Abstract: Systems and methods are provided for reducing the time period of a CID event of an MS3 experiment and making the overall fragmentation event more generic. A CID event of an MS3 experiment performed on a sample by a mass spectrometer is divided into two time periods using a processor. At the beginning of a first time period of the CID event, the mass spectrometer is instructed to both open a pulse valve in order to pulse a collision gas and apply a first CID voltage. At the beginning of a second time period of the CID event, the mass spectrometer is instructed to both close the pulse valve and apply a second CID voltage. The mass spectrometer is pumped down during the second time period. The overlap in time of the pump down and CID reduces the overall time period of the CID event.

Abstract: In a first location of a mass spectrometer, a plurality of ionized molecules of an ion source are selected that have mass-to-charge ratios within a mass-to-charge ratio window width. The plurality of selected ionized molecules are transmitted from a first to a second location. Reagent ions are transmitted to the second location to reduce a charge state of one or more of the plurality of selected ionized molecules. A mass analyzer is used to analyze the plurality of reduced ionized molecules and produce a mass spectrum. A compound is identified from a peak of the spectrum that has a mass-to-charge ratio less than or equal to the highest mass-to-charge ratio in the window width if the noise is multiply charged and greater than the highest mass-to-charge ratio in the window width if the noise is singly charged.

Abstract: The applicants' teachings provide in some aspects methods and apparatus for mass spectrometric analysis that identify the location of carbon-carbon double bonds, if any, in an analyte by (1) obtaining the m/z ratio of the intact analyte ions, (2) subjecting these ions to collision-induced dissociation and (3) determining relationships between masses and/or mass-to-charge ratios of the intact analyte ions and the fragments produced by such collision-induced dissociation. The methods and apparatus selectively subject analyte ions to ozone-induced dissociation based on those relationships and determine location(s) of carbon-carbon double bonds, if any, from reaction products of ozone-induced dissociation.

Abstract: Systems and methods are provided for reducing the time period of a CID event of an MS3 experiment and making the overall fragmentation event more generic. A CID event of an MS3 experiment performed on a sample by a mass spectrometer is divided into two time periods using a processor. At the beginning of a first time period of the CID event, the mass spectrometer is instructed to both open a pulse valve in order to pulse a collision gas and apply a first CID voltage. At the beginning of a second time period of the CID event, the mass spectrometer is instructed to both close the pulse valve and apply a second CID voltage. The mass spectrometer is pumped down during the second time period. The overlap in time of the pump down and CID reduces the overall time period of the CID event.

Abstract: Systems and methods are used to analyze a sample using variable detection scan resolutions. A tandem mass spectrometer is instructed to perform at least two scans of a sample with different detection scan resolutions using a processor. The tandem mass spectrometer includes a mass analyzer that allows variable detection scan resolutions. The selection of the different detection scan resolutions can be based on one or more properties of sample compounds. The properties may include a sample compound molecular weight distribution that is calculated from a molecular weight distribution of expected compounds or is determined from a list of molecular weights for one or more known compounds. The tandem mass spectrometer can also be instructed to perform an analysis of the sample before instructing the tandem mass spectrometer to perform the at least two scans of the sample.

Abstract: An apparatus, system and method of providing that allow for the generation of reagent ions within an inner region of a mass spectrometer for use in ion-ion reactions such as PTRs and ETD using a reagent ion generator. The location where these reagent ions are generated can be as close as possible to the point of action, or the reaction zone where the reagent ion and analyte ions will interact via ion-ion reactions to cause, e.g., PTRs and/or ETD.

Abstract: A frame pacing method, computer program product, and computing system are provided for graphics processing.

Abstract: Systems and methods are used to analyze a sample using variable detection scan resolutions. A tandem mass spectrometer is instructed to perform at least two scans of a sample with different detection scan resolutions using a processor. The tandem mass spectrometer includes a mass analyzer that allows variable detection scan resolutions. The selection of the different detection scan resolutions can be based on one or more properties of sample compounds. The properties may include a sample compound molecular weight distribution that is calculated from a molecular weight distribution of expected compounds or is determined from a list of molecular weights for one or more known compounds. The tandem mass spectrometer can also be instructed to perform an analysis of the sample before instructing the tandem mass spectrometer to perform the at least two scans of the sample.

Abstract: The applicants' teachings provide in some aspects methods and apparatus for mass spectrometric analysis that identify the location of carbon-carbon double bonds, if any, in an analyte by (1) obtaining the m/z ratio of the intact analyte ions, (2) subjecting these ions to collision-induced dissociation and (3) determining relationships between masses and/or mass-to-charge ratios of the intact analyte ions and the fragments produced by such collision-induced dissociation. The methods and apparatus selectively subject analyte ions to ozone-induced dissociation based on those relationships and determine location(s) of carbon-carbon double bonds, if any, from reaction products of ozone-induced dissociation.

Abstract: In some embodiments, a quantitative analysis of at least one ion signal associated with a sample, which is detected by a mass spectrometer having at least two tandem quadrupole instruments, is employed to select one of the following operational modes for further mass analysis of the sample: (a) utilizing both quadrupole instruments as mass resolving filters, and (b) utilizing one quadrupole instrument as a mass resolving filter and utilizing the other as a linear ion trap. In some embodiments, the quantitative analysis of the ion signal comprises comparing the ion signal intensity with a predefined threshold.

Abstract: Systems and methods are provided for reducing the time period of a CID event of an MS3 experiment and making the overall fragmentation event more generic. A CID event of an MS3 experiment performed on a sample by a mass spectrometer is divided into two time periods using a processor. At the beginning of a first time period of the CID event, the mass spectrometer is instructed to both open a pulse valve in order to pulse a collision gas and apply a first CID voltage. At the beginning of a second time period of the CID event, the mass spectrometer is instructed to both close the pulse valve and apply a second CID voltage. The mass spectrometer is pumped down during the second time period. The overlap in time of the pump down and CID reduces the overall time period of the CID event.

Abstract: Systems and methods are provided for scheduled MS3. A compound of interest is separated from a sample over a known time period using a separation device. A plurality of sMRM experiments are performed over the known time period on the separating compound of interest using a mass spectrometer. An intensity of a product ion of the compound of interest is produced for each of the plurality of sMRM experiments. Each intensity for the product ion for each of the plurality of sMRM experiments is compared to a threshold intensity level using a processor. When an intensity for the product ion of an sMRM experiment of the plurality of sMRM experiments is equal to or exceeds the threshold intensity level, the mass spectrometer is instructed to perform one or more MS3 experiments for the product ion using the processor.

Abstract: Methods and systems for performing mass spectrometry of analytes labeled with isobaric tags are provided herein. In accordance with various aspects of the applicants' teachings, the methods and systems can enable enhanced discrimination between an analyte of interest and one or more interfering species when using isobaric tagging techniques.

Abstract: Methods and systems for performing mass spectrometry are provided herein. The method includes ionizing one or more compounds to generate ions, passing the ions into an ion mobility spectrometer, providing ozone, reacting the ions with ozone to produce ozone-induced fragment ions, and performing mass analysis and detection of the ozone-induced fragment ions. The system can comprise an ion source for ionizing one or more compounds to generate ions, an ion mobility spectrometer for receiving and separating the ions, an ozone supply for introducing ozone into the system; a reaction region for reacting the ions with the ozone to produce ozone-induced fragment ions, and a mass spectrometer for performing mass analysis and detection of the ozone-induced fragment ions.

Abstract: In some embodiments, a mass spectrometer capable of performing OzID is disclosed that can provide ozone in situ within an evacuated chamber of the spectrometer, e.g., within a collision cell or within the vacuum chamber of the mass spectrometer. In some embodiments, a corona discharge generated within the evacuated chamber can be employed to convert an ozone precursor delivered to the chamber into ozone.

Abstract: In some embodiments, a quantitative analysis of at least one ion signal associated with a sample, which is detected by a mass spectrometer having at least two tandem quadrupole instruments, is employed to select one of the following operational modes for further mass analysis of the sample: (a) utilizing both quadrupole instruments as mass resolving filters, and (b) utilizing one quadrupole instrument as a mass resolving filter and utilizing the other as a linear ion trap. In some embodiments, the quantitative analysis of the ion signal comprises comparing the ion signal intensity with a predefined threshold.

Abstract: Methods and systems for performing mass spectrometry of analytes labeled with isobaric tags are provided herein. In accordance with various aspects of the applicants' teachings, the methods and systems can enable enhanced discrimination between an analyte of interest and one or more interfering species when using isobaric tagging techniques.

Abstract: Systems and methods are used to analyze a sample using variable detection scan resolutions. A tandem mass spectrometer is instructed to perform at least two scans of a sample with different detection scan resolutions using a processor. The tandem mass spectrometer includes a mass analyzer that allows variable detection scan resolutions. The selection of the different detection scan resolutions can be based on one or more properties of sample compounds. The properties may include a sample compound molecular weight distribution that is calculated from a molecular weight distribution of expected compounds or is determined from a list of molecular weights for one or more known compounds. The tandem mass spectrometer can also be instructed to perform an analysis of the sample before instructing the tandem mass spectrometer to perform the at least two scans of the sample.

Abstract: An apparatus, system and method of providing that allow for the generation of reagent ions within an inner region of a mass spectrometer for use in ion-ion reactions such as PTRs and ETD using a reagent ion generator. The location where these reagent ions are generated can be as close as possible to the point of action, or the reaction zone where the reagent ion and analyte ions will interact via ion-ion reactions to cause, e.g., PTRs and/or ETD.

Abstract: In some embodiments, a mass spectrometer capable of performing OzID is disclosed that can provide ozone in situ within an evacuated chamber of the spectrometer, e.g., within a collision cell or within the vacuum chamber of the mass spectrometer. In some embodiments, a corona discharge generated within the evacuated chamber can be employed to convert an ozone precursor delivered to the chamber into ozone.