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



TaqMan MicroRNA Assays

Applied Biosystems’ TaqMan microRNA assays are pre-designed and validated probe and primer sets in a flexible format for the detection and quantification of mature human miRNA expression levels, a promising new area of genomic research. The assays accommodate both large initial screening panels and in-depth screening to determine differential expression levels of specific miRNAs. The current product includes a set of 157 human assays with three non-vertebrate negative controls and an individually available miR-16 assay.

Applied Biosystems

IOTest Anti-Cyclin A2

Beckman Coulter has introduced the IOTest Anti-Cyclin A2 monoclonal antibody for the study of cell cycle transitions in life science research. This FITC-conjugated is provided in 100-test vials. It is ready to use, adapted for permeabilization procedures such as cold methanol or IntraPrep with a wash, and may be used in multi-color applications with cell markers and DNA-content dyes such as 7-aminoactinomycin D (7-AAD) or propidium iodide.

Beckman Coulter

TaqMan Drug Metabolism Assays

Applied Biosystems has announced that a preliminary version of TaqMan Drug Metabolism Genotyping Assays for the detection and study of polymorphisms in the drug metabolism pathway is now available through an early-access customer program. There are more than 2,000 unique assays for the detection of genetic variants in more than 220 genes that code for drug metabolism enzymes. The TaqMan Drug Metabolism Genotyping Assays are single-tube probe and primer sets for use on Applied Biosystems Real-Time PCR instruments, including the 7300, 7500, and 7900HT Real-Time PCR Systems.

Applied Biosystems


Gramene Database

Cold Spring Harbor Laboratory has announced the public release of Gramene v19. This database provides agricultural researchers and plant breeders with biological and genomic information about rice and other grasses. Gramene’s Web interface facilitates access to genetic and physical maps, sequences, genes, proteins, genetic markers, mutants, QTLs, and published studies, and is used by researchers in more than 100 countries.

Cold Spring Harbor Laboratory

Cornell University Department of Plant Breeding and Genetics


Cell* Imaging Systems

Olympus has introduced three additions to its cell* family of systems for enhanced imaging in fluorescence microscopy. The cell^D, cell^F and cell^P systems provide advanced functions for easy image capture and documentation, as well as for fluorescence applications and comprehensive research. The cell* software package is fully adaptable, combining control of all hardware with intelligent image capture, efficient image processing, automatic analysis, structured image and data archiving, as well as automatic report generation.


G:BOX Image Analyzer

The G:BOX consists of an ergonomically designed darkroom with an easy access chamber and camera/lens mounting pod which allows users to add their choice of Syngene camera, lens, and lighting options. This darkroom design permits component exchange, which lets users tailor the G:BOX to match their fluorescence and chemiluminescence imaging needs.



Galileo LIMS v 3.1

The Galileo LIMS v 3.1 provides additional functionality to increase efficiency in the high-throughput environment of in vitro ADME/Tox discovery laboratories. The latest release includes automatic results flagging, using a three-color system to indicate acceptance, rejection, or flagging of results; rapid study entry to accelerate the entry of concentration or raw data from analytical instrument into the LIMS; the addition of “IC50 shift” — a new experiment type to elucidate enzyme inactivation; and support for PAMPA permeability studies that are important in early screening of compounds.

Thermo Electron Corporation


Delta V Series of Gas Isotope Ratio MS

Thermo Electron Corporation has launched two new gas isotope ratio mass spectrometers, the Delta V Advantage and the Delta V Plus. This new Delta V series offers excellent linearity and stability, a new, compact design that takes less laboratory space and guarantees low noise emission. The Delta V Plus is a research engine offering scientists an unmatched set of performance features and the widest range of applications available. The Delta V Advantage is targeted at laboratories needing a reliable gas Isotope Ratio MS solution for routine analyses. Both liquid chromatographs and gas chromatographs can be connected online to the Delta V series instruments.

Thermo Electron Corporation


GeneChip Human Exon 1.0 ST Array

Affymetrix has announced the launch of the GeneChip Human Exon 1.0 ST Array, offering whole-genome, exon-level expression profiling on a single array for the first time. Designed to interrogate approximately 1 million exons, the array helps researchers better understand the roles that alternative splicing and gene expression play in biology. Each Affymetrix exon array has a capacity of more than 6 million data points, so whole-genome exon expression analysis is possible on a single array.


High-Definition CGH Microarrays

Agilent Technologies has introduced an updated microarray-based Comparative Genomic Hybridization platform featuring high-definition CGH microarrays. Agilent’s HD-CGH custom microarrays and related probe design services allow researchers to draw upon the company’s database of approximately 4 million pre-designed and computationally validated CGH probes and do high-resolution tiling of regions of interest at 10 to 100 times higher resolution.

The Human Genome CGH Microarray has also been updated with a new probe set based on the latest genome build to further expand the coverage. This microarray contains approximately 43,000 60-mer oligonucleotide probes, empirically validated in multiple model systems that span coding and non-coding sequences with an average spatial resolution of 35kb. Platform enhancements also include reagents and analytics software updates.

Agilent Technologies

GeneChip 500K Array Set

The GeneChip 500K Array Set is the latest in a line of genetic analysis products from Affymetrix. The 500K Set examines more SNPs than any other available genotyping solution, allowing higher resolution to find the genes associated with complex disease. The 500K is also the first product to utilize the output of the International HapMap Project — SNPs from the 500K Set are publicly available and data gathered using the 500K Set can be analyzed in the context of the emerging HapMap. The set includes optimized and validated reagents based on the GeneChip Mapping Assay, GeneChip DNA analysis software, and the GCS3000 7G Scanner.



Two-color ULS protein labeling and fluorescent detection kits

New ULS labeling kits for protein science applications are available from Kreatech. The two-color ULS protein labeling and fluorescent detection kits can be used for profiling serum and cell lysate samples on high-content antibody arrays and to label both proteins and nucleic acids. The kits offer the ULS labeling molecule bound to biotin and fluorescein for direct labeling of protein analytes in serum and cell lysate samples. Upon incubation on the antibody array, detection is provided by anti-Fluorescein-DY547 and Streptavidin-DY647 conjugate, allowing scanning of the array in the standard Cy3/Cy5 channels.

Kreatech Biotechnology

DyLight Protein Labeling Kits

DyLight Protein Labeling Kits provide an efficient method for labeling and purifying 1 mg of IgG or similar quantities of other proteins with molecular weights ranging from 30 K to 150 K. The average protein recovery is 85 percent. The complete kits are available with DyLight 547 Fluor, which replaces Cy3 Fluor, and DyLight 647 Fluor, which replaces Cy5 Fluor. Both kits contain all necessary reagents to perform three separate labeling reactions. DyLight Fluors are amine-reactive, so they label virtually any protein, and are provided in a pre-measured format, eliminating the time and waste associated with weighing fluor reagents.

Fisher Biosciences

His GraviTrap Columns

GE Healthcare’s His GraviTrap columns purify histidine-tagged proteins from clarified or unclarified samples without the need for a pump or purification system. Their protein binding capacity (approx. 40 mg/column) is high, separations can be completed in 20 minutes, large sample volumes can be applied, and concentrated purified protein elutes in a small volume. His GraviTrap columns are prepacked with Ni Sepharose 6 Fast Flow.

GE Healthcare

Panorama Human Cancer V1 Protein Functional Microarray

The Panorama Human Cancer Version 1 Protein Functional Microarray contains 130 correctly folded proteins. Based on a proprietary tagging technology that ensures only functional proteins are immobilized, the cancer protein array is a tool for unveiling details of protein involvement in cancer development. It’s compatible with probing by DNA, proteins, kinases, small molecules, and with Cy3/Cy5 ¯based detection chemistries.

Sigma Aldrich

Novagen StrepoTag System

StrepTag technology improves on the reliable biotin/streptavidin binding specificity and strength. The short StrepoTag II fusion tag (8 amino acids) reduces potential interference with target protein structure or function. StrepoTag II binds to StrepoTactin protein nearly 100 times tighter than the biotin/streptavidin interaction, but elutes in gentle, physiological conditions. Rapid, one-step affinity purification results in active fusion proteins with greater than 95% purity. The system includes StrepoTag II vectors, a wide range of StrepoTactin affinity purification resins, hardware, and buffers, and StrepoTag detection reagents.

EMD Biosciences, Novagen Brand


BluePrint Gel Stain

BluePrint Gel Stain is a ready-to-use stain for polyacrylamide protein gel electrophoretic studies. It’s similar to a conventional Coomassie stain, but has the added benefits of a lower background, extended stability, and less destaining time is required. In addition, BluePrint is stable at room temperature.



TriFECTa Dicer-Substrate RNAi Kit

Employing 27-mer duplex RNA, TriFECTa delivers a design improvement over first-generation 21-mer based RNAi kits. Processed into 21-mer siRNAs, IDT’s new 27-mer RNAi design delivers up to a 100-fold increased potency compared to older 21-mer siRNA models at the same site. The TriFECTa kit includes three target-specific Dicer-Substrate siRNA duplexes, Cy3 DS Transfection Control fluorescent-labeled transfection control duplex, HPRT-S1 DS Positive Control duplex, DS Scrambled-Neg universal negative control duplex, and RNase Free Duplex Buffer.

Integrated DNA Technologies

Human Druggable Genome siRNA Set V2.0

The Human Druggable Genome siRNA Set V2.0 is the second-generation siRNA set specific for druggable targets. This comprehensive discovery tool enables gene silencing studies of 6,992 potential human druggable targets. siRNAs are designed using the innovative HiPerformance siRNA Design Algorithm, ensuring maximum silencing and minimum risk of nonspecific effects.


TransPlex Whole Transcriptome Amplification Kit

Rubicon Genomics has launched the TransPlex WTA kit for amplification of nanogram quantities of RNA from fresh and formalin-fixed tissue. The TransPlex kits have been extensively tested and proven to reproduce expression patterns even for formalin-fixed biopsies that are more than 10 years old. In less than four hours, 10 nanograms of RNA can be amplified into 10 micrograms of stable cDNA product without detectable 3’ bias or background.

Rubicon Genomics

To tell GT about new recently released products, e-mail Jen Crebs, Senior Writer, at [email protected]


The Scan

Self-Reported Hearing Loss in Older Adults Begins Very Early in Life, Study Says

A JAMA Otolaryngology — Head & Neck Surgery study says polygenic risk scores associated with hearing loss in older adults is also associated with hearing decline in younger groups.

Genome-Wide Analysis Sheds Light on Genetics of ADHD

A genome-wide association study meta-analysis of attention-deficit hyperactivity disorder appearing in Nature Genetics links 76 genes to risk of having the disorder.

MicroRNA Cotargeting Linked to Lupus

A mouse-based study appearing in BMC Biology implicates two microRNAs with overlapping target sites in lupus.

Enzyme Involved in Lipid Metabolism Linked to Mutational Signatures

In Nature Genetics, a Wellcome Sanger Institute-led team found that APOBEC1 may contribute to the development of the SBS2 and SBS13 mutational signatures in the small intestine.