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31. 发明专利

AU8348801A Methods for classifying nucleic acids and polypeptides 未知
公开(公告)号：AU8348801A
公开(公告)日：2002-01-21
申请号：AU8348801
申请日：2001-07-09
申请人： CURAGEN CORP
发明人： BADER JOEL S , LUI YI , DZIUDA DARIUS M
IPC分类号： C12Q1/00 , C12Q1/68 , G01N33/48 , G01N33/50 , G06F19/20 , G06F19/24
摘要： The present invention provides novel methods to identify, classify, quantify and compare nucleic acids and polypeptides.

32. 发明专利

CA2395341A1 METHOD OF ANALYZING A NUCLEIC ACID 未知
公开(公告)号：CA2395341A1
公开(公告)日：2001-07-12
申请号：CA2395341
申请日：2001-01-05
申请人： CURAGEN CORP
发明人： BADER JOEL S , GOLD STEVEN , CRASTA OSWALD R , BOUFFARD PASCAL , SHENOY SURESH , GUSEV VLADIMIR , LI SHU XIA
IPC分类号： C12N15/09 , C12Q1/68
摘要： Disclosed are methods of selectively analyzing a nucleic acid in a sample. T he methods allow for selective identification of a target sequence in a population of nucleic acids. For example, the methods allow for confirmation of the identity of a nucleic acid tentatively identified in a quantitative expression analysis (QEA) assay.

33. 发明专利

CA2354589A1 SEPARATION OF CHARGED PARTICLES BY A SPATIALLY AND TEMPORALLY VARYING ELECTRIC FIELD 未知
公开(公告)号：CA2354589A1
公开(公告)日：2000-06-22
申请号：CA2354589
申请日：1999-12-09
申请人： CURAGEN CORP
发明人： BADER JOEL S , DEEM MICHAEL W , ROTHBERG JONATHAN M , MULHERN GREGORY T , WENT GREGORY T , HENCK STEVEN , SIMPSON JOHN
IPC分类号： B01D57/02 , C12M1/00 , C12N15/09 , C12Q1/68 , G01N27/26 , G01N27/447 , G01N33/483 , G01N33/50 , G01N37/00
摘要： This invention relates to a method and device for separating particles according to their diffusivities in a separation medium by means of a spatially and temporally varying electric potential. The method takes advantage of the transport of charged particles subject to an electric potential that is cycled between an off-state (in which the potential is fla t) and one or more on-states, in which the potential is preferably spatially periodic with a plurality of eccentrically shaped stationary wells. The potential wells are at a constant spatial positions in the on-state. Differences in liquid-phase diffusivities lead to charged particle separatio n. A separation medium fills physically defined separation lanes (15) in the device. Electrodes deposited substantially transverse to the lanes create th e required potential. Advantageously, injection ports (16) allow sample loadin g, and special gating electrodes focus the sample prior to separation.

34. 发明专利

AU6047299A Geometrical and hierarchical classification based on gene expression 未知
公开(公告)号：AU6047299A
公开(公告)日：2000-04-03
申请号：AU6047299
申请日：1999-09-17
申请人： CURAGEN CORP
发明人： BADER JOEL S
IPC分类号： G01N33/50 , C12N15/09 , C12Q1/68 , G01N33/15 , G06F17/15 , G06F17/30

35. 发明专利

CA2343076A1 GEOMETRICAL AND HIERARCHICAL CLASSIFICATION BASED ON GENE EXPRESSION 未知
公开(公告)号：CA2343076A1
公开(公告)日：2000-03-23
申请号：CA2343076
申请日：1999-09-17
申请人： CURAGEN CORP
发明人： BADER JOEL S
IPC分类号： G01N33/50 , C12N15/09 , C12Q1/68 , G01N33/15 , G06F17/15 , G06F17/30
摘要： The present invention provides a method for generating a representation of t he extent of relatedness between at least two classes of cells. The invention also provides a method for generating a representation of the correlation between a first class of cells and a second class of cells. The correlation reflects a change in the nature and amount of nucleic acids present in the classes. In these methods, the cells in each class are chosen from among cel ls of a given cell type, cells from a given tissue, and cells from a given orga n. The methods establish similarities or differences between the classes by defining a plurality of pairs of nucleotide subsequences, each pair consisti ng of a first subsequence and a second subsequence, and, in the nucleic acid of each class of cells, determining the presence of a fragment with the first subsequence at one end and the second subsequence at another end and having a length separated by the first and second subsequences, as well as a quantitation of the extent to which each fragment is present. The methods th en determine the extent of relatedness reflecting the similarities or differenc es among the classes. The invention further provides display means displaying a representation of the extent of relatedness between the classes of cells, an d displayinga representation of the correlation between the first class of cells and the second class of cells. Additionally, the invention provides a representation of the extent of relatedness between the classes of cells, an d representation of the correlation between the first class of cells and the second class of cells.

36. 发明专利

AU2597097A Separation of charged particles by a spatially and temporally varying electric field 未知
公开(公告)号：AU2597097A
公开(公告)日：1997-10-17
申请号：AU2597097
申请日：1997-03-26
申请人： CURAGEN CORP
发明人： BADER JOEL S , ROTHBERG JONATHAN M , DEEM MICHAEL W , MULHERN GREGORY T , WENT GREGORY T
IPC分类号： B01D57/02 , G01N27/26 , G01N27/447
摘要： This invention relates to a method and device for separating charged particles according to their diffusivities in a separation medium by means of a spatially and temporarily varying electric potential. The method is particularly suited to sizing and separating DNA fragments, to generating DNA fragment length polymorphism patterns, and to sequencing DNA through the separation of DNA sequencing reaction products. The method takes advantage of the transport of charged particles subject to an electric potential that is cycled between an off-state (in which the potential is flat) and one or more on-states, in which the potential is preferably spatially periodic with a plurality of eccentrically shaped stationary potential wells. The potential wells are at constant spatial positions in the on-state. Differences in liquid-phase diffusivities lead to charged particle separation. A preferred embodiment of the device is microfabricated. A separation medium fills physically defined separation lanes in the device. Electrodes deposited substantially transverse to the lanes create the required electric potentials. Advantageously, injection ports allow sample loading, and special gating electrodes focus the sample prior to separation. The effects of thermal gradients are minimized by placing the device in contact with a thermal control module, preferably a plurality of Peltier-effect heat transfer devices. The small size of a microfabricated device permits rapid separation in a plurality of separation lanes.

37. 发明专利

CA2384510C METHOD OF SEQUENCING A NUCLEIC ACID 未知
公开(公告)号：CA2384510C
公开(公告)日：2011-11-15
申请号：CA2384510
申请日：2000-09-15
申请人： CURAGEN CORP
发明人： ROTHBERG JONATHAN M , BADER JOEL S , DEWELL SCOTT B , MCDADE KEITH , SIMPSON JOHN W , BERKA JAN , COLANGELO CHRISTOPHER M
IPC分类号： C12Q1/68 , G01N33/50 , B01J19/00 , C12M1/00 , C12N15/09 , G01N21/05 , G01N21/17 , G01N33/15 , G01N33/53 , G01N33/566 , H04N5/225
摘要： Disclosed herein are methods and apparatuses for sequencing a nucleic acid. In one aspect, the method includes annealing a population of circular nucleic acid molecules to a plurality of anchor primers linked to a solid support, and amplifying those members of the population of circular nucleic acid molecules which anneal to the target nucleic acid, and then sequencing the amplified molecules by detecting the presence of a sequence by-product such as pyrophosphate.

38. 发明专利

AU2002247390B2 Apparatus and method for sequencing a nucleic acid 未知
公开(公告)号：AU2002247390B2
公开(公告)日：2007-01-25
申请号：AU2002247390
申请日：2002-03-21
申请人： CURAGEN CORP
发明人： DEWELL SCOTT B , BADER JOEL S , SIMPSON JOHN W , MCDADE KEITH , COLANGELO CHRISTOPHER M , WEINER MICHAEL PHILIP , BERKA JANE , ROTHBERG JONATHAN M
IPC分类号： G01N33/53 , B01L3/00 , B01L9/00 , C12M1/00 , C12N15/09 , C12P19/34 , C12Q1/02 , C12Q1/48 , C12Q1/66 , C12Q1/68 , G01N21/03 , G01N21/64 , G01N21/77 , G01N21/78 , G01N33/68 , G01N37/00
摘要： Disclosed herein are methods and apparatuses for sequencing a nucleic acid. These methods permit a very large number of independent sequencing reactions to be arrayed in parallel, permitting simultaneous sequencing of a very large number (>10,000) of different oligonucleotides.

39. 发明专利

CA2451919A1 NUCLEIC ACIDS, POLYPEPTIDES, SINGLE NUCLEOTIDE POLYMORPHISMSAND METHODS OF USE THEREOF 未知
公开(公告)号：CA2451919A1
公开(公告)日：2003-02-20
申请号：CA2451919
申请日：2002-08-09
申请人： CURAGEN CORP
发明人： BADER JOEL S , ALSOBROOK JOHN P II , GROSSE WILLIAM M , BURGESS CATHERINE E
IPC分类号： G01N33/50 , A61K38/00 , A61K38/17 , A61K48/00 , A61P1/14 , A61P3/00 , A61P3/04 , A61P3/06 , A61P3/10 , A61P7/00 , A61P9/10 , A61P25/00 , A61P25/16 , A61P25/28 , A61P31/00 , A61P35/00 , A61P37/00 , C07H21/04 , C07K14/47 , C07K16/18 , C12N1/15 , C12N1/19 , C12N1/21 , C12N5/06 , C12N5/10 , C12N15/09 , C12P21/02 , C12Q1/68 , G01N33/68 , C12N15/12 , A61K31/7088 , C07H21/00 , C07K14/435 , C07K14/705 , C07K16/28 , C12N15/11 , C12P19/34
摘要： Disclosed herein is a nucleic acid sequence that encodes a novel polypeptide . Also disclosed is a polypeptide encoded by the nucleic acid sequence , and antibodies, which immunospecifically-bind to the polypeptide, as well as derivatives, variants, mutants, or fragments of the aforementioned polypeptide, polynucleotide, or antibody. The invention further discloses therapeutic, diagnostic and research methods for diagnosis, treatment, and prevention of disorders involving this novel human nucleic acid and protein. The invention also provides nucleic acids containing single-nucleotide polymorphisms identified for transcribed human sequences, as well as methods of using the nucleic acids.

40. 发明专利

AU1149802A Efficient tests of association for quantitative traits and affected-unaffected studies using pooled dna 未知
公开(公告)号：AU1149802A
公开(公告)日：2002-04-15
申请号：AU1149802
申请日：2001-10-09
申请人： CURAGEN CORP , GEMINI GENOMICS LTD
发明人： BADER JOEL S , BANSAL ARUNA , SHAM PAK
IPC分类号： A01H1/00 , C12Q1/68 , G06F19/18 , G06F19/22 , G06F19/00
摘要： Risk assessment and diagnosis of a complex disorder often requires measuring an underlying quantitative phenotype. Association studies in unrelated populations can implicate genetic factors contributing to disease risk, and experiments using pooled DNA provide a less costly but necessarily less powerful alternative to methods based on individual genotyping. Although the sample sizes required for pooling and individual genotyping studies have been compared in certain instances, general results have not been reported in the context of association studies, nor have there been clear comparisons of pooling based on quantitative and qualitative (affected/unaffected) phenotypes. Here we use exact numerical calculations and analytical approximations to examine the sample size requirements of association tests for quantitative traits and affected-unaffected studies using pooled DNA. We show, in analogy with selection experiments, that the optimal design for virtually any quantitative phenotype is to pool the top and bottom 27% of individuals, regardless of marker frequency or inheritance mode; this design requires a population only 24% larger than that required for individual genotyping. Furthermore, this design is approximately four times more efficient than typical affected-unaffected studies of DNA pooled from individuals classified as affected or unaffected.

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