Tracy J Matray

6627400, Sep 30, 2003

Oct 27, 2000

09/698846

Sharat Singh - San Jose CA
Tracy Matray - San Lorenzo CA

Aclara Biosciences, Inc. - Mountain View CA

C12Q 168

435 6, 435 71, 435 72, 435 77, 435 772, 435 795

Families of compositions are provided as labels, referred to as eTag reporters for attaching to polymeric compounds and assaying based on release of the eTag reporters from the polymeric compound and separation and detection. For oligonucleotides, the eTag reporters are synthesized at the end of the oligonucleotide by using phosphite or phosphate chemistry, whereby mass-modifying regions, charge-modifying regions and detectable regions are added sequentially to produce the eTag labeled reporters. By using small building blocks and varying their combination large numbers of different eTag reporters can be readily produced attached to a binding compound specific for the target compound of interest for identification. Protocols are used that release the eTag reporter when the target compound is present in the sample.

6649351, Nov 18, 2003

Nov 9, 2001

10/008593

Tracy J. Matray - Campbell CA
Vincent S. Hernandez - Brookdale CA
Ahmed Chenna - Sunnyvale CA
Herbert Hooper - Wellesley MA
Sharat Singh - San Jose CA

Aclara Biosciences, Inc. - Mountain View CA

C12Q 168

435 6, 4352872, 536 231, 536 243, 536 254, 536 266

The invention provides a method for detecting a target analyte, by: (a) contacting one or more target analytes with a set of first and second binding reagents under conditions sufficient for binding of a target analyte with the first and second binding reagents, each of the first binding reagents containing a cleavage-inducing moiety and a target binding moiety, each of the second binding reagents containing a tagged probe having a mass modifier region attached to a target binding moiety by a cleavable linkage, the cleavable linkage being susceptible to cleavage when in proximity to an activated cleavage-inducing moiety; (b) activating the cleavage-inducing moiety to release a tag reporter, and (c) detecting a mass of the tag reporter, the mass uniquely corresponding to a known target analyte.

6673550, Jan 6, 2004

Nov 9, 2001

10/008495

Tracy Matray - San Lorenzo CA
Vincent Hernandez - Brookdale CA
Sharat Singh - San Jose CA

Aclara Biosciences, Inc. - Mountain View CA

C12Q 168

435 6, 435 912, 536 243, 536 2532

Electrophoretic probes comprising fluorescent compounds as detection groups and mobility modifiers are disclosed for the multiplexed detection of the binding of, or interaction between, one or more ligands and target antiligands are provided. In one embodiment, detection involves the release of identifying tags as a consequence of target recognition. Target antiligands are contacted with a set of e-tag probes and the contacted antiligands are treated with a selected cleaving agent resulting in a mixture of e-tag reporters. Typically, uncleaved or partially cleaved e-tag probes are removed and the mixture of e-tag reporters is separated by any technique that provides for separation by mass or mass to charge ratio and the like and detected to provide for target identification.

6770439, Aug 3, 2004

Apr 2, 2001

09/825244

Sharat Singh - San Jose CA, 95135
Tracy Matray - San Lorenzo CA, 94580
Ahmed Chenna - Sunnyvale CA, 94086

C12Q 168

435 6, 536 2433, 536243, 536 2532, 536 2711

Probe sets for the multiplexed detection of the binding of, or interaction between, one or more ligands and target antiligands are provided. Detection involves the release of identifying tags as a consequence of target recognition. The probe sets include electrophoretic tag probes or e-tag probes, comprising a detection region and a mobility-defining region called the mobility modifier, both linked to a target-binding moiety. Target antiligands are contacted with a set of e-tag probes and the contacted antiligands are treated with a selected cleaving agent resulting in a mixture of e-tag reporters and uncleaved and/or partially cleaved e-tag probes. The mixture is exposed to a capture agent effective to bind to uncleaved or partially cleaved e-tag probes, followed by electrophoretic separation. In a multiplexed assay, different released e-tag reporters may be separated and detected providing for target identification.

6835826, Dec 28, 2004

Jun 17, 2003

10/463076

Sergei Gryaznov - San Mateo CA
Krisztina Pongracz - Oakland CA
Tracy Matray - San Lorenzo CA

Geron Corporation - Menlo Park CA

C07H 2100

536 245, 536 231, 536 243, 514 44, 435 6

Oligonucleotides with a novel sugar-phosphate backbone containing at least one internucleoside 3â-NHP(O)(S )O-5â linkage, and methods of synthesizing and using the inventive oligonucleotides are provided. The inventive thiophosphoramidate oligonucleotides were found to retain the high RNA binding affinity of the parent oligonucleotide N3ââP5â phosphoramidates and to exhibit a much higher acid stability.

6916612, Jul 12, 2005

Apr 2, 2001

09/825246

Sharat Singh - San Jose CA, US
Tracy Matray - San Lorenzo CA, US
Ahmed Chenna - Sunnyvale CA, US

Aclara Biosciences, Inc. - Mountain View CA

C12Q001/68
C07H021/04
C07H021/00
B01D057/02

435 6, 536 221, 536 243, 536 2532, 204450, 206569

Probe sets for the multiplexed detection of known, selected nucleotide target sequences are provided. Detection involves the release of identifying tags as a consequence of target recognition. The probe sets include electrophoretic tag probes or “e-tag probes”, comprising a detection region and a mobility-defining region called the mobility modifier, both linked to a target-binding moiety. The target-binding moiety of the e-tag probes hybridizes to complementary target sequences followed by nuclease cleavage of the e-tag probes and release of detectable e-tags or e-tag reporters. The mixture is exposed to a capture agent which binds uncleaved and/or partially cleaved e-tag probes, followed by electrophoretic separation. In a multiplexed assay, different released e-tag reporters may be separated and detected providing for target identification.

6955874, Oct 18, 2005

Apr 2, 2001

09/824905

Sharat Singh - San Jose CA, US
Tracy Matray - San Lorenzo CA, US
Ahmed Chenna - Sunnyvale CA, US

Aclara Biosciences, Inc. - Mountain View CA

C12Q001/68
C07H021/02
C07H021/04
G01H027/26
B65D069/00

435 6, 435810, 536 231, 536 243, 536 2532, 204450, 206569

Kits for the multiplexed detection of known, selected nucleotide target sequences are provided. Detection involves the release of identifying tags as a consequence of target recognition. The kits include sets of electrophoretic tag probes or e-tag probes, capture agent and optionally a nuclease. The e-tag probes comprise a detection region and a mobility-defining region called the mobility modifier, both linked to a target-binding moiety. In using the kits, the target-binding moiety of the e-tag probes hybridizes to complementary target sequences followed by nuclease cleavage of the e-tag probes and release of detectable e-tags or e-tag reporters. The mixture is exposed to a capture agent which binds uncleaved and/or partially cleaved e-tag probes, followed by electrophoretic separation. In a multiplexed assay, different released e-tag reporters may be separated and detected providing for target identification.

7001725, Feb 21, 2006

Apr 2, 2001

09/824851

Sharat Singh - San Jose CA, US
Tracy Matray - San Lorenzo CA, US
Ahmed Chenna - Sunnyvale CA, US

Aclara Biosciences, Inc. - Mountain View CA

C12Q 1/68
C07H 21/02
C07H 21/04
B65D 85/42
G01N 27/26

435 6, 435808, 536 231, 536 243, 536 2532, 204450, 206569

Kits for the multiplexed detection of the binding of, or interaction between, one or more ligands and target antiligands are provided. Detection involves the release of identifying tags as a consequence of target recognition. The kits include sets of electrophoretic tag probes or e-tag probes, a capture agent and optionally a cleaving agent. The e-tag probes comprise a detection region and a mobility-defining region called the mobility modifier, both linked to a target-binding moiety. In using the kits, target antiligands are contacted with a set of e-tag probes and the contacted antiligands are treated with a selected cleaving agent resulting in a mixture of e-tag reporters and uncleaved and/or partially cleaved e-tag probes. The mixture is exposed to a capture agent effective to bind to uncleaved or partially cleaved e-tag probes, followed by electrophoretic separation. In a multiplexed assay, different released e-tag reporters may be separated and detected providing for target identification.