gelfand MS. Comparative genomics of bacterial zinc regulons: Enhanced ion transport, pathogenesis, and rearrangement of ribosomal proteins. Proc Natl Acad Sci U S A. 2003 Aug 6 [Epub ahead of print] [PubMed][pdf]
  27. Li WW, Quinn GB, Alexandrov NN, Bourne PE, Shindyalov IN. A comparative proteomics resource: proteins of Arabidopsis thaliana. Genome Biol. 2003;4(8):R51. [PubMed]
  28. Makarova KS, Koonin EV. Comparative genomics of archaea: how much have we learned in six years, and what's next? Genome Biol. 2003;4(8):115. [PubMed]
  29. Larkin DM, Everts-Van Der Wind A, Rebeiz M, Schweitzer PA, Bachman S, Green C, Wright CL, Campos EJ, Benson LD, Edwards J, Liu L, Osoegawa K, Womack JE, De Jong PJ, Lewin HA. A Cattle-Human Comparative Map Built with Cattle BAC-Ends and Human Genome Sequence. Genome Res. 2003 Aug;13(8):1966-72. [PubMed][pdf][web supplement]
  30. Murphy WJ, Fronicke L, O'Brien SJ, Stanyon R. The origin of human chromosome 1 and its homologs in placental mammals. Genome Res. 2003 Aug;13(8):1880-8. [PubMed][pdf][web supplement]
  31. Sorrells ME, La Rota M, Bermudez-Kandianis CE, Greene RA, Kantety R, Munkvold JD, Miftahudin, Mahmoud A, Ma X, Gustafson PJ, Qi LL, Echalier B, Gill BS, Matthews DE, Lazo GR, Chao S, Anderson OD, Edwards H, Linkiewicz AM, Dubcovsky J, Akhunov ED, Dvorak J, Zhang D, Nguyen HT, Peng J, Lapitan NL, Gonzalez-Hernandez JL, Anderson JA, Hossain K, Kalavacharla V, Kianian SF, Choi DW, Close TJ, Dilbirligi M, Gill KS, Steber C, Walker-Simmons MK, McGuire PE, Qualset CO. Comparative DNA sequence analysis of wheat and rice genomes. Genome Res. 2003 Aug;13(8):1818-27. [PubMed][pdf][web supplement]
  32. Raoult D, Ogata H, Audic S, Robert C, Suhre K, Drancourt M, Claverie JM. Tropheryma whipplei Twist: A Human Pathogenic Actinobacteria With a Reduced Genome. Genome Res. 2003 Aug;13(8):1800-9. [PubMed][pdf][web supplement]
  33. Bankier AT, Spriggs HF, Fartmann B, Konfortov BA, Madera M, Vogel C, Teichmann SA, Ivens A, Dear PH. Integrated Mapping, Chromosomal Sequencing and Sequence Analysis of Cryptosporidium parvum. Genome Res. 2003 Aug;13(8):1787-99. [PubMed][pdf][web supplement]
  34. Herrero E, De La Torre MA, Valentin E. Comparative genomics of yeast species: new insights into their biology. Int Microbiol. 2003 Jul 29 [Epub ahead of print] [PubMed]
  35. Rodionov DA, Vitreschak AG, Mironov AA, Gelfand MS. Comparative genomics of the vitamin B12 metabolism and regulation in prokaryotes. J Biol Chem. 2003 Jul 17 [Epub ahead of print] [PubMed]
  36. Brachat S, Dietrich FS, Voegeli S, Zhang Z, Stuart L, Lerch A, Gates K, Gaffney T, Philippsen P. Reinvestigation of the Saccharomyces cerevisiae genome annotation by comparison to the genome of a related fungus: Ashbya gossypii. Genome Biol 2003 Jul;4(7):R45. [PubMed][pdf]
  37. Puente XS, Sanchez LM, Overall CM, Lopez-Otin C. Human and mouse proteases: a comparative genomic approach. Nat Rev Genet. 2003 Jul;4(7):544-58. [PubMed]
  38. Sorek R, Ast G. Intronic sequences flanking alternatively spliced exons are conserved between human and mouse. Genome Res. 2003 Jul;13(7):1631-7. [PubMed][pdf][web supplement]
  39. Saunders NF, Thomas T, Curmi PM, Mattick JS, Kuczek E, Slade R, Davis J, Franzmann PD, Boone D, Rusterholtz K, Feldman R, Gates C, Bench S, Sowers K, Kadner K, Aerts A, Dehal P, Detter C, Glavina T, Lucas S, Richardson P, Larimer F, Hauser L, Land M, Cavicchioli R. Mechanisms of Thermal Adaptation Revealed From the Genomes of the Antarctic Archaea Methanogenium frigidum and Methanococcoides burtonii. Genome Res. 2003 Jul;13(7):1580-8. [PubMed][pdf]
  40. Nishio Y, Nakamura Y, Kawarabayasi Y, Usuda Y, Kimura E, Sugimoto S, Matsui K, Yamagishi A, Kikuchi H, Ikeo K, Gojobori T. Comparative Complete Genome Sequence Analysis of the Amino Acid Replacements Responsible for the Thermostability of Corynebacterium efficiens. Genome Res. 2003 Jul;13(7):1572-9. [PubMed][pdf][web supplement]
  41. Parsons AB, Geyer R, Hughes TR, Boone C. Yeast genomics and proteomics in drug discovery and target validation. Prog Cell Cycle Res. 2003;5:159-66. [PubMed]

Population Genomics/Evolutionary Genomics

  1. Eichler EE, Patel NH. Genomes and evolution: From sequence to organism. Curr Opin Genet Dev. 2003 Dec;13(6):559-61. [PubMed]
  2. Kouprina N, Larionov V. Exploiting the yeast Saccharomyces cerevisiae for the study of the organization and evolution of complex genomes. FEMS Microbiol Rev. 2003 Dec;27(5):629-49. [PubMed]
  3. Luikart G, England PR, Tallmon D, Jordan S, Taberlet P. The power and promise of population genomics: from genotyping to genome typing. Nat Rev Genet. 2003 Dec;4(12):981-94. [PubMed]
  4. Castillo-Davis CI, Hartl DL. Conservation, relocation and duplication in genome evolution. Trends Genet. 2003 Nov;19(11):593-7. [PubMed]
  5. Karev GP, Wolf YI, Koonin EV. Simple stochastic birth and death models of genome evolution: was there enough time for us to evolve? Bioinformatics. 2003 Oct 12;19(15):1889-900. [PubMed]
  6. Aravind L. et al., Evolutionary connections between bacterial and eukaryotic signaling systems: a genomic perspective. Curr Opin Microbiol. 2003 Oct; [PubMed]
  7. Labrador M, Corces VG. Extensive exon reshuffling over evolutionary time coupled to trans-splicing in Drosophila. Genome Res. 2003 Oct;13(10):2220-8. [PubMed]
  8. Krylov DM, Wolf YI, Rogozin IB, Koonin EV. Gene loss, protein sequence divergence, gene dispensability, expression level, and interactivity are correlated in eukaryotic evolution. Genome Res. 2003 Oct;13(10):2229-35. [PubMed]
  9. Domazet-Loso T, Tautz D. An evolutionary analysis of orphan genes in Drosophila. Genome Res. 2003 Oct;13(10):2213-9. [PubMed]
  10. New Genomic Approach Predicts True Evolutionary History of Bacterial Genomes. PLoS Biol. 2003 Oct;1(1):E31. [PubMed]
  11. Eichler EE, Sankoff D. Structural dynamics of eukaryotic chromosome evolution. Science. 2003 Aug 8;301(5634):793-7. [PubMed]
  12. Feder ME, Mitchell-Olds T. Evolutionary and ecological functional genomics. Nat Rev Genet. 2003 Aug;4(8):649-655. [PubMed]
  13. Wong GK, Yang Z, Passey DA, Kibukawa M, Paddock M, Liu CR, Bolund L, Yu J. A population threshold for functional polymorphisms. Genome Res. 2003 Aug;13(8):1873-9. [PubMed][pdf]
  14. Watkins WS, Rogers AR, Ostler CT, Wooding S, Bamshad MJ, Brassington AM, Carroll ML, Nguyen SV, Walker JA, Prasad BV, Reddy PG, Das PK, Batzer MA, Jorde LB. Genetic variation among world populations: inferences from 100 alu insertion polymorphisms. Genome Res. 2003 Jul;13(7):1607-18. [PubMed][pdf][web supplement]
  15. Ingman M, Gyllensten U. Mitochondrial genome variation and evolutionary history of Australian and new guinean aborigines. Genome Res. 2003 Jul;13(7):1600-6. [PubMed][pdf]
  16. Jaillon O, Dossat C, Eckenberg R, Eiglmeier K, Segurens B, Aury JM, Roth CW, Scarpelli C, Brey PT, Weissenbach J, Wincker P. Assessing the Drosophila melanogaster and Anopheles gambiae Genome Annotations Using Genome-Wide Sequence Comparisons. Genome Res. 2003 Jul;13(7):1595-9. [PubMed][pdf]
  17. Kunin V, Ouzounis CA. The balance of driving forces during genome evolution in prokaryotes. Genome Res. 2003 Jul;13(7):1589-94. [PubMed][pdf][web supplement]
  18. Mishra B, Daruwala RS, Zhou Y, Ugel N, Policriti A, Antoniotti M, Paxia S, Rejali M, Rudra A, Cherepinsky V, Silver N, Casey W, Piazza C, Simeoni M, Barbano P, Spivak M, Feng J, Gill O, Venkatesh M, Cheng F, Sun B, Ioniata I, Anantharaman T, Hubbard EJ, Pnueli A, Harel D, Chandru V, Hariharan R, Wigler M, Park F, Lin SC, Lazebnik Y, Winkler F, Cantor CR, Carbone A, Gromov M. A sense of life: computational and experimental investigations with models of biochemical and evolutionary processes. OMICS. 2003 Fall;7(3):253-68. [PubMed]

Network/pathway reconstruction and analysis

  1. Martínez-Antonio A. et al., Identifying global regulators in transcriptional regulatory networks in bacteria. Curr Opin Microbiol. 2003 Oct; [PubMed]

Metabolomics

  1. Nobeli I, Ponstingl H, Krissinel EB, Thornton JM. A Structure-based Anatomy of the E. coli Metabolome. J Mol Biol. 2003 Dec 5;334(4):697-719.  [PubMed]
  2. Duran AL, Yang J, Wang L, Sumner LW. Metabolomics spectral formatting, alignment and conversion tools (MSFACTs). Bioinformatics 2003 Nov 22; 19: 2283-2293. [PubMed]
  3. Thornton J. The proteome and the metabolome. Bioinformatics. 2003 Oct;19 Suppl 2:II237. [PubMed]
  4. Rea PA. Ion genomics. Nat Biotechnol. 2003 Oct;21(10):1149-51. [PubMed]
  5. Lahner B, Gong J, Mahmoudian M, Smith EL, Abid KB, Rogers EE, Guerinot ML, Harper JF, Ward JM, McIntyre L, Schroeder JI, Salt DE. Genomic scale profiling of nutrient and trace elements in Arabidopsis thaliana. Nat Biotechnol. 2003 Oct;21(10):1215-21. [PubMed]
  6. Griffin JL. Metabonomics: NMR spectroscopy and pattern recognition analysis of body fluids and tissues for characterisation of xenobiotic toxicity and disease diagnosis. Curr Opin Chem Biol. 2003 Oct;7(5):648-54. [PubMed]
  7. Nicholson JK, Wilson ID. Opinion: understanding 'global' systems biology: metabonomics and the continuum of metabolism. Nat Rev Drug Discov. 2003 Aug;2(8):668-76. [PubMed]

Pharmacogenomics

  1. Roden DM. Cardiovascular pharmacogenomics. Circulation. 2003 Dec 23;108(25):3071-4. [PubMed]
  2. Ulrich CM, Robien K, McLeod HL. Cancer pharmacogenetics: polymorphisms, pathways and beyond. Nat Rev Cancer. 2003 Dec;3(12):912-20. [PubMed]
  3. Koopmans RP, Insel PA, Michel MC. Pharmacogenetics of hypertension treatment: a structured review. Pharmacogenetics. 2003 Dec;13(12):705-713. [PubMed]
  4. Goldstein DB, Tate SK, Sisodiya SM. Pharmacogenetics goes genomic. Nat Rev Genet. 2003 Dec;4(12):937-47. [PubMed]
  5. Hoehe MR, Timmermann B, Lehrach H. Human inter-individual DNA sequence variation in candidate genes, drug targets, the importance of haplotypes and pharmacogenomics. Curr Pharm Biotechnol. 2003 Dec;4(6):351-78. [PubMed]
  6. Ferraccioli G. The possible clinical application of pharmacogenetics in rheumatology. J Rheumatol. 2003 Dec; 30(12): 2517-20. [PubMed]
  7. Ulrich CM, Robien K, McLeod HL. Cancer pharmacogenetics: polymorphisms, pathways and beyond. Nat Rev Cancer. 2003 Dec;3(12):912-20. [PubMed]
  8. Savage DR. FDA guidance on pharmacogenomics data submission. Nat Rev Drug Discov. 2003 Dec;2(12):937-8. [PubMed]
  9. Mancama D, Arranz MJ, Kerwin RW. Pharmacogenomics of psychiatric drug treatment. Curr Opin Mol Ther. 2003 Dec;5(6):642-9. [PubMed]
  10. Morley KI, Hall WD. Using pharmacogenetics and pharmacogenomics in the treatment of psychiatric disorders: some ethical and economic considerations. J Mol Med. 2003 Nov 4 [Epub ahead of print] [PubMed]
  11. Fredericks S, Holt DW. Pharmacogenomics of immunosuppressive drug metabolism. Curr Opin Nephrol Hypertens. 2003 Nov;12(6):607-13. [PubMed]
  12. Johnson JA. Pharmacogenetics: potential for individualized drug therapy through genetics. Trends Genet. 2003 Nov;19(11):660-6.  [PubMed]
  13. Cowman AF, Crabb BS. Functional genomics: identifying drug targets for parasitic diseases. Trends Parasitol. 2003 Nov;19(11):538-43. [PubMed]
  14. Jain KK. Information on commercial aspects of pharmacogenomics. Pharmacogenomics. 2003 Nov;4(6):801-3. [PubMed]
  15. Clancy CE, Kass RS. Pharmacogenomics in the treatment of epilepsy. Pharmacogenomics. 2003 Nov;4(6):747-51. [PubMed]
  16. Vormfelde SV, Burckhardt G, Zirk A, Wojnowski L, Brockmoller J. Pharmacogenomics of diuretic drugs: data on rare monogenic disorders and on polymorphisms and requirements for further research. Pharmacogenomics. 2003 Nov;4(6):701-34. [PubMed]
  17. McCarthy JJ. Advances in pharmacogenomic research and development. Mol Biotechnol. 2003 Nov;25(3):275-82. [PubMed]
  18. Rappuoli R, Covacci A. Reverse vaccinology and genomics. Science. 2003 Oct 24;302(5645):602. [PubMed]
  19. Holden C. Race and medicine. Science. 2003 Oct 24;302(5645):594-6. [PubMed]
  20. Marshall E. First check my genome, doctor. Science. 2003 Oct 24;302(5645):589. [PubMed]
  21. Marshall E. Preventing toxicity with a gene test. Science. 2003 Oct 24;302(5645):588-90. [PubMed]
  22. Arranz MJ, Kerwin RW. Advances in the pharmacogenetic prediction of antipsychotic response. Toxicology. 2003 Oct 1;192(1):33-5. [PubMed]
  23. DeFilippis V, Raggo C, Moses A, Fruh K. Functional genomics in virology and antiviral drug discovery. Trends Biotechnol. 2003 Oct;21(10):452-7.  [PubMed]
  24. Murphy GM Jr, Kremer C, Rodrigues HE, Schatzberg AF. Pharmacogenetics of antidepressant medication intolerance. Am J Psychiatry. 2003 Oct;160(10):1830-5. [PubMed]
  25. Roemer T, Jiang B, Davison J, Ketela T, Veillette K, Breton A, Tandia F, Linteau A, Sillaots S, Marta C, Martel N, Veronneau S, Lemieux S, Kauffman S, Becker J, Storms R, Boone C, Bussey H. Large-scale essential gene identification in Candida albicans and applications to antifungal drug discovery. Mol Microbiol. 2003 Oct;50(1):167-81. [PubMed]
  26. McAlister V. Pharmacogenomics in liver transplantation. Liver Transpl. 2003 Oct;9(10):1114-5. [PubMed]
  27. Lenz HJ. Pharmacogenomics in colorectal cancer. Semin Oncol. 2003 Oct;30(4 Suppl 15):47-53. [PubMed]
  28. De Backer MD, Van Dijck P. Progress in functional genomics approaches to antifungal drug target discovery. Trends Microbiol. 2003 Oct;11(10):470-8. [PubMed]
  29. Toffoli G, Cecchin E. Pharmacogenetics of stomach cancer. Suppl Tumori. 2003 Sep-Oct;2(5):S19-22. [PubMed]
  30. Desai AA, Innocenti F, Ratain MJ. Pharmacogenomics: road to anticancer therapeutics nirvana? Oncogene. 2003 Sep 29;22(42):6621-8. [PubMed]
  31. Davison DB, Barrett JF. Antibiotics and pharmacogenomics. Pharmacogenomics. 2003 Sep;4(5):657-65. [PubMed]
  32. Cacabelos R. The application of functional genomics to Alzheimer's disease. Pharmacogenomics. 2003 Sep;4(5):597-621. [PubMed]
  33. Basik M, Mousses S, Trent J. Integration of genomic technologies for accelerated cancer drug development. Biotechniques. 2003 Sep;35(3):580-2, 584, 586 passim. [PubMed]
  34. Kishi S, Griener J, Cheng C, Das S, Cook EH, Pei D, Hudson M, Rubnitz J, Sandlund JT, Pui CH, Relling MV. Homocysteine, Pharmacogenetics, and Neurotoxicity in Children With Leukemia. J Clin Oncol. 2003 Aug 15;21(16):3084-3091. [PubMed]
  35. Franklin WA, Carbone DP. Molecular staging and pharmacogenomics. Clinical implications: from lab to patients and back. Lung Cancer. 2003 Aug;41 Suppl 1:S147-54. [PubMed]
  36. Noble D.  Will genomics revolutionise pharmaceutical R&D? Trends Biotechnol. 2003 Aug;21(8):333-7.  [PubMed]
  37. Bracco L, Kearsey J. The relevance of alternative RNA splicing to pharmacogenomics. Trends Biotechnol. 2003 Aug;21(8):346-53.  [PubMed]
  38. Haga SB. et al., Genomic profiling to promote a healthy lifestyle: not ready for prime time. Nat Genet. 2003 Aug; [PubMed]
  39. Park DJ, Stoehlmacher J, Lenz HJ. Tailoring chemotherapy in advanced colorectal cancer. Curr Opin Pharmacol. 2003 Aug;3(4):378-85. [PubMed]
  40. Desai AA, Innocenti F, Ratain MJ. UGT pharmacogenomics: implications for cancer risk and cancer therapeutics. Pharmacogenetics. 2003 Aug;13(8):517-23. [PubMed]
  41. Lee CR, Zeldin DC. Guest editorial - the reality of pharmacogenomics: optimizing therapeutic decision making. Environ Health Perspect. 2003 Aug;111(11):A566-7. [PubMed]
  42. Adjei AA, Thomae BA, Prondzinski JL, Eckloff BW, Wieben ED, Weinshilboum RM. Human estrogen sulfotransferase (SULT1E1) pharmacogenomics: gene resequencing and functional genomics. Br J Pharmacol. 2003 Aug;139(8):1373-1382. [PubMed]
  43. Nicol MJ. The variation of response to pharmacotherapy: pharmacogenetics--a new perspective to 'the right drug for the right person'. Medsurg Nurs. 2003 Aug;12(4):242-9. [PubMed]
  44. Meyerson M. Human genetic variation and disease. Lancet. 2003 Jul 26;362(9380):259-60. [PubMed]
  45. Moynihan R. Report calls for better evaluation of pharmacogenetic tests. BMJ. 2003 Jul 5;327(7405):11. [PubMed][pdf]
  46. Yeh SH, Chen DS, Chen PJ. A prospect for pharmacogenomics in the interferon therapy of chronic viral hepatitis. J Antimicrob Chemother. 2003 Jul 1 [Epub ahead of print] [PubMed]
  47. Valdes Jr R, Linder MW, Jortani SA. What is next in pharmacogenomics? Translating it to clinical practice. Pharmacogenomics. 2003 Jul;4(4):499-505. [PubMed]
  48. Mooser V, Waterworth DM, Isenhour T, Middleton L. Cardiovascular pharmacogenetics in the SNP era. J Thromb Haemost. 2003 Jul;1(7):1398-402. [PubMed]
  49. Rogers K, Lea R, Griffiths L. Molecular mechanisms of migraine : prospects for pharmacogenomics. Am J Pharmacogenomics. 2003;3(5):329-43. [PubMed]
  50. Fredericks S, Holt D, MacPhee I. The pharmacogenetics of immunosuppression for organ transplantation : a route to individualization of drug administration. Am J Pharmacogenomics. 2003;3(5):291-301. [PubMed]
  51. Abergel C, Coutard B, Byrne D, Chenivesse S, Claude JB, Deregnaucourt C, Fricaux T, Gianesini-Boutreux C, Jeudy S, Lebrun R, Maza C, Notredame C, Poirot O, Suhre K, Varagnol M, Claverie JM. Structural genomics of highly conserved microbial genes of unknown function in search of new antibacterial targets. J Struct Funct Genomics. 2003;4(2-3):141-57. [PubMed]
  52. McLeod HL, Yu J. Cancer pharmacogenomics: SNPs, chips, and the individual patient. Cancer Invest. 2003;21(4):630-40. [PubMed]
  53. Nebert DW, Jorge-Nebert L, Vesell ES. Pharmacogenomics and "Individualized Drug Therapy": high expectations and disappointing achievements. Am J Pharmacogenomics. 2003;3(6):361-70. [PubMed]
  54. Kerwin RW. A perspective on progress in pharmacogenomics. Am J Pharmacogenomics. 2003;3(6):371-3. [PubMed]
  55. Licinio J. Pharmacogenomics and clinical medicine: passing flirtation or marriage? Pharmacogenomics J. 2003;3(6):303. [PubMed]
  56. Meurer MJ. Pharmacogenomics, genetic tests, and patent-based incentives. Adv Genet. 2003; 50: 399-426; discussion 507-10. [PubMed]

Toxicogenomics

  1. Waters MD, Olden K, Tennant RW. Toxicogenomic approach for assessing toxicant-related disease. Mutat Res. 2003 Nov;544(2-3):415-24. [PubMed]
  2. Guerreiro N, Staedtler F, Grenet O, Kehren J, Chibout SD. Toxicogenomics in drug development. Toxicol Pathol. 2003 Sep-Oct;31(5):471-9. [PubMed]
  3. Kramer JA, Kolaja KL. Toxicogenomics: an opportunity to optimise drug development and safety evaluation. Expert Opin Drug Saf. 2002 Sep;1(3):275-86. [PubMed]
  4. Tomer KB, Merrick BA. Toxicoproteomics: a parallel approach to identifying biomarkers. Environ Health Perspect. 2003 Aug;111(11):A578-9. [PubMed]
  5. Ulrich RG. The toxicogenomics of nuclear receptor agonists. Curr Opin Chem Biol. 2003 Aug;7(4):505-10. [PubMed]

System Biology

  1. Goesmann A, Linke B, Rupp O, Krause L, Bartels D, Dondrup M, McHardy AC, Wilke A, Puhler A, Meyer F. Building a BRIDGE for the integration of heterogeneous data from functional genomics into a platform for systems biology. J Biotechnol. 2003 Dec 19;106(2-3):157-67. [PubMed]
  2. Ernest S, Carter M, Hosack A, Rosenblatt D, Ross E, Nadeau JH. Nutrigenes, Functional Genomics and Systems Biology. J Nutr. 2003 Dec;133(12):4267-4268. [PubMed]
  3. Pinney JW, Westhead DR, McConkey GA. Petri Net representations in systems biology. Biochem Soc Trans. 2003 Dec;31(Pt 6):1513-5. [PubMed]
  4. Cho KH, Wolkenhauer O. Analysis and modelling of signal transduction pathways in systems biology. Biochem Soc Trans. 2003 Dec;31(Pt 6):1503-9. [PubMed]
  5. Finney A, Hucka M. Systems biology markup language: Level 2 and beyond. Biochem Soc Trans. 2003 Dec;31(Pt 6):1472-3. [PubMed]
  6. Ehrenberg M, Elf J, Aurell E, Sandberg R, Tegner J. Systems biology is taking off. Genome Res. 2003 Nov;13(11):2377-80. [PubMed]
  7. Raghothama C, Pandey A. Absolute systems biology - measuring dynamics of protein modifications. Trends Biotechnol. 2003 Nov;21(11):467-70. [PubMed]
  8. Burja AM, Dhamwichukorn S, Wright PC. Cyanobacterial postgenomic research and systems biology. Trends Biotechnol. 2003 Nov;21(11):504-11. [PubMed]
  9. Auffray C, Imbeaud S, Roux-Rouquie M, Hood L. From functional genomics to systems biology: concepts and practices. C R Biol. 2003 Oct-Nov;326(10-11):879-92.  [PubMed]
  10. Auffray C, Chen Z, Hood L, Soares B, Sugano S. Foreword: from the TRANSCRIPTOME conferences to the SYSTEMOSCOPE international consortium. C R Biol. 2003 Oct-Nov;326(10-11):867-75. [PubMed]
  11. Check E. Harvard heralds fresh take on systems biology. Nature. 2003 Oct 2;425(6957):439. [PubMed]
  12. Ge H, Walhout AJ, Vidal M. Integrating 'omic' information: a bridge between genomics and systems biology. Trends Genet. 2003 Oct;19(10):551-60. [PubMed]
  13. Urbanczyk-Wochniak E, Luedemann A, Kopka J, Selbig J, Roessner-Tunali U, Willmitzer L, Fernie AR. Parallel analysis of transcript and metabolic profiles: a new approach in systems biology. EMBO Rep. 2003 Oct;4(10):989-93. [PubMed]
  14. Grant SG. Systems biology in neuroscience: bridging genes to cognition. Curr Opin Neurobiol. 2003 Oct;13(5):577-582. [PubMed]
  15. Pazos F, Valencia A, De Lorenzo V. The organization of the microbial biodegradation network from a systems-biology perspective. EMBO Rep. 2003 Sep 5 [Epub ahead of print] [PubMed]
  16. Nurse P. Systems biology: understanding cells. Nature. 2003 Aug 21;424(6951):883. [PubMed]
  17. Nicholson JK, Wilson ID. Opinion: understanding 'global' systems biology: metabonomics and the continuum of metabolism. Nat Rev Drug Discov. 2003 Aug;2(8):668-76. [PubMed]
  18. Sauro HM, Hucka M, Finney A, Wellock C, Bolouri H, Doyle J, Kitano H. Next generation simulation tools: the Systems Biology Workbench and BioSPICE integration. OMICS. 2003 Winter;7(4):355-72. [PubMed]

Database

  1. Peri S, Navarro JD, Amanchy R, Kristiansen TZ, Jonnalagadda CK, Surendranath V, Niranjan V, Muthusamy B, Gandhi TK, Gronborg M, Ibarrola N, Deshpande N, Shanker K, Shivashankar HN, Rashmi BP, Ramya MA, Zhao Z, Chandrika KN, Padma N, Harsha HC, Yatish AJ, Kavitha MP, Menezes M, Choudhury DR, Suresh S, Ghosh N, Saravana R, Chandran S, Krishna S, Joy M, Anand SK, Madavan V, Joseph A, Wong GW, Schiemann WP, Constantinescu SN, Huang L, Khosravi-Far R, Steen H, Tewari M, Ghaffari S, Blobe GC, Dang CV, Garcia JG, Pevsner J, Jensen ON, Roepstorff P, Deshpande KS, Chinnaiyan AM, Hamosh A, Chakravarti A, Pandey A. Development of human protein reference database as an initial platform for approaching systems biology in humans. Genome Res. 2003 Oct;13(10):2363-71. [PubMed]

Applications

  1. Kushner DB, Lindenbach BD, Grdzelishvili VZ, Noueiry AO, Paul SM, Ahlquist P. Systematic, genome-wide identification of host genes affecting replication of a positive-strand RNA virus. Proc Natl Acad Sci U S A. 2003 Dec 23;100(26):15764-9. [PubMed][pdf]
  2. Warringer J, Ericson E, Fernandez L, Nerman O, Blomberg A. High-resolution yeast phenomics resolves different physiological features in the saline response. Proc Natl Acad Sci U S A. 2003 Dec 23;100(26):15724-9. [PubMed][PDF][Supporting Information]
  3. Matsumura H, Reich S, Ito A, Saitoh H, Kamoun S, Winter P, Kahl G, Reuter M, Kruger DH, Terauchi R. Gene expression analysis of plant host-pathogen interactions by SuperSAGE. Proc Natl Acad Sci U S A. 2003 Dec 23;100(26):15718-23. [PubMed][PDF] [Supporting Information]
  4. Smith HO, Hutchison CA 3rd, Pfannkoch C, Venter JC. Generating a synthetic genome by whole genome assembly: {phi}X174 bacteriophage from synthetic oligonucleotides. Proc Natl Acad Sci U S A. 2003 Dec 23;100(26):15440-15445. [PubMed][PDF]
  5. Abbott A. Neuroscience: Genomics on the brain. Nature. 2003 Dec 18;426(6968):757. [PubMed]
  6. Abbott DE, Pritchard C, Clegg NJ, Ferguson C, Dumpit R, Sikes RA, Nelson PS. Expressed sequence tag profiling identifies developmental and anatomic partitioning of gene expression in the mouse prostate. Genome Biol. 2003;4(12):R79. [PubMed]
  7. Poustka AJ, Groth D, Hennig S, Thamm S, Cameron A, Beck A, Reinhardt R, Herwig R, Panopoulou G, Lehrach H. Generation, Annotation, Evolutionary Analysis, and Database Integration of 20,000 Unique Sea Urchin EST Clusters. Genome Res. 2003 Dec; 13: 2736-2746. [PubMed]
  8. Vettore AL, Da Silva FR, Kemper EL, Souza GM, Da Silva AM, Ferro MI, Henrique-Silva F, Giglioti EA, Lemos MV, Coutinho LL, Nobrega MP, Carrer H, Franca SC, Bacci M Jr, Goldman MH, Gomes SL, Nunes LR, Camargo LE, Siqueira WJ, Van Sluys MA, Thiemann OH, Kuramae EE, Santelli RV, Marino CL, Targon ML, Ferro JA, Silveira HC, Marini DC, Lemos EG, Monteiro-Vitorello CB, Tambor JH, Carraro DM, Roberto PG, Martins VG, Goldman GH, De Oliveira RC, Truffi D, Colombo CA, Rossi M, De Araujo PG, Sculaccio SA, Angella A, Lima MM, De Rosa VE Jr, Siviero F, Coscrato VE, Machado MA, Grivet L, Di Mauro SM, Nobrega FG, Menck CF, Braga MD, Telles GP, Cara FA, Pedrosa G, Meidanis J, Arruda P. Analysis and Functional Annotation of an Expressed Sequence Tag Collection for Tropical Crop Sugarcane. Genome Res. 2003 Dec; 13: 2725-2735. [PubMed]
  9. Torrents D, Suyama M, Zdobnov E, Bork P. A Genome-Wide Survey of Human Pseudogenes. Genome Res. 2003 Dec; 13: 2559-2567. [PubMed]
  10. Robinson WH, Utz PJ, Steinman L. Genomic and proteomic analysis of multiple sclerosis. Opinion. Curr Opin Immunol. 2003 Dec;15(6):660-7. [PubMed]
  11. Hegde PS, White IR, Debouck C. Interplay of transcriptomics and proteomics. Curr Opin Biotechnol. 2003 Dec;14(6):647-51. [PubMed]
  12. Mootha VK, Bunkenborg J, Olsen JV, Hjerrild M, Wisniewski JR, Stahl E, Bolouri MS, Ray HN, Sihag S, Kamal M, Patterson N, Lander ES, Mann M. Integrated Analysis of Protein Composition, Tissue Diversity, and Gene Regulation in Mouse Mitochondria. Cell. 2003 Nov 26;115(5):629-40.  [PubMed]
  13. Dunn W, Chou C, Li H, Hai R, Patterson D, Stolc V, Zhu H, Liu F. Functional profiling of a human cytomegalovirus genome. Proc Natl Acad Sci U S A. 2003 Nov 25; 100: 14223-14228.  [PubMed][PDF] [Supporting Information]
  14. Kaiser J. Pharmacogenomics. FDA puts the brakes on Roche's gene array test. Science. 2003 Nov 14;302(5648):1134. [PubMed]
  15. Brentani H et al., The generation and utilization of a cancer-oriented representation of the human transcriptome by using expressed sequence tags. Proc Natl Acad Sci U S A. 2003 Nov 11;100(23):13418-13423. [PubMed][pdf][web supplement]
  16. Chabardes-Garonne D, Mejean A, Aude JC, Cheval L, Di Stefano A, Gaillard MC, Imbert-Teboul M, Wittner M, Balian C, Anthouard V, Robert C, Segurens B, Wincker P, Weissenbach J, Doucet A, Elalouf JM. A panoramic view of gene expression in the human kidney. Proc Natl Acad Sci U S A. 2003 Nov 11;100(23):13710-5. [PubMed][pdf][web supplement]
  17. Gelade R, Van De Velde S, Van Dijck P, Thevelein JM. Multi-level response of the yeast genome to glucose. Genome Biol. 2003;4(11):233. [PubMed]
  18. Young JM, Shykind BM, Lane RP, Tonnes-Priddy L, Ross JA, Walker M, Williams EM, Trask BJ. Odorant receptor expressed sequence tags demonstrate olfactory expression of over 400 genes, extensive alternate splicing and unequal expression levels. Genome Biol. 2003;4(11):R71. [PubMed]
  19. Hirschi KD. Strike while the ionome is hot: making the most of plant genomic advances. Trends Biotechnol. 2003 Nov;  [PubMed]
  20. McBride MW, Charchar FJ, Graham D, Miller WH, Strahorn P, Carr FJ, Dominiczak AF. Functional genomics in rodent models of hypertension. J Physiol. 2003 Oct 17 [Epub ahead of print] [PubMed]
  21. Nobrega MA, Ovcharenko I, Afzal V, Rubin EM. Scanning human gene deserts for long-range enhancers. Science. 2003 Oct 17;302(5644):413. [PubMed][web supplement]
  22. Iourgenko V, Zhang W, Mickanin C, Daly I, Jiang C, Hexham JM, Orth AP, Miraglia L, Meltzer J, Garza D, Chirn GW, McWhinnie E, Cohen D, Skelton J, Terry R, Yu Y, Bodian D, Buxton FP, Zhu J, Song C, Labow MA. Identification of a family of cAMP response element-binding protein coactivators by genome-scale functional analysis in mammalian cells. Proc Natl Acad Sci U S A. 2003 Oct 14;100(21):12147-52. [PubMed][pdf][web supplement]
  23. Chanda SK, White S, Orth AP, Reisdorph R, Miraglia L, Thomas RS, DeJesus P, Mason DE, Huang Q, Vega R, Yu DH, Nelson CG, Smith BM, Terry R, Linford AS, Yu Y, Chirn GW, Song C, Labow MA, Cohen D, King FJ, Peters EC, Schultz PG, Vogt PK, Hogenesch JB, Caldwell JS. Genome-scale functional profiling of the mammalian AP-1 signaling pathway. Proc Natl Acad Sci U S A. 2003 Oct 14;100(21):12153-8. [PubMed][pdf][web supplement]
  24. Lercher MJ, Urrutia AO, Pavlicek A, Hurst LD. A unification of mosaic structures in the human genome. Hum Mol Genet. 2003 Oct 1;12(19):2411-5. [PubMed]
  25. Verjovski-Almeida S, DeMarco R, Martins EA, Guimaraes PE, Ojopi EP, Paquola AC, Piazza JP, Nishiyama MY Jr, Kitajima JP, Adamson RE, Ashton PD, Bonaldo MF, Coulson PS, Dillon GP, Farias LP, Gregorio SP, Ho PL, Leite RA, Malaquias LC, Marques RC, Miyasato PA, Nascimento AL, Ohlweiler FP, Reis EM, Ribeiro MA, Sa RG, Stukart GC, Soares MB, Gargioni C, Kawano T, Rodrigues V, Madeira AM, Wilson RA, Menck CF, Setubal JC, Leite LC, Dias-Neto E. Transcriptome analysis of the acoelomate human parasite Schistosoma mansoni. Nat Genet. 2003 Oct;35(2):148-57. [PubMed]
  26. Pallen MJ. et al., Genomic analysis of secretion systems. Curr Opin Microbiol. 2003 Oct; [PubMed]
  27. DeFilippis V, Raggo C, Moses A, Fruh K. Functional genomics in virology and antiviral drug discovery. Trends Biotechnol. 2003 Oct;21(10):452-7. [PubMed]
  28. Simmer F, Moorman C, Van Der Linden AM, Kuijk E, Van Den Berghe PV, Kamath R, Fraser AG, Ahringer J, Plasterk RH. Genome-Wide RNAi of C. elegans Using the Hypersensitive rrf-3 Strain Reveals Novel Gene Functions. PLoS Biol. 2003 Oct;1(1):E12. Epub 2003 Oct 13. [PubMed]
  29. Yoshioka J, Lee RT. Cardiovascular genomics. Cardiovasc Pathol. 2003 Sep-Oct;12(5):249-54. [PubMed]
  30. De Jong MM, Nolte IM, De Vries EG, Schaapveld M, Kleibeuker JH, Oosterom E, Oosterwijk JC, Van Der Hout AH, Van Der Steege G, Bruinenberg M, Boezen HM, Te Meerman GJ, Van Der Graaf WT. The HLA class III subregion is responsible for an increased breast cancer risk. Hum Mol Genet. 2003 Sep 15;12(18):2311-9. [PubMed]
  31. Hoogendoorn B, Coleman SL, Guy CA, Smith K, Bowen T, Buckland PR, O'Donovan MC. Functional analysis of human promoter polymorphisms. Hum Mol Genet. 2003 Sep 15;12(18):2249-54. [PubMed]
  32. Johnsson N, Johnsson K. A Fusion of Disciplines: Chemical Approaches to Exploit Fusion Proteins for Functional Genomics. Chembiochem. 2003 Sep 5;4(9):803-810. [PubMed]
  33. Beauchamp NJ, van Achterberg TA, Engelse MA, Pannekoek H, de Vries CJ. Gene expression profiling of resting and activated vascular smooth muscle cells by serial analysis of gene expression and clustering analysis. Genomics. 2003 Sep;82(3):288-99.  [PubMed]
  34. Bowen NJ, Jordan IK, Epstein JA, Wood V, Levin HL. Retrotransposons and Their Recognition of pol II Promoters: A Comprehensive Survey of the Transposable Elements From the Complete Genome Sequence of Schizosaccharomyces pombe. Genome Res. 2003 Sep;13(9):1984-97. [PubMed][pdf][web supplement]
  35. Brennecke J, Cohen SM. Towards a complete description of the microRNA complement of animal genomes. Genome Biol. 2003;4(9):228. [PubMed]
  36. Aigner T, Dudhia J. Genomics of osteoarthritis. Curr Opin Rheumatol. 2003 Sep;15(5):634-40. [PubMed]
  37. Westers H, Dorenbos R, Van Dijl JM, Kabel J, Flanagan T, Devine KM, Jude F, Seror SJ, Beekman AC, Darmon E, Eschevins C, De Jong A, Bron S, Kuipers OP, Albertini AM, Antelmann H, Hecker M, Zamboni N, Sauer U, Bruand C, Ehrlich DS, Alonso JC, Salas M, Quax WJ. Genome Engineering Reveals Large Dispensable Regions in Bacillus subtilis. Mol Biol Evol. 2003 Aug 29 [Epub ahead of print] [PubMed]
  38. Doolan DL, Southwood S, Freilich DA, Sidney J, Graber NL, Shatney L, Bebris L, Florens L, Dobano C, Witney AA, Appella E, Hoffman SL, Yates JR 3rd, Carucci DJ, Sette A. Identification of Plasmodium falciparum antigens by antigenic analysis of genomic and proteomic data. Proc Natl Acad Sci U S A. 2003 Aug 19;100(17):9952-7. [PubMed][pdf][web supplement]
  39. Hansen J, Floss T, Van Sloun P, Fuchtbauer EM, Vauti F, Arnold HH, Schnutgen F, Wurst W, Von Melchner H, Ruiz P. A large-scale, gene-driven mutagenesis approach for the functional analysis of the mouse genome. Proc Natl Acad Sci U S A. 2003 Aug 19;100(17):9918-22. [PubMed][pdf][web supplement]
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  46. Guo X, Flores M, Mavingui P, Fuentes SI, Hernandez G, Davila G, Palacios R. Natural Genomic Design in Sinorhizobium meliloti: Novel Genomic Architectures. Genome Res. 2003 Aug;13(8):1810-7. [PubMed][pdf][web supplement]
  47. Austin CP. The completed human genome: implications for chemical biology. Curr Opin Chem Biol. 2003 Aug;7(4):511-5. [PubMed]
  48. Goossens A, Hakkinen ST, Laakso I, Seppanen-Laakso T, Biondi S, De Sutter V, Lammertyn F, Nuutila AM, Soderlund H, Zabeau M, Inze D, Oksman-Caldentey KM. A functional genomics approach toward the understanding of secondary metabolism in plant cells. Proc Natl Acad Sci U S A. 2003 Jul 8;100(14):8595-600. [PubMed][pdf]
  49. Lee JY, Eom EM, Kim DS, Ha-Lee YM, Lee DH. Analysis of gene expression profiles of gastric normal and cancer tissues by SAGE. Genomics. 2003 Jul;82(1):78-85. [PubMed]
  50. Bader GD, Heilbut A, Andrews B, Tyers M, Hughes T, Boone C. Functional genomics and proteomics: charting a multidimensional map of the yeast cell. Trends Cell Biol. 2003 Jul;13(7):344-56. [PubMed]
  51. Xue Y, Li J, Xu Z.  Recent highlights of the China Rice Functional Genomics Program. Trends Genet. 2003 Jul;19(7):390-4. [PubMed]
  52. Khambata-Ford S, Liu Y, Gleason C, Dickson M, Altman RB, Batzoglou S, Myers RM. Identification of promoter regions in the human genome by using a retroviral plasmid library-based functional reporter gene assay. Genome Res. 2003 Jul;13(7):1765-74. [PubMed][pdf][web supplement]
  53. Akilesh S, Shaffer DJ, Roopenian D. Customized molecular phenotyping by quantitative gene expression and pattern recognition analysis. Genome Res. 2003 Jul;13(7):1719-27. [PubMed][pdf][web supplement]
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  56. Griffith JL, Coleman LE, Raymond AS, Goodson SG, Pittard WS, Tsui C, Devine SE. Functional Genomics Reveals Relationships Between the Retrovirus-Like Ty1 Element and Its Host Saccharomyces cerevisiae. Genetics. 2003 Jul;164(3):867-79. [PubMed]
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Single Nucleotide Polymorphisms (SNPs) & haplotyping (typing, validation and mapping)

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  6. Rudi K, Holck AL. Real-time closed tube single nucleotide polymorphism (SNP) quantification in pooled samples by quencher extension (QEXT). Nucleic Acids Res. 2003 Oct 1;31(19):E117. [PubMed]
  7. Jeffreys AJ, May CA. DNA Enrichment by Allele-Specific Hybridization (DEASH): A Novel Method for Haplotyping and for Detecting Low-Frequency Base Substitutional Variants and Recombinant DNA Molecules. Genome Res. 2003 Oct;13(10):2316-24. [PubMed]
  8. Kennedy GC, Matsuzaki H, Dong S, Liu WM, Huang J, Liu G, Su X, Cao M, Chen W, Zhang J, Liu W, Yang G, Di X, Ryder T, He Z, Surti U, Phillips MS, Boyce-Jacino MT, Fodor SP, Jones KW.  Large-scale genotyping of complex DNA. Nat Biotechnol. 2003 Oct;21(10):1233-7. [PubMed]
  9. Li SS, Khalid N, Carlson C, Zhao LP. Estimating haplotype frequencies and standard errors for multiple single nucleotide polymorphisms. Biostatistics. 2003 Oct;4(4):513-22. [PubMed]
  10. Orzack SH, Gusfield D, Olson J, Nesbitt S, Subrahmanyan L, Stanton VP Jr. Analysis and exploration of the use of rule-based algorithms and consensus methods for the inferral of haplotypes. Genetics. 2003 Oct;165(2):915-28. [PubMed]
  11. Wang L, Xu Y. Haplotype inference by maximum parsimony. Bioinformatics. 2003 Sep 22;19(14):1773-80. [PubMed]
  12. Qiu P, J Soder G, Sanfiorenzo VJ, Wang L, R Greene J, Fritz MA, Cai XY. Quantification of single nucleotide polymorphisms by automated DNA sequencing. Biochem Biophys Res Commun. 2003 Sep 19;309(2):331-8.  [PubMed]
  13. Pettersson M, Bylund M, Alderborn A. Molecular haplotype determination using allele-specific PCR and pyrosequencing technology. Genomics. 2003 Sep;82(3):390-6.  [PubMed]
  14. Lu X, Niu T, Liu JS. Haplotype information and linkage disequilibrium mapping for single nucleotide polymorphisms. Genome Res. 2003 Sep;13(9):2112-7. [PubMed][pdf]
  15. Holthe M, Rakvag TN, Klepstad P, Idle JR, Kaasa S, Krokan HE, Skorpen F. Sequence variations in the UDP-glucuronosyltransferase 2B7 (UGT2B7) gene: identification of 10 novel single nucleotide polymorphisms (SNPs) and analysis of their relevance to morphine glucuronidation in cancer patients. Pharmacogenomics J. 2003;3(4):248. [PubMed]
  16. McLaren NC, Moroi SE. Clinical implications of pharmacogenetics for glaucoma therapeutics. Pharmacogenomics J. 2003;3(4):197-201. [PubMed]
  17. Enoch MA. Pharmacogenomics of alcohol response and addiction. Am J Pharmacogenomics. 2003;3(4):217-32. [PubMed]
  18. Sebastiani P, Lazarus R, Weiss ST, Kunkel LM, Kohane IS, Ramoni MF. Minimal haplotype tagging. Proc Natl Acad Sci U S A. 2003 Aug 19;100(17):9900-5. [PubMed][pdf]
  19. Tsui C, Coleman LE, Griffith JL, Bennett EA, Goodson SG, Scott JD, Pittard WS, Devine SE. Single nucleotide polymorphisms (SNPs) that map to gaps in the human SNP map. Nucleic Acids Res. 2003 Aug 15;31(16):4910-6. [PubMed][pdf]
  20. Wall JD, Pritchard JK. Haplotype blocks and linkage disequilibrium in the human genome. Nat Rev Genet. 2003 Aug;4(8):587-97. [PubMed]
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  22. Telmer CA, Retchless AR, Kinsey AD, Conley Y, Rigatti B, Gorin MB, Jarvik JW. Detection and Assignment of Mutations and Minihaplotypes in Human DNA Using Peptide Mass Signature Genotyping (PMSG): Application to the Human RDS/Peripherin Gene. Genome Res. 2003 Aug;13(8):1944-51. [PubMed][pdf]
  23. Zhang K, Jin L. HaploBlockFinder: haplotype block analyses. Bioinformatics. 2003 Jul 1;19(10):1300-1. [PubMed]
  24. Zhang K, Sun F, Waterman MS, Chen T. Haplotype block partition with limited resources and applications to human chromosome 21 haplotype data. Am J Hum Genet. 2003 Jul;73(1):63-73. [PubMed]
  25. Mannila H, Koivisto M, Perola M, Varilo T, Hennah W, Ekelund J, Lukk M, Peltonen L, Ukkonen E. Minimum description length block finder, a method to identify haplotype blocks and to compare the strength of block boundaries. Am J Hum Genet. 2003 Jul;73(1):86-94. [PubMed]
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Techniques & Tools

  1. Shiraki T, Kondo S, Katayama S, Waki K, Kasukawa T, Kawaji H, Kodzius R, Watahiki A, Nakamura M, Arakawa T, Fukuda S, Sasaki D, Podhajska A, Harbers M, Kawai J, Carninci P, Hayashizaki Y. Cap analysis gene expression for high-throughput analysis of transcriptional starting point and identification of promoter usage. Proc Natl Acad Sci U S A. 2003 Dec 23;100(26):15776-81. [PubMed][PDF]
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  3. Palmer LE, Rabinowicz PD, O'Shaughnessy AL, Balija VS, Nascimento LU, Dike S, de la Bastide M, Martienssen RA, McCombie WR. Maize Genome Sequencing by Methylation Filtration. Science 2003 Dec 19; 2115-2117. [PubMed][Supporting Online Material]
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  5. Lasken RS, Egholm M. Whole genome amplification: abundant supplies of DNA from precious samples or clinical specimens. Trends Biotechnol. 2003 Dec;21(12):531-5.  [PubMed]
  6. Clark MS, Edwards YJ, Peterson D, Clifton SW, Thompson AJ, Sasaki M, Suzuki Y, Kikuchi K, Watabe S, Kawakami K, Sugano S, Elgar G, Johnson SL. Fugu ESTs: New Resources for Transcription Analysis and Genome Annotation. Genome Res. 2003 Dec; 13: 2747-2753. [PubMed]
  7. Wiemann S, Mehrle A, Bechtel S, Wellenreuther R, Pepperkok R, Poustka A; German cDNA Consortium. CDNAs for functional genomics and proteomics: the German Consortium. C R Biol. 2003 Oct-Nov;326(10-11):1003-9. [PubMed]
  8. Wong SM, Akerley BJ. Inducible expression system and marker-linked mutagenesis approach for functional genomics of Haemophilus influenzae. Gene. 2003 Oct 16;316:177-86. [PubMed]
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  10. Park KS, Lee DK, Lee H, Lee Y, Jang YS, Kim YH, Yang HY, Lee SI, Seol W, Kim JS. Phenotypic alteration of eukaryotic cells using randomized libraries of artificial transcription factors. Nat Biotechnol. 2003 Oct;21(10):1208-14. [PubMed]
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  12. Yu J, Farjo R, MacNee SP, Baehr W, Stambolian DE, Swaroop A. Annotation and analysis of 10,000 expressed sequence tags from developing mouse eye and adult retina. Genome Biol. 2003;4(10):R65. [PubMed]
  13. Urbanczyk-Wochniak E, Luedemann A, Kopka J, Selbig J, Roessner-Tunali U, Willmitzer L, Fernie AR. Parallel analysis of transcript and metabolic profiles: a new approach in systems biology. EMBO Rep. 2003 Oct;4(10):989-93. [PubMed]
  14. May BP, Liu H, Vollbrecht E, Senior L, Rabinowicz PD, Roh D, Pan X, Stein L, Freeling M, Alexander D, Martienssen R. Maize-targeted mutagenesis: A knockout resource for maize. Proc Natl Acad Sci U S A. 2003 Sep 30;100(20):11541-6. [PubMed]
  15. Yang J, Wang J, Yao ZJ, Jin Q, Shen Y, Chen R. GenomeComp: a visualization tool for microbial genome comparison. J Microbiol Methods. 2003 Sep;54(3):423-6. [PubMed]
  16. Pielberg G, Day AE, Plastow GS, Andersson L. A sensitive method for detecting variation in copy numbers of duplicated genes. Genome Res. 2003 Sep;13(9):2171-7. [PubMed][pdf]
  17. Fukumura R, Takahashi H, Saito T, Tsutsumi Y, Fujimori A, Sato S, Tatsumi K, Araki R, Abe M. A sensitive transcriptome analysis method that can detect unknown transcripts. Nucleic Acids Res. 2003 Aug 15;31(16):e94. [PubMed][pdf]
  18. Korn K, Gardellin P, Liao B, Amacker M, Bergstrom A, Bjorkman H, Camacho A, Dorhofer S, Dorre K, Enstrom J, Ericson T, Favez T, Gosch M, Honegger A, Jaccoud S, Lapczyna M, Litborn E, Thyberg P, Winter H, Rigler R. Gene expression analysis using single molecule detection. Nucleic Acids Res. 2003 Aug 15;31(16):e89. [PubMed][pdf]
  19. Zhu J, Shendure J, Mitra RD, Church GM. Single molecule profiling of alternative pre-mRNA splicing. Science. 2003 Aug 8;301(5634):836-8. [PubMed][web supplement]
  20. Tammi MT, Arner E, Kindlund E, Andersson B. Correcting errors in shotgun sequences. Nucleic Acids Res. 2003 Aug 1;31(15):4663-72. [PubMed]
  21. Hadjantonakis AK, Dickinson ME, Fraser SE, Papaioannou VE. Technicolour transgenics: imaging tools for functional genomics in the mouse. Nat Rev Genet. 2003 Aug;4(8):613-25. [PubMed]
  22. Nucleic Acid Research July 1; 2003 Web Server Issue
  23. Zhang K, Jin L. HaploBlockFinder: haplotype block analyses. Bioinformatics. 2003 Jul 1;19(10):1300-1. [PubMed]
  24. Dow JA, Davies SA. Integrative Physiology and Functional Genomics of Epithelial Function in a Genetic Model Organism. Physiol Rev. 2003 Jul;83(3):687-729. [PubMed]
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  26. Shashikant CS, Ruddle FH. Impact of transgenic technologies on functional genomics. Curr Issues Mol Biol. 2003 Jul;5(3):75-98. [PubMed]
  27. Rudd S. Expressed sequence tags: alternative or complement to whole genome sequences? Trends Plant Sci. 2003 Jul;8(7):321-9. [PubMed]
  28. Hayes F. Transposon-based strategies for microbial functional genomics and proteomics. Annu Rev Genet. 2003;37:3-29. [PubMed]

Ethical, Legal and Social issues

  1. Weijer C, Miller PB. Protecting communities in pharmacogenetic and pharmacogenomic research. Pharmacogenomics J. 2003 Dec 2 [Epub ahead of print] [PubMed]
  2. Acharya T, Daar AS, Singer PA. Biotechnology and the UN's Millennium Development Goals. Nat Biotechnol. 2003 Dec;21(12):1434-6.  [PubMed]
  3. Melzer D, Detmer D, Zimmern R. Pharmacogenetics and public policy: expert views in Europe and North America. Pharmacogenomics. 2003 Nov;4(6):689-91. [PubMed]
  4. Bassingthwaighte JB. The macro-ethics of genomics to health: