Base-calling of automated sequencer traces using phred. II. Error probabilities

Genome Research

Volumn 8, Issue 3, 1998, Pages 186-194

  Ewing, Brent ^a   Green, Phil ^a  

^a UNIVERSITY OF WASHINGTON   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; DNA BASE;

ARTICLE; AUTOANALYSIS; COMPUTER PROGRAM; DNA SEQUENCE; ERROR; INFORMATION PROCESSING; PRIORITY JOURNAL;

EID: 0031978181     PISSN: 10889051     EISSN: None     Source Type: Journal    
DOI: 10.1101/gr.8.3.186     Document Type: Article

References (8)

1. Berno, A.J. 1996. A graph theoretic approach to the analysis of DNA sequencing data. Genome Res. 6: 80-91.
2. Ewing, B., L. Hillier, M. Wendl, and P. Green. 1998. Base-calling of automated sequencer traces using Phred. I. Accuracy assessment. Genome Res. (this issue).
3. Giddings, M.C., R.L. Brumley Jr., M. Haker, and L.M. Smith. 1993. An adaptive, object oriented strategy for base calling in DNA sequence analysis. Nucleic Acids Res. 21: 4530-4540.
4. Golden, J.B., D. Torgersen, and C. Tibbetts. 1993. Pattern recognition for automated DNA sequencing: I. On-line signal conditioning and feature extraction for basecalling. In Proceedings of the First International Conference on Intelligent Systems for Molecular Biology (ed. L. Hunter, D. Searls, and J. Shavlick), pp. 136-144. AAAI Press, Menlo Park, CA.
5. Gordon, D., C. Abajian, and P. Green. 1998. Consed: A graphical tool for sequence finishing. Genome Res. (this issue).
6. Lawrence, C.B. and V.V. Solovyev. 1994. Assignment of position-specific error probability to primary DNA sequence data. Nucleic Acids Res. 22: 1272-1280.
7. Lee, L.G., C.R. Connell, S.L. Woo, R.D. Cheng, B.F. MacArdle, C.W. Fuller, N.D. Halloran, and R.K. Wilson. 1992. DNA sequencing with dye-labeled terminators and T7 DNA polymerase: Effect of dyes and dNTPs on incorporation of dye-terminators and probability analysis of termination fragments. Nucleic Acids Res. 20: 2471-2483.
8. Parker, L.T., H. Zakeri, Q. Deng, S. Spurgeon, P.-Y. Kwok, and D.A. Nickerson. 1996. AmpliTaq DNA polymerase, FS dye-terminator sequencing: Analysis of peak height patterns. BioTechniques 21: 694-699.