Abstract: The present invention provides parallel methods for identifying the locations of insertion elements that are distributed at different sites in the genome among a collection of cells.

Abstract: There is disclosed an electrode array device having an adsorbed porous reaction layer for improved synthesis quality. The array comprises a plurality of electrodes on a substrate, wherein the electrodes are electronically connected to a computer control system. The array has an adsorbed porous reaction layer on the plurality of electrodes, wherein the adsorbed porous reaction layer comprises a chemical species having at least one hydroxyl group. In the preferred embodiment, the reaction layer is sucrose. A method for preparing an electrode array for improved synthesis quality is disclosed. The method comprises a cleaning method and a method of attachment of a reaction layer. The cleaning method comprises a plasma cleaning method and a chemical cleaning method. The reaction layer is attached after cleaning by exposing the microarray to a solution containing the chemical species having at least one hydroxyl group.

Abstract: The present invention provides methods for synthesizing arrays of polymers. The polymers are synthesized from monomers through a series of synthesis steps at chemically-modified electrodes by the action of an electrochemically generated reagent (EGR) at subsets of the electrodes. These subsets of electrodes vary with each step. Crosstalk of the EGR between electrodes is prevented by the production of a scavenging agent, which neutralizes the EGR, at those electrodes where the EGR is not produced. The scavenging agent acts as a “virtual cap” to prevent mis-incorporation of monomers and other anomalies in the polymers.

Abstract: The present invention provides multiplexed methods for analyzing polynucleotides associated with sample tags. The multiplexed information is deconvoluted by single-molecule and more generally single-particle detection methods. In particular, a method for determining nucleic acid sequence information is provided.

Abstract: The present invention provides methods for synthesizing arrays of polymers. A barrier to a reaction is applied to select features of the array thereby limiting the reaction to the remaining features.

Abstract: The present invention provides parallel methods for identifying the locations of insertion elements that are distributed at different sites in the genome among a collection of cells.

Abstract: The present invention provides methods for generating and characterizing gene targeting events by using tags. More specifically, the invention employs methods to enrich for cells that have undergone the desired targeting event.

Abstract: The present invention provides parallel methods for determining nucleotide sequences of polynucleotides associated with sample tags. Applications of sequence information acquired by these methods are also provided.

Abstract: The present invention provides parallel methods for determining nucleotide sequences of polynucleotides associated with sample tags. Applications of sequence information acquired by these methods are also provided.

Abstract: The present invention provides methods for synthesizing arrays of polymers. A barrier to a reaction is applied to select features of the array thereby limiting the reaction to the remaining features.