Abstract:
A system for tracking single-cell movement trajectories is disclosed. The system can record, to a plurality of frames, cells (events) within a microfluidic device. Also, the system can identify an event within each frame including whether the event is a single cell or multiple cells. When the event appears differently between frames (e.g., single cell in one frame and multiple cells in another frame), the system can either segment or merge the cell(s). Then, the system can determine a trajectory for the events based on a position of the event in the frames. Further, the system can determine cell properties based on the trajectory of the events.
Abstract:
Methods and systems for searching genomes for potential CRISPR off-target sites are provided. In preferred embodiments, the methods include identifying possible on- and off-target cleavage sites and/or ranking the potential off-target sites based on the number and location of mismatches, insertions, and/or deletions in the gRNA guide sequence relative to the genomic DNA sequence at a putative target site in the genome. These methods allow for the selection of better target sites and/or experimental confirmation of off-target sites and are an improvement over partial search mechanisms that fail to locate every possible target site.
Abstract:
An exemplary embodiment of the present disclosure provides a method of classifying a plurality of cells, comprising: providing a sample comprising a plurality of cells, the plurality of cells comprising a plurality of cell types; performing a flow cytometry process on the plurality of cells to generate an observation matrix; generating a compensation matrix based on the observation matrix; modifying the observation matrix with the compensation matrix to generate a compensated observation matrix; and classifying each of the plurality of cells into a cell type based on the compensated observation matrix.
Abstract:
Methods and systems for searching genomes for potential nucleotide-guided nuclease off-target sites are provided. Also provided are methods of searching genomes for potential off-target deadCas9 binding sites. In some embodiments, the methods include ranking the potential off-target sites based on the number and location of mismatches, insertions, and/or deletions in the DNA, RNA, or DNA/RNA guide sequence relative to the genomic DNA sequence at a putative target site in the genome, allowing the selection of better target sites and/or experimental confirmation of off-target sites.
Abstract:
A system for tracking single-cell movement trajectories is disclosed. The system can record, to a plurality of frames, cells (events) within a microfluidic device. Also, the system can identify an event within each frame including whether the event is a single cell or multiple cells. When the event appears differently between frames (e.g., single cell in one frame and multiple cells in another frame), the system can either segment or merge the cell(s). Then, the system can determine a trajectory for the events based on a position of the event in the frames. Further, the system can determine cell properties based on the trajectory of the events.
Abstract:
Methods and systems for searching genomes for potential CRISPR off-target sites are provided. In preferred embodiments, the methods include identifying possible on- and off-target cleavage sites and/or ranking the potential off-target sites based on the number and location of mismatches, insertions, and/or deletions in the gRNA guide sequence relative to the genomic DNA sequence at a putative target site in the genome. These methods allow for the selection of better target sites and/or experimental confirmation of off-target sites and are an improvement over partial search mechanisms that fail to locate every possible target site.
Abstract:
Methods and systems for searching genomes for potential nucleotide-guided nuclease off-target sites are provided. Also provided are methods of searching genomes for potential off-target deadCas9 binding sites. In some embodiments, the methods include ranking the potential off-target sites based on the number and location of mismatches, insertions, and/or deletions in the DNA, RNA, or DNA/RNA guide sequence relative to the genomic DNA sequence at a putative target site in the genome, allowing the selection of better target sites and/or experimental confirmation of off-target sites.
Abstract:
Methods and systems for searching genomes for potential CRISPR off-target sites are provided. In preferred embodiments, the methods include identifying possible on- and off-target cleavage sites and /or ranking the potential off-target sites based on the number and location of mismatches, insertions, and/or deletions in the gRNA guide sequence relative to the genomic DNA sequence at a putative target site in the genome. These methods allow for the selection of better target sites and/or experimental confirmation of off-target sites and are an improvement over partial search mechanisms that fail to locate every possible target site.