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New Lab & IT Products for Integrated Biology: Jul 1, 2005



Ariadne Genomics PathwayStudio Central

PathwayStudio Central is a client-server software program for visualizing and analyzing biological pathways and gene regulation networks. PathwayStudio Central builds pathways from microarray data, identifies biomarkers, and models drug responses. The software comes with ResNet database of 500,000+ functional relationships and MedScan tool for automatic extraction of information from scientific literature.

Ariadne Genomics


DOE JGI Integrated Microbial Genomes Data Management System

IMG 1.1 now contains 32 new public genomes and 14 new genomes sequenced by DOE JGI, bringing the total of genomes in IMG to 337. These include 301 bacterial, 25 archaeal, and 11 eukaryotic genomes, of which 36 finished and 75 draft genomes were sequenced by DOE JGI. The new IMG 1.1 features enhanced capabilities to improve the efficiency of the genome analysis process.




Thermo Electron Watson LIMS - Xcalibur Digital Interface

The new new bi-directional digital interface between Thermo’s Watson LIMS and Xcalibur mass spectrometry software is designed to promote compliance with GLP standards and 21 CFR Part 11 electronic records keeping regulations. The Watson LIMS - Xcalibur integration is enabled through an XML-based instrument gateway, which facilitates data transfer between the LIMS and the MS instrument control software.

Thermo Electron




Caliper Life Sciences Sciclone i1000 Liquid Handling System

The Caliper Sciclone i1000 liquid handling system is a high-volume liquid handler that can independently control delivery of liquids into each well of a 96- or 384-well microplate. The Caliper Sciclone i1000 shares the Sciclone inL10 system''s unique "multi-MEMS" technology: each of the instrument''s 96 fluid channels has a dedicated MEMS flow meter that controls, monitors and verifies delivery of fluids.

Caliper Life Sciences




Applied Biosystems TaqMan Assays for Real-Time PCR

The Arabidopsis TaqMan gene expression assays include 95,000 assays for approximately 26,000 genes, while the Drosophila TaqMan assays include 38,000 assays for approximately 13,000 genes. The initial release is designed around the well-characterized transcripts in the NCBI Reference Sequence Project (RefSeq) database for these genes. The assays run on Applied Biosystems Real-Time PCR systems, including the 7300, 7500, and 7900HT Systems.

Applied Biosystems




Advion Biosciences TriVersa NanoMate System

Advion’s TriVersa NanoMate is the first system to integrate LC/MS, fraction collection and chip-based infusion in one platform. The versatility of the system allows interrogation of samples using on-line LC/MS and infusion of LC fractions. The system is compatible with LC, micro and nanoLC for low concentration samples. Additionally, TriVersa NanoMate works with most API mass spectrometers.

Advion Biosciences


Applied Biosystems/MDS Sciex 4800 MALDI TOF/TOF

The new 4800 MALDI TOF/TOF mass spectrometer combines TOF/TOF optics technology with the novel OptiBeam on-axis laser, which increases the number of ions directed into the ion path to increase sensitivity. Also, the enhanced QuanTIS precursor ion allows users to more specifically isolate the precursor ions designated for MS/MS. The system uses GPS Explorer software with the Mascot database search engine.

Applied Biosystems


Bruker Daltonics CLINPROTmicro Benchtop Clinical Proteomics System

The CLINPROTmicro is a new compact clinical system dedicated to peptide and protein profiling, biomarker discovery and biomarker validation (currently for research use only). It is based on a high-performance bench-top MALDI-TOF mass spectrometer from Bruker Daltonics’ highly regarded FLEX series.

Bruker Daltonics




Qiagen BioSprint 15 Ni-NTA and Strep-Tactin Kits

The BioSprint 15 platform is a stand-alone instrument with a small footprint that enables automated parallel purification of up to fifteen high-purity protein samples from prokaryotic or eukaryotic cell lysates. By using magnetic-bead technology, BioSprint 15 kits allow a rapid procedure that can purify up to 100 µg protein per sample in less than 45 minutes.





Illumina MHC Region SNP Analysis Panels

Illumina’s two new SNP-based assay panels are designed to study genetic variation and function in the MHC region of the human genome. The MHC exon-centric panel consists of 1228 SNPs in or within 10kb of protein-coding regions (exons), while a companion MHC mapping panel includes 1,293 SNPs evenly distributed across the entire region. The MHC panels are used in conjunction with Illumina’s bead-based arrays.




To tell GT about new recently released products, e-mail John MacNeil, Senior Editor, at [email protected]

The Scan

Genetic Risk Factors for Hypertension Can Help Identify Those at Risk for Cardiovascular Disease

Genetically predicted high blood pressure risk is also associated with increased cardiovascular disease risk, a new JAMA Cardiology study says.

Circulating Tumor DNA Linked to Post-Treatment Relapse in Breast Cancer

Post-treatment detection of circulating tumor DNA may identify breast cancer patients who are more likely to relapse, a new JCO Precision Oncology study finds.

Genetics Influence Level of Depression Tied to Trauma Exposure, Study Finds

Researchers examine the interplay of trauma, genetics, and major depressive disorder in JAMA Psychiatry.

UCLA Team Reports Cost-Effective Liquid Biopsy Approach for Cancer Detection

The researchers report in Nature Communications that their liquid biopsy approach has high specificity in detecting all- and early-stage cancers.