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Bruker Daltonics, Insilicos, Protein Data Bank, Cytoscape, Indigo BioSystems, UniProt, Christian Stahlberg


New Products

Bruker Daltonics has released ClinProTools 2.1 and flexImaging 2.0. The integrated software packages enable users to merge statistical analysis on MALDI-TOF profiling spectra with molecular images of tissue distributions of peptide and protein biomarkers.

ClinProTools, the company's biomarker panel-analysis software, now includes additional features for data analysis and visualization, including a proprietary supervised neural network algorithm that complements the existing support vector machine and modified genetic algorithm. ClinProTools 2.1 also includes principal component analysis for unsupervised data analysis.

Insilicos has launched Insilicos Proteomics Pipeline, a software system for analyzing proteomics data. IPP is built upon the Trans-Proteomic Pipeline developed at the Institute for Systems Biology, but is able to run the software up to 20 times faster than the open source version, the company said.

The Protein Data Bank has introduced a set of web services to help software developers build tools that interact more effectively with PDB data. A list of the web services, which include Blast, Fasta, PubMed, and SNP queries, is available at

Cytoscape 2.3 beta 1 is available for testing at The release includes several new features like fast rendering and saving session, "but because of this, the release will need extra amounts of testing to insure a quality release," the developers noted. A testing guide is available at

Indigo BioSystems has launched Rubicon, a suite of applications to manage scientific data. The software captures proprietary, machine-readable data at the moment of its creation and archives it in an open format, the company said.

UniProt 8.0 is available at The current release includes 3,170,612 entries, including 222,289 from UniProtKB/Swiss-Prot and 2,948,323 from UniProtKB/Trembl.


Movers & Shakers

Nonlinear Dynamics announced this week the appointment of Christian Stahlberg as applications specialist.

Stahlberg will be involved in a range of development projects, including helping to bring Nonlinear's new "Technologies" product range to market. Stahlberg will work with key users and evaluators, connecting their input to Nonlinear's rapid research and development process.

Stahlberg joins Nonlinear from GE Healthcare, where he worked for six years as a member of the development team responsible for DeCyder, and later managed the DyCyder Extended Data Analysis project.

The Scan

Long COVID-19 Susceptibility Clues Contained in Blood Plasma Proteome

A longitudinal study in eBioMedicine found weeks-long blood plasma proteome shifts after SARS-CoV-2 infection, along with proteomic signatures that appeared to coincide with long Covid risk.

Tibetan Study Finds Adaptive Variant Influencing Skin Pigmentation

With a combination of phenotyping and genetic data, researchers document at PNAS a Tibetan-enriched enhancer variant influencing melanin synthesis and ultraviolet light response.

Domestication Linked to Nervous System Genes in Inbred Mouse Strains

Researchers highlighted more than 300 positively selected genes in domesticated mice, including genes linked to nervous system function or behavior in Genome Biology.

ALS Genetic Testing May Be Informative Across Age Ranges, Study Finds

Researchers in the journal Brain identified clinically actionable variants in a significant subset of older ALS patients, prompting them to point to the potential benefits of broader test use.