Patents by Inventor Robert Lucito
Robert Lucito has filed for patents to protect the following inventions. This listing includes patent applications that are pending as well as patents that have already been granted by the United States Patent and Trademark Office (USPTO).
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Patent number: 10340027Abstract: The present invention relates to a method for identifying multi-modal associations between biomedical markers which allows for the determination of network nodes and/or high ranking network members or combinations thereof, indicative of having a diagnostic, prognostic or predictive value for a medical condition, in particular ovarian cancer. The present invention further relates to a biomedical marker or group of biomedical markers associated with a high likelihood of responsiveness of a subject to a cancer therapy, preferably a platinum based cancer therapy, wherein said biomedical marker or group of biomedical markers comprises at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 8, 19, 20 or all markers selected from PKMYT1, SKIL, RAB8A, HIRIP3, CTNNB1, NGFR, ZCCHC11, LSP1, CD200, PAX8, CYBRD1, HOXC11, TCEAL1, FZD10, FZD1, BBS4, IRS2, TLX3, TSPAN2, TXN, and CFLAR.Type: GrantFiled: October 4, 2011Date of Patent: July 2, 2019Assignee: Koninklijke Philips N.V.Inventors: Nilanjana Banerjee, Angel Janevski, Sitharthan Kamalakaran, Vinay Varadan, Nevenka Dimitrova, Robert Lucito
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Patent number: 8694263Abstract: The invention provides oligonucleotide probes that can be used to hybridize to a representation of nucleic acid sequences. Compositions containing the probes such as microarrays are also provided. The invention also provides methods of using these probes and compositions in therapeutic, diagnostic, and research applications. Systems and methods for using a word counting algorithm that can quickly and accurately count the number of times a particular string of characters (i.e., nucleotides) appears in a nucleotide sequence (e.g., a genome) are provided. This algorithm can be used to identify the oligonucleotide probes of the invention. The algorithm uses a transform of a genome and an auxiliary data structure to count the number of times a particular word occurs in the genome.Type: GrantFiled: May 21, 2004Date of Patent: April 8, 2014Assignee: Cold Spring Harbor LaboratoryInventors: Michael H Wigler, John Healy, Robert Lucito
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Patent number: 8663917Abstract: It is an object of the present invention to provide a solution to problems associated with the use of microarray technology for the analysis DNA. The present invention provides compositions and methods for the use of simple and compound representations of DNA in microarray technology. The present invention is also directed to methods for the production of High Complexity Representations (HCRs) of the DNA from cells.Type: GrantFiled: March 30, 2005Date of Patent: March 4, 2014Assignee: Cold Spring Harbor LaboratoryInventors: Michael Wigler, Robert Lucito
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Patent number: 8652777Abstract: The invention relates to a method for the analysis of ovarian cancer disorders, comprising determining the genomic methylation status of one or more CpG dinucleotides in a sequence selected from the group of sequences according to SEQ ID NO. 1 to 10 and/or SEQ ID NO. 50 to SEQ ID NO. 60. Optionally, additionally following steps are performed, the one or more results from the methylation status test is input into a classifier that is obtained from a Diagnostic Multi Variate Model, calculating a likelihood as to whether the sample is from a normal tissue or an ovarian cancer tissue and/or, calculating an associated p-value for the confidence in the prediction.Type: GrantFiled: September 16, 2008Date of Patent: February 18, 2014Assignees: Koninklijke Philips N.V., Cold Spring Harbor LaboratoriesInventors: Sitharthan Kamalakaran, Robert Lucito, James Bruce Hicks
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Publication number: 20130196877Abstract: The present invention relates to a method for identifying multi-modal associations between biomedical markers which allows for the determination of network nodes and/or high ranking network members or combinations thereof, indicative of having a diagnostic, prognostic or predictive value for a medical condition, in particular ovarian cancer. The present invention further relates to a biomedical marker or group of biomedical markers associated with a high likelihood of responsiveness of a subject to a cancer therapy, preferably a platinum based cancer therapy, wherein said bio-medical marker or group of biomedical markers comprises at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 8, 19, 20 or all markers selected from PKMYT1, SKIL, RAB8A, HIRIP3, CTNNB1, NGFR, ZCCHC11, LSP1, CD200, PAX8, CYBRD1, HOXC11, TCEAL1, FZD10,FZD1, BBS4, IRS2, TLX3, TSPAN2, TXN, and CFLAR.Type: ApplicationFiled: October 4, 2011Publication date: August 1, 2013Applicants: COLD SPRING HARBOR LABORATORY, KONINKLIJKE PHILIPS ELECTRONICS N.V.Inventors: Nilanjana Banerjee, Angel Janevski, Sitharthan Kamalakaran, Vinay Varadan, Nevenka Dimitrova, Robert Lucito
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Publication number: 20130090257Abstract: A method for assigning ranking scores to pathways in a set of pathways for classifying patients is disclosed. The method comprises the steps of comparing biomolecular datasets from different groups of patients and performing an analysis in order to assign ranking scores to pathways in a set of pathways. Furthermore, a method for using cancer pathway evaluation to support clinical decision making is disclosed. This assessment is further used for stratifying ovarian cancer patients based on chemosensitivity to platinum based drugs, the standard chemotherapy. We present the method for evaluation and ranking of the most relevant pathways responsible for platinum sensitivity. Clinical decision support software system should be able to then visualize this information for a clinician, contextualize it within a patient data set and help make a final decision on the potential responsiveness.Type: ApplicationFiled: June 21, 2011Publication date: April 11, 2013Applicant: KONINKLIJKE PHILIPS ELECTRONICS N.V.Inventors: Nilanjana Banerjee, Nevenka Dimitrova, Robert Lucito
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Publication number: 20110224103Abstract: A method is provided allowing for automatic selection of enzymes to be used in protocols such as methylation profiling, chip-on-chip, and comparative genomic hybridization experiments. The method may also maximize the space on a micro array for a given experiment. This means that the results from the micro array are improved. The method also improves zero-in and focus of significant patterns on a micro array. This enhances the ability to distinguish two separate classes of samples, e.g. tumour vs. normal, aggressive vs. non-aggressive, male vs. female, etc. Furthermore, a computer readable medium and a device are also provided.Type: ApplicationFiled: May 14, 2009Publication date: September 15, 2011Applicants: KONINKLIJKE PHILIPS ELECTRONICS N.V., COLD SPRING HARBOR LABORATORYInventors: Nevenka Dimitrova, Sitharthan Kawalakaran, Robert Lucito
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Publication number: 20100279879Abstract: Method for the analysis of breast cancer disorders, comprising determining the genomic methylation status of one or more CpG dinucleotides in a sequence selected from the group of sequences according to SEQ ID NO. 1 to 10 and/or SEQ ID NO. 50 to SEQ ID NO. 60. Optionally, additionally following steps are performed, the one or more results from the methylation status test is input into a classifier that is obtained from a Diagnostic Multi Variate Model, calculating a likelihood as to whether the sample is from a normal tissue or an breast cancer tissue and/or, calculating an associated p-value for the confidence in the prediction.Type: ApplicationFiled: September 16, 2008Publication date: November 4, 2010Applicants: KONINKLIJKE PHILIPS ELECTRONICS N.V., COLD SPRING HARBOR LABORATORIESInventors: Sitharthan Kamalakaran, Robert Lucito, James Bruce Hicks, Xiaoyue Zhao, Jude Kendall
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Publication number: 20100273674Abstract: The invention relates to a method for the analysis of ovarian cancer disorders, comprising determining the genomic methylation status of one or more CpG dinucleotides in a sequence selected from the group of sequences according to SEQ ID NO. 1 to 10 and/or SEQ ID NO. 50 to SEQ ID NO. 60. Optionally, additionally following steps are performed, the one or more results from the methylation status test is input into a classifier that is obtained from a Diagnostic Multi Variate Model, calculating a likelihood as to whether the sample is from a normal tissue or an ovarian cancer tissue and/or, calculating an associated p-value for the confidence in the prediction.Type: ApplicationFiled: September 16, 2008Publication date: October 28, 2010Inventors: Sitharthan Kamalakaran, Robert Lucito, James Bruce Hicks
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Patent number: 7531307Abstract: It is an object of the present invention to provide a solution to problems associated with the use of microarray technology for the analysis DNA. The present invention provides compositions and methods for the use of simple and compound representations of DNA in microarray technology. The present invention is also directed to methods for the production of High Complexity Representations (HCRs) of the DNA from cells.Type: GrantFiled: March 30, 2005Date of Patent: May 12, 2009Assignee: Cold Spring Harbor LaboratoryInventors: Michael Wigler, Robert Lucito
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Publication number: 20050266444Abstract: It is an object of the present invention to provide a solution to problems associated with the use of microarray technology for the analysis DNA. The present invention provides compositions and methods for the use of simple and compound representations of DNA in microarray technology. The present invention is also directed to methods for the production of High Complexity Representations (HCRs) of the DNA from cells.Type: ApplicationFiled: March 30, 2005Publication date: December 1, 2005Inventors: Michael Wigler, Robert Lucito
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Publication number: 20050196799Abstract: It is an object of the present invention to provide a solution to problems associated with the use of microarray technology for the analysis DNA. The present invention provides compositions and methods for the use of simple and compound representations of DNA in microarray technology. The present invention is also directed to methods for the production of High Complexity Representations (HCRs) of the DNA from cells.Type: ApplicationFiled: March 30, 2005Publication date: September 8, 2005Inventors: Michael Wigler, Robert Lucito
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Publication number: 20050032095Abstract: The invention provides oligonucleotide probes that can be used to hybridize to a representation of nucleic acid sequences. Compositions containing the probes such as microarrays are also provided. The invention also provides methods of using these probes and compositions in therapeutic, diagnostic, and research applications. Systems and methods for using a word counting algorithm that can quickly and accurately count the number of times a particular string of characters (i.e., nucleotides) appears in a nucleotide sequence (e.g., a genome) are provided. This algorithm can be used to identify the oligonucleotide probes of the invention. The algorithm uses a transform of a genome and an auxiliary data structure to count the number of times a particular word occurs in the genome.Type: ApplicationFiled: May 21, 2004Publication date: February 10, 2005Inventors: Michael Wigler, John Healy, Robert Lucito
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Publication number: 20040137473Abstract: It is an object of the present invention to provide a solution to problems associated with the use of microarray technology for the analysis DNA. The present invention provides compositions and methods for the use of simple and compound representations of DNA in microarray technology. The present invention is also directed to methods for the production of High Complexity Representations (HCRs) of the DNA from cells.Type: ApplicationFiled: October 1, 2003Publication date: July 15, 2004Applicant: Cold Spring Harbor LaboratoryInventors: Michael Wigler, Robert Lucito
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Publication number: 20030049663Abstract: The present invention to provides a solution to problems associated with the use of hybridization for genetic analysis, including but not limited to the use of microarray technology for the analysis DNA. The present invention provides compositions and methods for the use reflections of DNA in genetic analysis. The present invention is also directed to methods for the production of reflections of DNA.Type: ApplicationFiled: June 27, 2002Publication date: March 13, 2003Inventors: Michael Wigler, Robert Lucito, Lidia Serina, Eli Hatchwell