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ABI, Comergent Technologies, BII , Lucidyx, Elsevier MDL, Spotfire, KOOPrime, GeneBio, Shimadzu, Phenomenome, FDA, Rosetta, Iconix, Biosite, Compugen, BD Biosciences, Scanalytics

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ABI Taps Comergent to Build E-Commerce System

In the same week that Invitrogen launched a bioinformatics-powered e-commerce interface built around GeneGo's biological pathways (see story, this issue), Applied Biosystems announced that it has tapped an outside software vendor, Comergent Technologies, to upgrade its own e-commerce capabilities.

Comergent will help ABI build a single e-commerce platform "to serve external customers in a variety of fields, as well as internal sales and service representatives," said Paul Fingerman, vice president of information tech

ABI Taps Comergent to Build E-Commerce System

In the same week that Invitrogen launched a bioinformatics-powered e-commerce interface built around GeneGo's biological pathways (see story, this issue), Applied Biosystems announced that it has tapped an outside software vendor, Comergent Technologies, to upgrade its own e-commerce capabilities.

Comergent will help ABI build a single e-commerce platform "to serve external customers in a variety of fields, as well as internal sales and service representatives," said Paul Fingerman, vice president of information technology for ABI's parent company Applera, in a statement.

Deloitte Consulting will manage the implementation as part of a three-year, strategic initiative to improve customer service and increase online sales.

Deloitte and ABI began a partnership in March to provide joint consulting services in life science informatics [BioInform 03-07-05].


BII and Lucidyx to Co-Develop Data-Integration Products

The Biosystems Informatics Institute and its commercial trading arm Turbinia said last week that it has signed a co-development agreement with bioinformatics firm Lucidyx.

The collaboration will first focus on the development of Lucidyx Oracle Gateway, a bridge between Oracle and the Lucidyx search engine that will allow Oracle SQL queries to combine data from Oracle with data from Lucidyx' Searcher application.

A second product, Lucidyx Puma, will enable access to the Lucidyx search engine for programmers using Java or Perl, through http, or through a command-line program using an API.


Elsevier MDL, Spotfire to Integrate Isentris and DecisionSite

Elsevier MDL and Spotfire said last week that they will integrate MDL's Isentris informatics platform with Spotfire's DecisionSite for Lead Discovery.

Spotfire plans to begin supporting Isentris products before the end of the year, and Elsevier MDL plans to develop software extensions to DecisionSite that will enable "even stronger interoperability" with MDL Isentris, the company said.

Spotfire CEO Christopher Ahlberg said in a statement that the companies plan to "explore further developments that leverage these frameworks to improve scientists' productivity from target identification to drug safety."

The agreement includes "strategic membership" for Spotfire in MDL's Isentris Alliance program, and reciprocal membership for Elsevier MDL in the Spotfire Alliance Partnership Program, as well as a mutual exchange of developer licenses and training.


KOOPrime to Distribute GeneBio's Phenyx in Asia

Geneva Bioinformatics said last week that KOOPrime, a Singapore-based provider of life science workflow software, will distribute its Phenyx proteomics software in Singapore, Malaysia, China, and Taiwan.

"Along with our office in Tokyo, this agreement with KOOPrime cements our presence in the Asian market and opens many new doors in terms of product exposure," said Nasri Nahas, CEO of GeneBio, in a statement.

The company opened its office in Tokyo just over a year ago.

GeneBio developed Phenyx, a software system for identifying proteins and peptides from mass spectrometry data, in collaboration with the Swiss Institute of Bioinformatics.

KOOPrime was established in 2000 to commercialize its KOOPlatform workflow-agent informatics system, which integrates components dealing with data collection, data warehousing, data mining, and data visualization.


Shimadzu Signs Mass Spec Software
Deals with Phenomenome, ACD

Shimadzu and Phenomenome have inked a deal that will allow researchers to use Phenomenome's informatics platform to visualize and interpret mass spectrometry data generated by Shimadzu technology for metabolomics research, Shimadzu said last week.

Under the terms of the collaboration, data generated on Shimadzu's LC/MS systems will be integrated with the Phenomenome Profiler informatics platform.

Shimadzu also announced separately that it has struck a similar agreement with Advanced Chemistry Development, in which researchers will be able to use ACD software to visualize and interpret mass spectrometry fragmentation data and chromatography data generated by Shimadzu platforms.


FDA to use Ingenuity Pathways Analysis
for Review of Pharmacogenomics Data

Ingenuity said last week that the US Food and Drug Administration has licensed its Ingenuity Pathways Analysis platform for use in the review of pharmacogenomics data submissions.

The FDA and Ingenuity will collaborate on merging Ingenuity's data and software suite with the FDA's ArrayTrack informatics system using a new integration module in Ingenuity Pathways Analysis.

ArrayTrack, a microarray data-management and -analysis system, was developed by the FDA's Center for Toxicoinformatics at the National Center for Toxicological Research [BioInform 07-14-03].

Last August, the FDA integrated another pathway database, PathArt from Jubilant Biosys, into ArrayTrack [BioInform 08-16-04].


Rosetta, Iconix to Integrate Resolver with DrugMatrix

Rosetta Biosoftware and Iconix Pharmaceuticals said last week that they will integrate Rosetta's Resolver gene-expression data analysis system and Iconix' DrugMatrix database of toxicogenomics profiles.

The collaboration will enable researchers to use the Resolver system to analyze and manage data from DrugMatrix, along with data from other sources.


Biosite to Develop Diagnostics
Based on Compugen's Biomarkers

Compugen and Biosite will partner on the development of diagnostic products based on biomarkers discovered by Compugen, the companies said last week.

Under the terms of the agreement, Biosite has been granted an exclusive license to develop and commercialize immunoassay-based diagnostics products based on several gene targets that Compugen has identified.

Compugen will receive milestone payments and royalties from the sale of any diagnostic products that result from the collaboration, and will also retain the exclusive right to develop therapeutics based on the targets. Biosite would then in turn receive milestone payments and royalties from Compugen arising from any successful therapeutic application of the targets.

The agreement is the second diagnostic collaboration that Compugen has announced this month. Earlier in June, the company said that it had penned a diagnostic collaboration with Ortho-Clinical Diagnostics, a Johnson & Johnson company.


BD Biosciences, Scanalytics Partner on
Automated Image Analysis for HCS

BD Biosciences has entered into a "strategic partnership" with informatics firm Scanalytics to develop image analysis software for BD Bioscience's automated microscopy platforms, a company representative said last week at the Marcus Evans High-Content Screening conference in London.

According to Dietrich Ruehlmann, BD Biosciences' product manager for imaging and analysis, BD began the partnership with Scanalytics a few months ago with the goal of developing image analysis platforms for BD Biosciences' CARV II Confocal Imager and Pathway Bioimager for high-content drug screening.

Scanalytics, based in Fairfax, Va., markets scientific imaging software, including deconvolution and 3D restoration and gel analysis software.

A development timeline for the image analysis software was not provided.

nology for ABI's parent company Applera, in a statement.

Deloitte Consulting will manage the implementation as part of a three-year, strategic initiative to improve customer service and increase online sales.

Deloitte and ABI began a partnership in March to provide joint consulting services in life science informatics [BioInform 03-07-05].


BII and Lucidyx to Co-Develop Data-Integration Products

The Biosystems Informatics Institute and its commercial trading arm Turbinia said last week that it has signed a co-development agreement with bioinformatics firm Lucidyx.

The collaboration will first focus on the development of Lucidyx Oracle Gateway, a bridge between Oracle and the Lucidyx search engine that will allow Oracle SQL queries to combine data from Oracle with data from Lucidyx' Searcher application.

A second product, Lucidyx Puma, will enable access to the Lucidyx search engine for programmers using Java or Perl, through http, or through a command-line program using an API.


Elsevier MDL, Spotfire to Integrate Isentris and DecisionSite

Elsevier MDL and Spotfire said last week that they will integrate MDL's Isentris informatics platform with Spotfire's DecisionSite for Lead Discovery.

Spotfire plans to begin supporting Isentris products before the end of the year, and Elsevier MDL plans to develop software extensions to DecisionSite that will enable "even stronger interoperability" with MDL Isentris, the company said.

Spotfire CEO Christopher Ahlberg said in a statement that the companies plan to "explore further developments that leverage these frameworks to improve scientists' productivity from target identification to drug safety."

The agreement includes "strategic membership" for Spotfire in MDL's Isentris Alliance program, and reciprocal membership for Elsevier MDL in the Spotfire Alliance Partnership Program, as well as a mutual exchange of developer licenses and training.


KOOPrime to Distribute GeneBio's Phenyx in Asia

Geneva Bioinformatics said last week that KOOPrime, a Singapore-based provider of life science workflow software, will distribute its Phenyx proteomics software in Singapore, Malaysia, China, and Taiwan.

"Along with our office in Tokyo, this agreement with KOOPrime cements our presence in the Asian market and opens many new doors in terms of product exposure," said Nasri Nahas, CEO of GeneBio, in a statement.

The company opened its office in Tokyo just over a year ago.

GeneBio developed Phenyx, a software system for identifying proteins and peptides from mass spectrometry data, in collaboration with the Swiss Institute of Bioinformatics.

KOOPrime was established in 2000 to commercialize its KOOPlatform workflow-agent informatics system, which integrates components dealing with data collection, data warehousing, data mining, and data visualization.


Shimadzu Signs Mass Spec Software
Deals with Phenomenome, ACD

Shimadzu and Phenomenome have inked a deal that will allow researchers to use Phenomenome's informatics platform to visualize and interpret mass spectrometry data generated by Shimadzu technology for metabolomics research, Shimadzu said last week.

Under the terms of the collaboration, data generated on Shimadzu's LC/MS systems will be integrated with the Phenomenome Profiler informatics platform.

Shimadzu also announced separately that it has struck a similar agreement with Advanced Chemistry Development, in which researchers will be able to use ACD software to visualize and interpret mass spectrometry fragmentation data and chromatography data generated by Shimadzu platforms.


FDA to use Ingenuity Pathways Analysis
for Review of Pharmacogenomics Data

Ingenuity said last week that the US Food and Drug Administration has licensed its Ingenuity Pathways Analysis platform for use in the review of pharmacogenomics data submissions.

The FDA and Ingenuity will collaborate on merging Ingenuity's data and software suite with the FDA's ArrayTrack informatics system using a new integration module in Ingenuity Pathways Analysis.

ArrayTrack, a microarray data-management and -analysis system, was developed by the FDA's Center for Toxicoinformatics at the National Center for Toxicological Research [BioInform 07-14-03].

Last August, the FDA integrated another pathway database, PathArt from Jubilant Biosys, into ArrayTrack [BioInform 08-16-04].


Rosetta, Iconix to Integrate Resolver with DrugMatrix

Rosetta Biosoftware and Iconix Pharmaceuticals said last week that they will integrate Rosetta's Resolver gene-expression data analysis system and Iconix' DrugMatrix database of toxicogenomics profiles.

The collaboration will enable researchers to use the Resolver system to analyze and manage data from DrugMatrix, along with data from other sources.


Biosite to Develop Diagnostics
Based on Compugen's Biomarkers

Compugen and Biosite will partner on the development of diagnostic products based on biomarkers discovered by Compugen, the companies said last week.

Under the terms of the agreement, Biosite has been granted an exclusive license to develop and commercialize immunoassay-based diagnostics products based on several gene targets that Compugen has identified.

Compugen will receive milestone payments and royalties from the sale of any diagnostic products that result from the collaboration, and will also retain the exclusive right to develop therapeutics based on the targets. Biosite would then in turn receive milestone payments and royalties from Compugen arising from any successful therapeutic application of the targets.

The agreement is the second diagnostic collaboration that Compugen has announced this month. Earlier in June, the company said that it had penned a diagnostic collaboration with Ortho-Clinical Diagnostics, a Johnson & Johnson company.


BD Biosciences, Scanalytics Partner on
Automated Image Analysis for HCS

BD Biosciences has entered into a "strategic partnership" with informatics firm Scanalytics to develop image analysis software for BD Bioscience's automated microscopy platforms, a company representative said last week at the Marcus Evans High-Content Screening conference in London.

According to Dietrich Ruehlmann, BD Biosciences' product manager for imaging and analysis, BD began the partnership with Scanalytics a few months ago with the goal of developing image analysis platforms for BD Biosciences' CARV II Confocal Imager and Pathway Bioimager for high-content drug screening.

Scanalytics, based in Fairfax, Va., markets scientific imaging software, including deconvolution and 3D restoration and gel analysis software.

A development timeline for the image analysis software was not provided.

Filed under

The Scan

Interfering With Invasive Mussels

The Chicago Tribune reports that researchers are studying whether RNA interference- or CRISPR-based approaches can combat invasive freshwater mussels.

Participation Analysis

A new study finds that women tend to participate less at scientific meetings but that some changes can lead to increased involvement, the Guardian reports.

Right Whales' Decline

A research study plans to use genetic analysis to gain insight into population decline among North American right whales, according to CBC.

Science Papers Tie Rare Mutations to Short Stature, Immunodeficiency; Present Single-Cell Transcriptomics Map

In Science this week: pair of mutations in one gene uncovered in brothers with short stature and immunodeficiency, and more.