References

  1. Rubin GM, Hong L, Brokstein P, Evans-Holm M, Frise E, Stapleton M, Harvey DA: A Drosophila complementary DNA resource.

    Science 2000, 287:2222-2224. PubMed Abstract | Publisher Full Text OpenURL

  2. Stapleton M, Liao G, Brokstein P, Hong L, Carninci P, Shiraki T, Hayashizaki Y, Champe M, Pacleb J, Wan K, et al.: The Drosophila Gene Collection: identification of putative full-length cDNAs for 70% of D. melanogaster genes.

    Genome Res 2002, 12:1294-1300. PubMed Abstract | Publisher Full Text | PubMed Central Full Text OpenURL

  3. Yu W, Andersson B, Worley KC, Muzny DM, Ding Y, Liu W, Ricafrente JY, Wentland MA, Lennon G, Gibbs RA: Large-scale concatenation cDNA sequencing.

    Genome Res 1997, 7:353-358. PubMed Abstract | Publisher Full Text OpenURL

  4. Wiemann S, Weil B, Wellenreuther R, Gassenhuber J, Glassl S, Ansorge W, Bocher M, Blocker H, Bauersachs S, Blum H, et al.: Toward a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs.

    Genome Res 2001, 11:422-435. PubMed Abstract | Publisher Full Text OpenURL

  5. Strathmann M, Hamilton BA, Mayeda CA, Simon MI, Meyerowitz EM, Palazzolo MJ: Transposon-facilitated DNA sequencing.

    Proc Natl Acad Sci USA 1991, 88:1247-1250. PubMed Abstract | Publisher Full Text | PubMed Central Full Text OpenURL

  6. Devine SE, Boeke JD: Efficient integration of artificial transposons into plasmid targets in vitro: a useful tool for DNA mapping, sequencing and genetic analysis.

    Nucleic Acids Res 1994, 22:3765-3772. PubMed Abstract OpenURL

  7. Haapa S, Suomalainen S, Eerikainen S, Airaksinen M, Paulin L, Savilahti H: An efficient DNA sequencing strategy based on the bacteriophage mu in vitro DNA transposition reaction.

    Genome Res 1999, 9:308-315. PubMed Abstract | Publisher Full Text OpenURL

  8. Shevchenko Y, Bouffard GG, Butterfield YS, Blakesley RW, Hartley JL, Young AC, Marra MA, Jones SJ, Touchman JW, Green ED: Systematic sequencing of cDNA clones using the transposon Tn5.

    Nucleic Acids Res 2002, 30:2469-2477. PubMed Abstract | Publisher Full Text | PubMed Central Full Text OpenURL

  9. Butterfield YS, Marra MA, Asano JK, Chan SY, Guin R, Krzywinski MI, Lee SS, MacDonald KW, Mathewson CA, Olson TE, et al.: An efficient strategy for large-scale high-throughput transposon-mediated sequencing of cDNA clones.

    Nucleic Acids Res 2002, 30:2460-2468. PubMed Abstract | Publisher Full Text | PubMed Central Full Text OpenURL

  10. Gordon D, Desmarais C, Green P: Automated finishing with autofinish.

    Genome Res 2001, 11:614-625. PubMed Abstract | Publisher Full Text OpenURL

  11. Walhout AJ, Boulton SJ, Vidal M: Yeast two-hybrid systems and protein interaction mapping projects for yeast and worm.

    Yeast 2000, 17:88-94. PubMed Abstract | Publisher Full Text OpenURL

  12. Vidal M: A biological atlas of functional maps.

    Cell 2001, 104:333-339. PubMed Abstract | Publisher Full Text OpenURL

  13. Zhu H, Snyder M: "Omic" approaches for unraveling signaling networks.

    Curr Opin Cell Biol 2002, 14:173-179. PubMed Abstract | Publisher Full Text OpenURL

  14. Celniker SE, Wheeler DA, Kronmiller B, Carlson JW, Halpern A, Patel S, Adams M, Champe M, Dugan SP, Frise E, et al.: Finishing a whole shotgun sequence assembly: Release 3 of the Drosophila euchromatic sequence.

    Genome Biol 2002, 3(12):research0079.1-0079.14. PubMed Abstract | BioMed Central Full Text | PubMed Central Full Text OpenURL

  15. Misra S, Crosby MA, Mungall CJ, Matthews BB, Campbell K, Hradecky P, Huang Y, Kaminker JS, Millburn GH, Prochnik SE, et al.: Annotation of the Drosophila melanogaster euchromatic genome: a systematic review.

    Genome Biol 2002, 3:research0083.1-0083.22. PubMed Abstract | BioMed Central Full Text | PubMed Central Full Text OpenURL

  16. Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ: Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.

    Nucleic Acids Res 1997, 25:3389-3402. PubMed Abstract | Publisher Full Text | PubMed Central Full Text OpenURL

  17. Florea L, Hartzell G, Zhang Z, Rubin GM, Miller W: A computer program for aligning a cDNA sequence with a genomic DNA sequence.

    Genome Res 1998, 8:967-974. PubMed Abstract | Publisher Full Text OpenURL

  18. Powell JR: Progress and prospects in evolutionary biology: the Drosophila model.

    New York: Oxford University Press 1997, 344-420. OpenURL

  19. Shendure J, Church GM: Computational discovery of sense-antisense transcription in the human and mouse genomes.

    Genome Biol 2002, 3:research0044.1-0044.14. PubMed Abstract | BioMed Central Full Text | PubMed Central Full Text OpenURL

  20. Kaminker JS, Bergman C, Kronmiller B, Carlson J, Svirskas R, Patel S, Frise E, Wheeler DL, Lewis SE, Rubin GM, et al.: The transposable elements of the Drosophila melanogaster euchromatin - a genomics perspective.

    Genome Biol 2002, 3:research0084.1-0084.20. PubMed Abstract | BioMed Central Full Text | PubMed Central Full Text OpenURL

  21. Walhout AJ, Temple GF, Brasch MA, Hartley JL, Lorson MA, van den Heuvel S, Vidal M: GATEWAY recombinational cloning: application to the cloning of large numbers of open reading frames or ORFeomes.

    Methods Enzymol 2000, 328:575-592. PubMed Abstract OpenURL

  22. BD Creator™ Gene Expression Systems [http://www.clontech.com/products/families/creator/index.shtml]
  23. Orbigen [http://www.orbigen.com]
  24. Bass BL: RNA editing by adenosine deaminases that act on RNA.

    Annu Rev Biochem 2002, 71:817-846. PubMed Abstract | Publisher Full Text OpenURL

  25. Palladino MJ, Keegan LP, O'Connell MA, Reenan RA: A-to-I pre-mRNA editing in Drosophila is primarily involved in adult nervous system function and integrity.

    Cell 2000, 102:437-449. PubMed Abstract | Publisher Full Text OpenURL

  26. Ma E, Tucker M, Chen Q, Haddad G: Developmental expression and enzymatic activity of pre-mRNA deaminase in Drosophila melanogaster.

    Brain Res Mol Brain Res 2002, 102:100-104. PubMed Abstract | Publisher Full Text OpenURL

  27. Smith LA, Peixoto AA, Hall JC: RNA editing in the Drosophila DMCA1A calcium-channel α1 subunit transcript.

    J Neurogenet 1998, 12:227-240. PubMed Abstract OpenURL

  28. Reenan RA, Hanrahan CJ, Barry G: The mlenapts RNA helicase mutation in Drosophila results in a splicing catastrophe of the para Na+ channel transcript in a region of RNA editing.

    Neuron 2000, 25:139-149. PubMed Abstract | Publisher Full Text OpenURL

  29. Semenov EP, Pak WL, Related Articles, Links: Diversification of Drosophila chloride channel gene by multiple posttranscriptional mRNA modifications.

    J Neurochem 1999, 72:66-72. PubMed Abstract | Publisher Full Text OpenURL

  30. Allen JM, Baetge EE, Abrass IB, Palmiter RD: Isoproterenol response following transfection of the mouse β2-adrenergic receptor gene into Y1 cells.

    EMBO J 1988, 7:133-138. PubMed Abstract OpenURL

  31. Kobilka BK, Dixon RA, Frielle T, Dohlman HG, Bolanowski MA, Sigal IS, Yang-Feng TL, Francke U, Caron MG, Lefkowitz RJ: cDNA for the human-adrenergic receptor: a protein with multiple β2 membrane-spanning domains and encoded by a gene whose chromosomal location is shared with that of the receptor for platelet-derived growth factor.

    Proc Natl Acad Sci USA 1987, 84:46-50. PubMed Abstract | PubMed Central Full Text OpenURL

  32. cDNA production process flow [http://www.fruitfly.org/DGC/FLSWorkflow.html]
  33. The Phred/Phrap/Consed system home page [http://www.phrap.org]
  34. Kimmel B, Palazzolo MJ, Martin CH, Boeke JD, Devine SE: Transposon-mediated DNA sequencing.

    In Genome Analysis: a laboratory manual. Analyzing DNA. (Edited by: Birren B, Green ED, Klapholz S, Myers RM, Roskams J). Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press 1997, 455-532. OpenURL

  35. Veklerov E, Martin CH, Theil EH: TRAMP: a software package for generating transposon maps.

    Comput Appl Biosci 1995, 11:173-179. PubMed Abstract OpenURL

  36. Cawley SE, Speed TP: DNA sequencing with transposons.

    J Comput Biol 2000, 7:717-729. PubMed Abstract | Publisher Full Text OpenURL

  37. Ewing B, Hillier L, Wendl MC, Green P: Base-calling of automated sequencer traces using phred. I. Accuracy assessment.

    Genome Res 1998, 8:175-185. PubMed Abstract | Publisher Full Text OpenURL

  38. Ewing B, Green P: Base-calling of automated sequencer traces using phred. II. Error probabilities.

    Genome Res 1998, 8:186-194. PubMed Abstract | Publisher Full Text OpenURL

  39. Mammalian Gene Collection [http://mgc.nci.nih.gov]