The present invention provides biomarker-based methods for diagnosing stroke in a patient suspected of having suffered a stroke, and also for discriminating between ischemic stroke and transient ischemic attack. Substrates comprising probes for specific combinations of biomarkers useful in the methods of the invention are also described.

This invention provides methods of using phagocytic cells alone or in combination with non-phagocytic cells in the diagnosis, prognosis, or monitoring of prenatal or pregnancy-related diseases or conditions. The invention also provides methods of using phagocytic cells alone or in combination with non-phagocytic cells to identify markers of prenatal or pregnancy-related diseases or conditions.

The present invention provides methods, compositions, apparatus, and kits for assessing glycoforms of proteins as a biomarker for disease. A purified recombinant form of lectin is used as a detector molecule to specifically label target sugars expressed in disease states. The high affinity of recombinant lectin allows for automation of assays that would be used in the diagnosis of diseases such as, but not limited to, cancer or liver disease.

A method determines an amino acid sequence that binds to a target molecule or a base sequence encoding the same. The method pans for bringing a library constructed by a display method, followed by incubation. The method sequences for analyzing a base sequence before panning step and the polypeptide group of the library after panning by a next-generation sequencer, or determining an amino acid sequence based on a base sequence obtained by analyzing the base sequence of a nucleic acid encoding all the polypeptides by a next-generation sequencer. The method scores for evaluating and scoring, based on the results of the sequencing step, an amplification ratio. The method determines a sequence for selecting a polypeptide with a high score and determines an amino acid sequence of the polypeptide or a base sequence as an amino acid sequence that binds to the target molecule or as a base sequence of a nucleic acid encoding the polypeptide.

A number of methods and computer systems related to mass spectrometric data analysis are disclosed. Adoption of the disclosure herein facilitates automated, high throughput, rapid analysis of complex datasets such as datasets generated through mass spectrometric analysis, so as to reduce or eliminate the need for oversight in the analysis process while rapidly yielding accurate results. In some cases, identification of a health condition indicator is carried out based on information relating a predetermined association between an input parameter and a health condition indicator.

The present disclosure relates to a composition containing an ultrastable enzyme, methods of using the same for preparing a biological sample for analysis by mass spectrometry, and kits comprising the same. The composition includes an ultrastable enzyme isolated from a hyperthermophilic and/or acidophilic organism and optionally, an acid and an additive. The composition can be used at temperatures ranging from about 50 C. to 110 C., preferably at temperatures ranging from about 70 C. to 100 C. In addition, the composition can be used at pH values ranging from 0.5 to 7, preferably at pH values ranging from 2 to 5.

A method for assessing the oxidation states of a protein in a sample, the method comprising the steps of contacting the sample with a first label adapted to selectively bind to at least one reduced cysteine group of the protein therein to form a first labelled sample; forming a sub-sample of the first labelled sample; treating the sub-sample to selectively reduce at least one reversibly oxidised cysteine group of the protein therein to form a treated sub-sample; contacting the treated sub-sample with a second label adapted to selectively bind to a reduced cysteine group of the protein to form a second labelled sample; and assessing the first and second labelled samples for a plurality of oxidation states of the protein.

Improved methods of performing proteomic analysis are described wherein single cell samples are placed into nanowells disposed on chips that also contain a booster sample of known peptides. Once the samples are placed, these singles cells are lysed and peptides are extracted. These peptides are then labeled using TMT labels and combined with labeled boosting peptides to form a mixed sample. The mixed sample is then separated using an LC separation system and the separated sample is then passed through a mass spectrometer to acquire data of the peptide characterization data from the separated sample. Various modifications and alterations to the MS acquisition process that enhance the effectiveness of the process are also described.

The present disclosure provides a system comprising a communication interface and computer for assigning a label to the biomolecule fingerprint, wherein the label corresponds to a biological state. The present disclosure also provides a sensor arrays for detecting biomolecules and methods of use. In some embodiments, the sensor arrays are capable of determining a disease state in a subject.

The invention relates generally to articles (e.g., sensors) and methods that facilitate proteome, exome, or exome-codon sequence region wide interrogation for the discovery, screening and/or quantification of one or more proteins that contribute to a phenotype.