Roderic Guigo

Personal Home Page

http://www1.imim.es/~rguigo/

Articles in Scholarly Journals [Incomplete List]

  1. Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
    Nature, vol. 447, no. 7146, Article ID nature05874, 17 pages, 2007
  2. The implications of alternative splicing in the ENCODE protein complement
    Proceedings of the National Academy of Sciences, vol. 104, no. 13, pp. 5495–5500, 2007
  3. BioMoby web services to support clustering of co-regulated genes based on similarity of promoter configurations
    Bioinformatics, vol. 23, no. 14, pp. 1831–1833, 2007
  4. Pseudogenes in the ENCODE regions: Consensus annotation, analysis of transcription, and evolution
    Genome Research, vol. 17, no. 6, pp. 839–851, 2007
  5. Improving gene annotation using peptide mass spectrometry
    Genome Research, vol. 17, no. 2, pp. 231–239, 2007
  6. Structured RNAs in the ENCODE selected regions of the human genome
    Genome Research, vol. 17, no. 6, pp. 852–864, 2007
  7. Prominent use of distal 5' transcription start sites and discovery of a large number of additional exons in ENCODE regions
    Genome Research, vol. 17, no. 6, pp. 746–759, 2007
  8. The DART classification of unannotated transcription within the ENCODE regions: Associating transcription with known and novel loci
    Genome Research, vol. 17, no. 6, pp. 732–745, 2007
  9. Multiple non-collinear TF-map alignments of promoter regions
    BMC Bioinformatics, vol. 8, no. 1, p. 138, 2007
  10. Genome Biology, vol. 7, no. 4, p. R33, 2006
  11. Transcription Factor Map Alignment of Promoter Regions
    PLoS Computational Biology, vol. 2, no. 5, p. e49, 2006
  12. Global trends of whole-genome duplications revealed by the ciliate Paramecium tetraurelia
    Nature, vol. 444, no. 7116, Article ID nature05230, 7 pages, 2006
  13. Unweaving the Meanings of Messenger RNA Sequences
    Molecular Cell, vol. 23, no. 2, pp. 150–151, 2006
  14. EGASP: collaboration through competition to find human genes
    Nature Methods, vol. 2, no. 8, Article ID nmeth0805-575, 2 pages, 2005
  15. Gene Organization Features in A/T-Rich Organisms
    Journal of Molecular Evolution, vol. 60, no. 1, pp. 90–98, 2005
  16. Are splicing mutations the most frequent cause of hereditary disease?
    FEBS Letters, vol. 579, no. 9, pp. 1900–1903, 2005
  17. Regulation of Fas Alternative Splicing by Antagonistic Effects of TIA-1 and PTB on Exon Definition
    Molecular Cell, vol. 19, no. 4, pp. 475–484, 2005
  18. From the Cover: Diversity and functional plasticity of eukaryotic selenoproteins: Identification and characterization of the SelJ family
    Proceedings of the National Academy of Sciences, vol. 102, no. 45, pp. 16188–16193, 2005
  19. ECCB/JBI 2005
    Bioinformatics, vol. 21, no. suppl_2, pp. ii1–ii2, 2005
  20. Comparative gene finding in chicken indicates that we are closing in on the set of multi-exonic widely expressed human genes
    Nucleic Acids Research, vol. 33, no. 6, pp. 1935–1939, 2005
  21. Nematode selenoproteome: the use of the selenocysteine insertion system to decode one codon in an animal genome?
    Nucleic Acids Research, vol. 33, no. 7, pp. 2227–2238, 2005
  22. Comparison of splice sites in mammals and chicken
    Genome Research, vol. 15, no. 1, pp. 111–119, 2005
  23. Tandem chimerism as a means to increase protein complexity in the human genome
    Genome Research, vol. 16, no. 1, pp. 37–44, 2005
  24. BMC Bioinformatics, vol. 6, no. 1, p. 131, 2005
  25. The ENCODE (ENCyclopedia Of DNA Elements) Project
    Science, vol. 306, no. 5696, pp. 636–640, 2004
  26. Comparative Analysis of Amino Acid Repeats in Rodents and Humans
    Genome Research, vol. 14, no. 4, pp. 549–554, 2004
  27. Splice site identification by idlBNs
    Bioinformatics, vol. 20, no. suppl_1, pp. i69–i76, 2004
  28. Reconsidering the evolution of eukaryotic selenoproteins: a novel nonmammalian family with scattered phylogenetic distribution
    EMBO reports, vol. 5, no. 1, Article ID 7400036, 6 pages, 2004
  29. Recent advances in gene structure prediction
    Current Opinion in Structural Biology, vol. 14, no. 3, pp. 264–272, 2004
  30. Comparison of mouse and human genomes followed by experimental verification yields an estimated 1,019 additional genes
    Proceedings of the National Academy of Sciences, vol. 100, no. 3, pp. 1140–1145, 2003
  31. Transcriptional network controlled by the trithorax-group gene ash2 in Drosophila melanogaster
    Proceedings of the National Academy of Sciences, vol. 100, no. 6, pp. 3293–3298, 2003
  32. gff2aplot: Plotting sequence comparisons
    Bioinformatics, vol. 19, no. 18, pp. 2477–2479, 2003
  33. Characterization of Mammalian Selenoproteomes
    Science, vol. 300, no. 5624, pp. 1439–1443, 2003
  34. Comparative Gene Prediction in Human and Mouse
    Genome Research, vol. 13, no. 1, pp. 108–117, 2003
  35. The Genome Sequence of the Malaria Mosquito Anopheles gambiae
    Science, vol. 298, no. 5591, pp. 129–149, 2002
  36. Sequence and analysis of chromosome 2 of Dictyostelium discoideum
    Nature, vol. 418, no. 6893, Article ID nature00847, 6 pages, 2002
  37. Initial sequencing and comparative analysis of the mouse genome
    Nature, vol. 420, no. 6915, Article ID nature01262, 42 pages, 2002
  38. In silico identification of novel selenoproteins in the Drosophila melanogaster genome
    EMBO Reports, vol. 2, no. 8, Article ID embor369, 5 pages, 2001
  39. Exon structure conservation despite low sequence similarity: a relic of dramatic events in evolution?
    The EMBO Journal, vol. 20, no. 19, pp. 5354–5360, 2001
  40. SGP-1: Prediction and Validation of Homologous Genes Based on Sequence Alignments
    Genome Research, vol. 11, no. 9, pp. 1574–1583, 2001
  41. Fusion of the Human Gene for the Polyubiquitination Coeffector UEV1 with Kua, a Newly Identified Gene
    Genome Research, vol. 10, no. 11, pp. 1743–1756, 2000
  42. GeneID in Drosophila
    Genome Research, vol. 10, no. 4, pp. 511–515, 2000
  43. An Assessment of Gene Prediction Accuracy in Large DNA Sequences
    Genome Research, vol. 10, no. 10, pp. 1631–1642, 2000
  44. Genome sequence comparisons: Hurdles in the fast lane to functional genomics
    Briefings in Bioinformatics, vol. 1, no. 4, pp. 381–388, 2000
  45. gff2ps: visualizing genomic annotations
    Bioinformatics, vol. 16, no. 8, pp. 743–744, 2000
  46. Computational gene identification: an open problem
    Computers & Chemistry, vol. 21, no. 4, pp. 215–222, 1997
  47. Journal of Computer-Aided Molecular Design, vol. 11, no. 4, pp. 395–408, 1997
  48. Computational gene identification
    Journal of Molecular Medicine, vol. 75, no. 6, pp. 389–393, 1997
  49. Reconstruction of Ancient Molecular Phylogeny
    Molecular Phylogenetics and Evolution, vol. 6, no. 2, pp. 189–213, 1996
  50. Evaluation of Gene Structure Prediction Programs
    Genomics, vol. 34, no. 3, pp. 353–367, 1996
  51. Distinctive Sequence Features in Protein Coding Genic Non-coding, and Intergenic Human DNA
    Journal of Molecular Biology, vol. 253, no. 1, pp. 51–60, 1995
  52. Inferring correlation between database queries: analysis of protein sequence patterns
    IEEE Transactions on Pattern Analysis and Machine Intelligence, vol. 15, no. 10, pp. 1030–1041, 1993
  53. Prediction of gene structure*1
    Journal of Molecular Biology, vol. 226, no. 1, pp. 141–157, 1992
  54. Autoimmune response in AIDS
    Nature, vol. 345, no. 6270, Article ID 345026a0, 1 pages, 1990