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 Victor M Markowitz

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Average citations per article4.95
Citation Count198
Publication count40
Publication years1984-2014
Available for download6
Average downloads per article452.50
Downloads (cumulative)2,715
Downloads (12 Months)29
Downloads (6 Weeks)7
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40 results found Export Results: bibtexendnoteacmrefcsv

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1 published by ACM
June 2014 SSDBM '14: Proceedings of the 26th International Conference on Scientific and Statistical Database Management
Publisher: ACM
Bibliometrics:
Citation Count: 0
Downloads (6 Weeks): 1,   Downloads (12 Months): 3,   Downloads (Overall): 178

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The Integrated Microbial Genomes (IMG) system integrates microbial community aggregate genomes (metagenomes) with genomes from all domains of life. IMG provides tools for analyzing and reviewing the structural and functional annotations of metagenomes and genomes in a comparative context. At the core of the IMG system is a data warehouse ...
Keywords: data warehouse, genome data analysis system

2 published by ACM
July 2013 SSDBM: Proceedings of the 25th International Conference on Scientific and Statistical Database Management
Publisher: ACM
Bibliometrics:
Citation Count: 1
Downloads (6 Weeks): 0,   Downloads (12 Months): 4,   Downloads (Overall): 46

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Gene context analysis determines the function of genes by examining the conservation of chromosomal gene clusters and co-occurrence functional profiles across genomes. This is based on the observation that functionally related genes are often collocated on chromosomes as part of so called "gene cassettes", and relies on the identification of ...

3
September 2009 Bioinformatics: Volume 25 Issue 17, September 2009
Publisher: Oxford University Press
Bibliometrics:
Citation Count: 1

Motivation: A rapidly increasing number of microbial genomes are sequenced by organizations worldwide and are eventually included into various public genome data resources. The quality of the annotations depends largely on the original dataset providers, with erroneous or incomplete annotations often carried over into the public resources and difficult to ...

4
May 2009 RECOMB 2'09: Proceedings of the 13th Annual International Conference on Research in Computational Molecular Biology
Publisher: Springer-Verlag
Bibliometrics:
Citation Count: 3

Metagenomicstudies consider the genetic makeup of microbial communities as a whole, rather than their individual member organisms. The functional and metabolic potential of microbial communities can be analyzed by comparing the relative abundance of gene families in their collective genomic sequences (metagenome) under different conditions. Such comparisons require accurate estimation ...
Keywords: Lander-Waterman, function comparison, functional analysis, metagenomics

5
August 2008 Bioinformatics: Volume 24 Issue 16, August 2008
Publisher: Oxford University Press
Bibliometrics:
Citation Count: 7

Motivation: A typical metagenome dataset generated using a 454 pyrosequencing platform consists of short reads sampled from the collective genome of a microbial community. The amount of sequence in such datasets is usually insufficient for assembly, and traditional gene prediction cannot be applied to unassembled short reads. As a result, ...

6
July 2006 DILS'06: Proceedings of the Third international conference on Data Integration in the Life Sciences
Publisher: Springer-Verlag
Bibliometrics:
Citation Count: 0

Data integration is an important part of biological applications that acquire data generated using evolving technologies and methods or involve data analysis across diverse specialized databases that reflect the expertise of different groups in a specific domain. The increasing number of such databases, the emergence of new types of data ...

7
July 2006 Bioinformatics: Volume 22 Issue 14, July 2006
Publisher: Oxford University Press, Inc.
Bibliometrics:
Citation Count: 1

The application of shotgun sequencing to environmental samples has revealed a new universe of microbial community genomes (metagenomes) involving previously uncultured organisms. Metagenome analysis, which is expected to provide a comprehensive picture of the gene functions and metabolic capacity for microbial communities, needs to be conducted in the context of ...

8
August 2005 VLDB '05: Proceedings of the 31st international conference on Very large data bases
Publisher: VLDB Endowment
Bibliometrics:
Citation Count: 4
Downloads (6 Weeks): 0,   Downloads (12 Months): 0,   Downloads (Overall): 400

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Biological data management includes the traditional areas of data generation, acquisition, modelling, integration, and analysis. Although numerous academic biological data management systems are currently available, employing them effectively remains a significant challenge. We discuss how this challenge was addressed in the course of developing the Integrated Microbial Genomes (IMG) system ...

9
August 2004 VLDB '04: Proceedings of the Thirtieth international conference on Very large data bases - Volume 30
Publisher: VLDB Endowment
Bibliometrics:
Citation Count: 5
Downloads (6 Weeks): 0,   Downloads (12 Months): 2,   Downloads (Overall): 83

Full text available: PDFPDF

10
March 2002 EDBT '02: Proceedings of the 8th International Conference on Extending Database Technology: Advances in Database Technology
Publisher: Springer-Verlag
Bibliometrics:
Citation Count: 0

One of the major challenges facing scientists dealing with gene expression data is how to integrate, explore and analyze vast quantities of related data, often residing in multiple heterogeneous data repositories. In this paper we describe the problems involved in managing gene expression data and discuss how these problems have ...

11
March 2001 BIBE '01: Proceedings of the 2nd IEEE International Symposium on Bioinformatics and Bioengineering
Publisher: IEEE Computer Society
Bibliometrics:
Citation Count: 5

In this paper we present a method for applying data warehouse and on-line analytical processing concepts to gene expression data management. This method has been employed in developing the data management system that is used to host Gene Logic's GeneExpress(r) database products.
Keywords: data warehouse, gene expression data, on-line analytical processing

12
August 1999 Proceedings of the Seventh International Conference on Intelligent Systems for Molecular Biology
Publisher: AAAI Press
Bibliometrics:
Citation Count: 2


13
July 1998 ISMB '98: Proceedings of the 6th International Conference on Intelligent Systems for Molecular Biology
Publisher: AAAI Press
Bibliometrics:
Citation Count: 4


14
March 1998 EDBT '98: Proceedings of the 6th International Conference on Extending Database Technology: Advances in Database Technology
Publisher: Springer-Verlag
Bibliometrics:
Citation Count: 5


15
August 1997 SSDBM '97: Proceedings of the Ninth International Conference on Scientific and Statistical Database Management
Publisher: IEEE Computer Society
Bibliometrics:
Citation Count: 7

Scientific databases (ScDBs) are used to archive and retrieve data describing objects of scientific inquiry. Since these ScDBs must provide continuous and efficient access to large communities of scientists, they are often developed with reliable commercial relational database management systems (DBMSs) or file systems. However, relational DBMSs and flat files ...

16
August 1997 SSDBM '97: Proceedings of the Ninth International Conference on Scientific and Statistical Database Management
Publisher: IEEE Computer Society
Bibliometrics:
Citation Count: 0


17
April 1997 ICDE '97: Proceedings of the Thirteenth International Conference on Data Engineering
Publisher: IEEE Computer Society
Bibliometrics:
Citation Count: 1

Summary form only given. The Object-Protocol Model (OPM) data management tools provide facilities for rapid development, documentation, and flexible exploration of scientific databases. The tools are based on OPM, an object-oriented data model which is similar to the ODMG standard, but also supports extensions for modeling scientific data. Databases designed ...
Keywords: ODMG standard, OPM retrofitting tools, flexible scientific database exploration, schema translation tools, scientific database documentation, Protein Data Bank, scientific database development, Genome Database, Object-Protocol Model data management tools, archival molecular biology databases, relational data model, scientific data modelling, ASN.1 data exchange format, Genome Sequence Database, commercial relational DBMS, object-oriented data model, scientific database access, scientific information systems, semantically enhanced views

18
March 1996 EDBT '96: Proceedings of the 5th International Conference on Extending Database Technology: Advances in Database Technology
Publisher: Springer-Verlag
Bibliometrics:
Citation Count: 0


19
July 1995 Information Systems - Special issue: databases: their creation, management and utilization: Volume 20 Issue 5, July 1995
Publisher: Elsevier Science Ltd.
Bibliometrics:
Citation Count: 27

Keywords: scientific database, data management tools, object data model

20
March 1995 ICDE '95: Proceedings of the Eleventh International Conference on Data Engineering
Publisher: IEEE Computer Society
Bibliometrics:
Citation Count: 4

We examine the main requirements for modeling scientific experiments and propose constructs that fulfil these requirements. We show that existing object-oriented and semantic data models do not provide such constructs. Experiment (protocol) and object constructs can be combined in order to provide seamless object and experiment modeling. We present an ...
Keywords: data structures, natural sciences computing, scientific experiment modeling, Object-Protocol Model, commercial relational database management systems, protocol, OPM interface, object data model, seamless object modeling, experiment modeling, object-oriented databases, object-oriented models, relational databases, semantic data models



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