Abstract: A system and method for planning, manipulating, processing and editing DNA molecules utilizing a core operation on a given input DNA molecule to produce a targeted DNA molecule.

Abstract: A method for manufacturing synthetic genes and combinatorial DNA and protein libraries, termed here Divide and Conquer-DNA synthesis (D&C-DNA synthesis) method. The method can be used in a systematic and automated way to synthesize any long DNA molecule and, more generally, any combinatorial molecular library having the mathematical property of being a regular set of strings. The D&C-DNA synthesis method is an algorithm design paradigm that works by recursively breaking down a problem into two or more sub-problems of the same type. The division of long DNA sequences is done in silico. The assembly of the sequence is done in vitro. The D&C-DNA synthesis method protocol consists of a tree, in which each node represents an intermediate sequence. The internal nodes are created in elongation reactions from their daughter nodes, and the leaves are synthesized directly. After each elongation only one DNA strand passes to the next level in the tree until receiving the final product.

Abstract: An autonomous synthetic programmable device adapted to determine a cell state according to one or more different predefined markers, comprising a transcription machinery and a regulatory element for regulating said transcription machinery, said regulatory element comprising at least three different binding regions, each binding region binding a different transcription factor and each binding region corresponding to a different predefined marker, wherein the regulatory element permits said transcription machinery to provide a transcription output if and only if all three different transcription factors are absent and wherein each transcription factor is capable of blocking transcription by said transcription machinery and hence blocking said transcription output.

Abstract: A method for manufacturing synthetic genes and combinatorial DNA and protein libraries, termed here Divide and Conquer-DNA synthesis (D&C-DNA synthesis) method. The method can be used in a systematic and automated way to synthesize any long DNA molecule and, more generally, any combinatorial molecular library having the mathematical property of being a regular set of strings. The D&C-DNA synthesis method is an algorithm design paradigm that works by recursively breaking down a problem into two or more sub-problems of the same type. The division of long DNA sequences is done in silico. The assembly of the sequence is done in vitro. The D&C-DNA synthesis method protocol consists of a tree, in which each node represents an intermediate sequence. The internal nodes are created in elongation reactions from their daughter nodes, and the leaves are synthesized directly. After each elongation only one DNA strand passes to the next level in the tree until receiving the final product.

Abstract: A system and method for programming DNAzymes to be utilized as programmable drugs, which are active only in the presence of specific input combinations and/or certain conditions.

Abstract: Methods of determining clonality of a cell culture are provided. Also provided are systems employing the above methods in high throughput sample screening.

Abstract: A method, apparatus and system for performing single molecule PCR for amplification from single stranded polynucleotides.

Abstract: A method of generating a cell lineage tree of a plurality of cells of an individual is provided. The method comprising: (a) determining at least one genotypic marker for each cell of the plurality of cells; and (b) computationally clustering data representing the at least one genotypic marker to thereby generate the cell lineage tree of the plurality of cells of the individual.

Abstract: A system and method for planning, manipulating, processing and editing DNA molecules utilizing a core operation on a given input DNA molecule to produce a targeted DNA molecule.

Abstract: A method for manufacturing synthetic genes and combinatorial DNA and protein libraries, termed here Divide and Conquer-DNA synthesis (D&C-DNA synthesis) method. The method can be used in a systematic and automated way to synthesize any long DNA molecule and, more generally, any combinatorial molecular library having the mathematical property of being a regular set of strings. The D&C-DNA synthesis method is an algorithm design paradigm that works by recursively breaking down a problem into two or more sub-problems of the same type. The division of long DNA sequences is done in silico. The assembly of the sequence is done in vitro. The D&C-DNA synthesis method protocol consists of a tree, in which each node represents an intermediate sequence. The internal nodes are created in elongation reactions from their daughter nodes, and the leaves are synthesized directly. After each elongation only one DNA strand passes to the next level in the tree until receiving the final product.

Abstract: A method of generating a cell lineage tree of a plurality of cells of an individual is provided. The method comprising: (a) determining at least one genotypic marker for each cell of the plurality of cells; and (b) computationally clustering data representing the at least one genotypic marker to thereby generate the cell lineage tree of the plurality of cells of the individual.

Abstract: To facilitate the comparison of strings in logic programming, a hash code is added to each string having a value that depends on the contents of the string. Typically, this hash code is made part of the header for the string along with a string identification number, a number specifying the length of the string and a bit specifying whether the string is a run time string or a compile time string.

Abstract: A suspension list is maintained for each variable on which one or more processes has been suspended because the variable is uninstantiated. The suspension list for each variable is a circular list of suspension records, each record in the list being associated indirectly with one process that is suspended because that variable is uninstantiated. Each record comprises a first pointer to a memory address or register (called a "hanger") at which is stored the address of the process record for the suspended process and a second pointer that points to the memory address of the next record in the suspension list. Since. the same process can be suspended on different variables, it can happen that records in more than one suspension list point to the same hanger at which is stored the address of the process record for that process.