Xomics brochure 2013

Xomics™
Integrated
Solution for
Personal BioInformatics

©Copyright 2013, Azco Biotech, Inc., San Diego, CA

XOMICS™

Page #: 2

Call us at +1-858-259-9528 or visit www.azcobiotech.com

XOMICS™

Welcome to Azco Biotech, Inc.
Azco Biotech, Inc. is the premier supplier of solutions for nucleic acid synthesis and sequence
detection.

Azco’s products include solutions for genome sequencing, capillary sequencing, real-time PCR,
PCR instruments and DNA and RNA synthesizers. We provide for each of these products a
comprehensive set of reagents and backup all of the products that we sell with world-class
service.

For DNA and RNA synthesis; Azco provides the complete solution from start to finish. Azco
offers a variety of instruments options from low throughput bench top models to high volume
production systems and we back all of our instruments with “world class” service In addition,
Azco is your one source for high quality reagents including; supports, Phosphoramidites,
modification reagents, labeling reagents and products for oligonucleotide purification.

For Sequencing; Azco provides the complete solution from start to finish. Azco offers a variety
of instruments options and we back all of our instruments with “world class” service In
addition, Azco is your one source for high quality reagents including; library and sequencing
kits for 2nd generation sequencing as well as polymer, buffer, CARE solution and other
reagents for 1st generation sequencing. Azco also provides turn-key solutions for
bioinformatics.

All of our reagents are manufactured using cutting edge production processes that adhere to
stringent quality control. Our reagents are thoroughly tested to assure they meet the highest
possible quality standards and then packaged in the right bottles for your synthesizer.
Customers rely on us to deliver quality, so that’s what we deliver!

To ensure that our products exceed the highest levels of quality, they are manufactured under
strict quality systems. Since they are produced to meet such stringent quality requirements they
are commonly used in drug and diagnostic development.

All Azco products are supplied with comprehensive quality documentation. Our attention to
detail assures your success.

We are constantly adding to our product offering. If you do not see exactly what you are
looking for, contact your local representative or feel free to e-mail us at
sales@azcobiotech.com.
Where Are We?
3626 Ocean Ranch Blvd.
Oceanside, CA 92056
Toll Free: (866) 706-6808

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XOMICS™

Xomics™ Integrated Bioinformatics Solution

With the advent of 2nd generation sequencing a large amount of sequence data is now available for a
large number of species. Although the cost for sequencing has come down dramatically, at a rate ex-
ceeding Moore’s Law, the cost of data analysis has continued to rise, where today the cost of data analy-
sis accounts for over 50% of the total sequencing cost:

Source: Sboner et al., Genome Biology 2011 12:125 doi: 10.1186/gb-2011-12-8-125

It is has been estimated that by 2020, the cost to sequence a human genome will be less than $1000, but
the cost for data analysis will be over $6500! For targeted sequencing, the sequencing cost is even less,
but the analysis is 3X to 5X the cost of sequencing. Many commercial facilities offer an exome se-
quence for ~$500. Still, the problem is data analysis with costs ranging up to $2500. That is, until now!

Azco, in partnership with Theragen Bio, has launched Xomics™ a personal bioinformatics solution de-
signed, and priced, to greatly bring down the cost of downstream sequence data analysis in a scalable,
customizable, easy-to-use, integrated solution.

Xomics™ is a system you control, it is not a “cloud-based” solution. Rather, Xomics™ is a hosted solu-
tion where the server and integrated bioinformatics software is in your office. So, your data is com-
pletely under your control!

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XOMICS™

Integrated Solution
Xomics™ includes optimized hardware along with fully customizable bioinformatics software to form an
integrated solution for personal bioinformatics that is installed in your laboratory or office, not a solution
in the “cloud”.

The hardware consists of a personal “server” offered in three standard configurations, each configuration
sized to meet your current analysis re-
quirements. Additionally, each con-
figuration can be further customized to
meet your exact needs.

The software is a complete, turn-key,
solution that performs sequence align-
ment and mapping, quality statistics,
SNP calling (i.e. Single Nucleotide
Polymophisms, insertions, deletions,
translocation, copy number variation,
etc.), genotype/phenotype associations,
reports the medical relevance of SNP
calls, pharmacogenetic information, even phylogeny information. Everything you need to transform your
sequence data into useful, reportable information for research, pharmacogenomic, or personal genomic
applications.

Xomics™ Hardware
Xomics™ server hardware is offered in three standard configurations that can be further customized to
meet your individual requirements. Additionally, Azco offers on-site installation and integration service
to network the Xomics™ server with your existing computers. The three standard configurations are:

 Light - Contains processing power designed for light to moderate sized applications including; exome
sequence analysis, or other targeted sequencing applications.

 Standard - The Standard version contains the processing power required for most moderate to large
scale sequence analysis applications by combining CPU with GPU processors. The applications in-
clude; whole genome sequence analysis, exome sequence analysis, RNA-Seq plus others.

 Pro - The Pro version offers the same processing power as the standard, but includes additional stor-
age to provide you the disk space required to store the data generated by large sequencing applications
from hundreds of analyses.

Each configuration can be further customized to meet your specific requirements. With Xomics ™, you
can start light and upgrade as your needs require.

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XOMICS™

Below is a table that highlights the features of each of the standard configurations.

Intel Xenon nVidia GPU Hard Disk
Model RAM (GB) RAID (TB)
CPUs (cores) (cores) (TB)

Light 2 (8) ———— 48 6 ————

Standard 3 (12) 4(1792) 96 24 ————

Pro 3 (12) 4 (1792) 96 24 100

Why GPUs? CPUs (central processing units) consist of a few cores optimized for serial processing, while
GPUs (graphical processing units) consist of thousands of smaller, more efficient cores designed for parallel
processing. Serial portions of the application run on the CPU while parallel portions run on the GPUs. For
processing the large amount of data generated from whole genome sequencing, using both CPUs and GPUs
provides exceptionally fast, efficient processing. Below shows a graphic that compares CPU alone against
using the combination:

Sequence Alignment and Scoring
CPU: 100 core cluster GPU: nVidia Tesla c2075X4

Raw Data: 100Gbase Human Exome (30X coverage)

The use of both CPUs with GPUs allows the same data to be processed in one-
tenth of the time, providing you the processing power of a supercomputer in a
desk-side workstation at a very low cost! The exact configuration of your
server can be optimized to meet your needs and networked to your existing se-
quencers and bioinformatics systems.

Additionally, with the use of “green” technology, these servers use very little
electricity, making them very inexpensive to run, saving you money!

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XOMICS™

Xomics™ BioInformatics Software
The real power of the Xomics™ solution is in the software. Xomics™ is a Microsoft Windows based applica-
tion designed to allow you to easily process the data generated from all commercial 2nd and 3rd generation
sequencers, using simple point-and-click commands. Your sequencer just needs to be able to output results
in industry standard fastq format. Xomics™ reads in the fastq files generated by the sequencer and then...

 Performs sequence alignment

 Maps the sequences to a reference genome

 Performs sequence quality metrics

 Performs SNP calling -including SNPs, insertions, deletions, translocations

 Determines Copy Number Variations

 Performs and reports genotype to phenotype associations for human genome data

 Determines the medical relevance of the SNPs called for human genome data

 Determines pharmacogenomic characteristics based on the SNPs determined for human genomes

 Determines the phylogeny of the human genome sequenced

 Allows for comparison of one or more sample sets

 Plus much more!

So, out of the box, Xomics™ provides a complete set of features to meet most genome analysis needs, especially
for human genome sequence data.

Xomics™ software can also be further customized to meet your specific needs. You can customize Xomics™ to:

 Directly interface with your sequencing platform, laboratory information system or other bioinformatics sys-
tem.

 Produce reports that contain the information you and your clients require in the format you prefer.

 To perform the special data processing you require for your research on your specific genome whether it be
plant or animal!

Any need you have, Xomics™ is flexible enough to help.

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XOMICS™

Easy and Intuitive User Interface
Xomics™ is designed from the beginning to be intuitive and easy to use.

From the main screen, simply drag your sequence files to the
queue and your data is automatically processed. The time re-
quired for the system to process your data depends on the hard-
ware configuration selected. For a human exome, data process-
ing can be finished in as fast as a few minutes!

Once processing is complete, simply click on the “Analyzed
Results and Comparison” tab to review your results!

Sequence Alignment, Mapping and Quality Metrics
After you’ve selected your file, Xomics™ maps the base calls from your sequencing run to the reference
genome you’ve selected.

It determines for you the quality of each read from the sequence
you’ve provide and outputs the quality statistics for each read (i.e.
Q score). It also provides you data to show the total reads, mappa-
ble reads, depth of coverage used for each read, plus a lot of addi-
tional quality information to assure you that the reports you gener-
ate are valid and reliable!

Sequence Alignment, Mapping and Quality Metrics
Xomics™ provides you detailed information on all Genetic Variations found against the reference genome in
your genome.

Xomics™ provides complete reporting on the location
and type of variation; SNP, insertion, deletion, translo-
cation, transversion, insertion/deletion lengths, etc. It
also provides quality information on the variations
called.

Additionally, you can not only compare your sample to
a reference genome for variation calling, you can com-
pare one sample to other samples, for example normal
tissue to diseased tissue, or drought resistant grain to
non-drought resistant, to determine somatic versus he-
reditary mutations or quickly identify the genotype you are looking for. This feature will help you understand
the variations that are relevant to the disease or phenotypes you are researching.

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XOMICS™

Genotype/Phenotype Association with Medical Relevance
Xomics™ provides data evaluation tools that are color-coded to allow you to quickly pick out the data
that is relevant. Red indicates high risk, yellow
inidicates caution and blue means low risk. When it
is relevant, Xomics™ provides you extensive infor-
mation on why the mutation is relevant including
disease predisposition and probability. It even pro-
vides you the PubMed link to reference so that you
can easily access additional details.

With Xomics™ detailed annotation tools, you can
quickly scan through an exome or a whole genome
to get the information that’s important to you and
your client. Additionally, all of the annotations are
provided in the included reporting package. Or, we
can customize a report that meets your specific re-
quirements.

All the advanced information you need from your genome sequence, at your fingertips!

Ancestry and Phylogeny Information
With Xomics™ you can even trace the origin of your genome or exome. Xomics ™ provides you tools to
see the racial admixture of your sample as
well as follow the geographical origin of
your genome from the beginning to pre-
sent. This is not only a useful feature, but
fun too!

Xomics™ is designed to provide you with
all of the information you or your custom-
ers will ever need from the genome ana-
lyzed and make the discovery easy.

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XOMICS™
Summary

Integrated Solution
Xomics™ is the only integrated Next Generation Sequence analysis solution that provides you the
power of a supercomputer through massively parallel processing in a desk-side workstation optimized
with state-of-the-art BioInformatics software to provide complete analysis and annotation for your
sequencing experiments in a cost effective package. To learn how Xomics™ can complete your
sequence analysis workflow, contact your Azco Biotech sales representative or visit us on the web at
www.azcobiotech.com.

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XOMICS™
NOTES

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AZCO SERVICES

Azco Service
Azco backs up all of the instruments and bioinformatics systems we sell with “world-class” customer ser-
vice. And after your warranty ends, Azco is still there to protect you.

Azco offers a variety of service plans and options to meet your specific needs. Our most popular plans is
the “Azco Premier Service Plan”. This is an “everything included plan” which begins with an annual pre-
ventative maintenance visit, then should anything fail you are provided very rapid repair based on priority
scheduling that includes all parts, travel, labor, everything, plus you receive unlimited telephone technical
and applications support! Another very popular plan is Azco’s PM only plan. This plan is priced very
reasonably and designed to get your instrument running in tip-top performance. Then, should anything
fail, Azco will repair you system at a greatly reduced rate with priority scheduling, with this plan you also
receive unlimited telephone and email technical support.

Other popular services offered by Azco include paid day service, where we fix your instrument on-
demand, laser change service, all parts, travel and labor in one reasonably priced package, on-site and
mail in instrument refurbishing. Please call us for your specific needs.

The instruments Azco services include:

 Sequencers -ABI 377, 310, 3100A, 3100, 3130, and 3130xl

 Synthesizers -Oligo-800, Oligo-96, Oligo-192, Dr.Oligo, OligoMaster, ABI 391/392/394,
Expedite, ABI 3400, ABI 3900, most other brands.

 Real-Time PCR -ABI 7000/7300/7500/7900, Agilent MX3000/3005, BioRad iCycler

Plus others, please call.

Genome Sequencing
Have a genome you need sequenced, simply provide us the cell and we will do all of the work for you in-
cluding library construction, amplification and sequencing followed by extensive data processing and an-
notation using Xomics™ bioinformatics systems providing you complete reporting for your genome. Or,
if you have a genome sequencer, we would be happy to perform the sequencer-ready library construction
for you or downstream data processing. Please call for details.

Azco Consulting
Finally, Azco can help you with all of your application needs by providing consultants with years of ex-
perience to help you optimize your bioinformatics integration, sequencing application, optimize synthesis,
modification or purification. We can customize the solution to meet your needs. Please enquire to find
out more!

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AZCO SERVICES
NOTES

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LEGAL NOTICES

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Legal Notices

Azco Biotech, Inc. makes no warranties either expressed or implied as to the accuracy or appropriate-
ness of this data and expressly excludes any liability upon Azco arising out of its use. We recommend
that the prospective users determine for themselves the suitability of Azco materials and suggestions for
any use prior to their adoption.

Software screens and features will change from time to time; so, the actual product screens and features
may be different than those represented herein. Azco makes no warranties as to the that all of the fea-
tures described herein will be in the product ‘as sold’.

Material Safety Data Sheets outlining hazards and handling methods are available upon request. They
can downloaded at www.azcobiotech.com

Amberchrom, Ambersynth and Amberlite are all trademarks of the Rohm and Haas Company, Philadel-
phia PA., Texas Red is a registered Trademark of Invitrogen Inc., Carlsbad, CA., Hairpin-It is a trade-
mark of GenePharma Co., Ltd, Shanghai, China, Dr. Oligo is a Trademark of Biolytic, Inc., Newark, CA,
ABI, TaqMan, and all instrument models referenced are trademarks of AppliedBiosystems, Inc., Foster
City, CA, NanoPOP is a trademarks of MC Labs, San Francisco, CA TQ, TF are trademarks of ABD
Bioquest, Sunnyvale, CA, Xomics™ is a trademark of Theragen Bio, Seoul, Korea


TERMS AND CONDITIONS

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Azco Biotech, Inc
General Terms of Sale

Parties: Azco Biotech, Inc. is hereinafter referred to as “Seller” and the customer is hereinafter referred to as “Buyer”, collec-
tively Azco and customer are referred to as “Parties”.
Agreement: A quotation is provided as an offer by Seller, issuance of a purchase order or payment by the Buyer is considered
acceptance of the offer and acceptance of the foregoing terms. The supply of products by Seller and payment by Buyer consti-
tute mutual consideration to support the promises and creates a binding contract between the Parties.
Price: The price agreed to between the Parties is provided to Buyer via Seller’s quotation, either formal or informal, the price
supplied is in U.S. Dollars and unless otherwise agreed does NOT include shipping. When no price quotation is supplied, the
prices on Seller’s web-site will be used.
Payment: Seller’s standard payment terms for goods sold within the U.S. are net due 30 days after shipment of the order by
Seller. Seller’s standard payment terms for goods shipped outside the U.S. are 100% prepayment prior to shipment. For Cus-
tom Manufactured products, such as the Oligo 96/192, Xomics™ or OligoArray systems, Seller requires 50% with purchase
order and net upon shipment by Seller to Buyer.
Shipping: Seller provides all products E.X.W. origin. Risk of loss passes to Buyer upon transfer of goods to a common carrier.
Seller’s standard shipping term is prepay and add costs to the final invoice. It is Buyers responsibility to specify insurance.
Shipping charges include the cost of shipping along with any packaging or crating charges.
Taxes and Duties: Sales taxes, duties and other Government imposed tariffs are the responsibility of the Buyer. Seller will
charge sales tax in the State of California and add this tax to the invoice.
Irrevocable Agreement: Once Seller receives the down payment from Buyer towards the production of a Custom Manufactured
product, or the purchase order if no down payment is required, the agreement becomes irrevocable and is binding on the Parties
as well as their successors and assigns in interest. Custom Manufactured products are product that are not routinely stocked by
Seller and made to requirements provided by Buyer, these products include, but are not limited to; Custom Xomics ™, Oligo 96,
Oligo 192, OligoArray, custom dyes or phosphoramidites, and any other instrument or reagent made to the Buyer’s require-
ments.
Returns: Buyer may return products within 30 days after shipment by Seller for any reason subject to a 25% restocking fee.
Custom Manufactured products, such as the Oligo 96/192 or OligoArray systems, are NOT returnable, once the down payment
is received by Seller, the order is irrevocable.
Warranties: Seller expressly warrants that all goods supplied by Seller will conform strictly to the specifications, designs,
drawings or samples provided by seller and are free from defects in material and workmanship, are merchantable and are fit
ONLY for their intended use. Most instruments provided by Seller include warranties, the length of the warranty will be speci-
fied on the quotation and agreed to between the Parties. Should any part fail during the warranty period due to normal wear and
tear, the part will be replaced by Seller free of charge. Inside the U.S. Seller will include labor and travel expenses with the
warranty. Outside the U.S. borders, unless otherwise agreed to, Seller’s warranty does NOT include travel and labor charges
and is PARTS ONLY. Sellers warranties exclude failures due to user negligence, or unforeseeable acts such as floods, fire,
earthquake, acts of terrorism, etc. Sellers warranties also specifically exclude consumable parts. The list of consumables is
unique to each instrument and will be provided to Buyer at time of sale. Other than the warranties discussed supra, Seller
makes no other warranties either express or implied including warranties of merchantability or fitness for intended use.
Research Use Only: All reagents supplied by Seller are intended for Research Use Only. Use of products for diagnostic or
therapeutic use may be covered by proprietary rights not included by Seller to Buyer.
Seller Liability Insurance: Seller represents that it maintains a valid Liability Insurance Policy with Scottsdale Insurance. The
limits of liability are: $1,000,000 per incident and $2,000,000 aggregate. Buyer may be named as an insured, Seller will pro-
vide a certificate representing Buyer as a named insured, the fee to be a named insured is $150.
Subcontractors and Assignments: Seller retains the right to assign it’s duties under this and all agreements to subcontractors.
All other rights and liabilities of the Parties remain in full force and effect with any assignment.
Integration: This agreement between Buyer and Seller represents the entire agreement of the Parties and supersedes all other
oral or written agreements between the Parties.
Disputes: Disputes between the Parties will first be negotiated between the Parties. Should good faith negotiations fail, either
party may file suit in a court of competent jurisdiction WITHIN THE STATE OF CALIFORNIA. All disputes shall be inter-
preted and governed in all respects according to the laws of the state of California.
Remedies: The Remedies between the parties is LIMITED to the value of the agreement. In no instance will Seller be liable to
Buyer for Compensatory , Consequential or Punitive damages exceeding the value of the agreement between the parties. It is
understood between the parties that Buyers loss of income or business opportunity due to delays or breach in performance by
Seller are too speculative and are not compensable. If Buyer refuses to accept Sellers performance for any reason, after notifi-
cation that Seller is ready to perform, Buyer agrees to pay Seller a either a 25% restocking fee or agrees to forfeiture of Buyers
deposit, whichever is greater.


Azco Biotech, Inc.  Western Europe

3626 Ocean Ranch Blvd. Azco Europe
Ezequiel Coelho
Oceanside, CA 92056
European Sales Director
Toll Free (866) 706-6808 Lisbon, Portugal
Tel (858) 259-9528 Mobile.+44 703 187 4691
Office. +44 870 490 3814
Fax. (858)568-9078 Email: Ezequiel@azcobiotech.com
Email. sales@azcobiotech.com
Web. www.azcobiotech.com  Eastern Europe
UAB Neokon Baltija
Azco International and Distributors Tomas Vaitkevicius
Lithuania, Visaginas Taikos 10/12 LT-31107
 China
Mob.: (+370)685-58-796
Azco China Tel.: (+370)685-69-883
Bin “Frank” Zhang E-mail: neokonas@gmail.com & neokon@tts.lt
General Manager
江苏省常州市常武中路801号常州科教城惠
研楼北楼5楼2520室  Turkey
Mobile: 86-13881976869
Tel: 86-519-81001585 Tez Ileri Teknolojirler ve Savunma Sanayi
Email: frank @azcobiotech.com Ticaret Ltd. Sti
Pinar Demirtas
 South America Bilkent Plaza A3 Blok No: 32, Bilkent Ankara
TURKEY
Gentech Genetics & Technology Tel.: +90312 266 24 70
Jairo Alberto Colorado Castaño E-mail: info@tez.com.tr
Carrera 46 No 48C Sur 40 Int.102 www.tez.com.tr
segundo piso. Ciudadela Real
Envigado - Antioquia - Colombia
Tel: (57) (4) 2713885 - 2713768 - 2710206  Korea & Japan
Email: gerencia@genetechcolombia.com
Clinomics
Byong Kim, PhD
 India B-601, Tweenpark officetel,1134-4, Inkye-dong
Suwon, 442-835,
Shrimpex Biotech Services Republic of Korea
Thomas David Kumar Mobile: 010-8485-7697
76, East Coast Road, Sholinganallur Email: bckim00@gmail.com
Chennai, TN, India, 600119
Tel: +91-44 2453 0845/46/47  Saudi Arabia
Mobile: +91 98402 82825
www.shrimpex.in Constant Trading Activities
E-mail: shrimpex@shrimpex.in Hasan Ibrahim
P.O. Box 20451, Jeddah 21655
Saudi Arabia
Tel : 698-7788
Fax : 682-3740
Mobile : 054338612 - 054338617

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