The present invention provides a wide-area sample-based reader design which serves as a diagnostic detection device for bio-particles.

A fluorescence image analyzer has an imaging unit for capturing a first image containing at least a part of a region of a cell as an imaging target for a plurality of cells in a sample in which a target site on a chromosome is labeled with a fluorescent dye, and a second image including fluorescence generated from a fluorescent dye labeling the target site of the cell of the first image. The processing unit selects a plurality of test cells having specific morphological characteristics to be tested from a plurality of cells based on at least the first image, and extracts the bright spots of fluorescence generated from the fluorescent dye. The processing unit identifies cells with chromosomal abnormalities and/or cells without chromosomal abnormalities based on the extracted bright spots, and generates information related to the ratio of cells with chromosomal abnormalities relative to the test cells.

A device includes a plurality of imaging pixels in a spatial pattern with a formation of features disposed over the pixels. A first and a second feature of the formation of features are disposed over a first pixel. A first luminophore is disposed within or over the first feature. A second luminophore is disposed within or over the second feature. A structured illumination source is to direct at least a portion of first photons in an illumination pattern to the first feature at a first time, and to direct at least a portion of second photons in the illumination pattern to the second feature at a second time. The structured illumination source includes an illumination pattern generator having an illumination pattern generator actuator connected to the illumination pattern generator to cause the illumination pattern to translate or rotate relative to the formation of features.

A method for evaluating a biological material for unassociated virus-size particles having a particular epitope uses a fluorescent antibody stain specific for binding with the epitope and a fluid sample with the virus-size particles and fluorescent antibody stain is subjected to flow cytometry with identification of fluorescent emission detection events indicative of passage through a flow cell of a flow cytometer of unassociated labeled particles of virus size including such a virus-size particle and fluorescent antibody stain.

A way to design a codebook for estimating the type of a molecule at a particular location in a fluorescence microscopy image makes use of one or both of (1) knowledge of the non-uniform prior distribution of molecule types (i.e., some types are known a priori to occur more frequently than others) and/or knowledge of co-occurrence of molecule types at close locations (e.g., in a same cell); and (2) knowledge of a model of the (e.g., random) process that yields the intensities that are expected at a location when a molecule with a particular subset of markers (i.e., a molecule of a type that has been assigned a codeword that defines that subset) is present at that location. The codebook design may provide experimental efficiency by reducing the number of images that need to be acquired and/or improve classification or detection accuracy by making the codewords for different molecule types more distinctive.

A device for base calling is provided. The device includes a receptacle configured to hold a biosensor having a sample surface holding a plurality of clusters during a sequence of sampling events, an array of sensors sensing information from clusters disposed in corresponding pixel areas of the sample surface during the sampling events and generate sequences of pixel signals and a communication port configured to output the sequences of pixel signals. The device also includes a signal processor coupled to the communication port and configured to receive and process at least one pixel signal in the sequences of pixel signals that mixes light gathered from at least two clusters in a corresponding pixel area, and to base call each of the at least two clusters using the at least one pixel signal.

Provided herein are methods for capturing extracellular vesicles from a biological sample for quantification and/or characterization (e.g., size and/or shape discrimination) using an SP-IRIS system. Also provided herein are methods of detecting a biomarker on captured extracellular vesicles or inside the captured vesicles (e.g., intra-vesicular or intra-exosomal biomarkers).

A method of multispectral immunofluorescence imaging of a biological sample is described. The described method allows direct detection of seven or more target antigens simultaneously using directly labeled antibody fluorophore conjugates. The described method enables multiplex detection and analysis of a plurality of biomarkers simultaneously across an entire planar biological sample, providing unique spatio-temporal insights in immune-therapeutics and immuno-diagnostics.

The disclosed technology relates to systems and methods for nucleic acid sequencing utilizing a single light source and a single detector. The disclosed technology may use the light source to stimulate a fluorescence emission from a polynucleotide and identify a nucleobase in the polynucleotide based on the intensity of the fluorescence emission received by the detector. The disclosed technology may utilize four types of nucleotide analogs which emit light at four distinguishable levels when excited by the light source. In various embodiments, the four types of nucleotide analogs may be coupled to different fluorophores or the same fluorophore with different probabilities or copy numbers.

A main object of the present technology is to provide a technology for automatically presenting a better combination of fluorescent markers. The present technology provides an information processing system including an information processing device that includes a calculation processing unit that calculates an objective function regarding a combination of a biomolecule, the biomolecule being a labeling target in a sample, with a labeling phosphor, on the basis of first data listing information on the biomolecule, and second data listing information on the labeling phosphor, and an assignment information output unit that outputs information on assignment of the labeling phosphors to respective biomolecules, the information being generated on the basis of combination information acquired from a combinatorial optimization processing unit on the basis of a coefficient of the objective function.