Specification Sheet

Helicos Genetic Analysis System

A New Era of Genomic ExperimentationThe Helicos Genetic Analysis System delivers the power of True Single Molecule Sequencing (tSMS) technology, signaling a new era of ultra high-throughput, high-definition genomic ex-perimentation. By directly sequencing single molecules of DNA, the Helicos System enables the detailed analysis of large quantities of genetic material, letting you perform experiments of unparalleled size, scope and power.

The Helicos System offers critical advan-tages over amplified-molecule sequencing methods. Detecting individual molecules gives you a direct look at your native DNA samples, providing greater resolution and sensitivity than previously achievable. Sample preparation is minimal and avoids the bias and errors often introduced by more complex protocols.

The flexibility of the System lets you opti-mize numerous experimental factors, supporting a wide range of applications that require either deep coverage, strand counting, or both. You can examine genome sequence and structure, RNA expression, candidate gene regions, and a host of other genetic dimensions in large sample sets at single molecule resolution.

With the highest sequence output and throughput available, the Helicos System enables you to drive your research with the experi-mental power necessary to unlock significant genomic discoveriesall at a cost lower than any other technology.

Simple and PowerfulThe Helicos Genetic Analysis System combines simple operation with powerful capabilities to directly sequence your original samples of DNA.

The System is comprised of the HeliScope

Single Molecule Sequencer, the HeliScope

Analysis Engine, and the HeliScope Sample Loader. As the cornerstone of the System, the

HeliScope Single Molecule Sequencer performs tSMS chemistry and captures images to track single molecule sequencing reactions for bil-lions of individual DNA molecules per run. The Analysis Engine simultaneously processes the images to produce accurate sequence data for those molecules in near real time. The Sample Loader speeds and simplifies upfront sample preparation, providing flexibility for managing experiments with multiple samples. Convenient reagent packaging and intuitive software provide easy operation, automated tracking of consum-ables, and effective management of the System.

The exceptional sequencing throughput and efficient workflows offered by the Helicos Genetic Analysis System open exciting new research avenues, while dramatically reducing the time and expense needed to complete your genomic experiments.

helicosbio.com

The Helicos Genetic Analysis System is the first genetic analyzer to harness the power of true direct DNA measurement. The Helicos System employs breakthrough technology that directly sequences single DNA molecules without amplification and its associated costs and complexity. Offering accuracy, simplicity and scale unmatched by any next-generation sequencing method, the Helicos Genetic Analysis System is the most powerful genomic analysis tool available.

HeliScope Single Molecule Sequencer

SYSTEM COMPONENTSHeliScope Single Molecule SequencerThe HeliScope Single Molecule Sequencer is the worlds first DNA Microscope. With its unprece-dented imaging power and single-molecule res-olution, the HeliScope Sequencer will revolu-tionize genomic research for diseases such as cancer, heart disease, or diabetes, in the same way that the light microscope enabled infectious disease research.

The Sequencer performs tSMS sequencing-by-synthesis reactions on single molecules of

DNA that have been immobilized on a pro-prietary flow cell surface. At each step of the sequencing-by-synthesis process, the Sequencer records the incorporation of fluorescently-labeled nucleotides into the growing DNA strands.

The Sequencer uses state-of-the-art fluidics and optics to process two 25-channel flow cells simultaneously. The instrument maximizes run efficiency by performing strand synthesis in one flow cell at the same time it images the other. The HeliScope Single Molecule Sequencer outperforms any other genetic analysis technol-

Specification Sheet

The Helicos System lets you perform experiments of unparalleled size, scope and power.

HEliCOS GENETiC ANAlYSiS SYSTEM PErfOrMANCE SPECifiCATiONS

iNSTruMENT PErfOrMANCE / CONfiGurATiON

flow Cells2 flow cells processed simultaneously 50 independent channels are available in 2 flow cells

Sample Throughput 1 100,000+ samples per run1

Sequencer Throughput > 1 Gigabases per hour2

Data Management 28 Terabyte on-board data storage capacity

SEQuENCiNG PErfOrMANCE AS Of DECEMbEr 1, 2008

Minimum Specifications3 routine usage Specifications4

Strand Output >8M usable strands per channel5

400M usable strands per run12 to 16M usable strands per channel

600 to 800M usable strands per run

Total Output280 Megabases per channel

14 Gigabases per run

420 to 560 Megabases per channel

21 to 28 Gigabases per run

Throughput >70 Megabases per hour 105 to 140 Megabases per hour

read length25 to 55 bases

>30 bases average length

25 to 55 bases in length

30 to 35 average length

Accuracy >99.995% consensus accuracy at >20X coverage >99.995% consensus accuracy at >20X coverage

raw Error rate

25 base pairs in length and at the defined raw error rate

ogy, producing over 1 Gigabase of sequence data per day. Moreover, the Sequencer hardware is designed with the imaging and throughput ca-pacity to achieve the milestone of $1,000 ge-nome performance. Incorporating future en-hancements in flow cell surface density and tSMS reagent efficiency, the instrument will be able to

sequence over one billion bases per hour.To achieve its breakthrough performance

and simple operation, the Sequencer integrates a number of advanced technologies and innova-tive engineering solutions: Easy to Operate Touch Screen Monitor and

Graphical User Interface: Intuitive work-flow-driven operation allows you to easily define, launch and monitor a run.

Advanced Optics Design: Combines solid state lasers and cameras with a high speed, thermally-controlled stage and optics for accurate, repeatable positioning, producing the highest quality images for your single-molecule sequencing experiment.

InnovativeFluidDeliverySystem:Precision-controlled reagent mixing optimizes the tSMS chemistry, enabling efficient strand synthesis and detection of base incorporation through-out the run.

Real-time SystemMonitoring and Alerts:

Track key run metrics, including reagent levels, temperature, pressure, and other operating parameters. All metrics are recorded to a run log file for quality control and traceability.

RemoteMonitoring:The HeliScope Control Center web application supports remote monitoring and administration capabilities to manage system security, define runs, download data and obtain run status from experiments in progress.

IntegratedBarcodeReaders:Assure proper loading and tracking of single molecule sequencing reagents and flow cells.

On-Board Uninterruptible Power Supply:

Provides protection in the event of compro-mised power, allowing the instrument to reach a safe stopping point.

Modular Design: Simplifies preventative maintenance and maximizes sequencer uptime.

HeliScope Analysis EngineAs a vital component of the Helicos Genetic Analysis System, the HeliScope Analysis Engine operates downstream from the Sequencer, work

ing in parallel to convert the images captured by the Sequencer into single molecule sequence data. The Analysis Engines expansive data storage capacity allows you to transfer data to your net-work at the same time it analyzes new images, so use of the instrument remains uninterrupted and you are never waiting for your data. Key features of the Analysis Engine include: SuperiorComputingPower:Integrated multi-

core processors provide concurrent analysis of images from the Sequencer, enabling rapid turnaround between runs.

Complete Data Analysis Pipeline: Auto-matically converts strand images to sequence data in industry standard SRF (short read file) format.

On-Board Data Storage: Sufficient for a minimum of two complete runs at full sequence data output of the Sequencer, enabling flexibility of operation and maxi-mizing system efficiency.

RemoteDataManagement:The HeliScope Control Center provides a secure portal to download run data and log files from any-where, at any time. Authorized users can also delete data from the System to clear storage for new experiments.

Uninterruptible Power Supply: Provides protection from power fluctuations to safe-guard your data.

HeliScope Sample loaderThe HeliScope Sample Loader performs the operations required to prepare precision flow cells for sequencing, including rehydration, sample loading, hybridization, and washing steps. This bench-top instrument has individu-ally-addressable channels that enable loading and hybridization of up to 25 discrete samples per flow cell; much higher sample numbers are possible with sample multiplexing. The Helicos Genetic Analysis System includes two Sample Loaders, letting you prepare both flow cells in parallel to ensure uniform process conditions and data consistency.

Helicos Genetic Analysis System

HeliScope Sample Loader

The HeliScope Control Center web application provides a secure portal to monitor runs or download run data and log files from anywhere, at any time.

Specification Sheet

The HeliScope Sample Loader is designed to optimize your genomic analysis workflow with simplicity, ease, and flexibility. Features of the HeliScope Sample Loader include: 25Individually-AddressableChannels: Al-

low you to load each sample into the desired flow cell channel, providing flexibility in ex-perimental design and enhanced traceability.

Multi-ChannelPipetteCompatibleDesign:

Minimizes your hands-on time during sample preparation.

Precise On-Board Temperature Control:

Optimizes hybridization of DNA samples to the flow cell surface, providing uniform conditions across flow cell channels and across runs.

ThreePre-ProgrammedSelectableTemper-

ature Settings: Make it easy to follow the sample loading protocols provided with each application.

CompactSize: Saves valuable bench space.

Helicos Direct ConnectThe Helicos Direct Connect customer support & service team is dedicated to helping you achieve your genomic research goals. Because your original research wont wait, Helicos offers a direct connection to a trusted team of experi-enced Field Application Scientists and Field Service Engineers.

Your Helicos Direct Connect team will professionally install your Helicos System and provide on-site training and support. Your in-vestment in the Helicos Genetic Analysis System is covered by a one-year comprehensive instru-ment warranty and preventative maintenance program. Extended support & service contracts are available.

HEliCOS GENETiC ANAlYSiS SYSTEM SPECifiCATiONS

OrDEriNG iNfOrMATiONS-HGAS-001: Helicos Genetic Analysis System; includes HeliScope Single Molecule Sequencer, HeliScope Analysis Engine, two (2) HeliScope Sample Loaders, system software, installation, accessory kit, and one year warrantyS-HSl-001: HeliScope Sample Loader

OPErATiNG ENVirONMENTTemperature: 15C to 31CHumidity: Non-condensing, 20 to 80%Altitude: