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BioKnowledge Library, Thermo Electron Acquires InnaPhase, Computational Diagnostics, Protein Lounge, Schrdinger, Strand Genomics, Chromosome 5, Genstruct, Life Science IT Offshoring


Incyte’s Proteome to Launch Interaction Module for BioKnowledge Library

Incyte’s Proteome database division is throwing its hat in the pathway informatics ring with the launch of a new module for its BioKnowledge Library.

The company will officially launch its PSD Interactions module at the Chips to Hits Meeting in Boston this week and will begin shipping it to customers on Sept. 29.

Matt Crawford, director of curation technologies at Incyte, told BioInform that the Proteome curators started with an initial set of 300,000 papers, 18,500 human proteins, and 251,000 “conceivable interactions.”

Using Reel Two’s text-mining software [BioInform 05-24-04] , the curators narrowed that set to around 100,000, of which only around half are expected to be “real interactions” following manual curation, Crawford said.

So far, the module contains 26,000 interactions, including protein-protein interactions and regulatory and modification events such as transcriptional and post-translational modifications. PSD Interactions also offers a graphical browser called the BioKnowledge Workspace for visualizing interactions.

Thermo Electron Acquires InnaPhase

Thermo Electron said that it has acquired LIMS supplier InnaPhase for approximately $65 million in cash.

InnaPhase has more than 100 employees and expects revenues of approximately $26 million in 2004.

Thermo said it will integrate InnaPhase’s pharmaceutical LIMS products with its own informatics product line, which includes the SampleManager LIMS for analytical laboratories.

Indiana U Launches Center for Computational Diagnostics

The Indiana University School of Medicine last week opened the doors of its new Center of Excellence in Computational Diagnostics.

The center, established by a $2 million grant from Indiana’s 21st Century Research and Technology Fund, draws from scientists at IU-Bloomington and IU-Purdue University Indianapolis working in the areas of genetics, evidence-based medicine, proteomics, database integration, and mathematical modeling.

Protein Lounge, OmniViz in Pathway DB Distribution Pact

Pathway database provider Protein Lounge said last week that it has entered into an agreement with OmniViz to deploy its content within the OmniViz Pathway Enterprise (OPE) software.

Under the terms of the agreement, OmniViz will become the exclusive distributor for Protein Lounge’s pathway content within informatics software.

Protein Lounge said it has more than 300 manually curated cell signaling and biosynthetic pathways in its databases, which include an siRNA target database, a peptide-antigen target database, and a kinase-phosphatase database.

Bayer Licenses Schrödinger Software

Schrödinger said last week that Bayer HealthCare has licensed a “significant part” of the company’s software suite for molecular modeling and rational drug design.

Further details of the agreement were not provided.

Schrödinger said that Bayer HealthCare researchers will use the software in the study of protein-ligand interactions, predicting binding modes and energies, large-scale virtual screening, and lead optimization.

Japan’s MediBic Alliance Takes 10 Percent Stake in Strand Genomics

Strand Genomics said last week tht MediBic Alliance, the investment arm of Japanese company MediBic, has acquired a 10 percent stake in the company.

Financial details of the transaction were not provided.

MediBic and Strand last month announced a partnership to jointly develop and market informatics products to pharmaceutical customers in Japan.

Human Genome Finishing Reaches Halfway Point with Release of Chromosome 5

Researchers at the DOE’s Joint Genome Institute last week released the final version of human chromosome 5 — the 12th human chromosome to be declared finished, and the halfway point of the complete genome.

Chromosome 5 is the second of three chromosomes that the JGI has finalized in collaboration with colleagues at the Stanford Human Genome Center. The final sequence analysis was published in the Sept. 16 issue of Nature.

The chromosome contains 180.9 million bases, and includes 923 genes, including 66 that are known to be involved in human disease.

Genstruct Signs Breast Cancer Research Deal with Berlex

Genstruct said last week that it has entered into an agreement with Berlex, a US-based affiliate of Schering, to apply its modeling technology to characterize the regulatory mechanisms for breast cancer.

Genstruct will collaborate with Berlex’s oncology team to identify mechanisms of action for breast carcinoma using its Molecular Epistemics discovery platform and Oncology Knowledge Assembly model for breast cancer.

Financial terms of the agreement were not provided.

Study Identifies Opportunities for Life Science IT Offshoring in India

A new report from Genomic Society Consulting claims that “an emerging services sector in India is poised to capture a new wave of offshore contracts from the US pharmaceutical, biotech, and life sciences technology industries.”

Although the life science IT sector has been slower than other markets to turn to offshore outsourcing, the report cites several examples of life science firms who are working with bio-IT service providers in India.

“Salaries for skilled professionals and PhDs in this sector are as much as 90 percent lower in India than the US, so cost savings can be significant,” Adrienne Burke, principal and author of the report, “India’s Emerging Life Science IT Services Sector: Opportunities for Outsourcing, Partnership and Investment,” said in a statement.

However, she added, “these offshore arrangements have shortcomings. They are not for every company or just any project.”

Burke was a prior editor of BioInform and founding editor of BioInform’s sister publication Genome Technology.

Filed under

The Scan

Boosters Chasing Variants

The New York Times reports that an FDA advisory panel is to weigh updated booster vaccines for COVID-19.

Not Yet

The World Health Organization says monkeypox is not yet a global emergency, the Washington Post reports.

More Proposed for Federal Research

Science reports that US House of Representatives panels are seeking to increase federal research funding.

PLOS Papers on Breast Cancer Metastasis, Left-Sided Cardiac Defects, SARS-CoV-2 Monitoring

In PLOS this week: link between breast cancer metastasis and CLIC4, sequencing analysis of left-sided cardiac defects, and more.