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Aldente, Protcomp 6.0, Finch on Sun, RefSeq 7, GenePlot, STRAP, Wrappers4EMBOSS


The Swiss Institute of Bioinformatics has added a new tool called Aldente to its ExPasy suite of protein identification and characterization tools. The software, available at, identifies proteins from peptide mass fingerprinting data using the Hough transform to determine the mass spectrometer deviation, to realign the experimental masses and to exclude outliers. The Aldente algorithms are also included in the Phenyx software platform from Geneva Bioinformatics (

Protcomp 6.0, a program for predicting the subcellular localization of eukaryotic proteins, is available from Softberry at The company said that the software has an overall prediction accuracy of greater than 90 percent.

Geospiza and Sun Microsystems have partnered to offer Finch on Sun — an out-of-the-box installation of Geospiza’s Finch sequence data management software running on Sun’s V20z Opteron server. The companies said they are providing the server free for a limited time. Further information is available at

RefSeq 7 is available from the National Center for Biotechnology Information at This release incorporates genomic, transcript, and protein data available as of Sept. 12, and includes 1,144,638 proteins and sequences from 2,558 different organisms.

NCBI has also released a new pair-wise comparison tool called GenePlot at GenePlot can be used to visualize similarities between bacterial genomes and is available for selected microbial reference genome records in Entrez Genome.

STRAP (Structural Alignment Program) is available from Humbolt University at The program is an interactive, extendable and scriptable editor for large protein alignments, and it integrates amino acid sequences, secondary structure, 3D structure and genomic and mRNA sequences. STRAP is written in Java and runs on Windows, Mac OS X, Unix, and Linux.

Version 1.0 of Wrappers4EMBOSS is available at Wrappers4EMBOSS provides EMBOSS interfaces for Fasta, Blast, Clustal, bscan, psscan, and pfmake, and was jointlyby the Argentinian and Belgian EMBnet nodes.

Filed under

The Scan

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The Wall Street Journal reports that several vaccine developers are working on mRNA-based vaccines for influenza.

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China's Ministry of Science and Technology aims to boost the number of female researchers through a new policy, reports the South China Morning Post.

Science Papers Describe Approach to Predict Chemotherapeutic Response, Role of Transcriptional Noise

In Science this week: neural network to predict chemotherapeutic response in cancer patients, and more.