Andrew D Ellington

US Patent:

6706481, Mar 16, 2004

Filed:

Oct 26, 2001

Appl. No.:

10/014973

Inventors:

Manjula Rajendran - Austin TX
Andrew D. Ellington - Austin TX
Sulay D. Jhaveri - Alexandria VA

Assignee:

Research Development Foundation - Carson City NV

International Classification:

C12Q 168

US Classification:

435 6, 435 912, 435 9151, 4352871, 4352872, 536 231, 536 2532

Abstract:

The present invention provides a method for the in vitro selection of signaling aptamers comprising the steps of synthesizing a DNA pool, the DNA having a random insert of nucleotides of a specific skewed mole ratio; amplifying the DNA pool; transcribing an RNA pool from the amplified DNA using a fluorescently labeled nucleotide; applying the fluorescently labeled RNA pool to an affinity column to remove the high-affinity fluorescent RNA molecules from the fluorescently labeled RNA pool; obtaining a cDNA pool from the high-affinity fluorescent RNA molecules; repeating the amplification and selection steps on the fluorescent RNA molecules and cloning the fluorescent RNA molecules to yield signaling aptamers. Signaling aptamers comprising DNA molecules are also selected for. Also provided is a signaling aptamer that transduces the conformational change upon binding a ligand to a change in fluorescence intensity of the signaling aptamer.

US Patent:

6994963, Feb 7, 2006

Filed:

Jul 10, 2000

Appl. No.:

09/613535

Inventors:

George L. Murphy - Austin TX, US
Robert A. Setterquist - Austin TX, US
Andrew D. Ellington - Austin TX, US

Assignee:

Ambion, Inc. - Austin TX

International Classification:

C12Q 1/68
C12P 21/06
C12P 19/34
C07H 21/04

US Classification:

435 6, 435 691, 435 911, 435 9151, 536 231, 536 235, 536 2433

Abstract:

This invention pertains to a method for generating a pool of nucleic acid fragments useful for in vitro recombination and the creation of novel DNA sequences that encode desirable proteins or enzymes. The invention provides a defined mixture of nucleic acids and methods for use in the synthesis, mutagenesis, and recombination of nucleic acids. Nucleic acids may be synthesized by creating a nucleic acid extension ladder, annealing the extension ladder to template nucleic acids, and further extending the ladder of nucleic acids. The invention also relates to methods for performing repeated cycles of synthesis for the purpose of mutagenesis or recombination, methods for producing mutant peptides and proteins from the mutagenized or recombined nucleic acids, and methods for selecting a peptide, polypeptide or protein having altered biological activities.

US Patent:

8298764, Oct 30, 2012

Filed:

Apr 9, 2008

Appl. No.:

12/100390

Inventors:

Andrew D. Ellington - Austin TX, US
Matthew Levy - Larchmont NY, US
Amy Yan - Larchmont NY, US
Ted Chitai Chu - Palo Alto CA, US

Assignee:

Board of Regents, The University of Texas System - Austin TX

International Classification:

C12Q 1/68
C12N 5/00
C12N 5/02
C07H 21/02

US Classification:

435 61, 435325, 536 231

Abstract:

The present invention includes compositions and methods for contacting one or more cells with a random RNA-containing library, treating the contacted cells and with a denaturing agent or digestion with one or more nucleases, and extracting from the cells one or more internalized nucleic acids resistant to the nucleases or denaturants.

US Patent:

20010046674, Nov 29, 2001

Filed:

Feb 2, 2001

Appl. No.:

09/776252

Inventors:

Andrew Ellington - Austin TX, US

International Classification:

C12Q001/68

US Classification:

435/006000

Abstract:

The present invention provides a method of transducing the conformational change undergone by a signaling aptamer upon binding a ligand to a differential signal generated by a reporter molecule. Also provided is a method of detecting and quantitating a ligand in solution using an aptamer conjugated to a fluorescent dye (signaling aptamer) to bind to the ligand and measuring the resultant optical signal generated.

US Patent:

20030104520, Jun 5, 2003

Filed:

Jun 14, 2001

Appl. No.:

09/883119

Inventors:

Andrew Ellington - Austin TX, US
Jay Hesselberth - Austin TX, US
Kristin Marshall - Cambridge MA, US
Michael Robertson - Austin TX, US
Letha Sooter - Austin TX, US
Eric Davidson - Austin TX, US
J. Cox - Austin TX, US
Timothy Reidel - Austin TX, US

International Classification:

A61K038/08
A61K038/10
C07K007/08
C07K007/06
C07H021/04
C12P021/02
C12N005/06

US Classification:

435/069100, 435/320100, 435/325000, 530/327000, 530/328000, 530/329000, 514/007000, 536/023500

Abstract:

Compositions and methods are provided to make, isolate, characterize and use regulatable, catalytically active nucleic acids (RCANA). RCANA may be used for regulating gene expression and in assays to detect the presence of ligands or to detect activation by an effector of an RCANA bound to a solid support such as a chip or multi-well plate. Also disclosed are compositions and methods for automating the selection procedures of the present invention.

US Patent:

20040023415, Feb 5, 2004

Filed:

Mar 5, 2003

Appl. No.:

10/382136

Inventors:

Konstantin Sokolov - Austin TX, US
Brian Korgel - Round Rock TX, US
Andrew Ellington - Austin TX, US

International Classification:

G01N033/543

US Classification:

436/518000

Abstract:

Methods and apparatuses for detecting a condition of a sample (including cervical cancers and pre-cancers) through reflectance and/or fluorescence imaging. A sample is obtained. One or more metallic nanoparticles and/or one or more quantum dots are obtained. The one or more metallic nanoparticles and/or one or more quantum dots are coupled to one or more biomarkers of the sample that are associated with the condition. A reflectance and/or fluorescence image of the sample is then taken. The image(s) exhibit characteristic optical scattering from the one or more metallic nanoparticles and/or characteristic fluorescence excitation from the one or more quantum dots to signal the presence of the one or more biomarkers. In this way, the condition can be readily screened or diagnosed.

US Patent:

20040086924, May 6, 2004

Filed:

Oct 16, 2003

Appl. No.:

10/687125

Inventors:

Andrew Ellington - Austin TX, US
Sulay Jhaveri - Alexandria VA, US
Manjula Rajendran - Austin TX, US

Assignee:

Research Development Foundation

International Classification:

C12Q001/68
C07H021/02

US Classification:

435/006000, 536/023100

Abstract:

The present invention provides a method for the in vitro selection of signaling aptamers comprising the steps of synthesizing a DNA pool, the DNA having a random insert of nucleotides of a specific skewed mole ratio; amplifying the DNA pool; transcribing an RNA pool from the amplified DNA using a fluorescently labeled nucleotide; applying the fluorescently labeled RNA pool to an affinity column to remove the high-affinity fluorescent RNA molecules from the fluorescently labeled RNA pool; obtaining a cDNA pool from the high-affinity fluorescent RNA molecules; repeating the amplification and selection steps on the fluorescent RNA molecules and cloning the fluorescent RNA molecules to yield signaling aptamers. Signaling aptamers comprising DNA molecules are also selected for. Also provided is a signaling aptamer that transduces the conformational change upon binding a ligand to a change in fluorescence intensity of the signaling aptamer.

US Patent:

20040126882, Jul 1, 2004

Filed:

Sep 24, 2002

Appl. No.:

10/254568

Inventors:

Andrew Ellington - Austin TX, US
Jay Hesselberth - Seattle WA, US
Kristin Thompson - Arlington MA, US
Michael Robertson - Santa Cruz CA, US
Letha Sooter - Austin TX, US
Eric Davidson - Houston TX, US
J. Cox - Austin TX, US
Timothy Riedel - New Braunfels TX, US
Charles Wilson - Concord MA, US
Sharon Cload - Cambridge MA, US
Anthony Keefe - Cambridge MA, US

International Classification:

C07H021/02
C12N015/85

US Classification:

435/455000, 536/023100

Abstract:

Compositions and methods are provided to make, isolate, characterize and use regulatable, catalytically active nucleic acids (RCANA). The present invention is directed to RCANA that transduce molecular recognition into catalysis. Also, RCANAs according to the invention can be used as regulatory elements to control the expression of one or more genes in a metabolic pathway. RCANAs can also be used as regulated selectable markers to create a selective pressure favoring (or disfavoring) production of a targeted bioproduct.