Sequencing of production-scale synthetic oligonucleotides by enriching for coupling failures using matrix-assisted laser desorption/ionization time-of-flight mass spectrometry

Analytical Biochemistry

Volumn 301, Issue 1, 2002, Pages 57-64

  Alazard, David ^a   Filipowsky, Mark ^a   Raeside, Joanna ^b   Clarke, Maureen ^b   Majlessi, Mehrdad ^a   Russell, James ^a   Weisburg, William ^a  

^a Gen Probe Incorporated   (United States)

^b UNIVERSITY OF STRATHCLYDE   (United Kingdom)

Author keywords

Crude synthetic oligonucleotide coupling failures; MALDI TOF mass spectrometry; Oligonucleotide sequencing; Solid phase extraction

Indexed keywords

DESORPTION; FAILURE (MECHANICAL); MASS SPECTROMETRY; OLIGONUCLEOTIDES; PHASE SEPARATION;

MALDI-TOF MASS SPECTROMETRY; MASS SPECTROMETRIC SEQUENCING; MATRIX-ASSISTED LASER DESORPTION/IONIZATION TIME OF FLIGHTS; MATRIX-ASSISTED LASER DESORPTION/IONIZATION-TIME-OF-FLIGHT MASS SPECTROMETRY; PRODUCTION SCALE; SNAKE VENOM PHOSPHODIESTERASE; SOLID-PHASE EXTRACTION; SYNTHETIC MATERIALS;

EXTRACTION;

2' O METHYLRIBONUCLEOTIDE; BASE; DIMETHOXYTRITYL ION; ION; OLIGONUCLEOTIDE; PHOSPHODIESTERASE; POLYMER; REAGENT; RIBONUCLEOTIDE; SNAKE VENOM; SUGAR; UNCLASSIFIED DRUG;

ANALYTIC METHOD; ARTICLE; CHEMICAL BOND; CONTROLLED STUDY; EXTRACTION; INTERMETHOD COMPARISON; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; MOLECULAR WEIGHT; PRIORITY JOURNAL; PURIFICATION; SEQUENCE ANALYSIS; SIGNAL PROCESSING; SOLID PHASE EXTRACTION; STRUCTURE ANALYSIS;

SERPENTES;

EID: 0036467993     PISSN: 00032697     EISSN: None     Source Type: Journal    
DOI: 10.1006/abio.2001.5493     Document Type: Article

References (55)

1. Molecular tools for building nucleic acid IVDs
2. DNA sequencing with chain-terminating inhibitors
3. A new method for sequencing DNA
4. The analysis of mock DNA sequencing reactions using matrix-assisted laser desorption/ionization mass spectrometry
5. Analysis of enzymatic DNA sequencing reactions by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry
6. DNA sequencing by delayed extraction-matrix-assisted laser desorption/ionization time of flight mass spectrometry
7. A strategy for rapid and efficient DNA sequencing by mass spectrometry
8. Analyzing sequencing reactions from bacteriophage M13 by matrix-assisted laser desorption/ionization mass spectrometry
9. High-throughput DNA analysis by time-of-flight mass spectrometry
10. Matrix-assisted laser desorption/ionization for sequencing single-stranded and double-stranded DNA
11. Sequencing exons 5 to 8 of the p53 gene by MALDI-TOF mass spectrometry
12. Sequencing DNA using mass spectrometry for ladder detection
13. DNA sequence analysis by MALDI mass spectrometry
14. Four common mutations of the cystathionine beta-synthase gene detected by multiplex PCR and matrix-assisted laser desorption/ ionization time-of-flight mass spectrometry
15. Matrix-assisted laser desorption ionization time-of-flight mass spectrometry: A powerful tool for the mass and sequence analysis of natural and modified oligonucleotides
16. Enzymatic sequencing of oligonucleotides with electrospray mass spectrometry
17. Matrix assisted laser desorption/ionization mass spectrometry of enzymatically synthesized RNA up to 150 kDa
18. Sequencing of oligonucleotides using high performance liquid chromatography and electrospray mass spectrometry
19. Sequence analysis of phosphorothioate oligonucleotides via matrix-assisted laser desorption ionization time-of-flight mass spectrometry
20. Sequencing oligonucleotides by exonuclease digestion and delayed extraction matrix-assisted laser desorption ionization time-of-flight mass spectrometry
21. Oligonucleotide sequence and composition determined by matrix-assisted laser desorption/ionization
22. A sequencing method for RNA oligonucleotides based on mass spectrometry
23. Base specificity of oligonucleotide digestion by calf spleen phosphodiesterase with matrix-assisted laser desorption ionization analysis
24. Aspects of oligonucleotide and peptide sequencing with MALDI and electrospray mass spectrometry
25. Sequencing regular and labeled oligonucleotides using enzymatic digestion and ionspray mass spectrometry
26. Sequencing oligonucleotides with blocked termini using exonuclease digestion and electrospray mass spectrometry
27. Improved oligonucleotide sequencing by alkaline phosphatase and exonuclease digestions with mass spectrometry
28. Chemical sequencing of phosphorothioate oligonucleotides using matrix-assisted laser desorption/ionization time-of-flight mass spectrometry
29. Chemical cleavage sequencing of DNA using matrix-assisted laser desorption/ionization time-of-flight mass spectrometry
30. Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry of chemically modified oligonucleotides
31. Tandem mass spectrometry of small, multiply charged oligonucleotides
32. Decompositions of multiply charged oligonucleotide anions
33. Oligonucleotide sequencing using guanine-specific methylation and electrospray ionization ion trap mass spectrometry
34. Rapid sequencing of oligonucleotides by high-resolution mass spectrometry
35. Verification of 50- to 100-mer DNA and RNA sequences with high-resolution mass spectrometry
36. Sequence information from 42-108-mer DNAs (complete for a 50-mer) by tandem mass spectrometry
37. Analysis of nucleic acids by ion-spray mass spectrometry
38. Antisense DNA oligonucleotides. I. The use of ionspray tandem mass spectrometry for the sequence verification of methylphosphonate oligodeoxyribonucleotides
39. Characterization of oligonucleotides and nucleic acids by mass spectrometry
40. Electrospray tandem mass spectrometry of nucleotides
41. Interpretation of oligonucleotide mass spectra for determination of sequence using electrospray ionization and tandem mass spectrometry
42. Electrospray collision-induced dissociation mass spectra of positively charged oligonucleotides
43. Double stranded DNA sequencing by tandem mass spectrometry
44. Characterization of labeled oligonucleotides using enzymatic digestion and tandem mass spectrometry
45. Tandem mass spectrometry studies of a carcinogen modified oligodeoxynucleotide
46. Aspects of the sequencing of carbohydrates and oligonucleotides by matrix-assisted laser desorption/ionization post-source decay
47. Matrix-assisted laser desorption/ionization Fourier-transform mass spectrometry of oligodeoxyribonucleotides
48. Direct mass spectrometric sequencing of low pmol amounts of oligonucleotides with up to 21 bases by matrix-assisted laser desorption/ionization mass spectrometry
49. Applications of delayed extraction matrix-assisted laser desorption ionization time-of-flight mass spectrometry to oligonucleotide analysis
50. Sequencing of modified oligonucleotides using in-source fragmentation and delayed pulsed ion extraction matrix-assisted laser desorption ionization time-of-flight mass spectrometry
51. Oligonucleotide sequencing by fragmentation in matrix-assisted laser desorption/ionization time-of-flight mass spectrometry
52. Antisense DNA oligonucleotides. II. The use of matrix-assisted laser desorption/ionization mass spectrometry for the sequence verification of methylphosphonate oligodeoxyribonucleotides
53. Detailed characterization of antisense DNA oligonucleotides
54. Rapid, non-isotopic DNA probe assays for the detection of infectious disease, cancer and genetic disease