Digging for dead genes: An analysis of the characteristics of the pseudogene population in the Caenorhabditis elegans genome

Nucleic Acids Research

Volumn 29, Issue 3, 2001, Pages 818-830

  Harrison, P M ^a   Echols, N ^a   Gerstein, M B ^a  

^a YALE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALANINE; AMINO ACID; ASPARTIC ACID; DNA; GLUTAMIC ACID; GLYCINE; IMMUNOGLOBULIN; ISOLEUCINE; LECTIN; LEUCINE; LYSINE; MEMBRANE RECEPTOR; PHENYLALANINE; PROTEOME; RNA;

AMINO ACID COMPOSITION; ARTICLE; CAENORHABDITIS ELEGANS; CHROMOSOME 4; CHROMOSOME ARM; CONTROLLED STUDY; GENE ASSIGNMENT; GENETIC ANALYSIS; GENOME; MULTIGENE FAMILY; NONHUMAN; POPULATION DENSITY; PRIORITY JOURNAL; PROTEIN FAMILY; PROTEIN FOLDING; PSEUDOGENE; RNA TRANSLATION;

CAENORHABDITIS ELEGANS; INVERTEBRATA; NEMATODA;

EID: 0035253528     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/29.3.818     Document Type: Article

References (44)

1. Non-viral retroposons: Genes, pseudogenes and transposable elements generated by the reverse flow of genetic information
2. Processed pseudogenes: Characteristics and evolution
3. Vertebrate pseudogenes
4. Neuronal expression of neural nitric oxide synthase (nNOS) protein is suppressed by an antisense RNA transcribed from an NOS pseudogene
5. Cloning, mRNA localization and evolutionary conservation of a human 5HT7 receptor pseudogene
6. Detection of a putative hla-a*31012 Processed pseudogene in a laryngeal squamous cell carcinoma
7. Transcriptional analysis of the PTEN1/MMAC1 pseudogene, pisPTEN
8. Structure, expression and duplication of genes which encode phosphoglycerate mutase of D. melanogaster
9. Unusual molecular evolution of an Adh pseudogene in Drosophila
10. High intrinsic rate of DNA loss in Drosophila
11. Patterns of nucleotide substitutions in pseudogenes and functional genes
12. Nonrandomness of point mutation as reflected in nucleotide substitutions in pseudogenes and its evolutionary implications
13. Evidence for a high frequency of simultaneous double-nucleotide substitutions
14. The size distribution of insertions and deletions in human and rodent pseudogenes suggests the logarithmic gap penalty for sequence alignment
15. Patterns and rates of indel evolution in processed pseudogenes from humans and murids
16. Evidence for DNA loss as a determinant of genome size
17. Evolution of immunoglobulin VH pseudogenes in chickens
18. Nature and structure of human genes that generate retropseudogenes
19. Genome sequence of the nematode C. elegans: A platform for investigating biology
20. Two large families of chemoreceptor genes in the nematodes C. elegans and C. briggsae reveal extensive gene duplication, diversification, movement and intron loss
21. The large srh family of chemoreceptor genes in Caenorhabditis nematodes reveals processes of genome evolution involving large duplications and deletions and intron gains and losses
22. A structural census of genomes: Comparing bacterial, Eukaryotic and Archaeal genomes in terms of protein structure
23. Proteins Folds in the Worm Genome
24. Analysis of the yeast transcriptome with broad structural and functional categories: Characterizing highly expressed proteins
25. Analysis of expressed sequence tags indicates 35,000 human genes
26. Gene index analysis of the human genome estimates approximately 120,000 genes
27. A global profile of germline expression in C. elegans
28. Analysis of compositionally biased regions in sequence databases
29. Comparison of DNA sequences with protein sequences
30. ProtoMap: Automatic classification of protein sequences and hierarchy of protein families
31. Rte-1, a retrotransposon-like element in Caenorhabditis elegans
32. Computer analyses reveal a hobo-like element in the nematode C.elegans, which presents a conserved transposase domain common with the Tcl-Mariner transposon family
33. Genomic analysis of C.elegans reveals ancient families of retro-viral-like elements
34. Selection of representative protein data sets
35. Patterns of protein fold usage in eight microbial genomes: A comprehensive structural census
36. The intronerator: Exploring introns and alternative splicing in C.elegans
37. An amber mutation of prion protein in Gerstmann-Straussler-Scheinker syndrome with mutant PrP plaques
38. Comparison of the complete protein sets of worm and yeast: Orthology and divergence
39. The DNA sequence of human chromosome 22
40. Biased usages of arginines and lysines in proteins are correlated with local-scale fluctuations of the G+C content of DNA sequences
41. How representative are the sequences in a genome? A comprehensive structural census
42. SCOP: A structural classification of proteins database for the investigation of sequences and structures
43. A structural census of the current population of protein sequences
44. Gapped BLAST and psi-BLAST: A new generation of protein database search programs