WO2005110955A1 - Acetophenones substituees utilisees comme agents de spectrometrie de masse - Google Patents
Acetophenones substituees utilisees comme agents de spectrometrie de masse Download PDFInfo
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- WO2005110955A1 WO2005110955A1 PCT/SE2005/000677 SE2005000677W WO2005110955A1 WO 2005110955 A1 WO2005110955 A1 WO 2005110955A1 SE 2005000677 W SE2005000677 W SE 2005000677W WO 2005110955 A1 WO2005110955 A1 WO 2005110955A1
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- Prior art keywords
- reagent
- bromoacetophenone
- reagents
- labelled
- acid
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- 0 CC(CCN(C)*)=O Chemical compound CC(CCN(C)*)=O 0.000 description 3
Classifications
-
- C—CHEMISTRY; METALLURGY
- C07—ORGANIC CHEMISTRY
- C07C—ACYCLIC OR CARBOCYCLIC COMPOUNDS
- C07C49/00—Ketones; Ketenes; Dimeric ketenes; Ketonic chelates
- C07C49/76—Ketones containing a keto group bound to a six-membered aromatic ring
- C07C49/80—Ketones containing a keto group bound to a six-membered aromatic ring containing halogen
-
- C—CHEMISTRY; METALLURGY
- C07—ORGANIC CHEMISTRY
- C07C—ACYCLIC OR CARBOCYCLIC COMPOUNDS
- C07C309/00—Sulfonic acids; Halides, esters, or anhydrides thereof
- C07C309/01—Sulfonic acids
- C07C309/28—Sulfonic acids having sulfo groups bound to carbon atoms of six-membered aromatic rings of a carbon skeleton
- C07C309/44—Sulfonic acids having sulfo groups bound to carbon atoms of six-membered aromatic rings of a carbon skeleton containing doubly-bound oxygen atoms bound to the carbon skeleton
-
- C—CHEMISTRY; METALLURGY
- C07—ORGANIC CHEMISTRY
- C07C—ACYCLIC OR CARBOCYCLIC COMPOUNDS
- C07C317/00—Sulfones; Sulfoxides
- C07C317/24—Sulfones; Sulfoxides having sulfone or sulfoxide groups and doubly-bound oxygen atoms bound to the same carbon skeleton
-
- C—CHEMISTRY; METALLURGY
- C07—ORGANIC CHEMISTRY
- C07C—ACYCLIC OR CARBOCYCLIC COMPOUNDS
- C07C317/00—Sulfones; Sulfoxides
- C07C317/44—Sulfones; Sulfoxides having sulfone or sulfoxide groups and carboxyl groups bound to the same carbon skeleton
-
- C—CHEMISTRY; METALLURGY
- C07—ORGANIC CHEMISTRY
- C07C—ACYCLIC OR CARBOCYCLIC COMPOUNDS
- C07C45/00—Preparation of compounds having >C = O groups bound only to carbon or hydrogen atoms; Preparation of chelates of such compounds
- C07C45/45—Preparation of compounds having >C = O groups bound only to carbon or hydrogen atoms; Preparation of chelates of such compounds by condensation
- C07C45/46—Friedel-Crafts reactions
-
- C—CHEMISTRY; METALLURGY
- C07—ORGANIC CHEMISTRY
- C07B—GENERAL METHODS OF ORGANIC CHEMISTRY; APPARATUS THEREFOR
- C07B2200/00—Indexing scheme relating to specific properties of organic compounds
- C07B2200/05—Isotopically modified compounds, e.g. labelled
-
- G—PHYSICS
- G01—MEASURING; TESTING
- G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
- G01N2458/00—Labels used in chemical analysis of biological material
- G01N2458/15—Non-radioactive isotope labels, e.g. for detection by mass spectrometry
Definitions
- MS mass spectrometry
- proteomics The field of research known as proteomics involves the systematic identification of all proteins expressed by a particular cell or tissue type at a given time, quantitative analysis of the differences in protein expression observed between two different cell states, (e.g. normal versus diseased), and identification and characterization of the protein modifications, protein complexes and specific protein-protein interactions involved in the control of cellular function.
- MS biological mass spectrometry
- MS/MS tandem mass spectrometry
- Identification of these selected peptides is then performed by either database analysis of the uninterpreted product ion spectrum, through database searching of a partially derived amino acid "sequence tag", or by "de-novo" sequence analysis.
- One of the limitations of this general analysis strategy is that typically, peptides observed at high relative abundance are preferentially selected for analysis, such that information regarding the identity of proteins represented as low abundance peptides is commonly not obtained.
- a fundamental aspect of proteomics research is the determination of protein expression levels between two different states of a biological system (i.e., relative quantification of protein levels), such as that encountered between a normal and diseased cell or tissue.
- relative quantification of protein levels i.e., relative quantification of protein levels
- One approach involves the in vivo metabolic incorporation of isotopically depleted ( 13 C-, 15 N-, and 2 H-depleted) or enriched amino acids (either by uniform labelling with 15 N, or by incorporation of selected amino acids containing heavy isotopes (eg., 13 C, 15 N, 2 H)) into a cellular protein population.
- isotopically depleted 13 C-, 15 N-, and 2 H-depleted
- enriched amino acids either by uniform labelling with 15 N, or by incorporation of selected amino acids containing heavy isotopes (eg., 13 C, 15 N, 2 H)
- the sample is combined with one incorporating natural isotopes, then the combined protein mixture is subjected to proteolysis and the masses of the peptides determined by MS as described above.
- cysteine containing proteins from two different cell/tissue states are reduced and S-alkylated with either naturally abundant (light) or isotopically enriched (heavy) ICAT reagents, respectively, each containing a biotin moiety for subsequent affinity selection of cysteine-containing peptides following proteolysis by streptavidin affinity purification, leading to simplification of the mixture prior to MS analysis.
- the present inventors have developed novel reagents for the selective identification and differential quantitation of peptides containing selected amino acids, using tandem mass spectrometry, having an increase in selectively and sensitivity of several orders of magnitude over existing reagents.
- the present invention provides reagents for introducing a fixed charge to a protein/peptide.
- the fixed-charge may be contained on the side-chain of a selected amino acid, or the side-chain of a selected amino acid residue contained within a protein or peptide.
- the selected amino acid residue is methionine.
- the fixed-charge includes a sulfonium ion.
- the present invention is based on the fixed charge derivative contained within a peptide ion directing the MS/MS dissociation of peptides containing the fixed charge toward a single predictable fragmentation channel with the formation of a single product ion characteristic of fragmentation occurring at the fixed-charge site, thereby allowing its selective identification from a complex mixture without need for prior resolution or otherwise enrichment of the peptide from a complex mixture prior to its analysis.
- tandem mass spectrometry Analysis of derivatized proteins/peptides may be performed by tandem mass spectrometry.
- the tandem mass spectrometer may be equipped with electrospray ionization (ESI) or matrix assisted laser desorption ionization (MALDI) interfaces to transfer the protein or peptide ion from solution into the gas-phase.
- ESI electrospray ionization
- MALDI matrix assisted laser desorption ionization
- the reagents of the present invention may be used for the selective identification of peptides.
- the reagents of the present invention may be used for the differential quantitation of peptide concentrations between two different samples, by incorporation of stable isotope labels to the reagent, to yield a 'light' form (containing only natural isotopes), and a 'heavy' form (containing isotopic or structural labels incorporated into the substituent).
- the present inventors have discovered that a mass difference of at least 8 Daltons between 'light' and 'heavy' reagents is desired to enable sensitive and accurate differential quantitative analysis.
- the general form of the reagents of the present invention allows a mass difference of at least 8 Daltons and up to 13 Daltons between 'light' and 'heavy' reagents.
- the present invention relates to use of substituted acetophenone reagents in MS analysis, especially comparative MS analysis.
- the MS analysis is MS/MS analysis.
- the invention relates to a substituted acetophenone, or a salt thereof, or a solvate thereof, having the following formula:
- X is CI, Br, I, sulfonic esters, perchlorate esters and chlorosulfonates
- A is H or 2 H (D);
- R is H, 2 U (D), 13 CH 3 , 13 CH 2 13 CH 3 , 13 CH 2 13 CH 2 13 CH 3 , 13 CH 2 13 CO 2 H, 13 CH 2 13 CH 2 13 CO 2 H, O 13 CH 3 , O 13 CH 2 13 CH 3 , O 13 CH 2 13 CO 2 H, O 13 CH 2 13 CH 2 13 CO 2 H, SO 2 13 CH 3 , SO 2 13 CH 2 13 CH 3 , SO 2 13 CH 2 13 CH 2 13 CH 3 , SO 2 13 CH 2 13 CO 2 H, SO 2 13 CH 2 13 CH 2 13 CO 2 H, or SO 3 H.
- the invention also relates to novel acetophenones having the formula above, and wherein
- X is CI, Br, I, sulfonic esters, perchlorate esters and chlorosulfonates,
- A is H
- R 9 is SO 2 CH 2 CO 2 H or SO 2 CH 2 CH 2 CO 2 H.
- a preferred substituted acetophenone has the following formula 13 C 8 - bromoacetophenone
- this substituted acetophenone gives a mass difference of 8 Daltons compared to the normal isotopic variant.
- Another preferred substituted acetophenone is one according to the above formula, wherein the hydrogens on Ri are substituted for H (D).
- this substituted acetophenone gives a mass difference of 10 Daltons compared to the normal isotopic variant.
- a further preferred substituted acetophenone has the following formula O H
- this substituted acetophenone gives a mass difference of 9 Daltons compared to the normal isotopic variant.
- Yet another further preferred substituted acetophenone is one according to the above formula, wherein the hydrogens on Ri are substituted for 2 H (D).
- This substituted acetophenone reagent gives a mass difference of 10 Daltons compared to the normal isotopic variant.
- Yet another further preferred substituted acetophenone is one according to the above formula, wherein the hydrogens on Ri are substituted for 2 H (D).
- This substituted acetophenone reagent gives a mass difference of 12 Daltons compared to the normal isotopic variant.
- a further preferred substituted acetophenone reagent has the following formula 13 C ⁇ o - jt?-propyl-bromoacetophenone
- This substituted acetophenone reagent gives a mass difference of 11 Daltons compared to the normal isotopic variant.
- Yet another further preferred substituted acetophenone is one according to the above formula, wherein the hydrogens on Ri are substituted for H (D).
- This substituted acetophenone reagent gives a mass difference of 13 Daltons compared to the normal isotopic variant.
- the invention provides MS reagents comprising substituted acetophenones as described above.
- the invention relates to use of these acetophenones as reagents, particularly MS reagents.
- Preferred MS-reagents are I3 C 8 - bromoacetophenone, D2, 3 C 8 - bromoacetophenone and 13 C 9 -j?-methyl-bromoacetophenone.
- the reagents of the invention may be used for selective identification of proteins/peptides.
- the acetophenones are used for selective identification of proteins/peptides, preferably the corresponding acetophenones with natural isotopes are used for selective identification of proteins/peptides.
- the above acetophenones with stable isotopes are used in combination with the corresponding acetophenones with natural isotopes for quantitative determination of proteins/peptides.
- any of the substituted acetophenones mentioned above with heavy stable isotopes can be used as heavy reagents and the corresponding acetophenones with natural isotopes as light reagents.
- a preferred kit comprises the heavy stable isotope labelled reagent C 8 bromoacetophenone and the light reagent C 8 bromoacetophenone.
- Another preferred kit comprises the heavy stable isotope labelled reagent D 2 , C 8 bromoacetophenone and the light reagent C 8 bromoacetophenone.
- a further preferred kit comprises the heavy reagent C 9 - jt?-methyl-bromoacetophenone and the light reagent C 9 - ?-methyl-bromoacetophenone.
- Yet another further preferred kit comprises the heavy reagent D 2 , C 9 - jo-methyl- bromoacetophenone and the light reagent C 9 -p-methyl-bromoacetophenone. Yet another further preferred kit comprises the heavy reagent 13 C 10 - p-ethyl- bromoacetophenone and the light reagent Cio- ⁇ -ethyl-bromoacetophenone.
- Yet another further preferred kit comprises the heavy reagent D 2 , 13 C 10 - p-ethyl- bromoacetophenone and the light reagent C ⁇ 0 -/>-ethyl-bromoacetophenone.
- the kit may further comprise one or more containers containing: cysteine disulfide reducing agents, cysteine alkylating reagents, proteases or chemical cleavage agents, and solvents.
- the cysteine d isulfide reducing may be: dithiothreitol (DTT), ⁇ -mercaptoethanol, tris- carboxyethyl phosphine (TCEP), and/or tributylphosphine (TBP).
- DTT dithiothreitol
- TCEP tris- carboxyethyl phosphine
- TBP tributylphosphine
- the cysteine alkylating reagents may be alkylhalides (e.g. iodoacetic acid, iodoacetamide), vinylpyridine, acrylamide or disulphide-comprising compounds, such as bis-(2-hydroxyethyl) disulphide; bis-(2-hydroxypropyl) disulphide; 3-3-dipropionamidedisulphide; 2-2'- dipyridyldisulphide.
- reagent is DeStreakTM.
- proteases or chemical cleavage agents may be trypsin, Endoprotemase Lys-C, Endoprotemase Asp-N, Endoprotemase Glu-C, pepsin, papain, thermolysin, cyanogen bromide, hydroxylamine hydrochloride, 2-[2'-nitrophenylsulfenyl]-3-methyl-3'-bromoindole (BNPS- skatole), iodosobenzoic acid, pentafluoropropionic acid and/or dilute hydrochloric acid.
- the solvents may be urea, guanidine hydrochloride, acetonitrile, methanol and/or water.
- 13 C 8 - bromoacetophenone A non-limiting method for the synthesis of one this derivative may be performed using methods known to those skilled in the art via Friedel-Crafts acylation of 13 C 6 labelled benzene with C 2 labelled bromoacetyl bromide, prepared from C 2 labelled bromoacetic acid, to yield C 8 labelled bromoacetophenone.
- a non-limiting method for the synthesis of this derivative may be performed using methods known to those skilled in the art via Friedel-Crafts acylation of 13 C 7 labelled toluene with 13 C2 labelled bromoacetyl bromide, prepared from 13 C 2 labelled bromoacetic acid, to yield C 9 labelled -methyl-bromoacetophenone.
- a non-limiting method for the synthesis of this derivative may be performed using methods known to those skilled in the art via Friedel-Crafts acylation of 13 C 6 labelled benzene with 13 C 2 labelled acetylchloride or 13 C 3 labelled propanoyl chloride (formed by reaction of 13 C 3 propionic acid with thionyl chloride) to yield 13 C 8 labelled acetophenone or 13 C 9 labelled propiophenone, followed by reduction [Ishimoto, K., Mitoma, Y., Nagashima, S., Tashiro, H., Prakash, G.K.S., Olah, G.A. and Tashiro, M. Chem. Comm.
- Synthesis of this derivative may be performed using methods known to those skilled in the art, via Friedel-Crafts acylation of 13 C 6 labelled benzene with 13 C 2 labelled acetylchloride or 13 C 3 labelled propanoyl chloride (formed by reaction of 13 C 3 propionic acid with thionyl (or oxalyl, phtaloyl) chloride) to yield 13 C 8 labelled acetophenone or 13 C 9 labelled propiophenone, followed by reduction to yield 13 C 8 labelled ethylbenzene or 13 C 9 labelled propylbenzene, then Friedel-Crafts acylation with 13 C 2 , D 2 labelled acetylbromide, prepared from 13 C 2 , D 4 acetic acid or 13 C 2 , D 3 acetic acid sodium salt, to yield D 2 , C 10 labelled -ethyl-acetophenone or D2, C ⁇ labelled ?-propyl-aceto
- a non-limiting method for the synthesis of these derivatives may be performed using methods known to those skilled in the art via oxidation [Reitsema, R.H. and Allphin, N.L. J. Org. Chem. 1962, 27, 27-28.] of 13 C 8 labelled ethylbenzene or 13 C 9 labelled propylbenzene to yield the 13 C 8 labelled phenylacetic acid or 13 C 9 labelled phenylpropionic acid, followed by Friedel-Crafts acylation with 13 C 2 labelled bromoacetyl bromide, prepared from 13 C 2 labelled bromoacetic acid, to yield 13 C 10 labelled -bromoacetyl-phenylacetic acid or 13 C ⁇ p- bromoacetyl-phenylpropionic acid.
- a non-limiting method for the synthesis of these derivatives may be performed using methods known to those skilled in the art via nucleophilic substitution of a 13 C l5 13 C2, or 13 C 3 labelled haloalkane or haloalkanoic acid with 13 C 6 labelled phenol, followed by Friedel-Crafts acylation [Earle, M.J., Seddon, K.R., Adams, CJ. and Roberts, G. Chem. Comm.
- a non- limiting method for the synthesis of these derivatives may be performed using methods known to those skilled in the art via reaction of 13 C 6 labelled bromobenzene with 13 C ⁇ , 13 C 2 or 13 C 3 labelled sodium alkylthiolate [Shaw, J. E. J. Org. Chem. 1991, 56, 3728-3729.], followed by Friedel-Crafts acylation [Abdur Rahim, M., Praveen Rao, P.N., and Knaus, E.E., Bioorg. Med. Chem. Lett. 2002, 12, 2753-2756.; Cutler, R.A., Stenger, R.J., Suter, CM. J. Am. Chem. Soc.
- Benzenethiol or 13 C 6 - labelled benzenethiol is then reacted with a haloalkanoic acid or 13 C l5 13 C 2 or 13 C 3 labelled haloalkanoic acid, followed by Friedel-Crafts acylation [Walker, D. and Leib, J. J. Org. Chem. 1963, 28, 3077-82.] with acetylchloride or 13 C 2 labelled acetylchloride, then oxidation [Webb, K. Tet. Lett.
- Acetyl chloride (0.0264mol, 1.86 mL) was slowly added to a mixture of Aluminium chloride (0.0901, 12g) in carbon disulfide (40 mL) with stirring and cooling in an ice/water bath, which was followed by the gradual addition of Phenylthiopropionic acid. The mixture became quite thick and difficult to stir so Nitrobenzene (10 mL) was added to help ease the stirring. The reaction mixture was left to stir overnight ( ⁇ 16 hrs) at room temp. The reaction was quenched (destroy excess A1C1 3 ) by the slow addition of 2.5M HC1 (70-80 mL) with cooling in an ice/water bath.
- reaction solution was acidified ( ⁇ pH 2) with cone HC1.
- THF (20 mL) was added to redissolve the precipitate, followed by the addition of Ethyl acetate (30 mL).
- the organic layer was separated, washed with water (1 x 40 mL) then dried over Na 2 SO 4 .
- the solvent was removed invacuo to yield 4- Acetylphenylsulfonylpropionic acid (1.7g, 74%) as an off white solid.
- Polyvinylpyridinium tribromide resin was added to a solution of 4- Acetylphenylsulfonylpropionic acid (0.00196 mol, 0.5g) in THF (20 mL). The resulting mixture was stirred at room temp overnight ( ⁇ 16 hrs). The mixture was filtered and the THF removed at atmosphere under a stream of nitrogen. The bright orange residue was dissolved in ethyl acetate (20 mL), which was then washed with water (1 x 20 mL) and dried over Na 2 SO 4 . The Ethyl acetate was removed at atmosphere under a stream of nitrogen.
- a non- limiting method for the synthesis of these derivatives may be obtained using methods known to those skilled in the art via reaction of 13 C 6 benzene with 2,4- dinitrophenylsulfenyl chloride [Buess, CM. and Kharasch, N. J. Am. Chem. Soc. 1950, 72, 3529-3532.; Kharasch, N. and Swidler, R. J. Org. Chem. 1954, 19, 1704-1707] to yield 13 C 6 - phenyl 2,4-dinitrophenyl sulfide, followed by Friedel-Crafts acylation [Szmant, H.H. and Irwin, D.A. J Am. Chem. Soc.
- the reagents of the invention are intended for the side chain fixed-charge derivatization of peptides containing methionine to enable selective identification and differential quantitation of peptides by directed and selective fragmentation during MS/MS dissociation.
- the rationale for using fixed-charge derivatives of methionine containing peptides is based on the idea that approaches for selective protein identification and differential quantitation of protein expression should be specific for the detection of peptides containing amino acids that are rare, thereby limiting the number of peptides required to be analyzed, yet providing comprehensive coverage of proteins in the sequence databases.
- the improved reagents according to the invention give increased mass differences compared to known reagents. This is especially useful for differential quantification between two samples.
- the increased mass difference provides higher sensitivity and enables improved analysis of low abundant proteins/peptides.
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- Chemical & Material Sciences (AREA)
- Organic Chemistry (AREA)
- Organic Low-Molecular-Weight Compounds And Preparation Thereof (AREA)
- Chemical Kinetics & Catalysis (AREA)
- Other Investigation Or Analysis Of Materials By Electrical Means (AREA)
Abstract
Applications Claiming Priority (2)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| SE0401293A SE0401293D0 (sv) | 2004-05-17 | 2004-05-17 | Novel MS Reagents |
| SE0401293-6 | 2004-05-17 |
Publications (1)
| Publication Number | Publication Date |
|---|---|
| WO2005110955A1 true WO2005110955A1 (fr) | 2005-11-24 |
Family
ID=32501931
Family Applications (1)
| Application Number | Title | Priority Date | Filing Date |
|---|---|---|---|
| PCT/SE2005/000677 Ceased WO2005110955A1 (fr) | 2004-05-17 | 2005-05-10 | Acetophenones substituees utilisees comme agents de spectrometrie de masse |
Country Status (2)
| Country | Link |
|---|---|
| SE (1) | SE0401293D0 (fr) |
| WO (1) | WO2005110955A1 (fr) |
Cited By (2)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| US9202678B2 (en) | 2008-11-14 | 2015-12-01 | Board Of Trustees Of Michigan State University | Ultrafast laser system for biological mass spectrometry |
| CN105699580A (zh) * | 2016-04-28 | 2016-06-22 | 河南大学 | 基于柱前衍生的lc-ms测定有机酸含量的方法 |
Citations (2)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| WO2003027682A2 (fr) * | 2001-09-27 | 2003-04-03 | Purdue Research Foundation | Materiaux et procedes regulant les effets isotopiques lors du fractionnement d'analytes |
| WO2004046731A2 (fr) * | 2002-11-18 | 2004-06-03 | Ludwig Institute For Cancer Research | Methode permettant d'analyser des acides amines, des peptides et des proteines |
-
2004
- 2004-05-17 SE SE0401293A patent/SE0401293D0/xx unknown
-
2005
- 2005-05-10 WO PCT/SE2005/000677 patent/WO2005110955A1/fr not_active Ceased
Patent Citations (2)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| WO2003027682A2 (fr) * | 2001-09-27 | 2003-04-03 | Purdue Research Foundation | Materiaux et procedes regulant les effets isotopiques lors du fractionnement d'analytes |
| WO2004046731A2 (fr) * | 2002-11-18 | 2004-06-03 | Ludwig Institute For Cancer Research | Methode permettant d'analyser des acides amines, des peptides et des proteines |
Cited By (2)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| US9202678B2 (en) | 2008-11-14 | 2015-12-01 | Board Of Trustees Of Michigan State University | Ultrafast laser system for biological mass spectrometry |
| CN105699580A (zh) * | 2016-04-28 | 2016-06-22 | 河南大学 | 基于柱前衍生的lc-ms测定有机酸含量的方法 |
Also Published As
| Publication number | Publication date |
|---|---|
| SE0401293D0 (sv) | 2004-05-17 |
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