bioinformatics

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CLC Sequence Viewer (exe)

CLC Sequence Viewer is a free software workbench for basic bioinformatics, enabling users to make a large number of bioinformatics analyses, combined with smooth data management, and excellent graphical viewing and output options. Some of the many bioinformatics analyses are: Interactive restriction site analysis, Creating and editing alignments, Phylogenetics, Integrated...

Tags: Bioinformatics, CLC Sequence Viewer, Healthcare

Software downloads 2008-02-28

Biobar (xpi)

A power browsing toolbar for biologists and bioinformatics people. You can add, replace, and change the searched databases and associated terms. Version 1.5.3 has enabled searching Pride database, fixed broken searches to Flybase, added additional search options to Intact, and other improvements.

Tags: Database, Bioinformatics, Jawahar Swaminathan, Healthcare

Software downloads 2008-01-22

Google wants $4 billion drug ad market in 23andMe

Google declares war on $2 trillion health care industry and Google battles Microsoft for medical domination.PLUS Google's Brin: I love you, and your biotech start-up!The $2 trillion worth of health care pieces are all coming together! U.S. healthcare is big business, $2 trillion worth. The advertising of health-related products directly to consumers...

Tags: Google

Blog posts 2007-05-24

CLC Free Workbench (dmg)

CLC Free Workbench creates a software environment enabling users to make basic bioinformatics analyses and smooth data management, combined with excellent graphical viewing and output options. Some bioinformatics features are: GenBank searching and viewing linear and circular views, Multiple alignment of DNA, RNA and proteins two alignment algorithms, advanced alignment...

Tags: Alignment, Protein, Bioinformatics, CLC Free Workbench, Healthcare, Biotechnology

Software downloads 2007-03-25

A Service-Oriented Data Integration and Analysis Environment for in Silico Experiments and Bioinformatics Research

This paper presents present a practical experiment of building a service-oriented system upon current web services technologies and bioinformatics middleware. The system allows scientists to extract data from heterogeneous data sources and generate phylogenetic comparisons automatically. This can be difficult to accomplish using manual search tools since sequence data is...

Tags: Web, Bioinformatics, IEEE, Analysis, Healthcare

White papers 2006-11-16

Prova: Rule-Based Java Scripting for Distributed Web Applications: A Case Study in Bioinformatics

Prova is a language for rule-based Java scripting to support information integration and agent programming on the web. Prova integrates Java with derivation and reaction rules supporting message exchange with various protocols. Prova supports transparent access to databases, retrieval of URLs, access to web services, and querying of XML documents....

Tags: Bioinformatics, Java, Web Application, Prova, Healthcare, Programming Languages, Software Development, Software/Web Development

White papers 2006-01-31

A WorkFlow Management System for Bioinformatics Grid

To date, many bioinformatics tools are available to query and analyse biological data. These software are heterogeneous, support several kinds of data and the analysis of the produced results is often very difficult. Sometimes, it is needed to edit by hand the output, and adjust some values in order to...

Tags: Bioinformatics, Workflow Management, Tool, Healthcare, Productivity

White papers 2005-10-20

Performance Scalability of Data-Mining Workloads in Bioinformatics

The bioinformatics workloads studied in this paper are representative of general-purpose data-mining techniques. They use BNs, SVMs, and DP, among other methods. They are data parallel workloads with large data sets and are very compute intensive. Data mining is the extraction of hidden predictive information from large data bases. Emerging...

Tags: Performance, Bioinformatics, Data Mining, Business Intelligence, Marketing Research, Databases, Healthcare, Enterprise Software, Software, Data Management, Marketing

White papers 2005-05-19

Dell and the Center of Excellence in Bioinformatics at the University at Buffalo Create Linux-Based Clusters Running on Intel Processors and Dedicated to Cutting-Edge Research in Bioinformatics

The newly formed Center of Excellence in Bioinformatics at the University at Buffalo UB, a campus of The State University of New York, combines such high-end technologies as supercomputing and visualization with scientific expertise in disciplines such as genomics, proteomics, and bioimaging. Because of the high costs of supercomputers, the...

Tags: Processor, Linux, Dell Computer Corp., Bioinformatics, University At Buffalo, Intel Corp., Healthcare

Case studies

CSIRO's Study in the Field of Bioinformatics Has Been Propelled Forward With the Installation of a Dedicated High Performance Computing Cluster, Built Using Low Cost Dell Servers Clustered Together Running SuSe Linux

With thousands of scientists and researchers spread around the country, the CSIRO found itself faced with the challenge of consolidating its research platform onto a secure, centralised computing facility that could be easily accessed without limitation. With space limitations and operational costs a consideration, the CSIRO followed Dell's advice to...

Tags: Dell Computer Corp., Bioinformatics, High-performance Computing, High-performance, SuSE Linux, SuSE, CSIRO, Linux, Servers, Blade Servers, Open Source, UNIX, Utility Computing, Operating Systems, Software, Hardware

Case studies

Bioinformatics Hastens Drug Discovery and Development

Gene Logic Inc., a bioinformatics and biocontent firm in Gaithersburg, Md., is at the forefront of using highly sophisticated technologies to create genomic information-based research tools. To enable the free flow of critical information to its customers, Gene Logic uses information storage systems and software from EMC Corp., Hopkinton, Mass.,...

Tags: Reed Elsevier Inc., Bioinformatics, Healthcare

Case studies

Wyeth Bioinformatics' Research Transformed Using HP and Red Hat Solution

Wyeth is a global leader in prescription pharmaceutical non-prescription consumer healthcare products and pharmaceuticals for animal health. Wyeth needed to identify a stable, scalable, and flexible architecture to facilitate innovation and meet the computational needs of scientific research, increase performance and productivity, and decrease operating costs. Wyeth embarked on a...

Tags: Wyeth, Hewlett-Packard Co., Red Hat Inc., Bioinformatics, Wyeth Bioinformatics, Vertical Industries, Healthcare, Benefits, Servers, Enterprise Software, Software, Human Resources, Hardware

Case studies

Additional Resources

Build your own Google

In an earlier post I talked a bit about a start-up called Kickfire who are releasing an accelerated database appliance for MySQL applications in the 1TB-3TB range that gives comparable performance to an equivalent Oracle RDBMS setup for around a quarter of the price. Kickfire sounds compelling for utility...

Tags: Google Inc., Worker, Aster, Aster Beehives, Storage, Databases, Hardware, Enterprise Software, Software, Data Management, Jason Perlow

Blog posts 2008-06-05

Unixfication II

Can the Linux community get over its "not invented here" ideology which has often hindered its ability to adopt technological improvements from outside sources? I keep saying to myself, I hope so. But recent events have shown me that we have a long way to go until we become a...

Tags: GPL, Virtualization, Kernel, Linux, UNIX, Operating Systems, Open Source, Sun Solaris, Software, Jason Perlow

Blog posts 2008-05-08

Intel moving to six-cores this year; What will you do with them?

Intel moving to six-cores this year; What will you do with them?Oh please.."..But like that annoying smart arse in the back of the room I’d like to pose a question: What exactly are we supposed to do with six cores when.."Here we are 25 years later and pundits are still...

Tags: Linux, Cyberthreats, Operating systems, Desktops, bioinformatics application, virtual machine, Intel Corp., software

Discussion threads 2008-03-18

CLC RNA Workbench (exe)

CLC RNA Workbench--a bioinformatics program for advanced RNA sequence analysis. All analyses are fully integrated in one single, user-friendly, and intuitive software application. Version 2 improves functionalities of interactive restriction sites adds new actions, and includes better editing functions.

Tags: Software, Biotechnology, Tools & Techniques, Healthcare, Management

Software downloads 2008-01-10

Taverna (zip)

The Taverna project aims to provide a language and software tools to facilitate easy use of workflow and distributed compute technology within the eScience community. The best way to understand what Taverna is about and what it could potentially do for you is to use it, however, a quick read...

Tags: Workflow, Taverna Team, Process Improvement, Quality, Business Operations

Software downloads 2008-01-04

Tracking zebras... and consumers

Wireless networks have been used before to track animals, such as elephants, koalas, and even pigeons. Now, U.S. researchers are using social networking software to track zebras. They hope to discover how animals interact -- especially when lions are near a herd. They also think their...

Tags: Social Networking, Animal, Researcher, Network, Herd, Analysis, Species, Rubenstein, Roland Piquepaille

Blog posts 2007-09-11

Matching cancers and chemical treatments

When oncologists meet a new patient affected by a cancer, they have to take decisions about the best possible treatment. Now, U.S. researchers have devised an algorithm which matches tumor profiles to best treatments. They've used a panel of 60 diverse human cancer cell lines from the National Cancer Institute...

Tags: Computers &, Internet, Health &, Medicine, Science &, Nature

Blog posts 2007-07-25

Searching through biological images

Researchers at the Arizona State University ASU are working on software tools to analyze databases of biological images. One of these projects is using machine learning technology to compare the expression patterns captured in the images. So far, the software was used to explore a database of embryonic fruit flies...

Tags: Science &, Nature, Health &, Medicine, Computers &, Internet

Blog posts 2007-05-07