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Steven Allen Gold

Bio: Steven Allen Gold is an academic researcher from Genentech. The author has contributed to research in topics: Endothelial stem cell & Nucleic acid. The author has an hindex of 8, co-authored 12 publications receiving 2878 citations.

Papers
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Journal ArticleDOI
05 Dec 2003-Science
TL;DR: This map serves as a starting point for a systems biology modeling of multicellular organisms, including humans, and recapitulated known pathways, extended pathways, and uncovered previously unknown pathway components.
Abstract: Drosophila melanogaster is a proven model system for many aspects of human biology. Here we present a two-hybrid-based protein-interaction map of the fly proteome. A total of 10,623 predicted transcripts were isolated and screened against standard and normalized complementary DNA libraries to produce a draft map of 7048 proteins and 20,405 interactions. A computational method of rating two-hybrid interaction confidence was developed to refine this draft map to a higher confidence map of 4679 proteins and 4780 interactions. Statistical modeling of the network showed two levels of organization: a short-range organization, presumably corresponding to multiprotein complexes, and a more global organization, presumably corresponding to intercomplex connections. The network recapitulated known pathways, extended pathways, and uncovered previously unknown pathway components. This map serves as a starting point for a systems biology modeling of multicellular organisms, including humans.

2,414 citations

Journal ArticleDOI
TL;DR: An mRNA profiling technique for determining differential gene expression that utilizes, but does not require, prior knowledge of gene sequences is described, which permits high-throughput reproducible detection of most expressed sequences with a sensitivity of greater than 1 part in 100,000.
Abstract: We describe an mRNA profiling technique for determining differential gene expression that utilizes, but does not require, prior knowledge of gene sequences. This method permits high-throughput reproducible detection of most expressed sequences with a sensitivity of greater than 1 part in 100,000. Gene identification by database query of a restriction endonuclease fingerprint, confirmed by competitive PCR using gene-specific oligonucleotides, facilitates gene discovery by minimizing isolation procedures. This process, called GeneCalling, was validated by analysis of the gene expression profiles of normal and hypertrophic rat hearts following in vivo pressure overload.

218 citations

Patent
23 Jun 2005
TL;DR: An object process graph (OPG) application development system as discussed by the authors includes an API, an OPG application program interface (API), a window editor, and a notation for describing and defining OPG applications.
Abstract: An object process graph (OPG) application development system. The system includes an OPG application program interface (API), an OPG application editor, an OPG application window editor, and an OPG application notation. The OPG API provides access to functions of an OPG system. The OPG application editor facilitates the creating and editing of the OPG applications via the OPG API. The OPG application window editor facilitates the editing of OPG application user interface windows while an OPG application is running. The OPG application notation includes a plurality of key words and associated definitions for describing and defining OPG applications.

90 citations

Patent
20 May 2005
TL;DR: An Object Process Graph Relational Database Interface (OPGRDI) as mentioned in this paper is a computer software system that defines and updates relational database tables based on OPG and stores and retrieves data in the tables as an OPG-defined application is run.
Abstract: A computer software system is provided, namely An Object Process Graph Relational Database Interface (OPGRDI) system. The OPGRDI defines and updates relational database tables based on an OPG and stores and retrieves data in the tables as an OPG-defined application is run. The OPGRDI also defines and updates OPG persistent data object elements based on relational database table schemas. The OPGRDI functions can be enabled by users who want to store and retrieve application information in a relational database system, such as Oracle, Sybase, SQL Server, etc. The OPGRDI alters relational database tables as a user changes the structure of OPG-defined application.

57 citations

Patent
27 May 2005
TL;DR: In this paper, a software system is provided including an Object Process Graph for defining applications and a Dynamic Graph Interpreter that interprets object Process Graphs, making it possible to change any aspect of an application's data entry, processing or information display at any time.
Abstract: A software system is provided including an Object Process Graph for defining applications and a Dynamic Graph Interpreter that interprets Object Process Graphs. An Object Process Graph defines all of an application's manipulations and processing steps and all of the application's data. An Object Process Graph is dynamic, making it possible to change any aspect of an application's data entry, processing or information display at any time. When an Object Process Graph is interpreted, it functions to accept data, process the data and produce information output. Modifications made to an Object Process Graph while it is being interpreted take affect immediately and can be saved. Object Process Graphs and Dynamic Graph Interpreters can be deployed on single user workstation computers or on distributed processing environments where central servers store Object Process Graphs and run Dynamic Graph Interpreters, and workstation computers access the servers via the intranet or local intranets.

44 citations


Cited by
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28 Jul 2005
TL;DR: PfPMP1)与感染红细胞、树突状组胞以及胎盘的单个或多个受体作用,在黏附及免疫逃避中起关键的作�ly.
Abstract: 抗原变异可使得多种致病微生物易于逃避宿主免疫应答。表达在感染红细胞表面的恶性疟原虫红细胞表面蛋白1(PfPMP1)与感染红细胞、内皮细胞、树突状细胞以及胎盘的单个或多个受体作用,在黏附及免疫逃避中起关键的作用。每个单倍体基因组var基因家族编码约60种成员,通过启动转录不同的var基因变异体为抗原变异提供了分子基础。

18,940 citations

Journal ArticleDOI
TL;DR: The major concepts and results recently achieved in the study of the structure and dynamics of complex networks are reviewed, and the relevant applications of these ideas in many different disciplines are summarized, ranging from nonlinear science to biology, from statistical mechanics to medicine and engineering.

9,441 citations

Journal ArticleDOI
TL;DR: This work states that rapid advances in network biology indicate that cellular networks are governed by universal laws and offer a new conceptual framework that could potentially revolutionize the view of biology and disease pathologies in the twenty-first century.
Abstract: A key aim of postgenomic biomedical research is to systematically catalogue all molecules and their interactions within a living cell. There is a clear need to understand how these molecules and the interactions between them determine the function of this enormously complex machinery, both in isolation and when surrounded by other cells. Rapid advances in network biology indicate that cellular networks are governed by universal laws and offer a new conceptual framework that could potentially revolutionize our view of biology and disease pathologies in the twenty-first century.

7,475 citations

Journal ArticleDOI
TL;DR: Advances in this direction are essential for identifying new disease genes, for uncovering the biological significance of disease-associated mutations identified by genome-wide association studies and full-genome sequencing, and for identifying drug targets and biomarkers for complex diseases.
Abstract: Given the functional interdependencies between the molecular components in a human cell, a disease is rarely a consequence of an abnormality in a single gene, but reflects the perturbations of the complex intracellular and intercellular network that links tissue and organ systems. The emerging tools of network medicine offer a platform to explore systematically not only the molecular complexity of a particular disease, leading to the identification of disease modules and pathways, but also the molecular relationships among apparently distinct (patho)phenotypes. Advances in this direction are essential for identifying new disease genes, for uncovering the biological significance of disease-associated mutations identified by genome-wide association studies and full-genome sequencing, and for identifying drug targets and biomarkers for complex diseases.

3,978 citations

Journal ArticleDOI
TL;DR: BioGRID is a freely accessible database of physical and genetic interactions that includes >116 000 interactions from Saccharomyces cerevisiae, Caenorhabditis elegans, Drosophila melanogaster and Homo sapiens.
Abstract: Access to unified datasets of protein and genetic interactions is critical for interrogation of gene/protein function and analysis of global network properties. BioGRID is a freely accessible database of physical and genetic interactions available at http://www.thebiogrid.org. BioGRID release version 2.0 includes >116 000 interactions from Saccharomyces cerevisiae, Caenorhabditis elegans, Drosophila melanogaster and Homo sapiens. Over 30 000 interactions have recently been added from 5778 sources through exhaustive curation of the Saccharomyces cerevisiae primary literature. An internally hyper-linked web interface allows for rapid search and retrieval of interaction data. Full or user-defined datasets are freely downloadable as tab-delimited text files and PSI-MI XML. Pre-computed graphical layouts of interactions are available in a variety of file formats. User-customized graphs with embedded protein, gene and interaction attributes can be constructed with a visualization system called Osprey that is dynamically linked to the BioGRID.

3,794 citations