Brian E Smart

US Patent:

8642744, Feb 4, 2014

Filed:

Oct 28, 2010

Appl. No.:

12/914800

Inventors:

Brian Phillip Smart - Cupertino CA, US

Assignee:

Agilent Technologies, Inc. - Santa Clara CA

International Classification:

C07K 1/00
C07K 17/00
C07K 17/06
C12Q 1/00
C12N 11/00
C12N 11/06

US Classification:

530402, 435 4, 435174, 435181, 530810, 530816

Abstract:

Crosslinking reagents and methods for using the same for analysis of protein-protein interactions, are provided. The crosslinking reagents include a trifunctional scaffold that links two protein linking groups to each other and branches to link an affinity tag, where the protein linking groups can be fragmented from the scaffold. The distance between the two protein linking groups can be selected to crosslink two proteins of a protein complex via accessible amino acid residues. Also provided are crosslinked polypeptide compounds and kits that include crosslinking reagents. These reagents and methods find use in a variety of applications in which crosslinking of proteins in desired.

US Patent:

20120115237, May 10, 2012

Filed:

Oct 6, 2011

Appl. No.:

13/267702

Inventors:

Brian Phillip Smart - Cupertino CA, US
Robert A. Ach - San Francisco CA, US

International Classification:

G01N 33/68

US Classification:

436 86

Abstract:

Provided herein is a method of sample analysis. In certain embodiments, the method comprises: a) cross-linking protein of a cell using a first compound to produce a first cross-linked product comprising cross-linked protein, and RNA; b) contacting the first cross-linked product and a second compound under conditions by which an oligonucleotide portion of the second compound hybridizes to the RNA; c) activating a reaction the first and second compound, thereby covalently crosslinking the oligonucleotide to the cross-linked protein to produce a second cross-linked product; d) isolating the second cross-linked product using an affinity tag; and e) analyzing the isolated second cross-linked product. Compounds for performing the method are also provided.

US Patent:

20200190129, Jun 18, 2020

Filed:

Aug 17, 2018

Appl. No.:

16/640005

Inventors:

- Santa Clara CA, US
Joel MYERSON - Berkeley CA, US
Brian SMART - Santa Clara CA, US

International Classification:

C07H 1/06
C07H 21/02

Abstract:

Compounds and methods for purifying oligonucleotides such as RNA and DNA. A target oligonucleotide is reacted with an orthoester linker comprising an affinity tag to form an orthoester oligonucleotide-orthoester linker conjugate which is subjected to a purification technique to separate the target oligonucleotide from impurities such as truncated oligonucleotides. The orthoester linker can be then removed under mild conditions to generate the target oligonucleotide in high purity.

US Patent:

20200181124, Jun 11, 2020

Filed:

Feb 18, 2020

Appl. No.:

16/793808

Inventors:

- Santa Clara CA, US
Joel MYERSON - Berkeley CA, US
Brian SMART - Santa Clara CA, US

International Classification:

C07D 405/12
C07D 403/06
C07D 317/34
C07H 21/02

Abstract:

Compounds and methods for purifying oligonucleotides such as RNA and DNA. A target oligonucleotide is reacted with an orthoester linker comprising an affinity tag to form an orthoester oligonucleotide-orthoester linker conjugate which is subjected to a purification technique to separate the target oligonucleotide from impurities such as truncated oligonucleotides. The orthoester linker can be then removed under mild conditions to generate the target oligonucleotide in high purity.

US Patent:

20190285522, Sep 19, 2019

Filed:

Mar 1, 2019

Appl. No.:

16/290053

Inventors:

- Santa Clara CA, US
Brian Phillip Smart - San Jose CA, US

International Classification:

G01N 1/40
B01D 11/04
B01D 15/38

Abstract:

Methods for removing salts from a metabolite solution. The methods comprise forming an insoluble silver phosphate salt. Further methods include methods for removing hydrolyzed fluorous compounds. These methods comprise extraction with a fluorous solvent in the presence of a protonation reagent and/or chromatography on a fluorous affinity resin. Methods also include separating lysed cell debris and denatured proteins/disrupted enzymes from a metabolite mixture in a container with a filter, where live cells are grown prior to the lysis, either adherent to the filter or in suspension above the filter. The cells are then lysed in the container.

US Patent:

20160122800, May 5, 2016

Filed:

Nov 3, 2014

Appl. No.:

14/531563

Inventors:

- Loveland CO, US
Robert Ach - San Francisco CA, US
Mistuni Ghosh - Santa Clara CA, US
Brian Smart - San Jose CA, US

International Classification:

C12Q 1/68

Abstract:

Among other things, this disclosure provides a method of detecting a target nucleic acid. Aspects of the method include: (a) obtaining a labeled nucleic acid probe that is complementary to a target nucleic acid, wherein the probe comprises a capture tag; (b) hybridizing the probe with the target nucleic in a fixed cell, in situ, to produce a duplex; (c) linking the probe in the duplex to a peroxidase conjugate via the capture tag to produce a peroxidase-labeled duplex; and (d) incubating the peroxidase-labeled duplex with a peroxidase substrate, wherein the peroxidase activity of the peroxidase conjugate catalyzes deposition of the substrate in the vicinity of the duplex, thereby producing a detectable signal.

US Patent:

20140199716, Jul 17, 2014

Filed:

Jan 15, 2014

Appl. No.:

14/156175

Inventors:

- Oakland CA, US
Brian P. Smart - Cupertino CA, US
Austin A. Pitcher - Saint James MN, US
Krishnan K. Palaniappan - Columbia MO, US
Mark A. Breidenbach - New York NY, US

Assignee:

The Regents of the University of California - Oakland CA

International Classification:

G01N 33/68

US Classification:

435 23, 435 405, 4352871

Abstract:

Aspects of the present disclosure include methods for detecting a low abundance protein and methods for identifying a site of N-glycosylation on a protein. In practicing methods according to certain embodiments, a eukaryotic cell is contacted with an isotopic labeling composition and isotopically labeled N-glycosylated peptides obtained from the eukaryotic cell are assessed by liquid chromatography-tandem mass spectrometry. A predetermined isotopic pattern in the mass spectrum is identified and amino acid sequences of the peptides containing the predetermined isotopic pattern are determined. Systems for identifying a predetermined isotopic pattern in mass spectra and determining amino acid sequences of peptides containing the predetermined isotopic pattern are also described.