Texas Instruments Corporation

Thermo Finnigan LLC

Andreas Hühmer

Jerome Lee Elkind

Rovshan Goumbatoglu Sadygov

Anita A Strong

In one aspect of the present invention, the less 'useful' spectral data is disregarded from the spectral data resulting from the fragmentation by ETD and candidate charge states for the 'useful' data assigned. Knowledge of the first order ion product charge state reduces the subset of comparison data hence aiding in the eventual identification of the precursor ion, and thus aiding in peptide sequence database searching capabilities. Such capabilities include, but are not limited to, computational requirements for database search and data storage, CPU time, the volume taken up on the hard disk to store results, visualization and dissemination of data, and overall improvement in the confidence in the precursor identification. Thus determination of the peptide sequence can be resolved in less time, costing less money, and requiring less computer power.

Data analysis to provide a revised data set for use in peptide sequencing determination

In one aspect of the present invention a new database search methodology is provided that provides a probability that spectral data from a non-ergodic reaction via mass spectrometry matches a candidate sequence from a set of sequences in a database by random. The methodology comprises two parts. The first part pre-processes the spectral data and retains only the most relevant data for the database search. The second part comprises searching a database using the pre-processed spectrum to assign a probability or expectation that the spectrum matches a candidate sequence from a set of sequences in a database by random. The search methodology uses a new probability model, a compound distribution based on the number of product ion mass-to-charge ratios and the number of intensity values that are shared between the product ion spectral data and the sequence database, to accurately predict the probability of the peptide identification being a correct match, and not a random event.

Evaluating the probability that MS/MS spectral data matches candidate sequence data

Disclosed is apparatus and method for controlled surface plasmon resonance analysis having a surface plasmon resonance sensor () with a derivatized surface plasmon layer () in optical communication with the sensor, derivatizing the surface plasmon layer and placing an analyte detection chamber () in fluid communication with the derivatized surface plasmon layer. The chamber is adapted () for the generation of a molecular interaction bias across the chamber. A conjugate is provided between an analyte and a bias responsive element, wherein the analyte is reactive with the derivatized surface plasmon layer and the bias responsive element changes the response of the analyte to the molecular interaction bias. A conjugated analyte may be introduced into the chamber, generating a molecular interaction.

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Mountain View, CA, United States of America

Andreas Hühmer