IMGM Laboratories GmbH. Sales Manager
|
|
- Lynn Stokes
- 6 years ago
- Views:
Transcription
1 IMGM Laboratories GmbH Dr. Jennifer K. Kuhn Sales Manager
2 About IMGM Laboratories IMGM Laboratories was founded in 2001 IMGM operates as professional provider of advanced genomic services from research projects to clinical studies Our customers come from pharma, CROs, biotech, diagnostics, and academia We have formed a strategic partnership with the Center for Human Genetics and Laboratory Medicine, Dr. Klein, Dr. Rost and Colleagues, one of Germany s leading diagnostic laboratories IMGM is accredited according to DIN EN ISO/IEC including an accreditation for expression analysis based on whole genome microarrays and quantitative real-time PCR IMGM is Certified Service Provider (CSP) for Agilent and Affymetrix microarray analysis, and for Life Technologies Ion Torrent PGM sequencing Slide 2
3 IMGM s Service Portfolio Biomarker Discovery RNA Services Service Portfolio f Biomarker Discovery DNA Services Metagenomics Services Pharmacogenetics Services Slide 3
4 Biomarker Discovery RNA Services Service Portfolio Biomarker Discovery DNA Services IMGM s Service Portfolio Metagenomics Services Pharmacogenetics Services RNA Services Small RNA / RNA isolation from diverse samples (e.g. FFPE) Small RNA / RNA quality control (Agilent Bioanalyzer Nanodrop) Quantitative real-time PCR (ViiA7, TaqMan assays + arrays, 96- and 384-well blocks) Microarrays (Agilent and Affymetrix platform) Next Generation Sequencing (Roche 454 GS FLX+, GS Junior Illumina MiSeq, GA IIx Ion Torrent PGM) Slide 4
5 mrna gene expression profiling The general workflow at IMGM Experimental setup IMGM/Customer Agilent Bioanalyzer Catalog/Custom Arrays Project Consulting Sample Preparation Quality Control Microarrays Interpretation of Results Hit Validation with qpcr Report Generation Bioinformatic Data Analysis TaqMan Technology Regulated Genes GeneOntology/Pathways Slide 5
6 Characteristics of Agilent and Affymetrix Microarrays Array Agilent Affymetrix Characteristics Technology HP inkjet Photolithography, high density Flexibility different formats, e.g. 8x60K Single arrays Catalog Arrays 30 species 22 species Customization No minimum order quantity at Minimum order quantity regular price, earray Design ( arrays) Resolution ~1 probe per gene ~26 40 probes per gene Probe Length Composition Slide 6 RefSeq Build 50, Ensemble Release 52 (Dec 2008), Unigene Build 216, GenBank (April 2009), Broad Institute Human lincrna catalog and TUCP transcripts catalog (Nov 2011) RefSeq Build 51, Ensembl Release 65 (Dec 2011), lncrna db (2011), Broad Institute Human lincrna catalog and TUCP transcripts catalog (Nov 2011) Linear dynamic range > 5 orders of magnitude < 5 logs orders of magnitude
7 Bioinformatic Data Analysis Normalization Correlation analysis Identification of differentially expressed genes Statistical significance Biomarker Discovery Gene signatures Functional analysis of deregulated genes PANTHER ontology (including Gene Ontology) Biological processes Molecular functions Cellular components Protein classes Pathways Slide 7
8 Report Generation Slide 8
9 Quantitative real-time PCR TaqMan technology At IMGM, we use TaqMan assays/arrays y (Applied Biosystems) by default: Highest specificity, greatest sensitivity, and largest dynamic range of any gene expression technology Wide selection of assays for numerous species: >1.2 million predesigned gene expression assays for 19 species Possibility of custom assay/array design and ordering Applicable for single samples/biomarkers up to high-throughput studies Slide 9
10 Further applications Determination of biodistribution, e.g. Small RNA molecules DNA plasmids Human cells injected in rodents Absolute quantification Assay design and validation Determination of quality parameters based on OECD guidelines Slide 10
11 Biomarker Discovery RNA Services Service Portfolio Biomarker Discovery DNA Services IMGM s Service Portfolio Metagenomics Services Pharmacogenetics Services DNA Services DNA isolation and quality control (e.g. FFPE) CNV analysis (TaqMan Copy Number Assays Agilent acgh arrays) SNP genotyping (Pyrosequencing TaqMan assays Affymetrix SNP arrays) Sanger sequencing (AB 3730XL 96 capillaries) Next Generation Sequencing (Roche 454 FLX(+) + Junior Illumina MiSeq + GA IIx Ion Torrent PGM) High-resolution HLA typing Slide 11
12 NGS Applications De novo sequencing (viruses, bacteria, fungi, higher h eukaryotes, plants, humans etc.) Targeted resequencing (single genes, gene panels or chromosomal regions) Whole exome resequencing Whole genome resequencing Metagenome Genome Gene expression profiling Small RNA analysis Whole transcriptome analysis Transcriptome Epigenome Methylation analysis ChIP-Seq (Chromatin immunoprecipitation seq.) Slide 12
13 NGS Platforms Roche 454 GS Junior Roche 454 GS FLX(+) Titanium IonTorrent PGM Illumina MiSeq Slide 13
14 NGS Platforms Roche 454 GS Junior Roche 454 GS FLX 10 hrs/run 10 hrs/run ~ 1x10 5 reads/run ~ 1x10 6 reads/run 400 Q20 bases Roche 400 Q20 bases Roche 35 MB/run 454 GS 400 MB/run 70 MB/day (20hr) 454 GS 800 MB/day (20hrs) IonTorrent PGM (318) 2 hrs/run ~ 5x10 6 reads/run 200 Q20 bases 1,000 MB/run 10,000 MB/day (20hr) Junior IonTorrent PGM FLX(+) Titanium Illumina MiSeq Roche 454 GS FLX+ 23 hrs/run ~ 1x10 6 reads/run 600 Q20 bases 600 MB/run Illumina MiSeq 27 hrs/run ~ 3.3x10 6 reads/run 2x150 Q30 bases 1,000 MB/run 1,000 MB/day (20hr) Slide 14
15 NGS Workflow Assay Development DNA Preparation Library Preparation Sequence Generation Primary Data Analysis Secondary Data Analysis Primer Design with IMGM pipeline for Roche, Illumina and LifeTech Primer Design with Illumina DesignStudio Primer Design with IonTorrent AmpliSeq Primer Validation Qiagen Macherey&Nagel etc. Target Enrichment Shotgun Library (mechanical or enzymatical fragmentation) Amplicon Library (e.g. single amplicons, AccessArray, TruSeq, AmpliSeq) Sample Indexing Roche GS Junior Roche GS FLX Roche GS FLX+ Illumina MiSeq Ion Torrent PGM Image Processing Signal Processing Contig generation Contig assembly Read Mapping SNP Calling Structural Variation Annotation ti Slide 15
16 RNA Services DNA Services Service Portfolio IMGM s Service Portfolio Metagenomics Services Pharmacogenetics Services Metagenomics Services Identification of bacterial communities in environmental and host associated samples such as water, soil, mucus, feces, etc. In-depth consultation for experimental setup (variable regions, coverage, sample and library preparation, etc.) Set of universal IMGM primers available Analysis of e.g. up to 6 consecutive variable regions of the 16S rrna gene in a single read possible with the Roche 454 GS FLX+ sequencing platform enabling indepth species detection Pearson Education, Inc. Slide 16
17 16S rrna Metagenomics Example Short reads 3 single reads per DNA molecule for 3 variant regions (V1, V2, V3) 16s variant in V1 16s variant in V2 16s variant in V3 A A A B B B C Long reads 1 combined read per DNA molecule for 3 variant regions (V1, V2, V3) A AA B A A B A B C B A 16s variant in V1 V3 Slide 17
18 IMGM Data Slide 18
19 IMGM Data The distribution of reads for the 780bp amplicon run (> Q30) Slide 19
20 IMGM Data The distribution of reads for the 1,050bp amplicon run (> Q30) Slide 20
21 RNA Services DNA Services Service Portfolio IMGM s Service Portfolio Metagenomics Services Pharmacogenetics Services Pharmacogenetics Services Using our whole spectrum of small- to high-throughput technologies, including Pharma specific applications such as DMET Plus and U133 Arrays by Affymetrix Further parameters needed for clinical studies available through one of Europe s leading Diagnostic Centers within the same building and under common leadership as IMGM In-depth consultation including gene and polymorphism selection, clinical protocol, informed consent, appropriate technical approach, result interpretation, etc. Analytical protocol and report (GCP compliant, e.g. customizable data formats) Rigorous QA program Slide 21
22 Summary IMGM - YOUR flexible and reliable partner Longstanding experience in biomarker discovery Expert in unique metagenomics NGS sequencing Applying our knowledge to pharmacogenetic services Slide 22
23 Summary IMGM - YOUR flexible and reliable partner Personal project manager, direct communication In-depth project consulting Broad range of up-to-date methods and technologies Delivery of detailed and comprehensive reports fitting your needs Professional quality management system (DAkkS) Working according to GxP Guidelines Professional business relationship (e.g. NDAs, FSAs, TATs) Slide 23
24 IMGM Team Dr. Hanns-Georg Klein CEO Dr. Ralph Oehlmann Director Business Development & Marketing Dr. Jennifer Kuhn Sales Manager Stefan Kotschote Head of Laboratory Dr. Michael Haberl Head of Quality Assurance??? Anja Weber??? Marketing Assistant Sales Assistant Dr. Dirk Haase Project Manager IT Sabine Brauer Deputy Head of Laboratory Dr. Marion Deuter Head of New Technologies and Product Development Dr. Cornelia Graf Project Manager Dr. Ovidiu Rücker Project Manager Dr. Alexandra Dangel Project Manager Melanie Sohns Head Lab Assistant Andrea Matu Laboratory Assistant Johannes Tank Laboratory Assistant Simone Hardel Assistant New Technologies Slide 24
25
Research school methods seminar Genomics and Transcriptomics
Research school methods seminar Genomics and Transcriptomics Stephan Klee 19.11.2014 2 3 4 5 Genetics, Genomics what are we talking about? Genetics and Genomics Study of genes Role of genes in inheritence
More informationGene Regulation Solutions. Microarrays and Next-Generation Sequencing
Gene Regulation Solutions Microarrays and Next-Generation Sequencing Gene Regulation Solutions The Microarrays Advantage Microarrays Lead the Industry in: Comprehensive Content SurePrint G3 Human Gene
More informationWelcome to the NGS webinar series
Welcome to the NGS webinar series Webinar 1 NGS: Introduction to technology, and applications NGS Technology Webinar 2 Targeted NGS for Cancer Research NGS in cancer Webinar 3 NGS: Data analysis for genetic
More informationThird Generation Sequencing
Third Generation Sequencing By Mohammad Hasan Samiee Aref Medical Genetics Laboratory of Dr. Zeinali History of DNA sequencing 1953 : Discovery of DNA structure by Watson and Crick 1973 : First sequence
More informationBioinformatics Advice on Experimental Design
Bioinformatics Advice on Experimental Design Where do I start? Please refer to the following guide to better plan your experiments for good statistical analysis, best suited for your research needs. Statistics
More informationCancer Genetics Solutions
Cancer Genetics Solutions Cancer Genetics Solutions Pushing the Boundaries in Cancer Genetics Cancer is a formidable foe that presents significant challenges. The complexity of this disease can be daunting
More informationProduct selection guide Ion S5 and Ion S5 XL Systems
Product selection guide Ion S5 and s Cancer genomics research Molecular profiling Ion AmpliSeq Ready-to-Use Panels Ion AmpliSeq Comprehensive Cancer Panel Cat. No. 4477685 Ion AmpliSeq Made-to-Order Panels
More informationOutline. General principles of clonal sequencing Analysis principles Applications CNV analysis Genome architecture
The use of new sequencing technologies for genome analysis Chris Mattocks National Genetics Reference Laboratory (Wessex) NGRL (Wessex) 2008 Outline General principles of clonal sequencing Analysis principles
More informationIon S5 and Ion S5 XL Systems
Ion S5 and Ion S5 XL Systems Targeted sequencing has never been simpler Explore the Ion S5 and Ion S5 XL Systems Adopting next-generation sequencing (NGS) in your lab is now simpler than ever The Ion S5
More informationGene Expression Profiling and Validation Using Agilent SurePrint G3 Gene Expression Arrays
Gene Expression Profiling and Validation Using Agilent SurePrint G3 Gene Expression Arrays Application Note Authors Bahram Arezi, Nilanjan Guha and Anne Bergstrom Lucas Agilent Technologies Inc. Santa
More informationIntroduction to Bioinformatics and Gene Expression Technologies
Introduction to Bioinformatics and Gene Expression Technologies Utah State University Fall 2017 Statistical Bioinformatics (Biomedical Big Data) Notes 1 1 Vocabulary Gene: hereditary DNA sequence at a
More informationHow much sequencing do I need? Emily Crisovan Genomics Core
How much sequencing do I need? Emily Crisovan Genomics Core How much sequencing? Three questions: 1. How much sequence is required for good experimental design? 2. What type of sequencing run is best?
More informationQIAGEN s NGS Solutions for Biomarkers NGS & Bioinformatics team QIAGEN (Suzhou) Translational Medicine Co.,Ltd
QIAGEN s NGS Solutions for Biomarkers NGS & Bioinformatics team QIAGEN (Suzhou) Translational Medicine Co.,Ltd 1 Our current NGS & Bioinformatics Platform 2 Our NGS workflow and applications 3 QIAGEN s
More informationHigh Cross-Platform Genotyping Concordance of Axiom High-Density Microarrays and Eureka Low-Density Targeted NGS Assays
High Cross-Platform Genotyping Concordance of Axiom High-Density Microarrays and Eureka Low-Density Targeted NGS Assays Ali Pirani and Mohini A Patil ISAG July 2017 The world leader in serving science
More informationIntroduction to Bioinformatics
Introduction to Bioinformatics Richard Corbett Canada s Michael Smith Genome Sciences Centre Vancouver, British Columbia June 28, 2017 Our mandate is to advance knowledge about cancer and other diseases
More informationSequencing technologies. Jose Blanca COMAV institute bioinf.comav.upv.es
Sequencing technologies Jose Blanca COMAV institute bioinf.comav.upv.es Outline Sequencing technologies: Sanger 2nd generation sequencing: 3er generation sequencing: 454 Illumina SOLiD Ion Torrent PacBio
More informationNext-Generation Sequencing. Technologies
Next-Generation Next-Generation Sequencing Technologies Sequencing Technologies Nicholas E. Navin, Ph.D. MD Anderson Cancer Center Dept. Genetics Dept. Bioinformatics Introduction to Bioinformatics GS011062
More informationExpression Array System
Integrated Science for Gene Expression Applied Biosystems Expression Array System Expression Array System SEE MORE GENES The most complete, most sensitive system for whole genome expression analysis. The
More informationINTRODUCCIÓ A LES TECNOLOGIES DE 'NEXT GENERATION SEQUENCING'
INTRODUCCIÓ A LES TECNOLOGIES DE 'NEXT GENERATION SEQUENCING' Bioinformàtica per a la Recerca Biomèdica Ricardo Gonzalo Sanz ricardo.gonzalo@vhir.org 14/12/2016 1. Introduction to NGS 2. First Generation
More informationTargeted Sequencing in the NBS Laboratory
Targeted Sequencing in the NBS Laboratory Christopher Greene, PhD Newborn Screening and Molecular Biology Branch Division of Laboratory Sciences Gene Sequencing in Public Health Newborn Screening February
More informationAnnex to the Accreditation Certificate D PL according to DIN EN ISO/IEC 17025:2005
Deutsche Akkreditierungsstelle GmbH German Accreditation Body Annex to the Accreditation Certificate D PL 13372 01 00 according to DIN EN ISO/IEC 17025:2005 Period of validity: 22.05.2014 to 25.03.2017
More informationIon S5 and Ion S5 XL Systems
Ion S5 and Ion S5 XL Systems Targeted sequencing has never been simpler Introducing the Ion S5 and Ion S5 XL systems Now, adopting next-generation sequencing in your lab is simpler than ever. The Ion S5
More informationNext Generation Sequencing. Jeroen Van Houdt - Leuven 13/10/2017
Next Generation Sequencing Jeroen Van Houdt - Leuven 13/10/2017 Landmarks in DNA sequencing 1953 Discovery of DNA double helix structure 1977 A Maxam and W Gilbert "DNA seq by chemical degradation" F Sanger"DNA
More informationGene Expression Analysis Superior Solutions for any Project
Gene Expression Analysis Superior Solutions for any Project Find Your Perfect Match ArrayXS Global Array-to-Go Focussed Comprehensive: detect the whole transcriptome reliably Certified: discover exceptional
More informationFGCZ NEWSLETTER FALL Next Generation Sequencing at the Functional Genomics Center Zurich
FGCZ NEWSLETTER FALL 2011 newsletter Technologies, Applications, and Access to Support Next Generation Sequencing at the Functional Genomics Center Zurich OVERVIEW 1 NGS AT THE FGCZ Technologies and organization
More informationSingle Cell Genomics
Single Cell Genomics Application Cost Platform/Protoc ol Note Single cell 3 mrna-seq cell lysis/rt/library prep $2460/Sample 10X Genomics Chromium 500-10,000 cells/sample Single cell 5 V(D)J mrna-seq cell
More informationNext Generation Sequencing. Target Enrichment
Next Generation Sequencing Target Enrichment Next Generation Sequencing Your Partner in Every Step from Sample to Data NGS: Revolutionizing Genetic Analysis with Single-Molecule Resolution Next generation
More informationIntroduction Bioo Scientific
Next Generation Sequencing Catalog 2014-2015 Introduction Bioo Scientific Bioo Scientific is a global life science company headquartered in Austin, TX, committed to providing innovative products and superior
More informationLecture #1. Introduction to microarray technology
Lecture #1 Introduction to microarray technology Outline General purpose Microarray assay concept Basic microarray experimental process cdna/two channel arrays Oligonucleotide arrays Exon arrays Comparing
More informationComplementary Technologies for Precision Genetic Analysis
Complementary NGS, CGH and Workflow Featured Publication Zhu, J. et al. Duplication of C7orf58, WNT16 and FAM3C in an obese female with a t(7;22)(q32.1;q11.2) chromosomal translocation and clinical features
More informationSame TaqMan Assay quality, new format
Product Bulletin TaqMan Array Plates TaqMan Array Plates TaqMan Gene Expression Assays delivered in ready-to-use 96-well Custom Array Plates or predefined Gene Signature Plates Flexible choose from customizable
More informationAccessible answers. Targeted sequencing: accelerating and amplifying answers for oncology research
Accessible answers Targeted sequencing: accelerating and amplifying answers for oncology research Help advance precision medicine Accelerate results with Ion Torrent NGS Life without cancer. This is our
More informationUC Davis UC Davis Previously Published Works
UC Davis UC Davis Previously Published Works Title Annotation-based genome-wide SNP discovery in the large and complex Aegilops tauschii genome using next-generation sequencing without a reference genome
More informationSequencing technologies. Jose Blanca COMAV institute bioinf.comav.upv.es
Sequencing technologies Jose Blanca COMAV institute bioinf.comav.upv.es Outline Sequencing technologies: Sanger 2nd generation sequencing: 3er generation sequencing: 454 Illumina SOLiD Ion Torrent PacBio
More informationGENE EXPRESSION REAGENTS MARKETS (SAMPLE COPY, NOT FOR RESALE)
TriMark Publications April 2007 Volume: TMRGER07-0401 GENE EXPRESSION REAGENTS MARKETS (SAMPLE COPY, NOT FOR RESALE) Trends, Industry Participants, Product Overviews and Market Drivers TABLE OF CONTENTS
More informationTarget Enrichment Strategies for Next Generation Sequencing
Target Enrichment Strategies for Next Generation Sequencing Anuj Gupta, PhD Agilent Technologies, New Delhi Genotypic Conference, Sept 2014 NGS Timeline Information burst Nearly 30,000 human genomes sequenced
More informationSanger vs Next-Gen Sequencing
Tools and Algorithms in Bioinformatics GCBA815/MCGB815/BMI815, Fall 2017 Week-8: Next-Gen Sequencing RNA-seq Data Analysis Babu Guda, Ph.D. Professor, Genetics, Cell Biology & Anatomy Director, Bioinformatics
More informationE2ES to Accelerate Next-Generation Genome Analysis in Clinical Research
www.hcltech.com E2ES to Accelerate Next-Generation Genome Analysis in Clinical Research whitepaper April 2015 TABLE OF CONTENTS Introduction 3 Challenges associated with NGS data analysis 3 HCL s NGS Solution
More informationNOW GENERATION SEQUENCING. Monday, December 5, 11
NOW GENERATION SEQUENCING 1 SEQUENCING TIMELINE 1953: Structure of DNA 1975: Sanger method for sequencing 1985: Human Genome Sequencing Project begins 1990s: Clinical sequencing begins 1998: NHGRI $1000
More informationGene Expression Technology
Gene Expression Technology Bing Zhang Department of Biomedical Informatics Vanderbilt University bing.zhang@vanderbilt.edu Gene expression Gene expression is the process by which information from a gene
More informationLeonardo Mariño-Ramírez, PhD NCBI / NLM / NIH. BIOL 7210 A Computational Genomics 2/18/2015
Leonardo Mariño-Ramírez, PhD NCBI / NLM / NIH BIOL 7210 A Computational Genomics 2/18/2015 The $1,000 genome is here! http://www.illumina.com/systems/hiseq-x-sequencing-system.ilmn Bioinformatics bottleneck
More informationACCEL-NGS 2S DNA LIBRARY KITS
ACCEL-NGS 2S DNA LIBRARY KITS Accel-NGS 2S DNA Library Kits produce high quality libraries with an all-inclusive, easy-to-use format. The kits contain all reagents necessary to build high complexity libraries
More informationNext Gen Sequencing. Expansion of sequencing technology. Contents
Next Gen Sequencing Contents 1 Expansion of sequencing technology 2 The Next Generation of Sequencing: High-Throughput Technologies 3 High Throughput Sequencing Applied to Genome Sequencing (TEDed CC BY-NC-ND
More informationMicroarray Gene Expression Analysis at CNIO
Microarray Gene Expression Analysis at CNIO Orlando Domínguez Genomics Unit Biotechnology Program, CNIO 8 May 2013 Workflow, from samples to Gene Expression data Experimental design user/gu/ubio Samples
More informationIntroduction to Next Generation Sequencing (NGS)
Introduction to Next eneration Sequencing (NS) Simon Rasmussen Assistant Professor enter for Biological Sequence analysis Technical University of Denmark 2012 Today 9.00-9.45: Introduction to NS, How it
More informationIntroductie en Toepassingen van Next-Generation Sequencing in de Klinische Virologie. Sander van Boheemen Medical Microbiology
Introductie en Toepassingen van Next-Generation Sequencing in de Klinische Virologie Sander van Boheemen Medical Microbiology Next-generation sequencing Next-generation sequencing (NGS), also known as
More informationTechnical Applications Track 2 Safety Testing for Cell Therapy Products: Requirements, Relevance, and New Technologies
ISCT Annual Meeting Rotterdam, The Netherlands 19 May 2011 Technical Applications Track 2 Safety Testing for Cell Therapy Products: Requirements, Relevance, and New Technologies Speakers Scott Burger (USA)
More informationMicroarray Technique. Some background. M. Nath
Microarray Technique Some background M. Nath Outline Introduction Spotting Array Technique GeneChip Technique Data analysis Applications Conclusion Now Blind Guess? Functional Pathway Microarray Technique
More informationDNA-Sequencing. Technologies & Devices. Matthias Platzer. Genome Analysis Leibniz Institute on Aging - Fritz Lipmann Institute (FLI)
DNA-Sequencing Technologies & Devices Matthias Platzer Genome Analysis Leibniz Institute on Aging - Fritz Lipmann Institute (FLI) Genome analysis DNA sequencing platforms ABI 3730xl 4/2004 & 6/2006 1 Mb/day,
More informationImplementation of Ion AmpliSeq in molecular diagnostics
Implementation of Ion AmpliSeq in molecular diagnostics The Rotterdam Experience Ronald van Marion Deelnemersbijeenkomst SKML sectie Pathologie Amersfoort, 26 mei 2016 Molecular Diagnostics in Rotterdam
More informationDNA-Sequencing. Technologies & Devices. Matthias Platzer. Genome Analysis Leibniz Institute on Aging - Fritz Lipmann Institute (FLI)
DNA-Sequencing Technologies & Devices Matthias Platzer Genome Analysis Leibniz Institute on Aging - Fritz Lipmann Institute (FLI) Genome analysis DNA sequencing platforms ABI 3730xl 4/2004 & 6/2006 1 Mb/day,
More informationRNA spike-in controls & analysis methods for trustworthy genome-scale measurements
RNA spike-in controls & analysis methods for trustworthy genome-scale measurements Sarah A. Munro, Ph.D. Genome-Scale Measurements Group ABRF Meeting March 29, 2015 Overview External RNA Controls Consortium
More informationCombined High-Resolution Single Cell Genome And Transcriptome Analysis For Clinical Samples
Combined High-Resolution Single Cell Genome And Transcriptome Analysis For Clinical Samples 5th Munich Biomarker Conference December1 st 2 nd, 2015 Stefan Kirsch Fraunhofer Project Group Personalized Tumor
More informationSMARTer Ultra Low RNA Kit for Illumina Sequencing Two powerful technologies combine to enable sequencing with ultra-low levels of RNA
SMARTer Ultra Low RNA Kit for Illumina Sequencing Two powerful technologies combine to enable sequencing with ultra-low levels of RNA The most sensitive cdna synthesis technology, combined with next-generation
More informationIntroduction to the UCSC genome browser
Introduction to the UCSC genome browser Dominik Beck NHMRC Peter Doherty and CINSW ECR Fellow, Senior Lecturer Lowy Cancer Research Centre, UNSW and Centre for Health Technology, UTS SYDNEY NSW AUSTRALIA
More informationPerformance characteristics of the High Sensitivity DNA kit for the Agilent 2100 Bioanalyzer
Performance characteristics of the High Sensitivity DNA kit for the Agilent 2100 Bioanalyzer Technical Note 10 Measured conc. [ng/µl] 1 Y intercept = 0.09 r 2 = 0.993 0.1 0.1 1 10 Reference concentration
More informationIndex. E Electrophoretic Mobility Shift Assay (EMSA), 262 ENCODE project, 223, 224 European Nucleotide Archive (ENA), 34
A Alternative splicing computational analysis, 114 data processing, 106 experimental design, 114 isoform quantification AltAnalyze, 109 CuffDiff, 110 DEXSeq, 108 DiffSplice, 109 exon/transcript isoform,
More informationSequencing techniques and applications
I519 Introduction to Bioinformatics Sequencing techniques and applications Yuzhen Ye (yye@indiana.edu) School of Informatics & Computing, IUB Contents Sequencing techniques Sanger sequencing Next generation
More informationPyrosequencing. Alix Groom
Pyrosequencing Alix Groom Pyrosequencing high-throughput CpG methylation analysis platform real-time, sequence-based detection and quantification % methylation at multiple adjacent CpG sites 80-100 bases
More informationLightCycler 480 qpcr Tools. Meeting the Challenge of Your Research
LightCycler 480 qpcr Tools Meeting the Challenge of Your Research Find the Optimal LightCycler 480 Reagents for Your Research Application: Are you analyzing DNA DNA Nucleic acid isolation Manual processing
More informationGenome Sequencing. I: Methods. MMG 835, SPRING 2016 Eukaryotic Molecular Genetics. George I. Mias
Genome Sequencing I: Methods MMG 835, SPRING 2016 Eukaryotic Molecular Genetics George I. Mias Department of Biochemistry and Molecular Biology gmias@msu.edu Sequencing Methods Cost of Sequencing Wetterstrand
More informationNext Generation Sequencing (NGS) Market Size, Growth and Trends ( )
Next Generation Sequencing (NGS) Market Size, Growth and Trends (2014-2020) July, 2017 4 th edition Information contained in this market report is believed to be reliable at the time of publication. DeciBio
More informationFrom Variants to Pathways: Agilent GeneSpring GX s Variant Analysis Workflow
From Variants to Pathways: Agilent GeneSpring GX s Variant Analysis Workflow Technical Overview Import VCF Introduction Next-generation sequencing (NGS) studies have created unanticipated challenges with
More informationIntroduction to BioMEMS & Medical Microdevices DNA Microarrays and Lab-on-a-Chip Methods
Introduction to BioMEMS & Medical Microdevices DNA Microarrays and Lab-on-a-Chip Methods Companion lecture to the textbook: Fundamentals of BioMEMS and Medical Microdevices, by Prof., http://saliterman.umn.edu/
More informationBioinformatics and computational tools
Bioinformatics and computational tools Etienne P. de Villiers (PhD) International Livestock Research Institute Nairobi, Kenya International Livestock Research Institute Nairobi, Kenya ILRI works at the
More informationNGS: Digital RNAseq & Library Prep Seminar. Next-Generation Sequencing Lunch & Learn
NGS: Digital RNAseq & Library Prep Seminar Next-Generation Sequencing Lunch & Learn Samuel Rulli, Ph. D Global Product Manager QIAseq Targeted RNA Panels 1 Targeted sequencing with UMIs QIAseq mirnaseq
More informationTargeted Sequencing Using Droplet-Based Microfluidics. Keith Brown Director, Sales
Targeted Sequencing Using Droplet-Based Microfluidics Keith Brown Director, Sales brownk@raindancetech.com Who we are: is a Provider of Microdroplet-based Solutions The Company s RainStorm TM Technology
More informationRNA-Sequencing analysis
RNA-Sequencing analysis Markus Kreuz 25. 04. 2012 Institut für Medizinische Informatik, Statistik und Epidemiologie Content: Biological background Overview transcriptomics RNA-Seq RNA-Seq technology Challenges
More informationReal-Time PCR Workshop Gene Expression. Applications Absolute and Relative Quantitation
Real-Time PCR Workshop Gene Expression Applications Absolute and Relative Quantitation Absolute Quantitation Easy to understand the data, difficult to develop/qualify the standards Relative Quantitation
More informationWhole Transcriptome Analysis of Illumina RNA- Seq Data. Ryan Peters Field Application Specialist
Whole Transcriptome Analysis of Illumina RNA- Seq Data Ryan Peters Field Application Specialist Partek GS in your NGS Pipeline Your Start-to-Finish Solution for Analysis of Next Generation Sequencing Data
More informationReal-Time PCR Applications and Genomic Assays. Absolute Quantification. Is there any (amplifiable) DNA? How much DNA is there?
Real-Time PCR Applications and Genomic Assays Absolute Quantification Is there any (amplifiable) DNA? How much DNA is there? 2 Microorganism Quantitation Type Viruses Bacteria Fungi Parasites Examples
More informationPCR SYSTEMS. a new era in high-productivity qpcr. Applied Biosystems ViiA 7 Real-Time PCR System
PCR SYSTEMS a new era in high-productivity qpcr Applied Biosystems ViiA 7 Real-Time PCR System a new era in high-productivity qpcr The ViiA 7 Real-Time PCR System delivers the proven reliability, sensitivity,
More informationgrcf grcf.jhmi.edu A component of Johns Hopkins Genomics CORE SYMPOSIUM April 17th, 2018, 10:00 a.m. 2:00 p.m. Turner Concourse
Attend a Seminar grcf grcf.jhmi.edu A component of Johns Hopkins Genomics CORE SYMPOSIUM April 17th, 2018, 10:00 a.m. 2:00 p.m. Turner Concourse Genetic Resources Core Facility (GRCF) Mission To provide
More informationNext-Generation Sequencing Gene Expression Analysis Using Agilent GeneSpring GX
Next-Generation Sequencing Gene Expression Analysis Using Agilent GeneSpring GX Technical Overview Introduction RNA Sequencing (RNA-Seq) is one of the most commonly used next-generation sequencing (NGS)
More informationNext Generation Sequencing Technologies. Some slides are modified from Robi Mitra s lecture notes
Next Generation Sequencing Technologies Some slides are modified from Robi Mitra s lecture notes What will you do to understand a disease? What will you do to understand a disease? Genotype Phenotype Hypothesis
More informationHigh-Resolution Oligonucleotide- Based acgh Analysis of Single Cells in Under 24 Hours
High-Resolution Oligonucleotide- Based acgh Analysis of Single Cells in Under 24 Hours Application Note Authors Paula Costa and Anniek De Witte Agilent Technologies, Inc. Santa Clara, CA USA Abstract As
More informationMHC Region. MHC expression: Class I: All nucleated cells and platelets Class II: Antigen presenting cells
DNA based HLA typing methods By: Yadollah Shakiba, MD, PhD MHC Region MHC expression: Class I: All nucleated cells and platelets Class II: Antigen presenting cells Nomenclature of HLA Alleles Assigned
More informationMICROARRAYS+SEQUENCING
MICROARRAYS+SEQUENCING The most efficient way to advance genomics research Down to a Science. www.affymetrix.com/downtoascience Affymetrix GeneChip Expression Technology Complementing your Next-Generation
More informationTaqPath ProAmp Master Mixes
PRODUCT BULLETIN es es Applied Biosystems TaqPath ProAmp Master Mixes are versatile master mixes developed for high-throughput genotyping and copy number variation (CNV) analysis protocols that require
More informationUF Center for Pharmacogenomics. Explanation of Services. UF Center for Pharmacogenomics Services
UF Center for Pharmacogenomics Explanation of Services Services are provided either as a price per sample or price per project, depending on the specific needs of the researcher. Basic a la carte services,
More informationApplications of the Ion AmpliSeq Immune Repertoire Assay Plus TCRβ
Applications of the Ion AmpliSeq Immune Repertoire Assay Plus TCRβ Timothy Looney, PhD Staff Scientist, Clinical Next-Generation Sequencing Division Thermo Fisher Scientific The world leader in serving
More informationDetection of the TMPRSS2:ERG fusion transcript
APPLICATION NOTE QuantStudio 3D Digital PCR System Detection of the :ERG fusion transcript Optimized workfl ow with TaqMan Assays and digital PCR Current biomedical research aims at personalized treatments
More informationIntroduction to Next Generation Sequencing (NGS) Data Analysis and Pathway Analysis. Jenny Wu
Introduction to Next Generation Sequencing (NGS) Data Analysis and Pathway Analysis Jenny Wu Outline Introduction to NGS data analysis in Cancer Genomics NGS applications in cancer research Typical NGS
More informationSequence Assembly and Alignment. Jim Noonan Department of Genetics
Sequence Assembly and Alignment Jim Noonan Department of Genetics james.noonan@yale.edu www.yale.edu/noonanlab The assembly problem >>10 9 sequencing reads 36 bp - 1 kb 3 Gb Outline Basic concepts in genome
More informationMiSeq. system applications
MiSeq system applications Choose your application. Load, and go. Focused power. Speed and simplicity for targeted and small-genome sequencing. Optimized sample preparation kits, push-button sequencing,
More informationMate-pair library data improves genome assembly
De Novo Sequencing on the Ion Torrent PGM APPLICATION NOTE Mate-pair library data improves genome assembly Highly accurate PGM data allows for de Novo Sequencing and Assembly For a draft assembly, generate
More informationLab methods: Exome / Genome. Ewart de Bruijn
Lab methods: Exome / Genome 27 06 2013 Ewart de Bruijn Library prep is only a small part of the complete DNA analysis workflow DNA isolation library prep enrichment flowchip prep sequencing bioinformatics
More informationICBR Facilities and Services Boilerplates for Proposal Preparation
ICBR Facilities and Services Boilerplates for Proposal Preparation Contents Overview Statement... 2 Proteomics Division... 2 Protein Biomarker Core... 2 Mass Spectrometry Core... 3 Genomics Division...
More informationAnalysis of Microarray Data
Analysis of Microarray Data Lecture 3: Visualization and Functional Analysis George Bell, Ph.D. Senior Bioinformatics Scientist Bioinformatics and Research Computing Whitehead Institute Outline Review
More informationPAREXEL GENOMIC MEDICINE SERVICES. Applying genomics to enhance your drug development journey
PAREXEL GENOMIC MEDICINE SERVICES Applying genomics to enhance your drug development journey YOUR JOURNEY. OUR MISSION. Genomic expertise to simplify the route to product approval and maximize patient
More informationCMPS 3110 : Bioinformatics. High-Throughput Sequencing and Applications
CMPS 3110 : Bioinformatics High-Throughput Sequencing and Applications Sanger (1982) introduced chaintermination sequencing. Main idea: Obtain fragments of all possible lengths, ending in A, C, T, G. Using
More informationCSC Assignment1SequencingReview- 1109_Su N_NEXT_GENERATION_SEQUENCING.docx By Anonymous. Similarity Index
Page 1 of 6 Document Viewer TurnitinUK Originality Report Processed on: 05-Dec-20 10:49 AM GMT ID: 13 Word Count: 1587 Submitted: 1 CSC8313-201 - Assignment1SequencingReview- 1109_Su N_NEXT_GENERATION_SEQUENCING.docx
More informationGetting high-quality cytogenetic data is a SNP.
Getting high-quality cytogenetic data is a SNP. SNP data. Increased insight. Cytogenetics is at the forefront of the study of cancer and congenital disorders. And we put you at the forefront of cytogenetics.
More informationPrimePCR Assay Validation Report
Gene Information Gene Name Gene Symbol Organism Gene Summary Gene Aliases RefSeq Accession No. UniGene ID Ensembl Gene ID sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin)
More informationPrimePCR Assay Validation Report
Gene Information Gene Name collagen, type IV, alpha 1 Gene Symbol Organism Gene Summary Gene Aliases RefSeq Accession No. UniGene ID Ensembl Gene ID COL4A1 Human This gene encodes the major type IV alpha
More informationIntroductory Next Gen Workshop
Introductory Next Gen Workshop http://www.illumina.ucr.edu/ http://www.genomics.ucr.edu/ Workshop Objectives Workshop aimed at those who are new to Illumina sequencing and will provide: - a basic overview
More informationHigh-throughput scale. Desktop simplicity.
High-throughput scale. Desktop simplicity. NextSeq 500 System. Flexible power. Speed and simplicity for whole-genome, exome, and transcriptome sequencing. Harness the power of next-generation sequencing.
More informationNon-Organic-Based Isolation of Mammalian microrna using Norgen s microrna Purification Kit
Application Note 13 RNA Sample Preparation Non-Organic-Based Isolation of Mammalian microrna using Norgen s microrna Purification Kit B. Lam, PhD 1, P. Roberts, MSc 1 Y. Haj-Ahmad, M.Sc., Ph.D 1,2 1 Norgen
More information