GILBERT CHU, MD
Osteopathic Medicine at Pasteur Dr, Palo Alto, CA

7363165, Apr 22, 2008

Mar 19, 2001

09/811762

Virginia Goss Tusher - Palo Alto CA, US
Robert Tibshirani - Palo Alto CA, US
Gilbert Chu - Palo Alto CA, US

The Board of Trustees of the Leland Stanford Junior University - Stanford CA

G06F 19/00, C12Q 1/68

702 19, 435 6, 702 20

Microarrays can measure the expression of thousands of genes and thus identify changes in expression between different biological states. Methods are needed to determine the significance of these changes, while accounting for the enormous number of genes. We describe a new method, Significance Analysis of Microarrays (SAM), that assigns a score to each gene based on the change in gene expression relative to the standard deviation of repeated measurements. For genes with scores greater than an adjustable threshold, SAM uses permutations of the repeated measurements to estimate the percentage of such genes identified by chance, the false discovery rate (FDR). When the transcriptional response of human cells to ionizing radiation was measured by microarrays, SAM identified 34 genes that changed at least 1. 5-fold with an estimated FDR of 12%, compared to FDRs of 60% and 84% using conventional methods of analysis. Of the 34 genes, 19 were involved in cell cycle regulation, and 3 in apoptosis.

7465542, Dec 16, 2008

Oct 14, 2003

10/686322

Gilbert Chu - Palo Alto CA, US
Virginia G. Tusher - Belvedere CA, US
Jean Tang - Stanford CA, US
Kerri Elyse Rieger - Menlo Park CA, US
Wan-Jen Hong - Palo Alto CA, US
Robert Tibshirani - Stanford CA, US

The Board of Trustees of the Leland Stanford Junior University - Palo Alto CA

C12Q 1/68

435 6, 435 911

Methods are provided for determining whether a patient treated with an anti-proliferative agent is susceptible to toxicity. In practicing the subject methods, an expression profile for the transcriptional response to a therapy is obtained from the patient and compared to a reference profile to determine whether the patient is susceptible to toxicity. In addition, reagents and kits thereof that find use in practicing the subject methods are provided.

8263332, Sep 11, 2012

Oct 11, 2007

11/871023

Chun Tsai - Stanford CA, US
Seonhi Kim - Menlo Park CA, US
Gilbert Chu - Stanford CA, US

The Board of Trustees of the Leland Stanford Junior University - Palo Alto CA

C12Q 1/68, C12P 1/00, C12P 19/00, C12P 19/26, C12P 19/28, C12P 19/30, C12P 19/34

435 61, 435 41, 435 72, 435 84, 435 85, 435 89, 435 911, 435 915, 435 9152

A mismatched end DNA ligase is provided, which ligates two single strands to each other at a high efficiency, even if the other two single strands are not compatible. In one embodiment, the polypeptides of the ligase are Ku, Cernunnos, and XRCC4/Ligase4 (XL). This association can ligate DNA ends with a 3′ overhang to a recessed 5′ end, to a blunt end, or to a compatible end. In another embodiment, the proteins are Ku, Cernunnos, XRCC4/Ligase4 (XL) and DNA-PK.

2003019, Oct 16, 2003

Feb 18, 2003

10/368248

Thomas Wandless - Menlo Park CA, US
Karlene Cimprich - Menlo Park CA, US
Gilbert Chu - Palo Alto CA, US
Michelle Stohlmeyer - Chicago IL, US
Cornelia Fas - Schwaebisch Gmuend, DE

G01N033/53, C12N009/12, A61K031/366, A61K031/353, A61K031/7048, A61K031/553, A61K031/4025

435/007100, 514/456000, 514/453000, 514/027000, 435/194000, 514/422000, 514/211080

One aspect of the present invention relates to methods and reagents for profiling cells and/or subcellular environments (e.g., membrane or nuclear cellular fractions). The invention uses small molecule probes that bind covalently to protein targets, which significantly simplifies purification and identification of proteins using full length or proteolyzed proteins. Proteins, cellular components or other binding partners (collectively known as “LBP” or “lipid binding partner”) can be naturally occurring, such as proteins or fragments of proteins cloned or otherwise derived from cells, or can be artificial, e.g., polypeptides which are selected from random or semi-random polypeptide libraries.

5549796, Aug 27, 1996

May 11, 1994

8/241063

Gilbert Chu - Palo Alto CA
Douglas Vollrath - Mountain View CA
Ron Davis - Palo Alto CA

The Board of Trustees of the Leland Stanford Junior University - Stanford CA

G01N 2726, G01N 27447

204457

A gel electrophoresis method and apparatus is described in which the shape and orientation of the electric field is controlled by contour clamping. Electrodes are arranged around a closed contour. Two or more electrodes, the driving electrodes, are clamped at a potential difference. phi. sub. 0 to establish the general orientation and strength of the electric field. The remaining electrodes are clamped to intermediate potentials to control the shape of the field established by the driving electrodes. The field is varied in accordance with the purpose of the electrophoresis, depending upon the size of the particles and the information to be determined concerning the particles.

5165898, Nov 24, 1992

Aug 23, 1988

7/235296

Gilbert Chu - Palo Alto CA
Douglas Vollrath - Mountain View CA
Ron Davis - Palo Alto CA

The Board of Trustees of the Leland Stanford Junior University - Stanford CA

G01N 2726, B01D 5702

204299R

A gel electrophoresis method and apparatus is described in which the shape and orientation of the electric field is controlled by contour clamping. Electrodes are arranged around a closed contour. Two or more electrodes, the driving electrodes, are clamped at a potential difference. phi. sub. 0 to establish the general orientation and strength of the electric field. The remaining electrodes are clamped to intermediate potentials to control the shape of the field established by the driving electrodes. The field is varied in accordance with the purpose of the electrophoresis, depending upon the size of the particles and the information to be determined concerning the particles.