ThermoFisher Scientific ProFlex PCR System User manual

ProFlex™PCR System Installation and Operation
Catalog Numbers 4483636, 4483637, 4483638, 4484071, 4484073, 4484074, 4484075, 4484076, 4484078
Pub. No. 4483807 Rev. E
This document summarizes the procedures for installing and
using the ProFlex™ PCR System, including "beer than gradient™"
VeriFlex™ technology, that are described in detail in the ProFlex™
PCR System User Guide (Pub. no. MAN0007697).
Figure 1 ProFlex™3 × 32‑Well PCR System
Note: For safety and biohazard guidelines, see the “Safety”
appendix in the ProFlex™ PCR System User Guide (Pub. no.
MAN0007697). Read the Safety Data Sheets (SDSs) and follow the
handling instructions. Wear appropriate protective eyewear,
clothing, and gloves.
How to install the ProFlex™PCR System
Materials required:
• Can of compressed air
Note: The can of compressed air is used to deliver a blast of
air into each well of a sample block to remove particles that
may have collected during shipping of the product.
•(Optional) Electrical protective devices
Note: We support the use of one or more of the following
electrical protective devices:
·Power line regulator (1.5-kVA)
·Surge protector/line conditioner (10-kVA)
·Uninterruptible power supply (1.5-kVA)
Set up the ProFlex™PCR System
IMPORTANT! Save the packing materials and box in case you
need to ship the instrument to us for service.
1. To unpack the ProFlex™ PCR System, open the shipping
crate. You would have received three boxes for the ProFlex™
System, one containing the base module, a second containing
the block module, and the third containing accessories.
2. Remove the packing material, then inspect the instrument for
shipping damage.
Figure 2 ProFlex™Base packing
Figure 3 ProFlex™3x32-Well Sample Block packing
3. Move the ProFlex™ System to an installation site that:
• Meets the spatial and weight requirements for the
ProFlex™ System (see “Technical specications” on
page 9)
• Is within 1 m (3 ft) of a 800 VA power receptacle
QUICK REFERENCE
For Research Use Only. Not for use in diagnostic procedures.

4. Face the unit away from you.
Figure 4 Rear view of ProFlex™Base and ProFlex™3x32-Well
Sample Block
5. Place the block (ProFlex™ 96-Well Sample Block or ProFlex™
3x32-Well Sample Block) on top of the ProFlex™ Base with the
latching mechanism to the right hand side.
Figure 5 Latching mechanism during installation
6. Push the latching mechanism all the way to the left to secure
the block onto the base.
Figure 6 Latching mechanism securing the ProFlex™3x32-
Well Sample Block to the ProFlex™Base
7. Connect the ProFlex™ System:
a. Connect the power cord to the ProFlex™ System.
Figure 7 Power cord insertion point
b. Install any desired electrical protective devices.
c. Connect the power cord to an 800 VA power receptacle.
d. In the absence of the ethernet cable or the ethernet port,
you can connect the instrument to the network via the
USB-enabled Wi-Fi Card (Part no. 4483658) as shown in
the following graphic.
Insert the Wi-Fi Card into the USB port at the back of
the ProFlex™ System. For instructions on seing up the
wireless connection, see “How to set up the wireless
connection in the ProFlex™ System” on page 3.
Figure 8 USB-enabled Wi-Fi Card port
8. Press the power buon, then wait for the instrument to start
up. Proceed with the installation after the touchscreen
displays the Main Menu, indicating that the ProFlex™ System
startup is complete.
When you power on the instrument, the instrument may
require about 30 seconds to start up.
Figure 9 Location of the power button
The Home screen will display following successful
installation.
Note: The following screenshot displays the Home screen of
the ProFlex™ 3x32-Well System. In the ProFlex™ 96-Well
System, the ProFlex™ Dual 96-Well System, and the ProFlex™
Dual Flat PCR System, the Home screen displays only one
dial.
2 ProFlex™PCR System Installation and Operation Quick Reference

Figure 10 ProFlex™3x32-Well System Touchscreen Home
How to set up the wireless connection in the
ProFlex™System
See “Set up the ProFlex™ PCR System” on page 1 on connecting
the USB-enabled Wi-Fi Card into the ProFlex™ System. To set up
the wireless connection:
1. Power on the ProFlex™ Instrument, and in the Home screen,
touch Seings.
2. In the Seings screen, touch Device Seings.
3. In the Device Seings screen, touch Network Connection. In
the Network Connection Type screen, touch Wireless.
The Search Wireless Network screen will come up and the
wireless symbol will appear active. Touch Cancel to exit the
screen.
Note: During initial setup, if you selected the Wired option in
the Network Connection Type screen, you will be required to
enter your IP address if you selected the Static IP wired
option. If you selected the Dynamic IP wired option, the IP
address is automatically populated.
4. Once a wireless connection has been detected, a list of the
available networks will be displayed in the Choose Network
screen. Touch the network name of your choice or touch Join
Other Network.
5. In the Find and Join a Network screen, enter the name and
security type of the network.
Note: When you touch in the Network Name eld, a keypad
will come up to facilitate making the entry.
6. From the Security type drop-down menu, touch to select the
security type and enter the relevant information in the
screen.
Note: Contact your IT Systems Administrator for information
on security type.
You can select from the following options:
• WEP
• WPA Personal
• WPA2 Personal
• WPA Enterprise
• WPA2 Enterprise
7. Touch Join to continue or Cancel to exit from the Find and
Join a Network screen.
8. Depending on the security type you have selected, enter the
appropriate passwords and touch Join.
If you entered the correct information, the Network
Connection Complete screen will appear. Touch OK to
continue. If you entered incorrect information, the Network
Connection Failed screen will come up and you will require
to go back to security type screen to resolve the issue. Touch
OK to continue.
Set up mobile and cloud connectivity to ProFlex™
instrument and your mobile device
Create an account on Thermo Fisher Connect
1. From your internet browser, visit thermosher.com/cloud
2. If you already have an Thermo Fisher Scientic account,
login on the Cloud page.
3. If you do not already have a Thermo Fisher Scientic
account, follow the prompts to create a new one.
4. Once you have logged in to thermosher.com/cloud, an
email will automatically be sent to you to verify your email
address.
5. Open your email and click on the link to visit the cloud page
for the rst time.
6. If you have done this successfully, you will receive a
conrmation email telling you that you have connected to the
Thermo Fisher Connect.
Set mobile and cloud connectivity in the ProFlex™
Instrument
1. Connect your ProFlex™ System to the internet using a
wireless or wired connection.
Note: See “How to set up the wireless connection in the
ProFlex™ System” on page 3 for seing up a wireless
connection or refer to the ProFlex™ PCR System User Guide
(Pub. no. MAN0007697) for seing up a wired connection in
the ProFlex™ System.
2. Turn on the connectivity to the Thermo Fisher Scientic
Server.
a. In the Home screen, touch Seings to open the Seings
screen.
b. In the Seings screen, touch Device Seings.
ProFlex™PCR System Installation and Operation Quick Reference 3

c. In the Device Seings screen, touch Remote Service.
Figure 11 ProFlex™PCR System Device Settings screen
d. Using the On-O toggle buon, enable the Remote
Service. Touch OK.
Login as the Administrator login to link the instrument
to the Cloud
1. Touch Sign In from the Main screen.
2. Touch Sign In from the Sign In screen.
3. Touch Administrator when asked to choose screen name.
4. Enter the password for the Administrator account. By
default, the password is "password".
5. You will then be redirected back to the home screen.
6. Touch My Prole from the Main screen.
7. Touch on the Cloud tab.
8. Enter your Thermo Fisher Connect user name and password
and select Link Account. Create an account on
thermosher.com if you have not done so already.
9. Upon successful authentication, the Administrator is linked
to Thermo Fisher Connect. Subsequently, any user can log in
and proceed to perform linking the instrument to their
Thermo Fisher Connect account.
Note: The administrator account must be activated rst to
connect the instrument to the Cloud. Afterwards, many users
can create unique user proles using their own log in
information. Each unique prole must have a unique Thermo
Fisher Connect account.
Create a new user profile on the instrument
In the home screen:
1. Touch Sign In.
2. Touch Get Started.
3. Touch Name, then enter a username and touch Enter.
4. Touch Password, then enter password and touch Enter.
5. Touch Conrm Password and repeat the previous step.
6. Touch Create prole.
Note: You can link your instrument prole to your Thermo
Fisher Connect account at this point, or you can link after
signing in.
7. Sign in to the prole you just created.
Sign in
In the home screen:
1. Touch Sign In.
2. Touch Sign In, then select your username.
3. Enter your password, then touch Enter.
Link your instrument prole to Thermo Fisher Connect once
signed in.
Sign out
In the home screen:
1. Touch My Prole.
2. Touch Sign Out.
Link instrument profile to your Thermo Fisher Connect
account
Linking your prole to your Thermo Fisher Connect account
allows you to:
• Download methods stored in your Cloud account to the
instrument.
• Transfer methods from the instrument to your Cloud account.
4 ProFlex™PCR System Installation and Operation Quick Reference

Link your instrument profile to Thermo Fisher Connect
1. Sign in to your instrument prole.
2. Touch My Prole.
3. Touch Cloud.
4. Enter your Thermo Fisher Connect username and password,
then touch Link Account.
5. Touch Done to exit the conrmation screen.
Your instrument prole will link to your Thermo Fisher Connect
account.
Set up mobile connectivity on a mobile device
Download the "Instrument Connect Mobile Application" on your
mobile device.
1. For an iPad™ or an iPhone™, download the application from
the iTunes™ music store or by searching for Instrument
Connect by Thermo Fisher Scientic.
2. For Android devices, download the application from
Google™ Play by searching for Instrument Connect by
Thermo Fisher Scientic.
3. Log in to the instrument connect mobile application using
your Thermo Fisher Connect login and password.
How to use the ProFlex™System
You can operate the ProFlex™ System from the touchscreen. For
detailed instructions on using the ProFlex™ System, refer to the
ProFlex™ PCR System User Guide (Pub. no. MAN0007697), available
at thermosher.com .
In the Home screen for the Touchscreen, you can set up a run by
creating a new method for a run. To set up a run using a new
method:
1. Touch New Method or where it says Set Up Run on an
available block.
2. Select a template.
3. In the edit mode, edit the parameters of the method template
such as temperature, time, number of steps/stages.
4. To reach advanced editing options, touch Manage Steps,
followed by touching Advanced Options. Advanced editing
options include: VeriFlex™ for optimization, simulation
modes, ramp rates, and AutoDelta.
5. Save the new method in a folder or directly start a run by
touching Start Run
Note: In case of the ProFlex™ 3x32 Well PCR System, you will
need to choose a block prior to starting a run.
How to maintain the ProFlex™System
To ensure proper operation:
• Regularly:
– Wipe the ProFlex™ System surfaces with a lint-free cloth.
– Clean the vents, touchscreen, and sample block of the
ProFlex™ System.
– Clean the sample wells with 100% isopropanol.
•Use correct consumables.
Use only consumables recommended for the ProFlex™
System. Use of consumables that are larger or smaller than
the specied volume can damage the instrument,
contaminate the sample block, and/or decrease the PCR yield
(due to inecient thermal transfer).
•Do not use sharp objects on the touchscreen.
Use only your ngers or blunt objects to enter commands on
the ProFlex™ instrument touchscreen. Sharp and/or pointed
objects such as writing utensils can damage the surface of the
touchscreen.
•Back up frequently.
Routinely back up the congurations and les of your
ProFlex™ System to a USB drive. Regular backups protect
against data loss caused by user error, power failure, or
instrument error. For more information, refer to the ProFlex™
PCR System User Guide (Pub. no. MAN0007697).
ProFlex™PCR System Installation and Operation Quick Reference 5

Prevent crushing tubes
IMPORTANT! Prevent crushing tubes in the thermo cycler by
using retainer/tray systems.
The lid on the thermo cycler provides signicant downward
pressure on the plastic plates and tubes. When only using a small
amount of tubes, it is possible that the pressure from the lid can
cause tubes to crush and deform. To prevent this tray/retainers
must be used.
ProFlex™3 × 32‑Well PCR System
IMPORTANT! The retainer is essential and we recommend its
usage at all times along with the ProFlex™ 3 × 32-Well PCR System.
Figure 12 MicroAmp™3x32-Well Retainer (Part Number 4481669)
ProFlex™96‑well PCR System
IMPORTANT! The retainer is essential and we recommend its
usage at all times with the ProFlex™ 96-well PCR System.
How to use MicroAmp™tube strips
When using strip tubes or single tubes with detached caps, use the
blue retainer tray found in the instrument's starter pack.
Fill, seal, and load tube strips
1. Separate the tray from the retainer by releasing the catch as
indicated in the graphic.
1
2
3
1
1Release catch
2MicroAmp™96-Well Retainer
3MicroAmp™96-Well Tray
2. Place the tray on the splash-free 96-well base.
3. Load the tube strips on the tray.
4. Place the retainer over the tubes.
5. Pipee the sample into the tubes.
6. Seal the tube strip using the MicroAmp™ strip caps. See “Seal
tubes strips with cap strips” on page 6 for instructions.
7. Remove the splash-free base and place the sealed tube strips
along with the retainer into the instrument.
1
2
4
3
5
1MicroAmp™8-Cap strip
2MicroAmp™96-Well Retainer
3MicroAmp™8-Tube Strip (0.2-mL) or MicroAmp™Reaction
Tube without Cap (0.2-mL)
4MicroAmp™96-Well Tray
5MicroAmp™Splash Free 96-Well Base
Seal tubes strips with cap strips
IMPORTANT! Apply signicant downward pressure on the
sealing tool in all steps to form a complete seal on top of the tubes.
1. Align and place the cap strips on the tubes.
2. Seal the cap strips using the rocking capping tool:
a. Slip your ngers through the handle with the holes in
the tool facing down.
b. Place the holes in the tool over the rst eight caps in a
row.
c. Rock the tool back and forth a few times to seal the
caps.
d. Repeat for remaining caps in the row, then for all
remaining rows.
How to use MicroAmp™tubes
When using strip tubes or single tubes with aached caps, use the
black retainer tray found in the instrument's starter pack.
6 ProFlex™PCR System Installation and Operation Quick Reference

Fill, seal, and load tubes
1. Set the 96-well tray on a splash-free 96-well base.
2. Place the reaction tubes in the tray.
1
2
3
1MicroAmp™Reaction Tube with Cap (0.2-mL)
2MicroAmp™96-Well Tray for VeriFlex™Blocks
3MicroAmp™Splash Free 96-Well Base
3. Pipee the samples into the reaction tubes.
4. Cap the tubes.
5. Place the sealed reaction tubes and tray into the instrument without the splash-free base.
Consumables
IMPORTANT! In Table 1, the Model/ Format column indicates the model(s) of the ProFlex™ System that are compatible with the associated
kit or disposable. Before ordering, verify that your ProFlex™ System supports the kit or disposable.
Table 1 ProFlex™PCR System Consumables
Consumable Model/ Format Cat. No.
Single Tubes[1]
MicroAmp™Reaction Tube with Cap, 0.2-mL 32‑Well, 96‑Well, and
2x96 Well
N8010540
N8011540
MicroAmp™Reaction Tube with Cap, Assorted Colors, 0.2-mL N8010840
MicroAmp™Reaction Tube with Cap, Autoclaved, 0.2-mL N8010612
MicroAmp™Reaction Tube without Cap, 0.2-mL N8010533
N8011533
MicroAmp™Reaction Tube without Cap, Assorted Colors, 0.2-mL N8010833
MicroAmp™Optical Tube without Cap, 0.2-mL N8010933
MicroAmp™96-Well Reaction Tube/Tray/Retainer Set, 0.2-mL 96‑Well and 2x96‑Well 403083
403086
Reaction Trays
MicroAmp™96-Well Reaction Tray for VeriFlex™Systems 0.2 (96‑Well and
2x96‑Well)
4379983
ProFlex™PCR System Installation and Operation Quick Reference 7

Consumable Model/ Format Cat. No.
MicroAmp™96-Well Reaction Tray/ Retainer for VeriFlex™Systems 4381850
MicroAmp™3x32-Well Retainer for VeriFlex™Systems 4481669
Seals and Covers
MicroAmp™Clear Adhesive Film 0.2 (96‑Well, 2x96‑Well,
and 2x384‑Well)
4306311
MicroAmp™Optical Adhesive Film 4360954
4311971
MicroAmp™Optical Adhesive Film Kit 4313663
96-Well Plates
MicroAmp™Optical 96-Well Reaction Plate 0.2 (96‑Well and
2x96‑Well)
N8010560
4316813
MicroAmp™Optical 96-Well Reaction Plate with Barcode 4306737
4326659
MicroAmp™Optical 96-Well Reaction Plate with Barcode and Optical Caps 403012
MicroAmp™Optical 96-Well Reaction Plate with Barcode and Optical Adhesive Films 403012
384-Well Plates
EnduraPlate™Optical 384-Well Plates (20 Plates) 2x384‑Well 4483285
EnduraPlate™Optical 384-Well Plates (500 Plates) 4483273
MicroAmp™Optical 384-Well Reaction Plate with Barcode (50 Plates) 4309849
MicroAmp™Optical 384-Well Reaction Plate with Barcode (500 Plates) 4326270
MicroAmp™Optical 384-Well Reaction Plate with Barcode (1000 Plates) 4343814
MicroAmp™Optical 384-Well Reaction Plate (1000 Plates) 4306311
Dual Flat Block Consumables
QuantStudio™3D Digital PCR Chip Adapter for Dual Flat Block Thermal Cycler (1 kit) Dual Flat Block 4485513
QuantStudio™3D Digital PCR Chips (12 Chips) 4485507
8-Well Strips[2]
MicroAmp™8-Tube Strip, 0.2-mL 0.2 (32‑Well and
96‑Well)
N8010580
MicroAmp™8-Tube Strip, Assorted Colors, 0.2-mL N8010838
MicroAmp™Optical 8-Tube Strip, 0.2-mL 4316567
MicroAmp™8-Cap Strip N8011535
MicroAmp™8-Cap Strip, Assorted Colors N8010835
MicroAmp™Optical 8-Cap Strip 4323032
[1] There are no 32-well Microplates available for use with the ProFlex™3x32-Well PCR System. Instead, single tubes with caps are used for running the PCR samples.
[2] There are no 32-well Microplates available for use with the ProFlex™3x32-Well PCR System. Instead, tube strips with caps or cap strips are used for running the PCR
samples.
8 ProFlex™PCR System Installation and Operation Quick Reference

Table 2 ProFlex™PCR System sample handling supplies
Part Name Cat. No.
MicroAmp™Adhesive Film Applicator 4333183
MicroAmp™Multi-Removal Tool 4313950
MicroAmp™Cap Installing Tool (Handle) 4330015
MicroAmp™96-Well Base N8010531
MicroAmp™Splash Free 96-Well Base 4312063
MicroAmp™Centrifuge Adapter N8013822
Technical specifications
The following table displays the system specications for the ProFlex™ PCR System using the ProFlex™ 96-Well Sample Block, ProFlex™ 3x
32-Well Sample Block, ProFlex™ 2x 96-Well Sample Block, ProFlex™ 2x Flat Sample Block, ProFlex™ 2x 384-Well Sample Block
Table 3 ProFlex™PCR System technical specifications: ProFlex™96-Well Sample Block, ProFlex™3x32-Well Sample Block, ProFlex™2x 96-Well
Sample Block, ProFlex™2x Flat Sample Block, ProFlex™2x 384-Well Sample Block
Specification
Block format
ProFlex™96-Well
Sample Block
ProFlex™3x 32-Well
Sample Block
ProFlex™2x 96-
Well Sample Block
ProFlex™2x Flat
Sample Block ProFlex™2x 384-Well
Sample Block
Maximum block ramp rate 6.00°C/sec 3.00°C/sec 1.60°C/sec 3.00°C/sec
Maximum sample ramp rate 4.40°C/sec 1.60°C/sec N/A 1.60°C/sec
Temperature accuracy ±0.25°C (35 to 99.9°C)
Temperature range for
protocol run 0°C to 100.0°C
Temperature uniformity
<0.5°C (30 seconds after reaching 95°C)
For each block: <0.5°C (30 seconds after
reaching 95°C)
Overall (across two blocks): <0.75°C (30
seconds after reaching 95°C)
<0.5°C (30 seconds
after reaching 95°C)
Dimensions • Height: 27.2 cm (10.7 in)
• Width: 33.0 cm (13 in)
• Depth: 56.5 cm (22 in)
Weight 18.75 kg (41 lb) 19.3 kg (42.5 lb) 19.6 kg (43.2 lb) 20.35 kg (45 lb)
PCR volume range 10 — 80 µL 10 — 100 µL <1 µL 5 — 20 µL
Instrument memory USB, on-board
Display interface 8.4" color TFT LCD
Power 100-240 V, 50-60 Hz Max: 950 W, Max Current: 12 A
Note: For Australia (AU) / New Zealand (NZ) only: 230 VAC, 50 Hz, Max: 950 W, Max Current: 10 A
VeriFlex™blocks 96-well, 0.2 mL
VeriFlex™block: 25°C
(5°C zone-to-zone), 6
VeriFlex™zones
3 x 32-well, 0.2 mL
independent control:
5°C, 2 VeriFlex™zones
N/A
Ambient humidity 15% - 80% Relative Humidity, non-condensing
(acceptable range)
Ambient operating
temperature 15°C to 30°C (acceptable range)
ProFlex™PCR System Installation and Operation Quick Reference 9

Table 4
Port Description
AC power cable port
10/100 Fast Ethernet port for connecting to a network
USB v1.0 port for connecting to an external network drive, jump drive, or other USB storage device
RS232 serial communication port for connecting the probe for the Temperature Verification Kit
USB v1.0 port for connecting to USB-enabled Wi-Fi Card
Limited product warranty
Life Technologies Corporation and/or its aliate(s) warrant their products as set forth in the Life Technologies' General Terms and
Conditions of Sale found on Life Technologies' website at www.thermosher.com/us/en/home/global/terms-and-conditions.html. If you
have any questions, please contact Life Technologies at www.thermosher.com/support.
The information in this guide is subject to change without notice.
DISCLAIMER: TO THE EXTENT ALLOWED BY LAW, LIFE TECHNOLOGIES AND/OR ITS AFFILIATE(S) WILL NOT BE LIABLE FOR SPECIAL, INCIDENTAL, INDIRECT, PUNITIVE,
MULTIPLE, OR CONSEQUENTIAL DAMAGES IN CONNECTION WITH OR ARISING FROM THIS DOCUMENT, INCLUDING YOUR USE OF IT.
Revision history: Pub. No. 4483807
Revision Date Description
E 04 August 2016 Rebrand, add Thermo Fisher Connect protocol.
D 25 September 2013 Baseline for this revision history.
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4 August 2016