Patents Assigned to Affymax Technologies N.V.
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Publication number: 20120258868Abstract: The present invention relates to novel methods for sequencing and mapping genetic markers in polynucleotide sequences using Type-IIs restriction endonucleases. The methods herein described result in the “capturing” and determination of specific oligonucleotide sequences located adjacent to Type-IIs restriction sites. The resulting sequences are useful as effective markers for use in genetic mapping, screening and manipulation.Type: ApplicationFiled: June 14, 2011Publication date: October 11, 2012Applicants: Affymax Technologies N.V., AFFYMETRIX, INC.Inventors: Ronald J. Sapolsky, Robert J. Lipshutz, Thomas R. Gingeras
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Publication number: 20050186683Abstract: A method and device for forming large arrays of polymers on a substrate (401). According to a preferred aspect of the invention, the substrate is contacted by a channel block (407) having channels (409) therein. Selected reagents are delivered through the channels, the substrate is rotated by a rotating stage (403), and the process is repeated to form arrays of polymers on the substrate. The method may be combined with light-directed methodolgies.Type: ApplicationFiled: November 24, 2004Publication date: August 25, 2005Applicants: Affymetrix, Inc., AFFYMAX TECHNOLOGIES N.V.Inventors: James Winkler, Stephen Fodor, Christopher Buchko, Debra Ross, Lois Aldwin, Douglas Modlin
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Publication number: 20050186592Abstract: A method and device for forming large arrays of polymers on a substrate (401). According to a preferred aspect of the invention, the substrate is contacted by a channel block (407) having channels (409) therein. Selected reagents are delivered through the channels, the substrate is rotated by a rotating stage (403), and the process is repeated to form arrays of polymers on the substrate. The method may be combined with light-directed methodolgies.Type: ApplicationFiled: November 24, 2004Publication date: August 25, 2005Applicants: Affymetrix, Inc., AFFYMAX TECHNOLOGIES N.V.Inventors: James Winkler, Stephen Fodor, Christopher Buchko, Debra Ross, Lois Aldwin, Douglas Modlin
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Publication number: 20050158744Abstract: Libraries of unimolecular, double-stranded oligonucleotides on a solid support. These libraries are useful in pharmaceutical discovery for the screening of numerous biological samples for specific interactions between the double-stranded oligonucleotides, and peptides, proteins, drugs and RNA. In a related aspect, the present invention provides libraries of conformationally restricted probes on a solid support. The probes are restricted in their movement and flexibility using double-stranded oligonucleotides as scaffolding. The probes are also useful in various screening procedures associated with drug discovery and diagnosis. The present invention further provides methods for the preparation and screening of the above libraries.Type: ApplicationFiled: November 19, 2004Publication date: July 21, 2005Applicants: Affymetrix, Inc., Affymax Technologies, N.V., a Netherlands Antilles corporationInventors: David Lockhart, Dirk Vetter, Martin Diggelmann
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Publication number: 20050124000Abstract: A method and device for forming large arrays of polymers on a substrate (401). According to a preferred aspect of the invention, the substrate is contacted by a channel block (407) having channels (409) therein. Selected reagents are delivered through the channels, the substrate is rotated by a rotating stage (403), and the process is repeated to form arrays of polymers on the substrate. The method may be combined with light-directed methodolgies.Type: ApplicationFiled: November 24, 2004Publication date: June 9, 2005Applicants: Affymetrix, Inc., AFFYMAX TECHNOLOGIES N.V., a Netherlands Antilles corporationInventors: James Winkler, Stephen Fodor, Christopher Buchko, Debra Ross, Lois Aldwin, Douglas Modlin
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Publication number: 20050026212Abstract: The present invention relates to novel methods for sequencing and mapping genetic markers in polynucleotide sequences using Type-IIs restriction endonucleases. The methods herein described result in the “capturing” and determination of specific oligonucleotide sequences located adjacent to Type-IIs restriction sites. The resulting sequences are useful as effective markers for use in genetic mapping, screening and manipulation.Type: ApplicationFiled: September 16, 2004Publication date: February 3, 2005Applicants: Affymetrix, INC., Affymax Technologies N.V.Inventors: Ronald Sapolsky, Robert Lipshutz, Thomas Gingeras
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Publication number: 20040265842Abstract: The present invention relates to novel methods for sequencing and mapping genetic markers in polynucleotide sequences using Type-IIs restriction endonucleases. The methods herein described result in the “capturing” and determination of specific oligonucleotide sequences located adjacent to Type-IIs restriction sites. The resulting sequences are useful as effective markers for use in genetic mapping, screening and manipulation.Type: ApplicationFiled: October 29, 2003Publication date: December 30, 2004Applicants: Affymetrix, INC., Affymax Technologies N.V.Inventors: Ronald J. Sapolsky, Robert J. Lipshutz, Thomas R. Gingeras
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Publication number: 20040029115Abstract: Means for simultaneous parallel sequence analysis of a large number of biological polymer macromolecules. Apparatus and methods may use fluorescent labels in repetitive chemistry to determine terminal manomers on solid phase immobilized polymers. Reagents which specifically recognize terminal manomers are used to label polymers at defined positions on a solid substrate.Type: ApplicationFiled: February 14, 2002Publication date: February 12, 2004Applicant: Affymax Technologies, N.V.Inventors: William J. Dower, Stephen P.A. Fodor
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Publication number: 20030082831Abstract: A synthetic strategy for the creation of large scale chemical diversity. Solid-phase chemistry, photolabile protecting groups, and photolithography are used to achieve light-directed spatially-addressable parallel chemical synthesis. Binary masking techniques are utilized in one embodiment. A reactor system, photoremovable protective groups, and improved data collection and handling techniques are also disclosed. A technique for screening linker molecules is also provided.Type: ApplicationFiled: September 30, 2002Publication date: May 1, 2003Applicant: AFFYMAX TECHNOLOGIES, N.V., a Netherlands Antilles corporationInventors: Stephen P.A. Fodor, Lubert Stryer, James L. Winkler, Christopher P. Holmes, Dennis W. Solas
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Publication number: 20030082611Abstract: The present invention is generally directed to the evolution of new metabolic pathways and the enhancement of bioprocessing through a process herein termed recursive sequence recombination. Recursive sequence recombination entails performing iterative cycles of recombination and screening or selection to “evolve” individual genes, whole plasmids or viruses, multigene clusters, or even whole genomes. Such techniques do not require the extensive analysis and computation required by conventional methods for metabolic engineering.Type: ApplicationFiled: September 17, 2002Publication date: May 1, 2003Applicant: Affymax Technologies N.V.Inventors: Jeremy Minshull, Willem P.C. Stemmer
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Publication number: 20030008302Abstract: Means for simultaneous parallel sequence analysis of a large number of biological polymer macromolecules. Apparatus and methods may use fluorescent labels in repetitive chemistry to determine terminal manomers on solid phase immobilized polymers. Reagents which specifically recognize terminal manomers are used to label polymers at defined positions on a solid substrate.Type: ApplicationFiled: February 14, 2002Publication date: January 9, 2003Applicant: Affymax Technologies, N.V.Inventors: William J. Dower, Stephen P.A. Fodor
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Patent number: 6271232Abstract: Novel inhibitors of metalloproteases, in particular collagenase-1 and stromelysin-1, are disclosed. Such compounds are useful in pharmaceutical compositions and methods for treating or controlling disease states or conditions which involve tissue breakdown, such as rheumatoid arthritis.Type: GrantFiled: July 9, 1999Date of Patent: August 7, 2001Assignee: Affymax Technologies, N.V.Inventors: David Campbell, Gary C. Look, Anna Katrin Szardenings, Dinesh V. Patel
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Patent number: 6265552Abstract: Biotinylation peptides can be fused to other peptides or proteins of interest using recombinant DNA techniques to provide efficient methods for biotinylating the resulting fusion proteins in vivo or in vitro.Type: GrantFiled: February 24, 2000Date of Patent: July 24, 2001Assignee: Affymax Technologies N.V.Inventor: Peter J. Schatz
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Patent number: 6165717Abstract: A general stochastic method for synthesizing random oligomers on particles is disclosed. A further aspect of the invention relates to the use of identification tags on the particles to facilitate identification of the sequence of the monomers in the oligomer.Type: GrantFiled: May 13, 1998Date of Patent: December 26, 2000Assignee: Affymax Technologies N.V.Inventors: William J. Dower, Ronald W. Barrett, Mark A. Gallop
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Patent number: 6165778Abstract: A device and method for efficiently synthesizing diverse molecular products on substrates. A parent vessel 200 contains a suspension of substrates. The suspension is pressurized with argon and transferred to a plurality of reaction vessels 201-209 in one or more reaction vessel banks where monomer addition reactions take place. Optionally, the substrates may be tagged with a tag monomer. A vortexing motor 300 vortexes the contents of reaction vessels 201-209 during monomer addition reactions to enhance synthesis. After the desired monomer and/or tag monomer addition reaction, the suspension is pressurized with argon and transferred back to parent vessel 200 for mixing. Thereafter, the suspension may be pressurized with argon and reallocated among reaction vessels 201-209 for further synthesis.Type: GrantFiled: July 2, 1998Date of Patent: December 26, 2000Assignee: Affymax Technologies N.V.Inventor: Haim Kedar
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Patent number: 6156511Abstract: A random peptide library constructed by transforming host cells with a collection of recombinant vectors that encode a fusion protein comprised of a DNA binding protein and a random peptide and also encode a binding site for the DNA. binding protein can be used to screen for novel ligands. The screening method results in the formation of a complex comprising the fusion protein bound to a receptor through the random peptide ligand and to the recombinant DNA vector through the DNA binding protein.Type: GrantFiled: January 21, 1998Date of Patent: December 5, 2000Assignee: Affymax Technologies N.V.Inventors: Peter J. Schatz, Millard G. Cull, Jeff F. Miller, Willem Peter Christiaan Stemmer, Christian M. Gates
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Patent number: 6143497Abstract: A general stochastic method for synthesizing random oligomers on particles is disclosed. A further aspect of the invention relates to the use of identification tags on the particles to facilitate identification of the sequence of the monomers in the oligomer.Type: GrantFiled: March 6, 1998Date of Patent: November 7, 2000Assignee: Affymax Technologies N.V.Inventors: William J. Dower, Ronald W. Barrett, Mark A. Gallop
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Patent number: 6140493Abstract: A general stochastic method for synthesizing random oligomers can be used to synthesize compounds to screen for desired properties. The use of identification tags on the oligomers facilitates identification of oligomers with desired properties.Type: GrantFiled: September 11, 1998Date of Patent: October 31, 2000Assignee: Affymax Technologies N.V.Inventors: William J. Dower, Ronald W. Barrett, Mark A. Gallop, Michael C. Needels
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Patent number: 6107059Abstract: A random peptide library constructed by transforming host cells with a collection of recombinant vectors that encode a fusion protein comprised of a carrier protein fused to a random peptide through a proteolytic cleavage site can be used to identify ligands that bind to a receptor. The screening method results in the formation of a complex comprising the fusion protein bound to a receptor through the random peptide ligand, and the random peptide can easily be identified and analyzed by virtue of the carrier protein and associated proteolytic cleavage site.Type: GrantFiled: April 29, 1992Date of Patent: August 22, 2000Assignee: Affymax Technologies N.V.Inventor: Charles P. Hart
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Patent number: 6056926Abstract: A device and method for efficiently synthesizing diverse molecular products on substrates. A parent vessel 200 contains a suspension of substrates. The suspension is pressurized with argon and transferred to a plurality of reaction vessels 201-209 in one or more reaction vessel banks where monomer addition reactions take place. Optionally, the substrates may be tagged with a tag monomer. A vortexing motor 300 vortexes the contents of reaction vessels 201-209 during monomer addition reactions to enhance synthesis. After the desired monomer and/or tag monomer addition reaction, the suspension is pressurized with argon and transferred back to parent vessel 200 for mixing. Thereafter, the suspension may be pressurized with argon and reallocated among reaction vessels 201-209 for further synthesis.Type: GrantFiled: July 23, 1996Date of Patent: May 2, 2000Assignee: Affymax Technologies N.V.Inventors: Jeffrey H. Sugarman, Richard P. Rava, Haim Kedar