diagenode SX-8G IP-Star Compact User manual

USER MANUAL
Cat. No. B03000002
IP-Star® Compact
Fully Automated System for Epigenetic Applications
Version 1 I 08.2016

Guarantee
Limited one year global warranty
Diagenode guarantees all products from any manufacturing defects as we rigorously test all products to meet strict
quality standards. Diagenode warrants that all standard components of its instruments will be free of defects in materials
and workmanship for a period of one (1) year from the date that the warranty period begins, unless the original quotation
or accompanying documentation states a different warranty period. All warranty periods begin on the date of delivery
and apply only to the first purchaser of the product. If a manufacturing defect arises and a valid claim is received within
the warranty period, Diagenode, at its discretion, will repair or replace the product in accordance with the warranty
terms and conditions stated herein. In case of repair or replacement of a product under warranty, Diagenode will cover
the expenses to return the repaired or replacement product.
This warranty covers only manufacturing defects and does not cover any damage caused by misuse, lack of compliance
to recommendations stated in the manual, neglect, accidents, abrasion, or exposure to extreme temperatures, chemical
solvents, or acids. We strongly recommend that maintenance or repairs of Diagenode’s products are performed by our
approved Diagenode service center. Improper or incorrectly performed maintenance or repairs will void the warranty.
Technical Assistance & Ordering Information
Diagenode s.a. BELGIUM | EUROPE
LIEGE SCIENCE PARK
Rue Bois Saint-Jean, 3
4102 Seraing - Belgium
Tel: [phone]
Fax: [phone]
[e-mail]
[e-mail]
Diagenode Inc. USA | NORTH AMERICA
400 Morris Avenue, Suite #101
Denville, NJ 07834 - USA
Tel: [phone]
Fax: [phone]
[e-mail]
[e-mail]
For a complete listing of Diagenode’s international distributors, visit:
http://www.diagenode.com/en/support/distributors.php
For the rest of the world, please contact Diagenode s.a.

PAGE 3
DIAGENODE SX-8G COMPACT USER MANUAL
Diagenode Inc. North America / Phone: [phone] // Fax: [phone] // Mail: [e-mail]
User Information ............................................................................4
Safety Information ...........................................................................5
Specifications ...............................................................................7
Features ................................................................................7
Performance .............................................................................7
Size, Weight and Power Requirements ........................................................7
Storage Conditions ........................................................................8
Transport Conditions ......................................................................8
Environmental Requirements ...............................................................8
About Caution Labels Inside Instrument ......................................................9
Caution Label for High Temperature .....................................................9
Caution Label for Biohazard ............................................................9
System Components ........................................................................10
Front View ..............................................................................10
Right Side View ..........................................................................10
Internal Components .....................................................................11
Installation ................................................................................13
Accessories and Disposables .................................................................14
Accessories .............................................................................14
Disposables ............................................................................15
Disposables delivered by Diagenode .....................................................15
Reagents ...............................................................................16
Basic for Hardware Operation ................................................................17
Front Door Operation .....................................................................17
Putting On and Taking Out Waste Tip Box ....................................................17
Setting Racks and Disposables in Place .....................................................18
Setting PCR Plate onto Heat/Cool Unit ......................................................19
Basic Software Operation for Running Applications ..............................................20
Start Up and Shut Down Procedure .........................................................20
Touch Panel Operation ....................................................................20
Running a Protocol .......................................................................21
Maintenance ...............................................................................27
Cleaning Procedure ......................................................................27
Greasing O-rings ........................................................................28
Troubleshooting ............................................................................29
List of Error Codes ..........................................................................31
Ordering Information ................................................................Back Cover
Contents

PAGE 4 DIAGENODE SX-8G COMPACT USER MANUAL
Europe Diagenode sa / LIEGE SCIENCE PARK // Rue Bois Saint-Jean, 3 // 4102 Seraing (Ougrée) // Belgium // Phone: [phone] // Mail: [e-mail]
User Information
Thank you for your purchase of the Diagenode System SX-8G IP-Star® Compact which has been developed for the
automation of different epigenetic applications.
This book is a guide for the user to operate the instrument safety and effectively the instrument.
Please read this book thoroughly to understand the instrument before starting operation. Also keep this book nearby the
instrument a quick reference for all the operators as needed.
• Do not operate the instrument without sufficiently understanding instructions described in this book.
• Always keep this book nearby for easy reference at any time.
Below is a list of the different devices included in the Instrument Package.
No Description Quantity Remarks
1SX-8G Compact Main Body 1
2Grip of Front Door 1w/ two fixing screws
396 Tip Rack 4
4Reagent Reservoir Rack 1
5Reagent Tip Rack 1 1for 1.5/2.0ml tubes
6Reagent Tip Rack 2 1
7Waste Tip Box 1
8Waste Chute 1
9Stylus Pen 1
10 Stylus Pen Holder 1
11 AC240V Power Cable 1
12 AC110V Power Cable 1
13 O-ring 8
14 Silicon Grease 1For O-rings
15 Fuse 1
16 Users Manual (J, E) 1 ea. This book
17 Package Check List 1

PAGE 5
DIAGENODE SX-8G COMPACT USER MANUAL
Diagenode Inc. North America / Phone: [phone] // Fax: [phone] // Mail: [e-mail]
Safety Information
Before using the SX-8G IP-Star® Compact, please read the safety instructions carefully.
Please read this manual thoroughly to understand and to get familiar with preventive maintenance procedures to avoid
any problems in instrument operation.
Installation
• Choose an adequate place for installing the SX-8G IP-Star® Compact by avoiding :
- Places exposed to direct sunshine
- Places with vibration, high humidity or dust
- Places where strong electric or magnetic fields exist
- Places where liquid or oil could be splashed to the machine
- Places where flammable gas, corrosive gas or high heat source exist.
Storage
• Unplug power cable from wall outlet when the instrument may not be used for extended period of time.
Precautions for Instrument Operation
• Possibility of biohazard from samples or extracted/purified products could not completely be eliminated in
operating the instrument. Use gloves in operating the instrument for your safety, according to the description
in this book.
• Pay close attention in handling samples with high risk of biohazard.
• When operating the instrument under low environmental temperature, keep the instrument powered on.
• Be sure no foreign materials get into the instrument from outside.
• Do not scratch or press the operation panel using knives or materials with sharp edges.
• Replacement of the fuse shall be made by field service personnel authorized by Diagenode. Contact us for fuse
replacement.
About Warranty Period
• 12 months after installation, regardless of its usage.
• This warranty excludes problems derived from inadequate storage, inadequate usage or operation, repair/
modification/maintenance of the instrument by people who are not authorized by Diagenode, though within
warranty period.
• Be sure that no water or liquid would get into the instrument or that the instrument does not
get wet. It would cause fire or electric shock.
• Do not attempt disassembling, modifying or repairing by yourself. It may cause malfunction of
instrument or electric shock to you. Ask us for repair or maintenance of the instrument.
Damage to or malfunctions of the instrument may be caused by inadequate placement of the system.

PAGE 6 DIAGENODE SX-8G COMPACT USER MANUAL
Europe Diagenode sa / LIEGE SCIENCE PARK // Rue Bois Saint-Jean, 3 // 4102 Seraing (Ougrée) // Belgium // Phone: [phone] // Mail: [e-mail]
About Disposals
• Contact us when you want to disposal the instrument.
Warning
In case of an emergency
• If an emergency situation of the instrument occurs, such as extraordinary heat, smoking, abnormal smell, etc.,
immediately unplug the power cable from wall outlet to avoid fire or electric shock to you. Please contact us for
technical support.
• If foreign material or water is splashed inside the instrument, immediately unplug the power cable from wall
outlet to avoid fire or electric shock. Please contact us for technical support.
• If power cable becomes damaged (core wire exposed or broken), immediately unplug the power cable from wall
outlet to avoid fire or electric. Please contact us for technical support.

PAGE 7
DIAGENODE SX-8G COMPACT USER MANUAL
Diagenode Inc. North America / Phone: [phone] // Fax: [phone] // Mail: [e-mail]
Specifications
SX-8G IP-Star® Compact instrument employs MAGTRATION® technology to perform multiple protocols for different
epigenetic applications (i.e. ChIP, MeDIP and MethylCap).
Features
• Full automation of epigenetic applications using Magtration® technology
• Simple operation by dedicated Graphical User Interface
• Compact with minimal installation footprint
• Multiple procedures available for various type of magnetic particle reactions by using special protocol
development software
•
Simultaneous processing of up to 8 samples by 8 nozzles
Performance
Instrument type ..................................... Desktop
Throughput ............................................ Samples --- 1-8 samples/batch
Processing time --- About 30 min./ 1-8 samples
Temperature Control ............................ Two Heat/Cool Blocks --- 4-95°C
Handling Volume ................................... 5-200 µl
Dispensing Accuracy ............................ 5-10 µl --- less than CV 20%
11-20 µl --- less than CV 10%
21-200 µl --- less than CV 2%
* Accuracy with distilled water at room temperature 20-25°C
Note: Processing Time depends on protocols.
Size, Weight and Power Requirement
Size ........................................................ W800xD700xH675mm (disregarding prongs)
Weight .................................................... 97kg (excluding accessories and disposables)
Power Required .................................... Power Required: AC100 ~ 240V, 50/60Hz, 440VA
• Do not share power source with other instruments.
• Do not place close to instruments that emit noise or can cause a power fluctuation.
• Connect power cable to wall outlet with ground line.

PAGE 8 DIAGENODE SX-8G COMPACT USER MANUAL
Europe Diagenode sa / LIEGE SCIENCE PARK // Rue Bois Saint-Jean, 3 // 4102 Seraing (Ougrée) // Belgium // Phone: [phone] // Mail: [e-mail]
Storage Conditions
Temperature .......................................... +5 - +40°C
Relative Humidity .................................. 15-75% Non-Condensing
Barometric Pressure ............................ More than 70kPa(min)
Transport Conditions
Temperature .......................................... -25 - +60°C
Relative Humidity .................................. 15-75% Non-Condensing
Barometric Pressure ............................ More than 70kPa(min)
Environmental Requirements
Temperature .......................................... +15 - +30°C
Relative Humidity .................................. 15-75% Non-Condensing
Altitude .................................................. Up to 2,000 m
Space ..................................................... Keep distances from walls as shown below for ventilation, maintenance
work, etc. Also keep more than 200mm space over the instrument.
Wall
SX-8G Compact
Wall Wall
More
than
200
mm
More
than
200
mm
More than 200 mm
Back
Front

PAGE 9
DIAGENODE SX-8G COMPACT USER MANUAL
Diagenode Inc. North America / Phone: [phone] // Fax: [phone] // Mail: [e-mail]
About Caution Labels Inside Instrument
Caution Label for High Temperature
Caution Label for Biohazard
Place attached: Waste Chute
• Place the instrument on horizontal surface.
• Do not place the instrument where it will get direct sunlight or vibration.
• When operating instrument in a cold chamber or cold room, keep the instrument power on
to avoid condensation.
The part where this label is attached becomes hot. Be sure not to touch while working.
The part where this label is attached (inside cover) has the possibility of biohazard contamination
with samples or extracted/purified products. Take care to avoid contamination.

PAGE 10 DIAGENODE SX-8G COMPACT USER MANUAL
Europe Diagenode sa / LIEGE SCIENCE PARK // Rue Bois Saint-Jean, 3 // 4102 Seraing (Ougrée) // Belgium // Phone: [phone] // Mail: [e-mail]
System Components
Front View
Right Side View
On the right side of the instrument. The Power Switch and Communication Port Connector are located at the front and
Power Inlet Connector and Fuse Unit are located at the back.
Note:
Replacement of the fuse shall be made by field service personnel authorized by Diagenode. Contact us for fuse
replacement.
Waste Tip Box Access Door
Front Door
Operation Touch PanelPower Lamp
Front Back
Power Switch
Communication Port
Connector (RS-232C, for
maintenance)
Power Inlet Connector
Fuse Unit

PAGE 11
DIAGENODE SX-8G COMPACT USER MANUAL
Diagenode Inc. North America / Phone: [phone] // Fax: [phone] // Mail: [e-mail]
Internal Components
The Magtration® Unit and Stage Unit are located inside the instrument.
1. Magtration® Unit
• Nozzle Unit: This unit has 8 nozzles to process up to 8 samples simultaneously with accurate and rapid
aspiration/dispensing.
• Magnet: Eight magnets are aligned with 8 tips to simultaneously separate magnetic particles for up to 8
samples.
2. Stage
• Heat/Cool Unit
Two Heat/Cool Units are equipped and can hold 8 and 12 tubes-stripes. Temperature can be set for 4 to 95°C.
depending on protocols.
• Rack Holder
Racks and Disposables to be used vary by protocols. Refer to Application Manual for details.
• Waste Chute
It leads waste tips and liquid to Waste Tip Box.
Magtration® Unit
Heat/Cool Unit
Stage
Waste Chute
Rack Holder

PAGE 12 DIAGENODE SX-8G COMPACT USER MANUAL
Europe Diagenode sa / LIEGE SCIENCE PARK // Rue Bois Saint-Jean, 3 // 4102 Seraing (Ougrée) // Belgium // Phone: [phone] // Mail: [e-mail]
Example of loading racks and disposables
• 96 Tip Rack: Holds 8x12 pieces of DN70 Tips.
• Reagent Reservoir rack: Holds Reagent Container M or L.
• Reagent Tip Rack 1: Holds 12 Tips (for single pipetting) and 12 Screw Capped Tubes of 1.5ml or 2.0ml.
• Reagent Tip Rack 2: Holds 8 Tips (for single pipetting), 4 Screw Capped Tubes of
1.5 ml or 2.0 ml and 4 Screw Capped Tubes of 5.0 ml.
• Microtiter Plates: Holds 96 Wells Microplates.
• Waste Chute: Place where waste tips, etc. are discarded.
Note:
The above layout is an example and it could vary depending the protocols.,
Microplates
Waste Chute Reagent Tip Rack 1
96 Tip Rack
Heat/Cool Units
Nozzle Unit

PAGE 13
DIAGENODE SX-8G COMPACT USER MANUAL
Diagenode Inc. North America / Phone: [phone] // Fax: [phone] // Mail: [e-mail]
Installation
Long screw
Short screw
1. Remove protection films attached on the instrument.
2. Open Front Door and fix Grip of Front Door by two screws supplied.
3. Remove the fixing jig for X-Axis Magtration Unit fixed by 3 screws inside instrument.
4. Remove cushioning and desiccant agents.
5. Open Right Side Cover by removing 2 fixing screws.
6. Remove Y-Axis fixing jig to right side base by removing 3 fixing screws. Then replace Right Side Cover and fix it by
two screws.
7. Open Left Side Cover by removing 2 fixing screws.
8. Remove Y-Axis fixing jig to left side base by removing 4 fixing screws. Then replace Left Side Cover and fix it by two
screws.
9. Connect Power Cable to Power Inlet Connector on the right side of the instrument. Then turn Power Switch on
assuring that Front Door and Waste Tip Box Door are closed securely.
10. Installation completed
Do not use power cable other than provided to avoid issues such as temporary power failure or risk
of fire.
When transferring the instrument, make sure that all the fixing jigs for all axes are attached
securely and that cushioning is set between Magtration Unit and Stage Unit to protect nozzles from
free movement.

PAGE 14 DIAGENODE SX-8G COMPACT USER MANUAL
Europe Diagenode sa / LIEGE SCIENCE PARK // Rue Bois Saint-Jean, 3 // 4102 Seraing (Ougrée) // Belgium // Phone: [phone] // Mail: [e-mail]
Accessories and Disposables
Accessories
Description Quantity
96 Tip Rack 4
Reagent Reservoir Rack 1
Reagent Tip Rack 1 1
Reagent Tip Rack 2 1
Waste Tip Box 1
Waste Chute 1
Stylus Pen 1
Stylus Pen Holder 1
Power Cable, for AC240V 1
Power Cable, for AC110V 1
O-ring 8
Silicon Grease 1
Fuse 1
96 Tip Rack
It holds Tips up to 8x12 pieces.
Reagent Reservoir Rack
It holds up to 8 Medium Reagent
Container, or up to 4 Large Reagent
Container. (Container L is double
sized of Container M.)
Reagent Tip Rack 1
(for 1.5/2.0ml tube)
It holds 12 Tips (for single pipetting)
and 12 Screw Capped Tubes of
1.5ml or 2.0ml.
Reagent Tip Rack 2
(for 1.5/2.0/5.0ml tube)
It holds 8 Tips (for single pipetting),
4 Screw Capped Tubes of 1.5ml or
2.0ml and 4 Screw Capped Tubes of
5.0ml.
Waste Tip Box
It receives discarded Tips coming
down through Waste Chute.
Waste Chute
It leads discarded Tops to Waste Tip
Box.

PAGE 15
DIAGENODE SX-8G COMPACT USER MANUAL
Diagenode Inc. North America / Phone: [phone] // Fax: [phone] // Mail: [e-mail]
Stylus Pen
It is used to operate instrument
through Touch Panel. It could also
be used as a ballpoint pen.
Stylus Pen Holder
It is a holder for Stylus Pen and can
be magnetically attached onto the
instrument surface.
Disposables
Disposables delivered by Diagenode
Cat. No. Product Description Place to be Used
WA-006-0010 Medium Reagent Container for SX-8G Compact Reagent Reservoir Rack
WA-007-0020 Large Reagent Container for SX-8G Compact Reagent Reservoir Rack
WC-001-1000 Tips (bulk) 96 Tip Rack, Reagent Tip Rack 1,2
WC-002-0960 Tips (box) 96 Tip Rack, Reagent Tip Rack 1,2
WA-003-0010 96 well microplates Microplates Module
WA-001-0080 200 µl tube strips (12 tubes/strip) + cap strips Heat/Cool Units
WA-002-0120 200 µl tube strips (8 tubes/strip)
+ cap strips for SX-8G IP-Star® Compact Heat/Cool Units
WA-008-0100 2.0 ml screew capped tube Reagent Tip Rack 1.2
Note: Disposables needed vary by application and also disposables other than listed above may be recommended in
some applications.
Medium Reagent Container Large Reagent Container Tips

PAGE 16 DIAGENODE SX-8G COMPACT USER MANUAL
Europe Diagenode sa / LIEGE SCIENCE PARK // Rue Bois Saint-Jean, 3 // 4102 Seraing (Ougrée) // Belgium // Phone: [phone] // Mail: [e-mail]
Reagents
Refer to each Application Manual for reagents to be used and directions for use.
• Do not reuse any disposables/reagents to avoid contamination or instrument malfunction.
• Do not use disposables/reagents other than specified to avoid instrument malfunction.
• When discarding disposables, follow the instructions defined by your facility or regional laws.

PAGE 17
DIAGENODE SX-8G COMPACT USER MANUAL
Diagenode Inc. North America / Phone: [phone] // Fax: [phone] // Mail: [e-mail]
Basic hardware operation
Front Door Operation
Front Door moves up and down, and it is held at the uppermost position when fully moved up. Hold only the Grip of the
Front Door to open or close the door to avoid fingers getting pinched. Front Door is locked during operation. Open Front
Door after it completely finished its operation.
Putting On and Taking Out Waste Tip Box
Gently open and close the access door to avoid damage.
Waste Chute
Waste Chute can be removed by taking it out from Waste Tip Discard Hole for
cleaning.
Waste Tip Box
Waste Tip Box can be removed for discarding Tips or for cleaning.
Open Front Door first and then open access door for Waste Tip box. Take out
Waste Tip Box by holding its grip.
Make sure that the access door for Waste Tip Box is closed after setting
Waste Tip Box, otherwise you cannot start a protocol run.
Gently open and close the access door to avoid damage, when removing the waste Tip Box.

PAGE 18 DIAGENODE SX-8G COMPACT USER MANUAL
Europe Diagenode sa / LIEGE SCIENCE PARK // Rue Bois Saint-Jean, 3 // 4102 Seraing (Ougrée) // Belgium // Phone: [phone] // Mail: [e-mail]
Setting Racks and Disposables in Place
Setting Racks
Set Racks required by the selected application at each designated position,
taking note of positioning direction.
Be sure to place Racks inside frames completely without uplift.
96 Tip Rack
No positioning
Reagent Reservoir Rack
Position the cut to Spring
Reagent Tip Rack 1
Tubes on front side
Reagent Tip Rack 2
Tubes on front side
• When Racks are not correctly positioned, Tip pickup failure, inaccurate aspiration/dispensing or
instrument malfunction may occur.
• When Reagent Tip Racks 1or 2 are not correctly positioned, Tips will not be picked up resulting
instrument malfunction.
Setting 96 well microplates
Set Microtiter Plates in positions designated by the selected application,
taking care of positioning direction.
Cut
1,2,3,...
A,B,C,...
• When 96 well microplates are not positioned correctly, adequate aspiration/dispensing or liquid
mixing may not be performed resulting inadequate extraction/purification.
• If non-recommended microtiter plates are used, adequate aspiration/dispensing or liquid
mixing may not be performed resulting inadequate extraction/purification.

PAGE 19
DIAGENODE SX-8G COMPACT USER MANUAL
Diagenode Inc. North America / Phone: [phone] // Fax: [phone] // Mail: [e-mail]
Setting PCR Plate onto Heat/Cool Unit
Place PCR Plate on Heat/Cool Unit taking care of the positioning direction and push it down to fit completely.
Cut
1,2,3,...
A,B,C,...
• When PCR Plate is not positioned correctly, adequate aspiration/dispensing or liquid mixing
may not be performed resulting inadequate extraction/purification.
• If non-recommended PCR plate is used, adequate aspiration/dispensing or liquid mixing may
not be performed resulting inadequate extraction/purification.

PAGE 20 DIAGENODE SX-8G COMPACT USER MANUAL
Europe Diagenode sa / LIEGE SCIENCE PARK // Rue Bois Saint-Jean, 3 // 4102 Seraing (Ougrée) // Belgium // Phone: [phone] // Mail: [e-mail]
Basic Software Operation for
running applications
Start Up and Shut Down Procedure
Start Up
• Close access door for Waste Tip Box and Front Door.
(Refer to sections “7.2 Putting On and Taking Out Waste Tip Box” and “7.1 Front Door Operation.”)
• Turn on Power Switch located on the right side of the instrument.
• When the instrument is turned on, the Touch Panel screen is activated.
Shut Down
• Turn instrument power off, making sure that the instrument is not operating.
* If it is operating, stop operation by pressing “Protocol Stop” button.
Touch Panel Operation
Using Stylus Pen, select desired function.
• Operate Touch Panel with Stylus Pen gently without excessive force to avoid damage.
• Use only the Stylus Pen provided. Do not to damage the Touch Panel screen by using tools with
sharp edges.