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Downloads & Upgrades: Feb 6, 2009


Bioinquire has launched ProteoIQ version 1.2, a bioinformatics tool for proteomics data analysis.

The new version of the software identifies proteins with post-translational modifications "in a manner that was not previously possible," the company said in a statement. Other features include functionality for proteomic strategies that involve separations at the protein level followed by digestion and separation at the peptide level, such as Gel-C-MS/MS.

ProteoIQ 1.2 is "particularly well-suited for comparative proteomic analyses, where spectral counting-based quantification is combined with data mining functions to enable researchers to find differences between multiple proteomic data sets," the company said.

Scalable Informatics, in cooperation with researchers at the University at Buffalo, has released GPU-HMMER, an NVIDIA CUDA implementation and extension of MPI-HMMER. Both GPU-HMMER and MPI-HMMER are open-source implementations of the HMMER protein sequence analysis suite "that profoundly reduce computation times," Scalable said.

While MPI-HMMER was designed to run on multiple processors on large clusters, GPU-HMMER leverages NVIDIA graphics processing units to reduce processing time from weeks to a few hours.

Scalable also offers NVIDIA Tesla-based Pegasus multi-core workstations and JackRabbit servers that are pre-configured to run MPI-HMMER. The Pegasus system can contain from four to 16 processor cores, from 4 to 128 GB ram, and from one to three NVIDIA CUDA-enabled Tesla C1060 GPU processors.

Both MPI-HMMER and GPU-HMMER are available under the GNU General Public License here.

Version of CAMERA (Community Cyberinfrastructure for Advanced Marine Microbial Ecology Research and Analysis) is now available here.

The new release contains improvements to export options and job status, as well as updates to CAMERA datasets.

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