Patents by Inventor Tobias Sjoblom
Tobias Sjoblom 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: 10787712Abstract: Analysis of 13,023 genes in 11 breast and 11 colorectal cancers revealed that individual tumors accumulate an average of ˜90 mutant genes but that only a subset of these contribute to the neoplastic process. Using stringent criteria to delineate this subset, we identified 189 genes (average of 11 per tumor) that were mutated at significant frequency. The vast majority of these genes were not known to be genetically altered in tumors and are predicted to affect a wide range of cellular functions, including transcription, adhesion, and invasion. These data define the genetic landscape of two human cancer types, provide new targets for diagnostic and therapeutic intervention and monitoring.Type: GrantFiled: March 19, 2020Date of Patent: September 29, 2020Assignee: The Johns Hopkins UniversityInventors: Tobias Sjoblom, Sian Jones, D. Williams Parsons, Laura D. Wood, Jimmy Cheng-Ho Lin, Thomas Barber, Diana Mandelker, Bert Vogelstein, Kenneth W. Kinzler, Victor E. Velculescu
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Publication number: 20200239970Abstract: Analysis of 13,023 genes in 11 breast and 11 colorectal cancers revealed that individual tumors accumulate an average of ˜90 mutant genes but that only a subset of these contribute to the neoplastic process. Using stringent criteria to delineate this subset, we identified 189 genes (average of 11 per tumor) that were mutated at significant frequency. The vast majority of these genes were not known to be genetically altered in tumors and are predicted to affect a wide range of cellular functions, including transcription, adhesion, and invasion. These data define the genetic landscape of two human cancer types, provide new targets for diagnostic and therapeutic intervention and monitoring.Type: ApplicationFiled: March 19, 2020Publication date: July 30, 2020Inventors: Tobias SJOBLOM, Sian JONES, D. Williams PARSONS, Laura D. WOOD, Jimmy Cheng-Ho LIN, Thomas BARBER, Diana MANDELKER, Bert VOGELSTEIN, Kenneth W. KINZLER, Victor E. VELCULESCU
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Publication number: 20200048719Abstract: Analysis of 13,023 genes in 11 breast and 11 colorectal cancers revealed that individual tumors accumulate an average of ˜90 mutant genes but that only a subset of these contribute to the neoplastic process. Using stringent criteria to delineate this subset, we identified 189 genes (average of 11 per tumor) that were mutated at significant frequency. The vast majority of these genes were not known to be genetically altered in tumors and are predicted to affect a wide range of cellular functions, including transcription, adhesion, and invasion. These data define the genetic landscape of two human cancer types, provide new targets for diagnostic and therapeutic intervention and monitoring.Type: ApplicationFiled: October 25, 2019Publication date: February 13, 2020Inventors: Tobias SJOBLOM, Sian JONES, D. Williams PARSONS, Laura D. WOOD, Jimmy Cheng-Ho LIN, Thomas BARBER, Diana MANDELKER, Bert VOGELSTEIN, Kenneth W. KINZLER, Victor E. VELCULESCU
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Patent number: 10325183Abstract: An improved system and method for digital image classification is provided. A host computer having a processor is coupled to a memory storing thereon reference feature data. A graphics processing unit (GPU) having a processor is coupled to the host computer and is configured to obtain, from the host computer, feature data corresponding to the digital image; to access, from the memory, the one or more reference feature data; and to determine a semi-metric distance based on a Poisson-Binomial distribution between the feature data and the one or more reference feature data. The host computer is configured to classify the digital image using the determined semi-metric distance.Type: GrantFiled: September 15, 2015Date of Patent: June 18, 2019Assignee: Temasek Life Sciences Laboratory LimitedInventors: Muthukaruppan Swaminathan, Tobias Sjoblom, Ian Cheong, Obdulio Piloto
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Patent number: 10274405Abstract: A method for deparaffinizing an FFPE tissue sample comprises mixing the FFPE tissue sample with an organic solvent to form a first mixture (10). A surfactant is added to the first mixture (10) to form a second mixture. The second mixture is separated into an organic solvent layer (11) and a surfactant layer (12). The surfactant layer (12) comprises a deparaffinized tissue sample from the FFPE tissue sample. The method also comprises adding water or an aqueous solution to the separated second mixture to form an organic solvent layer (11), a water or aqueous solution layer (13) and a surfactant layer (12). This surfactant layer comprises the deparaffinized tissue sample.Type: GrantFiled: November 25, 2016Date of Patent: April 30, 2019Assignee: EXSCALE BIOSPECIMEN SOLUTIONS ABInventors: Lucy Mathot, Karin Hartman, Tobias Sjöblom
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Publication number: 20180148713Abstract: A method for deparaffinizing an FFPE tissue sample comprises mixing the FFPE tissue sample with an organic solvent to form a first mixture (10). A surfactant is added to the first mixture (10) to form a second mixture. The second mixture is separated into an organic solvent layer (11) and a surfactant layer (12). The surfactant layer (12) comprises a deparaffinized tissue sample from the FFPE tissue sample. The method also comprises adding water or an aqueous solution to the separated second mixture to form an organic solvent layer (11), a water or aqueous solution layer (13) and a surfactant layer (12). This surfactant layer comprises the deparaffinized tissue sample.Type: ApplicationFiled: November 25, 2016Publication date: May 31, 2018Inventors: Lucy MATHOT, Karin HARTMAN, Tobias SJÖBLOM
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Publication number: 20170362659Abstract: Analysis of 13,023 genes in 11 breast and 11 colorectal cancers revealed that individual tumors accumulate an average of ˜90 mutant genes but that only a subset of these contribute to the neoplastic process. Using stringent criteria to delineate this subset, we identified 189 genes (average of 11 per tumor) that were mutated at significant frequency. The vast majority of these genes were not known to be genetically altered in tumors and are predicted to affect a wide range of cellular functions, including transcription, adhesion, and invasion. These data define the genetic landscape of two human cancer types, provide new targets for diagnostic and therapeutic intervention and monitoring.Type: ApplicationFiled: January 24, 2017Publication date: December 21, 2017Applicant: The Johns Hopkins UniversityInventors: Tobias SJOBLOM, Sian JONES, D. Williams PARSONS, Laura D. WOOD, Jimmy Cheng-Ho LIN, Thomas BARBER, Diana MANDELKER, Bert VOGELSTEIN, Kenneth W. KINZLER, Victor E. VELCULESCU
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Publication number: 20170249535Abstract: An improved system and method for digital image classification is provided. A host computer having a processor is coupled to a memory storing thereon reference feature data. A graphics processing unit (GPU) having a processor is coupled to the host computer and is configured to obtain, from the host computer, feature data corresponding to the digital image; to access, from the memory, the one or more reference feature data; and to determine a semi-metric distance based on a Poisson-Binomial distribution between the feature data and the one or more reference feature data. The host computer is configured to classify the digital image using the determined semimetric distance.Type: ApplicationFiled: September 15, 2015Publication date: August 31, 2017Inventors: Muthukaruppan SWAMINATHAN, Tobias SJOBLOM, Ian CHEONG, Obdulio PILOTO
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Patent number: 9551037Abstract: Analysis of 13,023 genes in 11 breast and 11 colorectal cancers revealed that individual tumors accumulate an average of ˜90 mutant genes but that only a subset of these contribute to the neoplastic process. Using stringent criteria to delineate this subset, we identified 189 genes (average of 11 per tumor) that were mutated at significant frequency. The vast majority of these genes were not known to be genetically altered in tumors and are predicted to affect a wide range of cellular functions, including transcription, adhesion, and invasion. These data define the genetic landscape of two human cancer types, provide new targets for diagnostic and therapeutic intervention and monitoring.Type: GrantFiled: March 25, 2014Date of Patent: January 24, 2017Assignee: The Johns Hopkins UniversityInventors: Tobias Sjoblom, Sian Jones, D. Williams Parsons, Laura D. Wood, Jimmy Cheng-Ho Lin, Thomas Barber, Diana Mandelker, Bert Vogelstein, Kenneth W. Kinzler, Victor E. Velculescu
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Publication number: 20150167095Abstract: Analysis of 13,023 genes in 11 breast and 11 colorectal cancers revealed that individual tumors accumulate an average of ˜90 mutant genes but that only a subset of these contribute to the neoplastic process. Using stringent criteria to delineate this subset, we identified 189 genes (average of 11 per tumor) that were mutated at significant frequency. The vast majority of these genes were not known to be genetically altered in tumors and are predicted to affect a wide range of cellular functions, including transcription, adhesion, and invasion. These data define the genetic landscape of two human cancer types, provide new targets for diagnostic and therapeutic intervention and monitoring.Type: ApplicationFiled: March 25, 2014Publication date: June 18, 2015Applicant: THE JOHNS HOPKINS UNIVERSITYInventors: Tobias SJOBLOM, Sian JONES, D. Williams PARSONS, Laura D. WOOD, Jimmy Cheng-Ho LIN, Thomas BARBER, Diana MANDELKER, Bert VOGELSTEIN, Kenneth W. KINZLER, Victor E. VELCULESCU
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Publication number: 20140377754Abstract: Human cancer is caused by the accumulation of mutations in oncogenes and tumor suppressor genes. To catalogue the genetic changes that occur during tumorigenesis, we isolated DNA from 11 breast and 11 colorectal tumors and determined the sequences of the genes in the Reference Sequence database in these samples. Based on analysis of exons representing 20,857 transcripts from 18,191 genes, we conclude that the genomic landscapes of breast and colorectal cancers are composed of a handful of commonly mutated gene “mountains” and a much larger number of gene “hills” that are mutated at low frequency. We describe statistical and bioinformatic tools that may help identify mutations with a role in tumorigenesis. These results have implications for understanding the nature and heterogeneity of human cancers and for using personal genomics for tumor diagnosis and therapy.Type: ApplicationFiled: August 5, 2014Publication date: December 25, 2014Inventors: Laura D. WOOD, D. Williams PARSONS, Sian JONES, Jimmy Cheng-Ho LIN, Tobias SJOBLOM, Thomas BARBER, Giovanni PARMIGIANI, Victor VELCULESCU, Kenneth W. KINZLER, Bert VOGELSTEIN
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Patent number: 8889393Abstract: The invention provides a process and kit for serial isolation of DNA and RNA from the same sample. First, a siliceous solid support with preferential affinity for DNA over RNA is used to capture DNA in a lysate of a sample. Next, a siliceous solid support with similar affinity for RNA and DNA is used to capture RNA from the same lysate. The respective solid supports are recovered independent of each other, washed, and their bound nucleotide species are eluted. The invention further provides DNA and RNA prepared using the process in a minimal number of steps employing a minimal number of reagents. As the invention yields DNA and RNA of high quality and is amenable to automation, the invention may be used widely in the healthcare and pharmaceutical industries.Type: GrantFiled: June 27, 2011Date of Patent: November 18, 2014Assignee: ExScale Biospecimen Solutions ABInventors: Tobias Sjöblom, Lucy Mathot
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Patent number: 8741573Abstract: Analysis of 13,023 genes in 11 breast and 11 colorectal cancers revealed that individual tumors accumulate an average of ˜90 mutant genes but that only a subset of these contribute to the neoplastic process. Using stringent criteria to delineate this subset, we identified 189 genes (average of 11 per tumor) that were mutated at significant frequency. The vast majority of these genes were not known to be genetically altered in tumors and are predicted to affect a wide range of cellular functions, including transcription, adhesion, and invasion. These data define the genetic landscape of two human cancer types, provide new targets for diagnostic and therapeutic intervention and monitoring.Type: GrantFiled: August 13, 2007Date of Patent: June 3, 2014Assignee: The Johns Hopkins UniversityInventors: Tobias Sjoblom, Sian Jones, D. Williams Parsons, Laura D. Wood, Jimmy Lin, Thomas Barber, Diana Mandelker, Bert Vogelstein, Kenneth W. Kinzler, Victor E. Velculesu
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Publication number: 20130196312Abstract: Human cancer is caused by the accumulation of mutations in oncogenes and tumor suppressor genes. To catalogue the genetic changes that occur during tumorigenesis, we isolated DNA from 11 breast and 11 colorectal tumors and determined the sequences of the genes in the Reference Sequence database in these samples. Based on analysis of exons representing 20,857 transcripts from 18,191 genes, we conclude that the genomic landscapes of breast and colorectal cancers are composed of a handful of commonly mutated gene “mountains” and a much larger number of gene “hills” that are mutated at low frequency. We describe statistical and bioinformatic tools that may help identify mutations with a role in tumorigenesis. These results have implications for understanding the nature and heterogeneity of human cancers and for using personal genomics for tumor diagnosis and therapy.Type: ApplicationFiled: September 28, 2011Publication date: August 1, 2013Applicant: THE JOHNS HOPKINS UNIVERSITYInventors: Laura D. WOOD, Williams D. PARSONS, Sian JONES, Jimmy LIN, Tobias SJÖBLOM, Thomas BARBER, Giovanni PARMIGIANI, Victor VELCULESCU, Kenneth W. KINZLER, Bert VOGELSTEIN
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Publication number: 20130164819Abstract: The invention provides a process and kit for serial isolation of DNA and RNA from the same sample. First, a siliceous solid support with preferential affinity for DNA over RNA is used to capture DNA in a lysate of a sample. Next, a siliceous solid support with similar affinity for RNA and DNA is used to capture RNA from the same lysate. The respective solid supports are recovered independent of each other, washed, and their bound nucleotide species are eluted. The invention further provides DNA and RNA prepared using the process in a minimal number of steps employing a minimal number of reagents. As the invention yields DNA and RNA of high quality and is amenable to automation, the invention may be used widely in the healthcare and pharmaceutical industries.Type: ApplicationFiled: June 27, 2011Publication date: June 27, 2013Inventors: Tobias Sjöblom, Lucy Mathot
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Publication number: 20100316995Abstract: Analysis of 13,023 genes in 11 breast and 11 colorectal cancers revealed that individual tumors accumulate an average of ˜90 mutant genes but that only a subset of these contribute to the neoplastic process. Using stringent criteria to delineate this subset, we identified 189 genes (average of 11 per tumor) that were mutated at significant frequency. The vast majority of these genes were not known to be genetically altered in tumors and are predicted to affect a wide range of cellular functions, including transcription, adhesion, and invasion. These data define the genetic landscape of two human cancer types, provide new targets for diagnostic and therapeutic intervention and monitoring.Type: ApplicationFiled: August 13, 2007Publication date: December 16, 2010Applicant: JOHNS HOPKINS UNIVERSITYInventors: Tobias Sjoblom, Sian Jones, D. Williams Parsons, Laura D. Wood, Jimmy Lin, Thomas Barber, Diana Mandelker, Bert Vogelstein, Kenneth W. Kinzler, Victor E. Velculesu
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Publication number: 20090123928Abstract: Human cancer is caused by the accumulation of mutations in oncogenes and tumor suppressor genes. To catalogue the genetic changes that occur during tumorigenesis, we isolated DNA from 11 breast and 11 colorectal tumors and determined the sequences of the genes in the Reference Sequence database in these samples. Based on analysis of exons representing 20,857 transcripts from 18,191 genes, we conclude that the genomic landscapes of breast and colorectal cancers are composed of a handful of commonly mutated gene “mountains” and a much larger number of gene “hills” that are mutated at low frequency. We describe statistical and bioinformatic tools that may help identify mutations with a role in tumorigenesis. These results have implications for understanding the nature and heterogeneity of human cancers and for using personal genomics for tumor diagnosis and therapy.Type: ApplicationFiled: October 8, 2008Publication date: May 14, 2009Applicant: The Johns Hopkins UniversityInventors: Laura D. Wood, Williams D. Parsons, Sian Jones, Jimmy Lin, Tobias Sjoblom, Thomas Barber, Giovanni Parmigiani, Victor Velculescu, Kenneth W. Kinzler, Bert Vogelstein