ARRAYS OF PROTEIN CAPTURE AGENTS AND METHODS OF USE THEREOF

• US 20110086779A1
• Filed: 11/19/2010
• Published: 04/14/2011
• Est. Priority Date: 07/14/1998
• Status: Abandoned Application

• Current Assignee: Zyomyx, Inc.
• Original Assignee: Zyomyx, Inc.
• Inventors: Wagner, Peter, Itin, Christian, Nock, Steffen, Ault-Riche, Dana
• Application Number:
  US12/950,698
• Publication Number:
  US 20110086779A1
• Time in Patent Office: Days
• US Class Current: 506/11
• CPC Class Codes: B01J 2219/00605 the compounds being directly bound or immobilised to solid supports
• CPC Class Codes: B01J 2219/0061 The surface being organic
• CPC Class Codes: B01J 2219/00612 the surface being inorganic
• CPC Class Codes: B01J 2219/00617 by chemical means
• CPC Class Codes: B01J 2219/00619 using hydrophilic or hydrophobic regions
• CPC Class Codes: B01J 2219/00621 by physical means, e.g. trenches, raised areas
• CPC Class Codes: B01J 2219/00626 Covalent
• CPC Class Codes: B01J 2219/0063 Other, e.g. van der Waals forces, hydrogen bonding
• CPC Class Codes: B01J 2219/00635 by reactive plasma treatment
• CPC Class Codes: B01J 2219/00637 by coating it with another layer
• CPC Class Codes: B01J 2219/00641 the porous medium being continuous, e.g. porous oxide substrates
• CPC Class Codes: B01J 2219/00659 Two-dimensional arrays
• CPC Class Codes: B01J 2219/00702 Processes involving means for analysing and characterising the products
• CPC Class Codes: B01J 2219/00725 Peptides
• CPC Class Codes: B82Y 30/00 Nanotechnology for materials or surface science, e.g. nanocomposites
• CPC Class Codes: B82Y 5/00 Nanobiotechnology or nanomedicine, e.g. protein engineering or drug delivery
• CPC Class Codes: C07K 2319/20 containing a tag with affinity for a non-protein ligand
• CPC Class Codes: C40B 40/10 Libraries containing peptides or polypeptides, or derivatives thereof
• CPC Class Codes: G01N 33/54393 Improving reaction conditions or stability, e.g. by coating or irradiation of surface, by reduction of non-specific binding, by promotion of specific binding
• CPC Class Codes: G01N 33/551 the carrier being inorganic
• CPC Class Codes: G01N 33/6845 : Methods of identifying protein-protein interactions in protein mixtures

Abstract

Arrays of protein-capture agents useful for the simultaneous detection of a plurality of proteins which are the expression products, or fragments thereof, of a cell or population of cells in an organism are provided. A variety of antibody arrays, in particular, are described. Methods of both making and using the arrays of protein-capture agents are also disclosed. The invention arrays are particularly useful for various proteomics applications including assessing patterns of protein expression and modification in cells.

Claims

1-45. -45. (canceled)

46. A method for screening a plurality of proteins for their ability to interact with a component of a fluid sample, comprising delivering the fluid sample to a protein array comprising the plurality of proteins comprising at least 100 different proteins, and simultaneously detecting for the presence of an interaction of the component with each protein of the plurality of proteins, wherein the protein array comprises the plurality of proteins each immobilized site-specifically on different discrete, known regions of a substrate, wherein the discrete, known regions are present at a density of at least 100 per cm², thereby detecting an interaction of a protein of the plurality of proteins and the component of the fluid sample,

wherein each of the proteins in the plurality of proteins is a different purified recombinant fusion protein, and the proteins in the plurality of proteins are structurally related, functionally related, suspected of being functionally related, suspected of being structurally related, or are members of the same family.

47. The method of claim 46, wherein detecting comprises detecting an enzyme/substrate interaction.

48. The method of claim 46, wherein the plurality of proteins comprises at least 1000 different human proteins.

49. The method of claim 46, wherein the proteins are members of an enzyme family.

50. The method of claim 46, wherein the proteins are enzymes and the enzymes are kinases.

51. The method of claim 46, wherein the component is a protein, and wherein the method detects a protein-protein interaction.

52. The method of claim 46, wherein the component is a nucleic acid.

53. The method of claim 46, wherein the plurality of proteins comprise at least 1000 different proteins.

54. The method of claim 46, wherein the proteins are members of the same receptor family, ligand family, enzyme family, or transcription factor family.

55. The method of claim 46, wherein the proteins are proteases, kinase, phosphatases, ras-like GTPases, or hydrolases.

56. The method of claim 46, wherein the proteins are kinases.

57. The method of claim 56, wherein the proteins are functional proteins.

58. The method of claim 56, wherein the proteins are human proteins.

59. The method of claim 56, wherein the kinases comprise different kinases.

60. The method of claim 56, wherein the kinases comprise 100 different mammalian kinases.

61. The method of claim 56, wherein the kinases comprise 100 different human kinases.

62. The method of claim 56, wherein the kinases comprise 100 different recombinant kinases.

63. The method of claim 56, wherein the kinases comprise 100 different functional kinases.

64. The method of claim 56, wherein all of the proteins in the protein array are human proteins.