Informatics and multiplexing of intact protein identification in bacteria and the archaea

Nature Biotechnology

Volumn 19, Issue 10, 2001, Pages 952-957

  Meng, Fanyu ^a   Cargile, Benjamin J ^a   Miller, Leah M ^a   Forbes, Andrew J ^a   Johnson, Jeffrey R ^a   Kelleher, Neil L ^a  

^a UNIVERSITY OF ILLINOIS AT URBANA CHAMPAIGN   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

COMPUTER SOFTWARE; GENES; MASS SPECTROMETRY; PROBABILITY; PROTEINS;

INFORMATICS;

BIOTECHNOLOGY;

ARCHAEAL PROTEIN; BACTERIAL PROTEIN;

AMINO ACID SEQUENCE; ARCHAEBACTERIUM; ARTICLE; AUTOMATION; BACTERIUM; DATA BASE; INFORMATION SCIENCE; MASS SPECTROMETRY; NONHUMAN; PEPTIDE MAPPING; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN PHOSPHORYLATION; PROTEIN PROCESSING; STATISTICAL MODEL;

ALGORITHMS; ALKALINE PHOSPHATASE; AMINO ACID SEQUENCE; ARCHAEAL PROTEINS; BACTERIAL PROTEINS; COMPUTATIONAL BIOLOGY; CYCLIN-DEPENDENT KINASES; DATABASES, FACTUAL; INFORMATION STORAGE AND RETRIEVAL; IONS; MASS SPECTROMETRY; METHANOCOCCUS; MODELS, STATISTICAL; MOLECULAR SEQUENCE DATA; MYCOPLASMA PNEUMONIAE; PROBABILITY;

EID: 0034794886     PISSN: 10870156     EISSN: None     Source Type: Journal    
DOI: 10.1038/nbt1001-952     Document Type: Article

References (44)

1. Error-tolerant identification of peptides in sequence databases by peptide sequence tags
2. Search of sequence databases with uninterpreted high-energy collision-induced dissociation spectra of peptides
3. Quantitative analysis of complex protein mixtures using isotopecoded affinity tags
4. Enrichment of low abundance proteins of Escherichia coli by hydroxyapatite chromatography
5. Large-scale analysis of the yeast proteome by multidimensional protein identification technology
6. Towards a two-dimensional proteome map of Mycoplasma pneumoniae
7. High-throughput mass spectrometric discovery of protein post-translational modifications
8. Enrichment analysis of phosphorylated proteins as a tool for probing the phosphoproteome
9. A systematic approach to the analysis of protein phosphorylation
10. Quantitative proteomics?
11. Top down versus bottom up protein characterization by tandem high-resolution mass spectrometry
12. Identifying proteins using matrix-assisted laser desorption/ionization in-source fragmentation data combined with database searching
13. Identification of bacteriophage MS 2 coat protein from E. Coli lysates via ion trap collisional activation of intact protein ions
14. Differential screening and mass mapping of proteins from premalignant and cancer cell lines using nonporous reversed-phase HPLC coupled with mass spectrometric analysis
15. Efficient sequence analysis of the six gene products (7-74 kDa) from the Escherichia coli thiamine biosynthetic operon by tandem high-resolution mass spectrometry
16. Toward efficient analysis of >70 kDa proteins with 100% sequence coverage
17. Sequence tag identification of intact proteins by matching tandem mass spectral data against sequence databases
18. Thiaminase I (42 kDa) heterogeneity, sequence refinement, and active site location from high-resolution tandem mass spectrometry
19. Identification of intact proteins in mixtures by alternated capillary liquid chromatography electrospray ionization and LC ESI infrared multiphoton dissociation Fourier transform ion cyclotron resonance mass spectrometry
20. Probability-based protein identification by searching sequence databases using mass spectrometry data
21. ProFound: An expert system for protein identification using mass spectrometric peptide mapping information
22. Accurate mass multiplexed tandem mass spectrometry for high-throughput polypeptide identification from mixtures
23. Determination of monoisotopic masses and ion populations for large biomolecules from resolved isotopic distributions
24. 17+ ions of human hemoglobin b-chain
25. Activated ion electron capture dissociation for mass spectral sequencing of larger (42 kDa) proteins
26. 2 control on the expression of flagella in the hyperthermophilic strictly hydrogenotrophic methanarchaeaon Methanococcus jannaschii
27. Mutation of serine-46 to aspartate in the histidine-containing protein of Escherichia coli mimics the inactivation by phosphorylation of serine-46 in HPrs from gram-positive bacteria
28. Mapping of phosphorylation sites of gel-isolated proteins by nanoelectrospray tandem mass spectrometry: Potentials and limitations
29. Electron capture dissociation of multiply-charged protein cations. A nonergodic process
30. Localization of labile post-translational modifications by electron capture dissociation: The case of g-carboxyglutamic acid
31. Design and performance of an ESI interface for selective external ion accumulation coupled to a Fourier transform ion cyclotron mass spectrometer
32. Accurate quantitation of protein expression and site-specific phosphorylation
33. Reactor-scale cultivation of the hyperthermophilic methanarchaeon Methanococcus jannaschii to high cell densities
34. Recovery of human Mycoplasmas
35. Micro-electrospray mass spectrometry: Ultra-high-sensitivity analysis of peptides and proteins
36. External trapped ionsource for ion cyclotron resonance spectrometry
37. External accumulation of ions for enhanced electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry
38. Automated reduction and interpretation of high-resolution electrospray mass spectra of large molecules
39. Tandem mass spectrometry of very large molecules: Serum albumin sequence information from multiply charged ions formed by electrospray ionization
40. Infrared multiphoton dissociation of large multiply charged ions for biomolecule sequencing
41. Sustained off-resonance irradiation for collision-activated dissociation involving Fourier-transform mass-spectrometery-collision-activated dissociation technique that emulates infrared multiphoton dissociation
42. A high-performance modular data system for Fourier transform ion cyclotron resonance mass spectrometry