STUART ALAN KAUFFMAN
Medical Practice in Santa Fe, NM

5976862, Nov 2, 1999

Jun 5, 1995

8/464327

Stuart Alan Kauffman - Santa Fe NM
Marc Ballivet - Geneva, CH

IXSYS Corporation - San Diego CA

C12N 121, C12N 1510, C12N 1563, C12N 1574

4352523

The present invention is directed to a process for the production of a peptide, polypeptide, or protein having a predetermined property. In accordance with one embodiment, the process begins by producing by way of synthetic polynucleotide coupling, stochastically generated polynucleotide sequences. A library of expression vectors containing such stochastically generated polynucleotide sequences is formed. Next, host cells containing the vectors are cultured so as to produce peptides, polypeptides, or proteins encoded by the stochastically generated polynucleotide sequences. Screening or selection is carried out on such host cells to identify a peptide, polypeptide, or protein produced by the host cells which has the predetermined property. The stochastically generated polynucleotide sequence which encodes the identified peptide, polypeptide, or protein is then isolated and used to produce the peptide, polypeptide, or protein having the predetermined property.

2001004, Nov 15, 2001

Feb 28, 2001

09/794017

Stuart Kauffman - Santa Fe NM, US
Jose Lobo - Ithaca NY, US
William MacReady - Santa Fe NM, US

G06G007/48, G06F011/30, G06F017/60, G06F015/00, G21C017/00, G06G007/00, G06F017/00

705/007000, 705/400000, 703/006000, 702/182000

Technological change at the firm-level has commonly been modeled as random sampling from a fixed distribution of possibilities. Such models, however, typically ignore empirically important aspects of the firm's search process, notably the observation that the present state of the firm guides future innovation. In this paper we explicitly treat this aspect of the firm's search for technological improvements by introducing a “technology landscape” into an otherwise standard dynamic programming setting where the optimal strategy is to assign a reservation price to each possible technology. Search is modeled as movement, constrained by the cost of innovation, over the technology landscape. Simulations are presented on a stylized technology landscape while analytic results are derived using landscapes that are similar to Markov random fields. We find that early in the search for technological improvements, if the initial position is poor or average, it is optimal to search far away on the technology landscape; but as the firm succeeds in finding technological improvements it is optimal to confine search to a local region of the landscape. We obtain the result that there are diminishing returns to search without having to make the assumption that the firm's repeated draws from the search space are independent and identically distributed.

2005003, Feb 17, 2005

Sep 2, 2004

10/933083

Stuart Kauffman - Santa Fe NM, US
Julius Rebek - Cambridge MA, US

G01N033/53, G01N033/543

435007100, 436518000

Methods for the generation of new compounds are disclosed. The present invention eliminates the need to know in advance the structure or chemical composition of a compound having a desired property. The disclosure of the present invention provides that diversity of unknown compounds may be produced by “random” chemistry, and such a diversity of unknown compounds may be screened for one or more desired properties to detect the presence of suitable compounds. In one aspect, a starting group of organic compounds is caused to undergo a series of chemical reactions to create a diversity of new organic compounds that are screened for the presence of organic compounds having the desired property. In another aspect of the present invention, a diversity of compounds is generated from a group of substrates which are subjected to a group of enzymes representing a diversity of catalytic activities.

6100035, Aug 8, 2000

Oct 2, 1998

9/165794

Stuart A. Kauffman - Santa Fe NM
Marc Ballivet - Geneva, CH

Cistem Molecular Corporation - San Diego CA

C12Q 168

435 6

The invention provides a method of identifying nucleic acid molecules that contain cis acting nucleic acid elements. Also provided is a method of isolating nucleic acid binding factors. The invention also provides methods of identifying compounds that are cis acting nucleic acid element analogs, compounds that are nucleic acid binding factor analogs, compounds that selectively bind cis acting nucleic acid elements and compounds that selectively displace binding between a nucleic acid binding factor and a cis acting nucleic acid element or between nucleic acid binding factors. Also provided is a method of determining a binding state of a nucleic acid. Pluralities of isolated nucleic acid molecules containing cis acting nucleic acid elements, of isolated cis acting nucleic acid elements and of isolated nucleic acid binding factors are also provided. The invention further provides methods of treating pathological conditions using molecules of the invention to alter genetic activities of nucleic acids involved in pathological conditions.

6125351, Sep 26, 2000

May 15, 1998

9/080040

Stuart A Kauffman - Santa Fe NM

Bios Group, Inc. - Santa Fe NM

G06F 1760

705 7

An economy comprises a relation among agents, goods and services. Each good and service in the economy consists of combinations of more primitive goods and services. Goods and services can be complements or substitutes to other goods and services. Complements are sets of goods or services which are used jointly to produce a given other goods or services. In contrast, substitutes are sets of goods or services which might substitute for one another in a given production technology or consumption good. Complementary goods and services must be used together to create value in the economy. Most goods and services create value in the economy via positive functional interactions with their complements and via competition with their substitutes. The invention provides a system and method called Economic Web Sherpa which effectively and rapidly gathers data on the functional relations within an economy and which synthesizes an economic web model defining the local structure of the economic relations within the vicinity of a company or other economic agent. Economic Web Sherpa also analyzes the functional structure of the economic web model and generates new goods and services to identify new niches, new growth opportunities and new locations of strategic competition for a company of other economic agent.

2004024, Dec 2, 2004

May 14, 2004

10/845922

Stuart Kauffman - Santa Fe NM, US
Jose Lobo - Ithaca NY, US
William MacReady - Santa Fe NM, US

Bios Group, Inc. - Santa Fe NM

G06F017/10

703/002000

Technological change at the firm-level has commonly been modeled as random sampling from a fixed distribution of possibilities. Such models, however, typically ignore empirically important aspects of the firm's search process, notably the observation that the present state of the firm guides future innovation. In this paper we explicitly treat this aspect of the firm's search for technological improvements by introducing a “technology landscape” into an otherwise standard dynamic programming setting where the optimal strategy is to assign a reservation price to each possible technology. Search is modeled as movement, constrained by the cost of innovation, over the technology landscape. Simulations are presented on a stylized technology landscape while analytic results are derived using landscapes that are similar to Markov random fields. We find that early in the search for technological improvements, if the initial position is poor or average, it is optimal to search far away on the technology landscape; but as the firm succeeds in finding technological improvements it is optimal to confine search to a local region of the landscape. We obtain the result that there are diminishing returns to search without having to make the assumption that the firm's repeated draws from the search space are independent and identically distributed.

2002001, Feb 14, 2002

Apr 20, 2001

09/838156

Stuart Kauffman - Santa Fe NM, US
Bruce Sawhill - Santa Fe NM, US
Roumen Borissov - Somerville MA, US

G01N033/48, G01N033/50

702/019000, 702/020000

The present invention relates to experimental and algorithmic methods for analysis of genetic regulatory networks. More particularly, the present invention provides methods of partitioning genes withing an organism into a plurality of groups and identification and characterization of correlations between genes and groups of genes in the genomic networks of real viruses, cells, and tissues.

2012007, Mar 22, 2012

Jul 20, 2011

13/187257

Stuart Kauffman - Santa Fe NM, US
Samuli Niiranen - Tampere, FI
Gábor Vattay - Budapest, HU

TAMPERE UNIVERSITY OF TECHNOLOGY - Tampere
THE UNIVERSITY OF VERMONT - Burlington VT

C40B 30/04, C40B 30/02, G06G 7/00

506 8, 706 3, 506 9

Disclosed herein are systems and uses of systems operating between fully quantum coherent and fully classical states. Such systems operate in what is termed the “Poised realm” and exhibit unique behaviors that can be applied to a number of useful applications. Non-limiting examples include drug discovery, computers, and artificial intelligence

2001003, Oct 18, 2001

Feb 20, 2001

09/785411

Stuart Kauffman - Santa Fe NM, US

G06F017/60

700/099000, 705/007000, 700/097000, 700/105000, 700/106000

The present inventionrelates generally to a system and method for operations management. More specifically, the present invention determines robust processes for performing one or more tasks.

7752064, Jul 6, 2010

Mar 22, 2005

11/087034

Stuart Kauffman - Santa Fe NM, US

NuTech Solutions, Inc. - Charlotte NC

G06F 17/30

705 7

The present invention relates generally to a system and method for operations management. More specifically, the present invention determines robust processes for performing one or more tasks.