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Burnham Institute for Medical Research, Biomatters, Cytoscape 2.2, Kenneth Buetow


New Products

The Burnham Institute for Medical Research has released JAFA (Joint Assembly of Functional Annotation), a function prediction meta-server that accepts a protein sequence, queries several function prediction servers, and presents the results. JAFA is available at

Biomatters has released Geneious 0.09 beta, a software system for searching and filtering DNA, protein, and publication data. The software is freely available at Features include a user interface for searching, sorting, and storing biomolecular sequence data and scientific publications, including the following features; a local database to store sequences and publications; direct links to Google scholar, NCBI, and UniProt; and rapid sequence similarity searching. Biomatters said it plans to release version 1.0 of Geneious in "early 2006."

Cytoscape 2.2 is available at The open-source platform for visualizing molecular interaction networks and integrating these interactions with gene expression profiles and other state data. New features include improved node/edge attribute browsing and editing; Cytoscape Graph Editor v1.0; support for loading Gene Ontology OBO and gene annotation association files; and improved performance.


Movers & Shakers

Kenneth Buetow has been appointed to the new position of associate director for bioinformatics and information technologies at the National Cancer Institute, according to a recent NCI Cancer Bulletin.

Buetow was previously director of the NCI Center for Bioinformatics. In his new position, Buetow will "manage and execute information technology and bioinformatics initiatives that will lead to the usage of common tools, standards, and datasets across NCI; assist internal teams in adopting and leveraging NCI's cancer Biomedical Informatics Grid (caBIG) infrastructure; review and update NCI's existing and planned bioinformatics programs and activities; make recommendations for the creation of a standing group that will provide technical guidance on new projects; and regularly report to the NCI Executive Committee, of which he is a member," the Cancer Bulletin said.

The Scan

Alzheimer's Risk Gene Among Women

CNN reports that researchers have found that variants in MGMT contribute to Alzheimer's disease risk among women but not men.

Still Hanging Around

The Guardian writes that persistent pockets of SARS-CoV-2 in the body could contribute to long COVID.

Through a Little Spit

Enteric viruses like norovirus may also be transmitted through saliva, not just the fecal-oral route, according to New Scientist.

Nature Papers Present Method to Detect Full Transcriptome, Viruses Infecting Asgard Archaea, More

In Nature this week: VASA-seq approach to detect full transcriptome, analysis of viruses infecting Asgard archaea, and more.