Abstract: Apparatus and methods are provided that enable the interaction of low-energy electrons and positrons with sample ions to facilitate electron capture dissociation (ECD) and positron capture dissociation (PCD), respectively, within multipole ion guide structures. It has recently been discovered that fragmentation of protonated ions of many biomolecules via ECD often proceeds along fragmentation pathways not accessed by other dissociation methods, leading to molecular structure information not otherwise easily obtainable. However, such analyses have been limited to expensive Fourier transform ion cyclotron resonance (FTICR) mass spectrometers; the implementation of ECD within commonly-used multipole ion guide structures is problematic due to the disturbing effects of RF fields within such devices.

Abstract: A mass spectrometer is configured with individual multipole ion guides, configured in an assembly in alignment along a common centerline wherein at least a portion of at least one multipole ion guide mounted in the assembly resides in a vacuum region with higher background pressure, and the other portion resides in a vacuum region with lower background pressure. Said multipole ion guides are operated in mass to charge selection and ion fragmentation modes, in either a high or low pressure region, said region being selected according to the optimum pressure or pressure gradient for the function performed. The diameter, lengths and applied frequencies and phases on these contiguous ion guides may be the same or may differ. A variety of MS and MS/MSn analysis functions can be achieved using a series of contiguous multipole ion guides operating in either higher background vacuum pressures, or along pressure gradients in the region where the pressure drops from high to low pressure, or in low pressure regions.

Abstract: A method of and apparatus for analyzing a substance takes a stream of ions in said substance and supplies the ions to a collision cell including a quadrupole rod set for guiding the ions and a buffer gas. An RF voltage is applied to the quadrupole rod set to guide ions. An additional alternating current signal is applied to the quadrupole rod set at a frequency selected to cause resonance excitation of the secular frequency of a desired ion, whereby said desired ions are excited and undergo collision with the buffer gas causing fragmentation. The alternating current signal is then modulated, whereby periods in which said alternating current signal is applied alternate with periods in which said alternating signal is not applied.

Abstract: Apparatus and methods are provided for trapping, manipulation and transferring ions along RF and DC potential surfaces and through RF ion guides. Potential wells are formed near RF-field generating surfaces due to the overlap of the radio-frequency (RF) fields and electrostatic fields created by static potentials applied to surrounding electrodes. Ions can be constrained and accumulated over time in such wells. During confinement, ions may be subjected to various processes, such as accumulation, fragmentation, collisional cooling, focusing, mass-to-charge filtering, spatial separation ion mobility and chemical interactions, leading to improved performance in subsequent processing and analysis steps, such as mass analysis. Alternatively, the motion of ions may be better manipulated during confinement to improve the efficiency of their transport to specific locations, such as an entrance aperture into vacuum from atmospheric pressure or into a subsequent vacuum stage.

Abstract: Apparatus and methods are provided that enable the interaction of low-energy electrons and positrons with sample ions to facilitate electron capture dissociation (ECD) and positron capture dissociation (PCD), respectively, within multipole ion guide structures. It has recently been discovered that fragmentation of protonated ions of many biomolecules via ECD often proceeds along fragmentation pathways not accessed by other dissociation methods, leading to molecular structure information not otherwise easily obtainable. However, such analyses have been limited to expensive Fourier transform ion cyclotron resonance (FTICR) mass spectrometers; the implementation of ECD within commonly-used multipole ion guide structures is problematic due to the disturbing effects of RF fields within such devices.

Abstract: A mass spectrometer interface, having improved sensitivity and reduced chemical background, is disclosed. The mass spectrometer interface provides improved desolvation, chemical selectivity and ion transport. A flow of partially solvated ions is transported along a tortuous path into a region of disturbance of flow, where ions and neutral molecules collide and mix. Thermal energy is applied to the region of disturbance to promote liberation of at least some of the ionized particles from any attached impurities, thereby increasing the concentration of the ionized particles having the characteristic m/z ratios in the flow. Molecular reactions and low pressure ionization methods can also be performed for selective removal or enhancement of particular ions.

Abstract: A mass spectrometer apparatus has one mass analyzer stage for selecting and rejecting ions having a particular mass-to-charge ratio and one fragmentation stage downstream from the first mass analysis stage for causing fragmentation of ions. Another mass analysis stage downstream from the fragmentation stage selects ions of a particular mass-to-charge ratio and rejects other ions. A synchronization unit is connected between the two mass analysis stages, for causing ions excited and removed in the one mass analysis stage to have the same mass-to-charge ratio as the ions selected by the other mass analysis stage, whereby ions detected by the detector are ions selected by the other mass analysis stage and generated by fragmentation in the fragmentation stage.

Abstract: An RF-only quadrupole mass spectrometer in which an auxiliary RF field (dipole or quadrupole) excites selected ions at low q (typically between 0.20 and 0.89). The excited ions experience radial excursions, but many do not experience excursions sufficient to strike the rods, and are therefore transmitted and acquire increased kinetic energy in the fringing fields at the exit ends of the rods. The excited ions may therefore be selected from the non-excited ions either by their increased axial kinetic energy, or by their radial dispersion, or both, and are detected for analysis, producing sharp peaks of high sensitivity at low q, while retaining the high acceptance and other advantages of RF-only mass spectrometers. Operated in converse fashion, a high quality notch filter can be achieved. In the notch filter, an auxiliary RF field again excites ions and notches some of them out by causing them to strike the rods.

Abstract: A method of analyzing an analyte contained in a plasma, in inductively coupled plasma mass spectrometry (ICP-MS). A sample of the plasma is drawn through an orifice in a sampler, then skimmed in a skimmer orifice, and the skimmed sample is directed at supersonic velocity onto a blunt reducer having a small orifice therein, forming a shock wave on the reducer. Gas in the shock wave is sampled through an offset aperture in the reducer into a vacuum chamber containing ion optics and a mass spectrometer. This reduces space charge effects, thus reducing mass bias and also reducing the mass dependency of matrix effects. Since the region between the skimmer and the reducer can operate at about 0.1 Torr, which is the same pressure as that produced by the roughing pump which backs the high vacuum pump for the vacuum chamber, a single common pump can be used for both purposes, thus reducing the hardware needed.

Abstract: A mass analyzer system uses a simultaneous mode electron multiplier detector which outputs both a pulse count and an analog signal. Depending on the ion flux intensity, the signals define a pulse count only region in which the pulse count only signal is valid, an overlap region in which both the pulse count and analog signals are valid, an analog signal only region in which only the analog signal is valid, and a neither analog nor pulse region in which neither signal is valid. The system produces a separate flag for each region. When a mass spectrum is scanned, for each dwell the pulse count and analog data are recorded together with their associated flag and are placed in memory. The signals, with the flags, can then be used to produce a mass spectrum using the pulse count only signal, the analog only signal, or both.

Abstract: A method of analyzing an analyte contained in a plasma, in inductively coupled plasma mass spectrometry (ICP-MS). A sample of the plasma is drawn through an orifice in a sampler. The sample is then skimmed in a skimmer orifice, and the skimmed sample is directed at supersonic velocity onto a blunt reducer having a small orifice therein, forming a shock wave on the reducer. Gas in the shock wave is sampled through an offset aperture in the reducer into a vacuum chamber containing ion optics and a mass spectrometer. Because the gas sampled through the skimmer and reducer orifices is substantially neutral (ions and free electrons are in close proximity), and also because the reducer orifice is very small, space charge effects are reduced, thus reducing mass bias and also reducing the mass dependency of matrix effects. Separation of ions from free electrons and focusing of ions into the mass spectrometer largely occurs in and downstream of the ion optics in the vacuum chamber.