Agilent Technologies to Sponsor USCAP 2016

Company to share latest advances at pathology congress

8 Mar 2016
Alex Waite
Editorial Assistant

Industry news

Agilent Technologies Inc. has announced that it will be a Silver sponsor of USCAP 2016, the annual gathering of the United States and Canadian Academy of Pathology, March 12-18, in Seattle.

The Agilent booth will showcase the company’s portfolio of genomics and Dako pathology solutions. The company’s Learning Theater, located next to its main booth in the Exhibition Hall, will feature international experts speaking on companion diagnostics, molecular pathology, next-generation sequencing and immunohistochemistry.

Agilent will also introduce a new white paper at USCAP: “Breast Cancer Diagnosis: Past, Present and Future,” by pathologists Ping Tang and David G. Hicks of the University of Rochester in New York and Dr. Christine Desmedt of the Jules Bordet Institute in Brussels. The paper provides an overview of the use of immunohistochemistry in diagnosing and treating breast cancer.

“As a leader in companion diagnostics, we are proud to be a Silver sponsor of USCAP,” said Jacob Thaysen, president of Agilent’s Diagnostics and Genomics Group, which includes the Dako products for cancer diagnostics. “Our participation in the congress exemplifies our lasting commitment to education in pathology for better diagnoses and patient care.”

GeneSpring NGS Software

Agilent Technologies

Agilent’s GeneSpring NGS software suite includes data analysis workflows for Methyl-Seq, RNA-Seq, DNA-Seq, Chip-Seq and Small RNA-Seq data. GeneSpring NGS provides SureSelect customers with an easy to use QC, visualization and reporting tool for Methyl-Seq, RNA-Seq and DNA-Seq applications. GeneSpring NGS also allows the detection of transcriptomic changes like splice variants and gene fusions, or identify structural variation from whole genome or target enriched samples. Small RNA-Seq allows for the measurement of expression levels of known small RNA genes, mature miRNA and the detection of novel genes. GeneSpring provides comprehensive visualization, data management, and genomic annotations all in one place. GeneSpring NGS support SureSelect sequencing applications for Methyl-Seq, DNA-Seq, RNA-Seq as well as whole genome application for Methyl-Seq, DNA-Seq, RNA-Seq, ChIP-Seq and Small RNA-Seq with a special emphasis on read, mapping, and library quality control: • Import of aligned read sequences from Illumina, ABI and 454 (Roche) sequencing platforms • Import of aligned NGS data in SAM, BAM, and vendor formats like Illumina's ELAND format (in either compressed or uncompressed forms). • Support for Single End, Paired End and Mate Pair library types • Interactive QC module for whole genome and SureSelect target enrichment QA/QC • Automated sample QC report generation Methyl-Seq analysis features include: • Enhanced Quality Control Manager for SureSelect • SureSelect Target Region QC • Enhanced Genome Browser and Visualizations • Bisulfite Conversion Error Rate Computation • Methylation Detection Algorithm • Lollipop Plot • Differentially Methylated Cytosines Algorithm • Differentially Methylated Regions Analysis Algorithm • Intra Sample Analysis • Methylation Effect Analysis • Translate Target Regions to Genes • Pathway Analysis DNA-Seq analysis features include: • Enhanced Quality Control Manager for SureSelect • SureSelect Target Region Filtering • Enhanced Genome Browser and Visualizations • SNP Detection through built-in Bayesian SNP calling algorithm (MAQ) • Differential SNP Analysis • Effects of SNPs on transcripts • Structural Variation (SV) Detection through built-in PEMer and k-BIC algorithms • Translate Target Regions to Genes • Pathway Analysis RNA-Seq analysis features include: • Enhanced Quality Control Manager for SureSelect • SureSelect Target Region Filtering • Enhanced Genome Browser and Visualizations • Differential Expression Analysis • T-Test • Anova • Identification of differential splice variant by Expectation-Maximization (EM) • Gene Fusion Analysis • Identification of novel exons and splice junctions • Quantification with Novel Detection Report • RPKM Filtering • Pooled Analysis • Z-test • Audic-Claverie test • Clustering • PCA • Pathway Analysis Small RNA-Seq analysis features include: • Enhanced Quality Control Manager • Enhanced Genome Browser and Visualizations • Quantification • Expression Analysis • TargetScan, TarBase, PicTar, PITA and microRNA.org databases available for targeted genes and miRNA identification • Validation of Mature RNA Annotation • Pathway Analysis

(0)

Links

Tags

AntibodiesAntibodies are used in techniques such as confocal and fluorescence microscopy, flow cytometry, ELISA, ELISPOT, immunohistochemistry, western blotting and immunopreciptation. Select specific antigen reactivity, high specific affinity, low non-specific binding, monoclonal or polyclonal, primary or secondary antibodies and associated conjugates such as an enzyme or dye for visualization.Cell / Tissue CultureCell culture or tissue culture is used to study the biology of cells or tissues and to isolate cellular products in an environment which can be manipulated and well defined. Accurately control your culture environment with bioreactors or culture incubators, bind your cells to a surface or together with an extracellular matrix. Distinguish cell types with differential media or proliferate cells with certain characteristics using selective media. Enrich your media with supplements such as growth factors, sera and vitamins. Find the best cell and tissue culture products, kits and equipment in our peer-reviewed product directory: compare products, check customer reviews and receive pricing direct from manufacturers.Genome AnalysisGenomics, the study of genomes, includes functional genomics, evolutionary genomics and comparative genomics. There are many genomic technologies such as DNA sequencing of whole genomes, computational biology and bioinformatics. DNA and nucleic acids must be isolated and concentrated from cells for analysis with kits, automated analyzers and software. Other useful technologies for studying genomics include PCR, microarrays and electrophoresis.ImmunologyImmunological techniques measure and characterize immune responses. Immunology kits and analysis systems often use techniques such as ELISA, radioimmunoassay (RIA) and immunodiffusion assays, Immunohistochemistry, and flow cytometry. Immunologists use equipment such as flow Cytometers, plate readers, plate washers and fluorescent microscopes.Cellular PathologyCellular Pathology deals with the microscopic analysis of tissue samples and cells. Sample preparation and processing includes fixation, staining, sectioning and slide mounting, using equipment such microtomes and cryostats. In choosing immunohistochemistry and immunocytochemistry kits, consider chromogens, staining method, antibodies, microscopes and imaging.DNA SequencingDNA sequencing, such as sanger sequencing, is a biological technique that determines the precise order of nucleotide bases in a fragment or template of DNA. DNA sequencers and genetic analyzers are based on capillary electrophoresis, where labeled DNA fragments are electrophoretically separated by size as they migrate through a polymer. Find the best DNA sequencing products, including DNA sequencing kits, genomic libraries and genetic identity kits in our peer-reviewed product directory: compare products, check customer reviews and receive pricing direct from manufacturers.Gene Expression and Molecular CloningMolecular cloning is a set of techniques that utilizes vectors to transfer recombinant DNA into host cells and is an essential tool for investigating the expression of genes and proteins in bacterial or mammalian cells. A variety of vectors optimized for gene cloning and expression in a range of host organisms are available, alongside competent cells for genetic replication. Here, you can explore a range of molecular tools, high-quality genomic and cDNA libraries, premade clones, transformation and transfection reagents and mutagenesis or gene expression detection assays and expression arrays. Find the best gene expression and molecular cloning products in our peer-reviewed product directory: compare products, check customer reviews and receive pricing direct from manufacturers.BiomarkersBiomarkers are biological markers which can be measured and evaluated to indicate a biological state. The use of biomarkers in research and diagnosis can indicate a normal or disease state or drug response of cells / tissues. Biomarkers include genetic markers, cell surface markers such as antigens, antibodies or receptors and secreted molecules such as cytokines. An assay system is required for identification of biomarkers. :Clinical GeneticsMolecular Genetics covers the analysis of hereditary genetic disease and chromosomal abnormalities. Genetics can be analysed using DNA, RNA, and protein microarrays, PCR, RT PCR and DNA sequencing. Genetic equipment includes genetic workstations, thermal cyclers, cooling blocks and electrophoresis products. Diagnostic kits are used for DNA / RNA extraction and purification.Next Generation SequencingNext-generation sequencing (NGS), also known as whole-genome sequencing, high-throughput sequencing and massive parallel sequencing, produces and analyses thousands to millions of nucleotide sequences at once. Sequencing systems operate via varying technologies depending on the manufacturer, including sequencing by synthesis, ligation, pyrosequencing, ion semiconductor and single-molecule real-time sequencing. For NGS, library preparation is paramount to successful sequencing. In this section, explore a range of library preparation kits, from targeted, amplicon-based or hybridization-based kits including epigenomic, transcriptomic and genomic workflows to fragmentation kits. Find the best next-generation sequencing products in our peer-reviewed product directory: compare products, check customer reviews and receive pricing direct from manufacturers.ImmunohistochemistryImmunohistochemistry (IHC) is a technique used to detect specific proteins in tissue samples by using antibodies that bind to target antigens. IHC is widely applied in pathology, immunology, hematology and cancer diagnostics. Explore IHC tools in our peer-reviewed product directory; compare products, check reviews, and get pricing directly from manufacturers.Cancer DiagnosticsThere are a wide variety of diagnostic tests for cancer available, and this range continues to expand as our knowledge of cancer improves. Current diagnostic methods include biopsy, imaging and blood tests for known biomarkers. New methods in research development include liquid biopsies and cancer breathalyzers.Digital PathologyDigital pathology involves the use of digital imaging and computational tools to analyze pathology slides. It is transforming diagnostics, research, and education by offering enhanced image storage and analysis. Explore digital pathology solutions in our peer-reviewed product directory; compare products, check reviews, and get pricing directly from manufacturers.Clinical NGSNext Generation Sequencing (NGS) refers to the use of massive parallel sequencing of multiple small fragments of DNA. This high-throughput genomic analysis yields enormous amounts of sequence data, which if appropriately analyzed could have huge potential for clinical laboratories. For this to happen there are technique and bioinformatic hurdles to be overcome.Molecular DiagnosticsMolecular diagnostics use an individual’s genetic code and gene expression to diagnose and monitor diseases. The technique is used increasingly in the field of infectious diseases and oncology, as well as areas such as coagulation, HLA typing and pharmacogenomics. Molecular diagnostics plays a pivotal role in personalized medicine.