Abstract: The present invention provides methods of determination of a global DNA methylation index (GDMI) in a sample from a subject, using a variety of methods which can detect global, genome-wide, and gene-specific DNA methylation to create methylation portraits that can be used for early detection, diagnosis, and clinical management in the personalized medicine space. Further, the invention provides methods of diagnosis of cancer, including gastric cancer and hepatocellular cancer in a subject, by comparing the GDMI in a sample obtained from a subject to the methylation index of standard controls. These methods allow diagnosis of gastric carcinoma and liver cancer in patients who may be asymptomatic or have inconclusive pathology, and allowing earlier treatment of the subject.
Type:
Grant
Filed:
February 29, 2012
Date of Patent:
May 20, 2014
Assignee:
The Johns Hopkins University
Inventors:
Rafael Guerrero-Preston, David Sidransky
Abstract: Described is a method for determining that a population of cells are a specific type of leukemic cell based on the replication timing fingerprint for the population of cells.
Type:
Grant
Filed:
December 26, 2012
Date of Patent:
May 13, 2014
Assignee:
Florida State University Research Foundation
Abstract: The present invention concerns novel isolated fluorescent proteins, variants thereof, and polynucleotides encoding the same. Methods for making and using the polypeptides and polynucleotides are also provided. For example, methods to detect protein-protein interactions, to develop novel fluorescent reagents, to monitor cellular events, as well as cell-based methods for screening for kinase or phosphatase inhibitors, are set forth. Kits to carry out the methods of the invention are also taught.
Type:
Grant
Filed:
September 16, 2010
Date of Patent:
April 29, 2014
Inventors:
David Gruber, Hung-Teh Kao, Vincent Pieribone
Abstract: Provided herein are methods of integrating one or more exogenous nucleic acids into one or more selected target sites of a host cell genome. In certain embodiments, the methods comprise contacting the host cell genome with one or more integration polynucleotides comprising an exogenous nucleic acid to be integrated into a genomic target site, and a nuclease capable of causing a double-strand break near or within the genomic target site.
Abstract: Disclosed herein are compositions, methods and kits for analyzing three-dimensional chromatin and/or chromosome conformation. Method are also disclosed for using the methods disclosed herein for diagnosing diseases such as cancer.
Type:
Grant
Filed:
May 18, 2012
Date of Patent:
March 4, 2014
Assignee:
Life Technologies Corporation
Inventors:
Shoulian Dong, Junko F. Stevens, Chunmei Liu, Cora L. Woo, Luz Montesclaros
Abstract: The present invention relates to a microarray comprising at least 50,000 oligopeptide features per cm2 where the oligopeptide features represent at least 50%, 60%, 70%, 80%, 90%, 95%, 99%, or 100% of the proteome of a virus or an organism. The present invention further relates to methods for the synthesis of such microarrays and methods of using microarrays comprising at least 50,000 oligopeptide features per cm2. In an embodiment of the invention, the oligopeptide features represent proteins expressed in the same species, wherein the oligopeptide features are presented in a tiling pattern representing at least about 5,000 to-at least about 25,000 proteins expressed in a species. In some embodiments, the oligopeptide microarray features represent proteins expressed in the same species, wherein the microarray features are present in a tiling pattern that represents at least about 5,000 to at least about 50,000 expressed proteins.
Type:
Grant
Filed:
March 13, 2012
Date of Patent:
February 25, 2014
Assignee:
Roche NimbleGen, Inc.
Inventors:
Tom Albert, Todd Richmond, Matthew Rodesch, Klaus-Peter Stengele, Jochen Bühler
Abstract: A method and system for amplifying non-coding RNA, microRNA, and small polynucleotide sequences through the generation of a pool of signature sequences to the target sequences. The target sequences can be amplified through DNA synthesis, RNA synthesis, or the combination of DNA and RNA synthesis. The amplification of signature sequences provides an efficient and reproducible mechanism to determine the presence or absence of the miRNAs, to analyze the quantities of the target miRNAs, and for miRNA profiling. The method may also be used for screening for unknown non-coding RNAs, including novel miRNAs.
Type:
Grant
Filed:
August 24, 2007
Date of Patent:
November 12, 2013
Assignee:
Research Foundation For Mental Hygiene, Inc.