Current Partners
Applications
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Workflow Steps
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Products
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Compute infrastructure and servicesDescription
Your one stop shop for Informatics, Analysis, High Performance Computing and Automation/Integration. BioSoft Integrators, the leading provider of vendor neutral Informatics and automated products will guide you using its proven methodologies to properly scale your laboratory
Contact information
BioSoft Integrators
www.biosoftintegrators.com/
info@biosoftintegrators.com
3755 Avocado Blvd
Suite 150
La Mesa, CA 91941
Phone: 619-793-5095
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Description
SeqMan NGen is sequence assembly software that can assemble any size genome quickly and accurately on a desktop computer. SeqMan NGen assembles data from all major next-gen sequencing platforms, and provides an extremely easy-to-use interface that steps you through your sequence assembly and analysis project. SeqMan NGen is fully integrated with Lasergene's SeqMan Pro, so that once your assembly is complete, you can continue with downstream analysis including discovering SNPs using Bayesian statistical models, evaluating coverage, and annotating your consensus sequence.
Links
- SeqMan NGen Product Page
- DNASTAR Support for Pacific Biosciences Technology
- PacBio assembly and analysis video
Specifications
- Windows Vista x64 and Windows 7 x64
- Mac OS X 10.6 or higher
- Linux Distributions: CentOS 5.5 and Ubuntu 10.04
- Quad-Core 2 GHz processor
- RAM requirements vary based on the type of assembly, but range from 4GB -16 GB.
- See our tech requirements page for more details.
Contact information
DNASTAR, Inc.
www.dnastar.com
info@dnastar.com
Phone: 608-258-7420
Toll Free in the U.S. and Canada: 866-511-5090
Call free from the U.K.: 0-808-234-1643
Call free from Germany: 0-800-182-4747
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BG7 Bacterial Genome Annotation Service
Description
Complete BG7 is a service offering you the complete solution for your bacterial genomics project:
- Project Design: Understanding goals, choosing technologies, etc.
- Sequencing.
- Assembly.
- Data analysis: Including Annotation with BG7 method.
- Reports and Deliverables.
What do you get? A complete set of reports and deliverables.
Links
- BG7 Annotation of E coli EHEC C227
- BG7 Bacterial Annotation Brochure
- BG7 Bacterial Annotation Presentation
Contact information
Era7 Bioinformatics
www.era7bioinformatics.com
Oficina de Granada:
Plaza Campo Verde 3 18001 Granada SPAIN
Tel: 958256771
Oficina de Madrid:
Calle Ruiz de Alarcón 13 28014 Madrid SPAIN
Tel: 915239293
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Description
SNP & Variation Suite 7 is an integrated collection of user-friendly, yet powerful analytic tools for managing, analyzing, and visualizing multifaceted genomic and phenotypic data. SVS was created specifically to empower biologists and other researchers to easily perform complex analyses and visualizations, eliminating the need to rely exclusively on bioinformatics experts or cobble together difficult to use, incompatible freeware. With SVS you can focus on your research instead of learning to be a programmer or waiting in line for bioinformaticians.
Links
Specifications
- Windows, Linux, or Mac; 32 and 64-bit. No special memory or processor requirements, but the larger your study, the more you need. Here is a link to where we talk about this.
Contact information
Golden Helix, Inc
203 Enterprise Blvd
Suite One
Bozeman, MT 59715
406-585-8137 or 888-589-4629
www.goldenhelix.com and http://blog.goldenhelix.com
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Description
Exemplar is a LIMS, Electronic Lab Notebook and Data Management in a single, integrated Solution. It is highly configurable and is workflow driven to reflect how labs actually operate. Exemplar sports a fully configurable Data Model and Plugin architecture for rapid implementation in compressed timeframes.
Links
Specifications
- Windows/Linux/OSX
- MySQL or Oracle
Contact information
Sapio Sciences Llc
www.sapiosciences.com
sales@sapiosciences.com
main #: (443) 759-3204
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g-TUBEDescription
g-TUBE, the latest innovation from Covaris, is a single-use consumable that enables scientists to shear genomic DNA into selected fragments sizes ranging from 6kbp to 20kbp. The only equipment needed is a compatible bench-top centrifuge and a pipette. g-TUBE uses centrifugal force (the "g" in g-TUBE) to push the sample through a precisely manufactured orifice in the embedded ruby. This produces shearing forces in the sample that fragment the DNA. Fragment size is selected by adjusting the centrifuge rotor speed which alters the flow rate through the ruby and thus the shearing forces. Higher centrifugation RPM will produce shorter fragments and the protocol provide by Covaris contains the settings needed to select a fragment size between 6kbp and 20kbp. Remarkably, the entire process takes only 3 minutes and up to 24 samples can be processed simultaneously.
Links
Contact information
Covaris, Inc.
Home page: http://www.covarisinc.com/
g-TUBE product page: http://covarisinc.com/products/g-tube/
Customer Support Email: CustomerService@covarisinc.com
Customer Support Phone: +1 781 932 3959
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SMRT Analysis ServerDescription
Today's next generation sequencing environments require more computing power than ever in order to analyze enormous data sets. In fact, many core facilities have expressed concerns over their lack of computing power and storage needed. As the world's leading provider of turn-key computing clusters for bioinformatics, PSSC Labs understands these ever increasing requirements.
Contact information
PSSC Labs
http://www.pssclabs.com
4sales@pssclabs.com
Phone: 1-949-380-7288
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SureSelectDescription
The SureSelect Target Enrichment System allows you to focus your next-gen sequencing workflow on key genomic regions of interest while reducing cost per sample. The system uses an extremely efficient hybrid selection technique which significantly improves the cost- and process efficiency of the sequencing workflow, allowing for a larger number of samples per study. With sample input requirements at or below 3 micrograms of genomic DNA, even the most precious of samples can be utilized for massively-parallel sequencing without risk of depletion. Each target enrichment kit comes packaged with a mixture of custom SureSelect RNA oligonucleotides, or "baits," that are biotinylated for easy capture onto streptavidin-labeled magnetic beads. The RNA bait-DNA hybrids are then "fished" out of the complex mixture by incubation with streptavidin-labeled magnetic beads and captured onto a strong magnet. After the beads have been washed, the RNA bait is then digested so that the only remaining nucleotide is the targeted DNA of interest. A few cycles of DNA amplification are performed at the end of the capture, and the targeted sample is then loaded onto the sequencing instrument.
Links
Contact information
Agilent Technologies, Inc.
Home page: http://www.agilent.com
SureSelect product page: http://www.agilent.com/genomics/sureselect
Customer Support Phone: +1-800-227-9770
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Access Array™Description
The Access Array™ System is a unique target enrichment platform designed for resequencing selected regions of a genome from large numbers of samples. The system combines the cost and throughput benefits of integrated fluidic circuits (IFCs) with the proven performance and flexibility of PCR. The Access Array System facilitates parallel amplification of 48 unique samples, in effect preparing 48 sequencing libraries, in just a few hours. Every reaction combines both an amplicon tagging and a barcoding (identification) step that enables all 48 samples to be multiplexed at the sequencing step. This powerful chemistry simplifies the up-front preparation and maximizes the utility of today's next generation sequencers. The Fluidigm Access Array System can be used with any PCR-based sample preparation method and with the reagents and primers of your choice. The system includes Access Array IFCs, two IFC Controller AXs, and the Stand-Alone Thermal Cycler.
Links
Contact information
Fluidigm Corporation
Home page: http://www.fluidigm.com/
Access Array product page: http://www.fluidigm.com/access-array-system.html
Customer Support Phone: +1-866-358-4354
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Partek® Flow™ and Partek® Genomics Suite™
Description
Built upon sound statistical analysis and strong visualizations, Partek® Flow™ and Partek® Genomics Suite™ are a user-friendly, start-to-finish software solution designed for the integration and analysis of all genomic data, from microarray through today's most-advanced sequencing technologies.
Links
- Specifications
- Targeted Sequencing Solutions for PacBio RS Long Reads Using Partek Flow and Partek Genomics Suite
- Partek Flow Brochure
- Partek Genomic Suite Brochure
Contact information
Partek Incorporated
www.partek.com
inquire@partek.com
314-878-2329
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CLC Genomics Workbench and CLC Genomics Server Description
CLC Genomics Workbench and CLC Genomics Server provides a framework for visualizing, combining and analyzing whole genome data. The framework enables user-friendly comparative filtering of genomic variations, giving scientists a quick and easy way to do functional classification and filtering of SNPs and other kind of genomic variations, using multiple data sources including Ensembl, UCSC and other external public databases. This framework offers you an intuitive way to do further downstream analyses and to combine them with existing knowledge.
Links
Specifications
Contact information
CLC bio
Finlandsgade 10
Katrinebjerg
8200 Aarhus N
Denmark
Phone EMEA: +45 7022 5509
Phone Americas: +1 (617) 945-0178
Phone AsiaPac: +886-2-2790-0799
Main: info@clcbio.com
Support: support@clcbio.com
Sales: sales@clcbio.com
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Description
GenoLogics LIMS is one of the only full-featured LIMS built from the ground up specifically for the next-generation genomics laboratory. GenoLogics LIMS, allows next-generation genomics labs and sequencing facilities to easily trace samples and project information across multiple instruments and applications, all within one centralized system. It also eliminates the informatics bottlenecks that hinder sequencing workflows and slow analysis.
Links
Contact information
GenoLogics
4464 Markham Street, Suite 2302
Victoria, BC
V8Z 7X8
Toll free: 1-866-457-5467
Main: 1-250-483-7011
email: info@genologics.com
website: www.genologics.com
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5mC Tet1 Oxidation Kit for the PacBio RS InstrumentDescription
This 5-mC Tet1 Oxidation Kit is designed to enhance the signal of 5-mC for methylation identification. It does this by converting 5-methylcytosine (5-mC) in genomic DNA to 5-carboxylcytosine (5-caC), which has a stronger kinetic signal.
Additional Resources
Contact information
WiseGene LLC
Home page: http://www.wisegeneusa.com/
Product page: http://www.wisegeneusa.com/#!k004/c543
Customer Support Email: info@wisegeneusa.com
