Patents by Inventor Garry P. Nolan

Garry P. Nolan 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).

  • METHODS OF PROGNOSIS AND DIAGNOSIS OF OVARIAN CANCER
    Publication number: 20170082628
    Abstract: Cellular markers indicating a poor prognosis for ovarian cancer patients are disclosed. In particular, the invention relates to methods utilizing the frequency of a subset of cells in ovarian tumor tissue expressing vimentin, cMyc, or HE4, or any combination thereof, to predict an ovarian cancer patient will relapse.
    Type: Application
    Filed: September 23, 2016
    Publication date: March 23, 2017
    Inventors: Jonathan Berek, Wendy Fantl, Veronica Gonzalez, Garry P. Nolan, Nikolay Samusik
  • Induced intercellular communication
    Patent number: 9459246
    Abstract: The present invention provides an approach for the determination of the activation state of discrete cell populations and/or the state of one or more cellular networks in an individual, when modulated with a modulator that acts on one cell population to communicate with other cell populations in the network. The status of discrete cell populations and/or the state of one or more cellular networks can be correlated with the diagnosis, prognosis, choice or modification of treatment, and/or monitoring of a condition, and with screening of agents.
    Type: Grant
    Filed: November 6, 2013
    Date of Patent: October 4, 2016
    Assignee: NODALITY, INC.
    Inventors: Rachael Hawtin, Drew Hotson, Alessandra Cesano, Garry P. Nolan
  • SINGLE CELL ANALYSIS USING SECONDARY ION MASS SPECTROMETRY
    Publication number: 20160282325
    Abstract: A method of analyzing a population of cells is disclosed. In certain embodiments, the method includes i) obtaining an array of cells on a substrate, wherein the cells are labeled with one or more mass tags and are separated from one another, ii) measuring, using secondary ion mass spectrometry (SIMS), the abundance of the one or more mass tags at a plurality of locations occupied by the cells, thereby generating, for each individual cell measured, a set of data, and iii) outputting the set of data for each of the cells analyzed. Also provided herein are systems that find use in performing the subject method. In some embodiments, the system is an automated system for analyzing a population of cells using SIMS.
    Type: Application
    Filed: March 11, 2016
    Publication date: September 29, 2016
    Inventors: GARRY P. NOLAN, Sean C. Bendall, Robert M. Angelo
  • METHODS OF IDENTIFYING MULTIPLE EPITOPES IN CELLS
    Publication number: 20160251697
    Abstract: The invention provides methods, compositions, kits and devices for the detection of target molecules. In some embodiments, the invention allows for multiplexed target molecule detection.
    Type: Application
    Filed: January 31, 2012
    Publication date: September 1, 2016
    Inventor: Garry P. NOLAN
  • MULTIPLEXED DETECTION AND QUANTIFICATION OF NUCLEIC ACIDS IN SINGLE-CELLS
    Publication number: 20160108458
    Abstract: Proximity Ligation Assay for RNA (PLAYR) provides cost-efficient detection of specific nucleic acids in single cells, and may be combined with flow cytometry to simultaneously analyze large numbers of cells for a plurality of nucleic acids, e.g. at least one, to up to 5, up to 10, up to 15, up to 20 or more transcripts can be simultaneously analyzed, at a rate of up to about 50, 100, 250, 500 or more cells/second. An advantage of PLAYR includes the ability to simultaneously analyze multiple nucleic acids and proteins in single cells, as the method is compatible with conventional antibody staining for proteins, intracellular phosphorylation sites, and other cellular antigens. This enables the simultaneous detection of multiple nucleic acid molecules in combination with additional cellular parameters.
    Type: Application
    Filed: October 5, 2015
    Publication date: April 21, 2016
    Inventors: Andreas Philipp Frei, Garry P. Nolan, Pier Federico Gherardini, Felice Alessio Bava
  • Apparatus and method for sub-micrometer elemental image analysis by mass spectrometry
    Patent number: 9312111
    Abstract: A mass spectrometer system having: a primary ion source capable of irradiating a segment on a planar sample with a beam of primary ions, an orthogonal ion mass-to-charge ratio, the analyzer being configured to separate secondary elemental atomic ions according to their mass-to-charge ratio by time of flight; an ion detector for detecting secondary elemental atomic ions and producing mass spectra measurements; and a synchronizer. In the system, the beam of primary ions scans across the planar sample in two dimensions and the synchronizer associates the mass spectra measurements with positions on the planar sample.
    Type: Grant
    Filed: March 30, 2015
    Date of Patent: April 12, 2016
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Sean C. Bendall, Robert M. Angelo, Garry P. Nolan
  • Methods and Compositions for Detecting Receptor Clustering and Activation Events in Single Cells
    Publication number: 20160003840
    Abstract: The invention provides methods and compositions for simultaneously detecting the activation state of a plurality of proteins in single cells using flow cytometry. The invention further provides methods and compositions of screening for bioactive agents capable of coordinately modulating the activity of a plurality of proteins in single cells. The methods and compositions can be used to determine the protein activation profile of a cell for predicting or diagnosing a disease state, and for monitoring treatment of a disease state.
    Type: Application
    Filed: July 17, 2015
    Publication date: January 7, 2016
    Inventors: Omar D. Perez, Garry P. Nolan
  • ON-SLIDE STAINING BY PRIMER EXTENSION
    Publication number: 20150368697
    Abstract: A method for analyzing planar sample is provided. In some cases the method comprises: (a) incubating the planar sample with a capture agent that is linked to an oligonucleotide, wherein the capture agent specifically binds to complementary sites in the planar sample; (b) reading a fluorescent signal caused by extension of a primer that is hybridized to the oligonucleotide, using fluorescence microscopy. Several implementations of the method, and multiplexed versions of the same, are also provided.
    Type: Application
    Filed: December 4, 2014
    Publication date: December 24, 2015
    Inventors: Nikolay Samusik, Garry P. Nolan, Yury Goltsev
  • INCREASING DYNAMIC RANGE FOR IDENTIFYING MULTIPLE EPITOPES IN CELLS
    Publication number: 20150329852
    Abstract: The invention provides methods, compositions, kits and devices for the detection of target molecules. In some embodiments, the invention allows for multiplexed target molecule detection.
    Type: Application
    Filed: August 8, 2013
    Publication date: November 19, 2015
    Inventor: Garry P. NOLAN
  • APPARATUS AND METHOD FOR SUB-MICROMETER ELEMENTAL IMAGE ANALYSIS BY MASS SPECTROMETRY
    Publication number: 20150287578
    Abstract: A mass spectrometer system for elemental analysis of a planar sample is provided. In some embodiments, the mass spectrometer system comprises: a primary ion source capable of irradiating a segment on planar sample with a beam of primary ions that is less than 1 mm in diameter, c) an orthogonal ion mass-to-charge ratio analyzer positioned downstream of sample interface, the analyzer being configured to separate secondary elemental atomic ions according to their mass-to-charge ratio by time of flight; d) an ion detector for detecting the secondary elemental atomic ions and producing mass spectra measurements; and e) a synchronizer, wherein the system is configured so that so that the beam of primary ions scans across the planar sample in two dimensions and the synchronizer associates the mass spectra measurements with positions on the planar sample.
    Type: Application
    Filed: March 30, 2015
    Publication date: October 8, 2015
    Inventors: Sean C. Bendall, Robert M. Angelo, Garry P. Nolan
  • COMPOSITIONS AND METHODS OF PROGNOSIS AND CLASSIFICATION FOR RECOVERY FROM SURGICAL TRAUMA
    Publication number: 20150241445
    Abstract: Multiparametric analysis at the single cell level of biological samples obtained from an individual undergoing surgery is used to obtain a determination of changes in immune cell subsets, which changes include, without limitation, altered activation states of proteins involved in signaling pathways. Changes occur in signaling pathways of these immune cells that are predictive of the recovery status of the individual.
    Type: Application
    Filed: February 23, 2015
    Publication date: August 27, 2015
    Inventors: Brice L. Gaudilliere, Gabriela K. Fragiadakis, Martin S. Angst, Garry P. Nolan
  • METHODS AND COMPOSITIONS FOR DETECTING THE ACTIVATION STATE OF MULTIPLE PROTEINS IN SINGLE CELLS
    Publication number: 20150241442
    Abstract: The invention provides methods and compositions for simultaneously detecting the activation state of a plurality of proteins in single cells using flow cytometry. The invention further provides methods and compositions of screening for bioactive agents capable of coordinately modulating the activity of a plurality of proteins in single cells. The methods and compositions can be used to determine the protein activation profile of a cell for predicting or diagnosing a disease state, and for monitoring treatment of a disease state.
    Type: Application
    Filed: February 11, 2015
    Publication date: August 27, 2015
    Inventors: Garry P. Nolan, Omar D. Perez
  • Methods and compositions for detecting receptor-ligand interactions in single cells
    Patent number: 9115384
    Abstract: The invention provides methods and compositions for simultaneously detecting the activation state of a plurality of proteins in single cells using flow cytometry. The invention further provides methods and compositions of screening for bioactive agents capable of coordinately modulating the activity of a plurality of proteins in single cells. The methods and compositions can be used to determine the protein activation profile of a cell for predicting or diagnosing a disease state, and for monitoring treatment of a disease state.
    Type: Grant
    Filed: May 2, 2011
    Date of Patent: August 25, 2015
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Omar D. Perez, Garry P. Nolan
  • MULTIPLEXED IMAGING OF TISSUES USING MASS TAGS AND SECONDARY ION MASS SPECTROMETRY
    Publication number: 20150080233
    Abstract: A method of generating a high resolution two-dimensional image of a sample comprising cells and extracellular structures is provided. In certain embodiments, the method comprises: labeling a sample with at least one mass tag, thereby producing a labeled sample; scanning the sample with a secondary ion mass spectrometer (SIMS) ion beam to generate a data set that comprises spatially-addressable measurements of the abundance of the mass tag across an area of the sample; and outputting the data set. In many embodiments, the data set contains the identity and abundance of the mass tag. A system for performing the method is also provided.
    Type: Application
    Filed: September 11, 2014
    Publication date: March 19, 2015
    Inventors: Sean C. Bendall, Garry P. Nolan, Robert M. Angelo
  • Methods and compositions for detecting the activation state of multiple proteins in single cells
    Patent number: 8962263
    Abstract: The invention provides methods and compositions for simultaneously detecting the activation state of a plurality of proteins in single cells using flow cytometry. The invention further provides methods and compositions of screening for bioactive agents capable of coordinately modulating the activity of a plurality of proteins in single cells. The methods and compositions can be used to determine the protein activation profile of a cell for predicting or diagnosing a disease state, and for monitoring treatment of a disease state.
    Type: Grant
    Filed: April 26, 2011
    Date of Patent: February 24, 2015
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Omar D. Perez, Garry P. Nolan
  • Mutations in the LNK gene in patients with myeloproliferative neoplasms and other hematolymphoid malignancies
    Patent number: 8945846
    Abstract: Aspects of the present invention include methods, compositions and kits for classifying a subject as having or being predisposed to a hematolymphoid neoplasm or malignancy if they harbor a mutation in the LNK gene. Aspects of the present invention also include screening for candidate agents for treating LNK mutation-based hematolymphoid neoplasms or malignancies in cell-based and cell free assays as well as therapeutic compositions for treating a LNK-mutant based hematolymphoid disorder. Also provided are compositions, systems, kits and computer program products that find use in practicing the subject methods.
    Type: Grant
    Filed: January 12, 2011
    Date of Patent: February 3, 2015
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Jason Robert Gotlib, Garry P. Nolan, James L. Zehnder, Stephen Tracy Oh
  • Metal-Based Covalent Viability Reagent for Single Cell Analysis
    Publication number: 20140329272
    Abstract: The present invention provides a robust viability stain for methods utilizing elemental analysis. A population of cells is contacted with an effective dose of a non-chelated biomacromolecule-reactive metal derivative, which selectively crosses the plasma membrane of non-viable cells, and which covalently modifies a biological macromolecule within the cell, for a period of time sufficient to permit entry into non-viable cells. The population of cells is then washed free of unbound viability reagent; and the presence of the metal within the cells is detected, wherein non-viable cells are selectively labeled with the viability reagent.
    Type: Application
    Filed: May 2, 2014
    Publication date: November 6, 2014
    Inventors: Bernd Bodenmiller, Erin F. Simonds, Harris G. Fienberg, Garry P. Nolan
  • Methods and compositions for risk stratification
    Patent number: 8865420
    Abstract: The present invention provides an approach for the simultaneous determination of the activation states of a plurality of proteins in single cells. This approach permits the rapid detection of heterogeneity in a complex cell population based on activation states, and the identification of cellular subsets that exhibit correlated changes in activation within the cell population. Moreover, this approach allows the correlation of cellular activities or properties. In addition, the use of potentiators of cellular activation allows for characterization of such pathways and cell populations.
    Type: Grant
    Filed: May 22, 2008
    Date of Patent: October 21, 2014
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Omar D. Perez, Garry P. Nolan, Jonathan M. Irish
  • Methods and compositions for detecting the activation state of multiple proteins in single cells
    Patent number: 8815527
    Abstract: The invention provides methods and compositions for simultaneously detecting the activation state of a plurality of proteins in single cells using flow cytometry. The invention further provides methods and compositions of screening for bioactive agents capable of coordinately modulating the activity of a plurality of proteins in single cells. The methods and compositions can be used to determine the protein activation profile of a cell for predicting or diagnosing a disease state, and for monitoring treatment of a disease state.
    Type: Grant
    Filed: April 26, 2011
    Date of Patent: August 26, 2014
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Omar D. Perez, Garry P. Nolan
  • Mass Dots: Nanoparticle Isotope Tags
    Publication number: 20140221241
    Abstract: Compositions and methods are provided for the use of nanoparticles, which may be referred to herein as mass dots, as mass tags for probes such as antibodies, aptamers, nucleic acids, etc. in multiplexed bioassays with ICP-MS detection.
    Type: Application
    Filed: February 5, 2014
    Publication date: August 7, 2014
    Inventors: Garry P. Nolan, Erin F. Simonds, Sean C. Bendall, Bernd Bodenmiller