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1. 发明授权

US09286439B2 System and method for editing and manipulating DNA 有权
标题翻译：用于编辑和操作DNA的系统和方法
公开(公告)号：US09286439B2
公开(公告)日：2016-03-15
申请号：US12808676
申请日：2008-12-17
申请人： Ehud Y. Shapiro , Shai Kaplan , Gregory Linshiz , Tuval Ben-Yehezkel , Uri Shabi
发明人： Ehud Y. Shapiro , Shai Kaplan , Gregory Linshiz , Tuval Ben-Yehezkel , Uri Shabi
IPC分类号： G06F19/20 , G06F19/22 , G06F19/18
CPC分类号： G06F19/22 , G06F19/18
摘要： 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.
摘要翻译：利用给定输入DNA分子的核心操作来规划，操纵，处理和编辑DNA分子以产生靶向DNA分子的系统和方法。

2. 发明申请

US20100240538A1 Programmable iterated elongation: a method for manufacturing synthetic genes and combinatorial dna and protein libraries 有权
标题翻译：可编程迭代伸长：一种制造合成基因和组合dna和蛋白质文库的方法
公开(公告)号：US20100240538A1
公开(公告)日：2010-09-23
申请号：US12308557
申请日：2007-06-19
申请人： Ehud Y. Shapiro
发明人： Ehud Y. Shapiro
IPC分类号： C40B30/00 , C12P19/34 , C40B50/00 , C40B60/14 , G06F19/00
CPC分类号： C12N15/1089 , C12N15/1031 , C12N15/66 , C12Q1/686 , C40B50/02 , G06F19/22
摘要： 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. Optionally and preferably, error correction is performed to correct any errors which may have occurred during the synthetic process.
摘要翻译：用于制造合成基因和组合DNA和蛋白质文库的方法，这里称为Div和Conquer-DNA合成（D＆C-DNA合成）方法。该方法可以以系统和自动的方式用于合成任何长的DNA分子，更一般地，任何组合分子文库具有作为一组规则的串的数学性质。 D＆C-DNA合成方法是一种算法设计范例，通过递归地将问题分解成两个或更多个相同类型的子问题。长DNA序列的划分是在电脑中完成的。序列的组装在体外进行。 D＆C-DNA合成方法协议由一棵树组成，其中每个节点表示中间序列。内部节点是在其子节点的伸长反应中产生的，叶片直接合成。在每次延伸之后，只有一条DNA链在树中传递到下一个级别，直到接收到最终产物。可选地，优选地，执行错误校正以校正在合成过程中可能发生的任何错误。

3. 发明授权

US4899128A Method and apparatus for comparing strings using hash values 失效
标题翻译：使用散列值比较字符串的方法和装置
公开(公告)号：US4899128A
公开(公告)日：1990-02-06
申请号：US807552
申请日：1985-12-11
申请人： Ehud Y. Shapiro
发明人： Ehud Y. Shapiro
IPC分类号： G06F7/02 , G06F9/44 , G06F17/30
CPC分类号： G06F7/02 , G06F17/30949 , G06F9/4438
摘要： 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.
摘要翻译：为了便于比较逻辑编程中的字符串，每个字符串中添加一个散列码，其值取决于字符串的内容。通常，这个哈希码是字符串的头部的一部分，以及一个字符串标识号，一个指定字符串长度的数字，以及一个指定字符串是运行时字符串还是编译时间字符串的位。

4. 发明授权

US08962532B2 Programmable iterated elongation: a method for manufacturing synthetic genes and combinatorial DNA and protein libraries 有权
标题翻译：可编程迭代伸长：制造合成基因和组合DNA和蛋白质文库的方法
公开(公告)号：US08962532B2
公开(公告)日：2015-02-24
申请号：US12308557
申请日：2007-06-19
申请人： Ehud Y. Shapiro , Gregory Linshiz , Tuval Ben-Yehezkel , Shai Kaplan , Rivka Adar , Ilan Gronau , Sivan Tuvi
发明人： Ehud Y. Shapiro , Gregory Linshiz , Tuval Ben-Yehezkel , Shai Kaplan , Rivka Adar , Ilan Gronau , Sivan Tuvi
IPC分类号： G06F19/20 , C12Q1/68 , C12N15/10 , C12N15/66 , C40B50/02 , G06F19/22
CPC分类号： C12N15/1089 , C12N15/1031 , C12N15/66 , C12Q1/686 , C40B50/02 , G06F19/22
摘要： 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. Optionally and preferably, error correction is performed to correct any errors which may have occurred during the synthetic process.
摘要翻译：用于制造合成基因和组合DNA和蛋白质文库的方法，这里称为Div和Conquer-DNA合成（D＆C-DNA合成）方法。该方法可以以系统和自动的方式用于合成任何长的DNA分子，更一般地，任何组合分子文库具有作为一组规则的串的数学性质。 D＆C-DNA合成方法是一种算法设计范例，通过递归地将问题分解成两个或更多个相同类型的子问题。长DNA序列的划分是在电脑中完成的。序列的组装在体外进行。 D＆C-DNA合成方法协议由一棵树组成，其中每个节点表示中间序列。内部节点是在其子节点的伸长反应中产生的，叶片直接合成。在每次延伸之后，只有一条DNA链在树中传递到下一个级别，直到接收到最终产物。可选地，优选地，执行错误校正以校正在合成过程中可能发生的任何错误。

5. 发明申请

US20120171680A1 SINGLE-MOLECULE PCR FOR AMPLIFICATION FROM A SINGLE NUCLEOTIDE STRAND 审中-公开
标题翻译：单分子PCR从单核激酶扩增
公开(公告)号：US20120171680A1
公开(公告)日：2012-07-05
申请号：US12997601
申请日：2009-06-12
申请人： Ehud Y. Shapiro , Tuval Ben-Yehezkel , Gregory Linshiz , Shai Kaplan , Uri Shabi
发明人： Ehud Y. Shapiro , Tuval Ben-Yehezkel , Gregory Linshiz , Shai Kaplan , Uri Shabi
IPC分类号： C12Q1/68 , C12P19/34
CPC分类号： C12Q1/686 , C12Q2527/137
摘要： A method, apparatus and system for performing single molecule PCR for amplification from single stranded polynucleotides.
摘要翻译：用于从单链多核苷酸进行单分子PCR扩增的方法，装置和系统。

6. 发明申请

US20100311598A1 SYSTEM AND METHOD FOR EDITING AND MANIPULATING DNA 有权
标题翻译：用于编辑和操纵DNA的系统和方法
公开(公告)号：US20100311598A1
公开(公告)日：2010-12-09
申请号：US12808676
申请日：2008-12-17
申请人： Ehud Y. Shapiro , Shai Kaplan , Gregory Linshiz , Tuval Ben-Yehezkel , Uri Shabi
发明人： Ehud Y. Shapiro , Shai Kaplan , Gregory Linshiz , Tuval Ben-Yehezkel , Uri Shabi
IPC分类号： C40B30/00 , C12P19/34 , C40B60/12 , G06F19/00
CPC分类号： G06F19/22 , G06F19/18
摘要： 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.
摘要翻译：利用给定输入DNA分子的核心操作来规划，操纵，处理和编辑DNA分子以产生靶向DNA分子的系统和方法。

7. 发明申请

US20090292482A1 Methods and Systems for Generating Cell Lineage Tree of Multiple Cell Samples 有权
标题翻译：用于生成多细胞样品的细胞谱系树的方法和系统
公开(公告)号：US20090292482A1
公开(公告)日：2009-11-26
申请号：US11887551
申请日：2006-03-27
申请人： Dan Frumkin , Adam Wasserstrom , Shai Kaplan , Uriel Feige , Ehud Y. Shapiro
发明人： Dan Frumkin , Adam Wasserstrom , Shai Kaplan , Uriel Feige , Ehud Y. Shapiro
IPC分类号： G06F19/00 , C12Q1/02
CPC分类号： G06F19/18 , G06F19/14 , G06F19/24
摘要： 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.
摘要翻译：提供了生成个体的多个细胞的细胞谱系树的方法。所述方法包括：（a）确定所述多个细胞中的每个细胞的至少一种基因型标记; 和（b）计算表示所述至少一个基因型标记的数据，从而生成所述个体的多个细胞的细胞谱系树。

8. 发明申请

US20130130311A1 METHODS AND SYSTEMS FOR ASSESSING CLONALITY OF CELL CULTURES 审中-公开
标题翻译：用于评估细胞培养物亲和力的方法和系统
公开(公告)号：US20130130311A1
公开(公告)日：2013-05-23
申请号：US13812530
申请日：2011-07-27
申请人： Ehud Y. Shapiro , Tuval Ben-Yehezkel
发明人： Ehud Y. Shapiro , Tuval Ben-Yehezkel
IPC分类号： C12Q1/02
CPC分类号： C12Q1/02 , C12Q1/06 , G01N2800/26
摘要： Methods of determining clonality of a cell culture are provided. Also provided are systems employing the above methods in high throughput sample screening.
摘要翻译：提供了确定细胞培养物克隆性的方法。还提供了在高通量样品筛选中采用上述方法的系统。

9. 发明授权

US4775934A Method for concurrent logic program 失效
标题翻译：并行逻辑程序的方法
公开(公告)号：US4775934A
公开(公告)日：1988-10-04
申请号：US875117
申请日：1986-06-17
申请人： Avshalom Houri , Ehud Y. Shapiro
发明人： Avshalom Houri , Ehud Y. Shapiro
IPC分类号： G06F9/44 , G06F9/06
CPC分类号： G06F9/4438 , G06F8/45
摘要： 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. If a variable is subsequently instantiated, each record in the suspension list associated with that variable is used to identify one of the processes that has been suspended on that variable. Accordingly each such process can then be enqueued in the process queue. At the same time, as each process is identified by the record in the suspension list, the address of the process record that is stored in the hanger is reset, illustratively, to zero. As a result, if at a later time another variable is instantiated and the suspension list for that variable also contains a record that points to the same hanger, the hanger will be found to point to its reset value rather than the address of the process record. Consequently, the process will not be identified a second time and will not be enqueued again in the process queue.
摘要翻译：由于该变量未被证实，因此对于一个或多个进程已暂停的每个变量都维护一个暂停列表。每个变量的暂停列表是暂停记录的循环列表，列表中的每个记录间接地与暂停的一个进程相关联，因为该变量未被标准化。每个记录包括指向存储器地址或寄存器（称为“吊架”）的第一指针，在该存储器地址或寄存器中存储用于暂停处理的进程记录的地址，以及指向暂停中的下一记录的存储器地址的第二指针列表。以来。相同的过程可以暂停在不同的变量上，可能发生的是，多个挂起列表中的记录指向相同的挂接器，存储该进程的进程记录的地址。如果变量随后被实例化，与该变量相关联的暂停列表中的每个记录都用于标识该变量已被挂起的一个进程。因此，每个这样的过程然后可以在进程队列中排队。同时，由于通过暂停列表中的记录识别每个进程，所以存储在挂接器中的进程记录的地址被重新设置为零。因此，如果稍后一个变量被实例化，并且该变量的暂停列表还包含指向相同的衣架的记录，则将发现挂接器指向其重置值而不是进程记录的地址。因此，该进程将不再被识别，并且不会再在进程队列中排队。

10. 发明授权

US07917306B2 Methods and systems for generating cell lineage tree of multiple cell samples 有权
标题翻译：多细胞样本生成细胞谱系树的方法和系统
公开(公告)号：US07917306B2
公开(公告)日：2011-03-29
申请号：US11887551
申请日：2006-03-27
申请人： Dan Frumkin , Adam Wasserstrom , Shai Kaplan , Uriel Feige , Ehud Y. Shapiro
发明人： Dan Frumkin , Adam Wasserstrom , Shai Kaplan , Uriel Feige , Ehud Y. Shapiro
IPC分类号： C12P1/00
CPC分类号： G06F19/18 , G06F19/14 , G06F19/24
摘要： 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.
摘要翻译：提供了生成个体的多个细胞的细胞谱系树的方法。所述方法包括：（a）确定所述多个细胞中的每个细胞的至少一种基因型标记; 和（b）计算表示所述至少一个基因型标记的数据，从而生成所述个体的多个细胞的细胞谱系树。

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