Biotage Selekt User manual

Biotage®Selekt
User Manual

Biotage®Selekt User Manual | © Biotage 2018
Biotage®Selekt
User Manual
CONTENTS
System Overview
1 Columns
1 Racks and Vessels
2 Solvent Supply
2 Internal UV Detector
2 Collection and Fractionation Methods
2 Audible Alarm
2 Lighting
Prepare the System
3 Inspect the Tubing
3 Mount Column Holders
3 Start Up the System
3 Assign Solvents
4 Prime the Solvent Inlets
Set Up a Purification
5 Specify the Gradient
6 Specify the Information Parameters
6 Specify the Column Parameters
7 Specify the Collection Parameters
7 Specify the Rack Parameters
Start, Monitor, and Control a Purification
8 Start a Purification
8 Monitor the Purification in Progress
9 Replace and Allocate Racks During the Run
9 Line Flush, Decompression, and Detector Flush
9 Auto Extend
9 Pause, End, or Abort a Purification
9 Edit and Manually Extend a Purification
 Unload a Purification
10 Flush the Column with Air
10 Purge the Column
10 Unload the Run
10 Flush the System
10 Shut Down the System
 Results
11 Export a Report to USB
11 Base a New Run on a Previous Run
 Flushes and Purge
12 Flush
12 Air Flush
12 Purge
 Data Administration
13 Manage Column Types
13 Manage Solvents
14 Manage User Accounts
 System Settings
15 System
15 Purification
 Maintenance
16 Calibrate the Internal UV Detector
16 Clean the Exterior of the System
16 Clean the Flow Cell of the Internal UV Detector
17 Clean or Release Check Valves
18 Leaks
19 Replace the Fuses
19 Replace the Needle
19 Sonicate Solvent Inlet Filters
 Troubleshooting
20 Fraction Collector-Related Problems
20 Gradient Problems
20 Internal UV Detector-Related Problems
20 Leak Detected
21 Overpressure Detected
21 Pump-Related Problems
22 QR Reader Problems
22 Contact Biotage®1-Point Support™
 Solvent Specifications
 General Information
24 Consumables and Accessories
24 Manufacturer
24 Contact Us
Contents


System Overview
System Overview
Biotage®Selekt is an automated flash purification system
with a built-in QR reader for Biotage Sfär columns, RFID reader
for Selekt racks, UV detector, pump, fraction collector, and
touch screen.
Columns
The system has two column channels. Columns can be placed
both on the right side of the system and on the front (up to 50g);
see Figure 1.
Figure 1.Biotage®Selekt with two columns.
QR Reader
All Biotage®Sfär columns have a QR code that can be read by
the QR reader underneath the touch screen; see Figure 2.
Figure 2.Scanning a Biotage®Sfär column.
Racks and Vessels
The system collects fractions into a variety of collection racks
and vessels. The following Selekt racks are available:
» 48 positions for 13 x 100 mm tubes
with a vessel volume of 9 mL.
» 35 positions for 16 x 100 mm tubes
with a vessel volume of 14 mL.
» 35 positions for 16 x 150 mm tubes with
a vessel volume of 22 mL.
» 28 positions for 18 x 150 mm tubes with
a vessel volume of 27 mL.
» 15 positions for 25 x 150 mm tubes with
a vessel volume of 45 mL.
» 6 positions for 120 mL flasks.
» 10 positions for 240 mL flasks.
» 8 positions for 480 mL flasks.
The collection bed can either hold a collection tray with up to
three of the racks with vessel volumes up to 120 mL (Figure 3),
or one of the 240 or 480 mL flask racks.
One collection tray is standard, but by extending the fraction
collector, it is possible to use two collection trays at the same
time. The maximum collection volume with no rack change is
3840 mL for standard bed and 7680 mL for extended bed.
RFID Tags
All Selekt racks have an RFID (radio-frequency identification)
tag that can be automatically identified by the system when the
rack is placed on the collection bed.
Figure 3.Collection tray with three racks.

Biotage®Selekt User Manual | © Biotage 2018
System Overview
Solvent Supply
The system is equipped with four solvent inlets found on the
right side of the system (S1-S4).
Optional Secondary Solvent Containment
A maximum of four 5-liter reservoirs can be placed on the
optional secondary solvent containment; see Figure 4.
Larger reservoirs than 5 liters must be placed elsewhere.
Note: To be compliant with the secondary containment
regulations, do not use reservoirs larger than 4 liters.
Figure 4.The optional secondary solvent containment.
Internal UV Detector
The system includes either a UV detector with the range 200 to
400 nm or a UV-VIS detector with the range 198 to 810 nm.
Collection and Fractionation Methods
Available detection signals are:
» λ-All: The system uses average absorbance
within a user-defined wavelength range for
collection and fractionation. Possible collection
and fractionation parameters are Collect All,
Threshold, and Valley Fractionation. Only available
on systems with a Spektra software license.
» UV1 and UV2: The system uses one or two wavelength
signals for collection and fractionation. Possible
collection and fractionation parameters are Collect
All, Threshold, and Valley Fractionation.
All collection methods fractionate on volume, which is when
a test tube or bottle is full based on the specified vessel volume
for the rack type or a user-defined maximum fraction volume
defined for the run.
Signals that are not used for collection and fractionation can be
used for monitoring.
Audible Alarm
If the audible alarm is enabled in the system settings, an
audible warning will sound whenever user interaction is
required. Examples of situations are: 1) rack change is needed,
2) high pressure, 3) misalignment of the collection arm, and
4) pump failure.
Lighting
To provide better visibility for the user, there is a light
strip underneath the touch screen and a mirror behind the
collection racks.


Prepare the System
Inspect the Tubing
Warning
» Shut down the system before replacing any tubing. Use only
tubing designed for the Selekt system and supplied by Biotage.
Inspect all tubes before each run to ensure that they do not
show signs of wear or damage and that they are properly
connected and tightened. Use caution when finger tightening
fittings to prevent stripped threads or crushed ferrules.
All external tubing on the system except for the tubing on the
collection arm can be replaced by the user.
Note: All tube types, dimensions, and lengths are essential
for the performance of the system. Only replace tubes with the
equivalent tubes designed for the Selekt system and supplied
by Biotage.
Mount Column Holders
The system is shipped with column holders of different sizes.
Ensure that they are mounted in the desired positions on the
system. Figure 5 shows how to mount a column holder on
the right side of the system. There are also two positions for
column holders on the front of the system that can be used for
Biotage columns up to 50g; see Figure 6.
Figure 5.Slide the column holder screw into the desired position on
the right side of the system and then place the holder over the screw
and fasten.
Figure 6.Biotage columns up to 50g can be placed on the front of
the system.
Prepare the System
Start Up the System
Turn on the system using the power switch located on the left
side of the system; see Figure 7.
Figure 7.The power switch is located on the left side of the system.
Assign Solvents
When a purification is run, the software determines which
solvent inlets are connected to the chromatography solvents
used in the run.
Note: For reversed-phase purification with methanol and
water, it is strongly recommended to premix the water with
5% of methanol and degass either through vacuum or
sonication. Degassing of protic solvent blends decreases
out-gassing of entrapped air during gradient elution, which
will impact gradient performance and flow rates.
Note: All four solvent inlets must be primed with solvent to
achieve the specified pump performance.
1. In the software, select Solvent Setup from one of the
solvent drop-down lists in the gradient view. The Solvent
Setup window opens; see Figure 8.
2. Assign a solvent to each solvent inlet using the solvent
drop-down lists.
To add solvents to the list, select Solvent Administration.
For more information, see “Manage Solvents” on page 13.
3. Prime the solvent inlets that have been assigned a new
solvent; see page 4.

Biotage®Selekt User Manual | © Biotage 2018
Prepare the System
Figure 8.The Solvent Setup window.
Prime the Solvent Inlets
Before you start a purification on your system, you might need
to prime the solvent inlets to:
» Remove any air bubbles from the pump and the
solvent inlets by flushing them with solvents.
» Empty the solvent inlets of solvents used in the previous
purification and fill them with new solvents.
Note: All four solvent inlets must be primed with solvent to
achieve the specified pump performance.
Note: We recommend to have all solvent reservoirs on the same
physical height to improve accuracy in the solvent mixing.
1. In the software, select Solvent Setup from one of the solvent
drop-down lists in the gradient view. The Solvent Setup
window opens; see Figure 8.
2. Prime the solvent inlets by pressing the corresponding
Prime buttons. Note that 27 mL of the assigned solvent is
used for each prime.


Set Up a Purification
Warning
» Never exceed the maximum pressure or flow rate for the
used column.
1. In the software, select the column channel to be used by
pressing Channel 1 or Channel 2 in the lower right corner,
or by swiping left or right on the channel tab along the edge.
2. To base the purification on a previous run, press Previous
Runs and then see “Base a New Run on a Previous Run”
on page 11.
3. Either scan your column using the QR reader underneath
the touch screen (see Figure 9) or select the column type
from the Column Type drop-down list in the Column panel.
Figure 9.The QR reader is located underneath the touch screen.
4. Place the column in a column holder on the right side of the
system or on the front (up to 50g).
5. Connect the correct inlet and outlet tubing to the column.
The tubes for channel 1 are labeled C1 with orange tags and
the tubes for channel 2 are labeled C2 with blue tags.
6. Place the collection rack(s) that you want to use on the
collection bed. Racks with vessel volumes up to 120 mL
require the collection tray. Selekt racks are automatically
identified by the system when placed on the collection
bed. If automatic rack detection has been disabled (see
page 15), select the collection rack manually; see
“Specify the Rack Parameters” on page 7.
7. Set up the run parameters as described in the following
sections.
Note: An invalid setting is highlighted with a red frame
(see Figure 10), press in the bottom right corner for more
information.
Figure 10.The run setup view.
Specify the Gradient
The gradient can be set up using the gradient table or the
gradient graph. It is also possible to calculate a gradient from
Rfvalues obtained from a TLC analysis (see page 6).
Gradient Graph and Table
To add a gradient segment, press-and-hold a segment or
node in the gradient graph and select Add Segment from the
appearing menu. The new segment will be added after the
selected segment or node.
To delete a node or segment, press-and-hold and select Delete
Selected from the appearing menu (see Figure 11).
Figure 11.The press-and-hold menu in the gradient view.
To increase or decrease the length of a gradient segment or
change the solvent mix, either 1) drag the segment or node to
the desired position in the gradient graph, or 2) change the
value in the gradient table.
Note that it is possible to zoom in and out of the gradient using
the pinch-to-zoom feature.
Set Up a Purification

Biotage®Selekt User Manual | © Biotage 2018
Set Up a Purification
Gradient Parameters
» CV/mL/mm:ss: The gradient length unit. CV (column
volumes), milliliters, or minutes and seconds; see Figure 12.
» Start: The percentage of Solvent B at the
beginning of the gradient segment.
» End: The percentage of Solvent B at the
end of the gradient segment.
» Length: The length of the gradient segment.
» Solvent A and B: The solvents to be used.
» Equil.: The column is equilibrated before the run, unless
this options is turned off. The equilibration volume and
flow rate are set automatically and have been optimized
for the selected column type. To see the settings,
expand the Column panel (see Figure 14). We strongly
recommend that the equilibration is not turned off.
Figure 12.The gradient length unit can be selected in the gradient table.
Calculate a Gradient from TLC Data
Note the following when using the TLC to Gradient editor:
» Accuracy of prediction can be reduced if using
alcohols, such as methanol and ethanol, very volatile
modifiers such as diethyl ether, or modifiers that
permanently alter the properties of the silica.
» Reversed-phase TLC is not supported.
» Slight variations in migration rates may occur if samples are
applied too close to the edge of the TLC plate. Apply samples
at least 10 mm from the edge to avoid the edge effect.
To calculate a purification gradient from the Rfvalues obtained
from a TLC analysis:
1. Open the TLC to Gradient editor (see Figure 13) by
pressing TLC.
2. Select the Strong Solvent text box and enter the percentage
of the strongest (most polar) solvent in the TLC analysis.
3. Mark the solvent front of the TLC plate by sliding the Front
line to the correct position.
4. Enter the Rfvalue of the product of interest in the RfProduct
text box or by sliding the Product line to the correct position
on the TLC plate.
5. Enter the Rfvalue of the impurity closest below and above
the product in the RfImpurity 1 and RfImpurity 2 text boxes
or by sliding the corresponding lines to the correct positions
on the TLC plate. A value for RfImpurity 1 is required.
6. If you have two plates, press Add Plate and repeat steps
2 through 5 for the second plate. One plate gives a linear
gradient and two plates give a step gradient.
7. To calculate a purification gradient and the column load
capacity, press Create.
Figure 13.The TLC to Gradient editor.
Specify the Information Parameters
» User: The name of the user. If you have not been assigned
a user name, please contact your system supervisor.
» Run Name: The name of the run. If left blank, the
name will be auto-generated based on date and
time when the purification is performed.
» Comments: Comments on the purification run. (Optional)
Specify the Column Parameters
» Sample Mass: The crude sample mass.
» Column Type: The column type. Either scan the
column using the QR reader underneath the touch
screen or select a column type from the drop-down
list. If the column name is orange or red, its load
capacity is smaller than the entered sample mass.
» Flow Rate: The default (recommended) flow rate
for the selected column type is preselected. If you
want to change it, consider that the maximum flow
rate that can be used depends on the following:
» The column and any other accessories used in the setup.
» The maximum aspiration rate(s)
defined for the used solvent(s).
Note: If you expand the Column panel, all of the settings for the
selected column type are displayed (see Figure 14). For more
information, see “Manage Column Types” on page 13.


Set Up a Purification
Figure 14.The Column panel expanded.
Specify the Collection Parameters
» λ-All*:Select whether the average absorbance within
a user-defined wavelength range should be used for
collection and fractionation (Collect), used for monitoring
(Show), or not be shown during the run (Hide).
» UV1 and UV2: Select whether the wavelength signals should
be used for collection and fractionation (Collect), used for
monitoring (Show), or not be shown during the run (Hide).
» Wavelengths*:The shortest and longest wavelength to
be included in the λ-All signal. The range is 200 to 400
nm (UV detector) or 198 to 810 nm (UV-VIS detector).
» Wavelength: The wavelength to be used for
UV1 and UV2. The range is 200 to 400 nm (UV
detector) or 198 to 810 nm (UV-VIS detector).
» Threshold: Used to collect samples with an absorbance
exceeding the set absorbance threshold.
» Collect All: Used to collect the entire run.
» UV Baseline Correction*: When this option is turned on, the
gradient run is preceded by a light absorbance detection
phase. During this phase, the light absorbance of the used
chromatography solvents is measured for all wavelengths
that will be used for collection and fractionation (UV1,
UV2, and/or λ-All). The measurement results in a baseline
containing the maximum absorbance of the solvent. During
the gradient run, the baseline is subtracted from the signal.
*Only available on systems with a Spektra software license.
Specify the Rack Parameters
The Selekt collection racks have RFID tags that are
automatically identified by the system when placed on the
collection bed.
If the RFID rack detection feature is disabled in the system
settings (see page 15), it is possible to select the collection
rack manually by expanding the Rack panel (see Figure 15).
If you want to use a lower fraction volume than the one defined
for the selected rack(s), expand the Rack panel, enable the
Max Fraction Volume option, and enter the desired volume.
Note that this setting will only be applied on racks with a higher
vessel volume.
Figure 15.The Rack panel expanded on a system with extended
collection bed.

Biotage®Selekt User Manual | © Biotage 2018
Start, Monitor, and Control a Purification
Start, Monitor, and Control a Purification
Warning
» Read and follow the safety precautions against static electricity
in the “Biotage®Selekt Installation and Safety” document
(P/N 416182) that is supplied with the system.
» Always ensure that the settings for the column selected in the
software are correct for the column to be used before starting
a run. Never exceed the maximum pressure or flow rate for the
used column.
» Keep hands away from the collection arm area until the arm has
returned to its home position (in the inner right corner) and the
system is paused or in standby.
» The system may be pressurized when paused.
» Monitor the waste reservoir to prevent overflow during operation.
Start a Purification
1. Ensure that a sufficient quantity of the correct solvent
is present in each solvent reservoir and that the waste
reservoir has sufficient capacity for the run.
2. Start the purification by pressing . If the button is
disabled, press in the bottom right corner for more
information.
3. When the Sample Load dialog opens, load your sample.
4. Start the gradient run by pressing the appropriate button in
the Sample Load dialog. We recommend that a gradient run
is not started until the UV lamp is sufficiently warmed up.
Figure 16.The run view.
Monitor the Purification in Progress
While a purification is running, the programmed gradient (both
graph and table), a dynamic chromatogram, and an absorbance
spectrum for the whole detector range are displayed in the run
view (see Figure 16).
Expand a graph or the gradient table by pressing .
Change the length unit on the chromatogram by selecting CV,
mm:ss, or mL from the drop-down menu in the gradient table.
Fractions
Fractions that are already collected can be located by matching
their colors and numbers on the chromatogram with the vessel
colors and numbers in the Rack panel. Fractions from the same
peak have the same color. Fractions only collected due to the
Collect All option are colored gray.
Chromatogram
Light absorbance and the start threshold (if defined) are
displayed in the chromatogram using the following colors:
= Absorption measured by the internal detector for the whole
λ-All range and the threshold in mAU.
= Absorption measured by the internal detector at
wavelength UV1 and the threshold in mAU.
= Absorption measured by the internal detector at
wavelength UV2 and the threshold in mAU.
The defined wavelengths and real-time measurements of the
absorption are displayed in the Collection panel.
Status in the Top Pane
» Conversion: When reversed phase is run on one channel
and normal phase on the other, a solvent flush is
performed between runs using different channels.
» Equilibration Flush: The system empties the
solvent inlets of solvents used in the previous
purification and fills them with new solvents.
» Equilibration: The system is running a column equilibration.
» Purge: The system releases the column pressure
before sample loading is enabled.
» Sample Load: Sample can be loaded onto the column.
» UV Warm-up: The UV lamp is being warmed up.
» UV Zero: The system is setting the UV zero level using
the solvent mix used at the start of the gradient.


Start, Monitor, and Control a Purification
» Baseline Detection: The system is measuring the solvent
absorbance of the gradient so that the baseline can be
subtracted from the signal during the gradient run.
» Baseline Flush: After baseline detection,
the system is flushed with the solvent mix
used at the start of the gradient.
» Gradient: The system is running a purification.
» Line Flush, Purge, and Detector Flush:
At the end of a run, i.e. after the gradient purification stage
is completed or ended by the user, the system performs
the flushes that are enabled in the system settings (see
page 15) and a system decompression (purge).
» Finished: The purification run was completed
or ended/aborted by the user.
» Failed: The purification run failed.
Replace and Allocate Racks During the Run
Note: To add or remove racks during a run, the run must be
paused.
If more fractions are to be collected than can fit in the available
rack(s), the system pauses, the collection arm returns to the
home position (the inner right corner), and you are prompted to
load more racks. When you have resumed the run, the
collection is resumed in the first vessel in the lowest lettered
rack. For example, if racks B and C are enabled, the collection is
resumed in rack B in vessel 1.
Line Flush, Decompression,
and Detector Flush
At the end of a run, i.e. after the gradient purification stage
is completed, the system performs a line flush (if enabled),
system decompression (purge), and a detector flush (if
enabled). To enable or disable flushes and specify whether
enabled flushes are collected or not, see page 15.
Auto Extend
If the collection criteria are still met (light absorption is
above threshold level) when the system nears the end of a
purification, the system extends the gradient purification stage
of the run with 25% of the total gradient length using the final
conditions of the run.
Pause, End, or Abort a Purification
Note: Pausing a purification may cause gradient inconsistency
due to heat, solvent and sample diffusion, etc.
Pause and Resume a Purification Run
1. To pause the purification in progress, press .
The collection arm returns to its home position (in the
inner right corner) and the system is paused.
2. To resume the run from the point at which it was paused,
press .
End the Equilibration Step or
End or Abort the Purification Run
1. Press . The collection arm returns to its home position
(in the inner right corner) and the system is paused.
2. Press .
3. When the System Paused dialog opens, select one of the
available options:
» Skip Equilibration: End the equilibration
step and move on to the gradient.
» Cleanup: End the purification run and
perform all necessary flushes.
» Abort: End the purification run without
performing any flushes.
Edit and Manually Extend a Purification
To edit and manually extend a purification in progress:
1. Press . The collection arm returns to its home position
(in the inner right corner) and the system is paused.
2. Edit the run settings; see “Set Up a Purification” on
page 5. Note that some of the parameters cannot be
changed at this point. To undo all changes, press .
3. Resume the run by pressing .

 Biotage®Selekt User Manual | © Biotage 2018
Unload a Purification
Flush the Column with Air
Empty the column of remaining solvents using the air flush
feature; see page 12.
Purge the Column
Any remaining pressure after a purification can be released
using the purge feature; see page 12.
Unload the Run
When the purification is finished, unload the column. To avoid
leakage, plug the column inlet and outlet fittings and couple the
column inlet and outlet tubes together (see Figure 17).
Figure 17.When a run is finished, couple the column inlet and outlet
tubes together.
Flush the System
If the last purification of the day is performed with a halogenated
solvent (e.g. DCM), we recommend that you assign methanol or a
similar solvent to the inlet line used with the halogenated solvent
(see page 3) and flush with at least 30 mL (see page 12).
Unload a Purification
Shut Down the System
Warning
» Failure to perform an orderly system shutdown may result in
user data corruption and/or remaining pressure.
An orderly system shutdown helps prevent data corruption.
For critical applications, use of a suitable Uninterruptable Power
Supply (UPS) may help avoid data loss during a power outage.
1. When the system is not processing, press Menu, Shut Down,
and then Yes to confirm.
2. When the message saying it is safe to turn off the system
appears on the touch screen, turn off the system. The power
switch is located on the left side of the system; see Figure 18.
3. If desired, unplug the power cord from the power outlet.
Figure 18.The power switch is located on the left side of the system.


Results
Results
Reports for the purifications that have been processed on the
system can be accessed by pressing Menu and then Results.
The results can be filtered on user name and chemistry type,
normal or reversed phase; see Figure 19. The reports are listed
in chronological order with favorites at the top. Add a report to
your favorites by pressing the star to the left ( = favorite).
The reports contain purification details, a chromatogram, and
TLC data (if entered in the TLC to Gradient editor).
Figure 19.The report view.
Export a Report to USB
To save a report as a PDF file on a USB memory device:
1. Connect the memory device to one of the two USB ports
located on the left side of the system; see Figure 18.
2. Select the desired report.
3. Press Export. The report is saved as a PDF file at
USB :\
biotage\selekt\
user name .
Base a New Run on a Previous Run
To create a new run with the same purification parameters as in
a previous run:
1. Select the run to base the next run on.
2. Press Create Run and then select Channel 1 or Channel 2 in
the appearing dialog.

 Biotage®Selekt User Manual | © Biotage 2018
Flushes and Purge
Flushes and Purge
Warning
» Never flush the system without a column mounted on the system
or without the column inlet and outlet tubing coupled together.
» To prevent leakage, check all tubes and fittings before flushing
the system.
Enter the Flushes and Purge view (see Figure 20) by pressing
Menu and then Flushes and Purge.
Figure 20.Flushes and Purge view.
Flush
Use the flush feature to e.g.:
» Clean the flow path. If the last purification of the day
is performed with a halogenated solvent (e.g. DCM),
we recommend that you assign methanol or a similar
solvent to the inlet line used with the halogenated
solvent (see page 3) and flush with at least 30 mL.
» Check for leaks in the tubing and fittings.
To flush the system:
1. Select the path to be flushed from the Path drop-down
menu. To flush the flow path except column channel, select
the bypass option. To also flush a column channel, select a
channel option.
2. If a channel option was selected, select the column mounted
from the Column Type drop-down menu. If selecting “No
Column”, ensure that the column inlet and outlet tubing are
coupled together.
3. Enter the volume in the Volume text box.
4. Enter the flow rate in the Flow Rate text box. Note that
maximum flow rate that can be used depends on the column
type (if used) and the maximum aspiration rate(s) for the
used solvent(s).
5. Enter the percentage to be used of each solvent connected
to the system. If several solvents are listed and you only
want to use one solvent, enter “100” for that solvent and
“0” for the other ones.
6. Ensure that a sufficient quantity of the selected solvent(s)
is(are) present in the solvent reservoir(s).
7. Ensure that the waste reservoir has sufficient capacity for
the flush.
8. Press Flush.
Air Flush
Use the air flush feature to e.g. empty a column of remaining
solvents after a purification run.
1. Select the channel to be flushed from the Channel
drop-down menu.
2. Select the column mounted on the selected channel
from the Column Type drop-down menu. If selecting “No
Column”, ensure that the column inlet and outlet tubing
are coupled together.
3. Press Flush.
Purge
Use the purge feature to e.g. release any remaining pressure in
the column after a purification run.
1. Select the channel to be purged from the Channel
drop-down menu.
2. Select the column mounted on the channel from the Column
Type drop-down menu.
3. Press Purge. Note that the current pressure is displayed in
the top left corner of the software.


Data Administration
Data Administration
Note: Only users with system owner privilege can administrate
column types, solvents, and user accounts.
Manage Column Types
The software comes with a preconfigured list of columns and
their settings. To add, edit, and delete user defined column
types, press Menu, Data Administration and then Column
Administration (see Figure 21).
Figure 21.The Column Administration view.
Column Parameters
Warning
» Never exceed the maximum pressure or flow rate for the column.
Note: The preconfigured Biotage columns cannot be edited or
deleted. We recommend that you hide any column that will not
be used to simplify finding the ones to use.
» Visible: If enabled, the column type can be
selected during the setup of a run.
» Name: The name of the column type.
» Column Volume: The column volume (CV) in mL.
» Default Flow Rate: The default flow rate in mL/min.
» Max Pressure: The safety pressure in bar or psi
(see page 15). If reached, the flow rate will be
reduced to keep the pressure at this level.
» Equilibration Pressure: The maximum pressure during the
equilibration, in bar or psi (see page 15). If reached, the
flow rate will be reduced to keep the pressure at this level.
» Equil./Equilibration Length: The equilibration length in CV.
» Equilibration Flow Rate: The equilibration flow rate in mL/min.
» Air Flush Length: The air flush length in CV.
This value will be used as the default volume
for the air flush feature (see page 12).
» Load Capacity at CV=2: The approximate
load capacity when delta CV is 2.
» Chemistry Type: The kind of chromatography the
column can be used for, normal or reversed phase.
» Part Number: The manufacturer’s part number.
Manage Solvents
The software comes with a preconfigured list of solvents
and their settings. To add, edit, and delete user defined
solvents, press Menu, Data Administration and then Solvent
Administration (see Figure 22).
Figure 22.The Solvent Administration view.
Solvent Parameters
Note: The preconfigured Biotage solvents cannot be edited or
deleted. We recommend that you hide any solvent that will not
be used to simplify finding the ones to use.
» Visible: If enabled, the solvent can be
assigned to one of the solvent inlets.
» Name: The solvent name.
» Strength: The solvent strength value,
a value between 0 and 1.1,2
» Max Aspiration Rate: The maximum speed at which
the solvent can be drawn into the pump during
the fill stroke, in mL/min. To achieve the system’s
maximum flow rate (300 mL/min), use 420 mL/min.
1Neue U. D. HPLC Columns Theory, Technology, and Practice, Wiley-VCH (1997).
2Dean J. A. Lange’s Handbook of Chemistry, 15th edition, McGraw-Hill (1999).

 Biotage®Selekt User Manual | © Biotage 2018
Data Administration
Manage User Accounts
To add, edit, and delete user accounts, press Menu, Data
Administration and then User Administration (see Figure 23).
Figure 23.The User Administration view.
Note: The first time you log into the Data Administration view,
log in using the user account “System Owner” and the password
“1234”. Before you log out, it is strongly recommended that this
password is changed.
User Parameters
» Visible: If enabled, the user can be selected during the
setup of a run and in other user name selection boxes.
» Name: The user name will be used in the various user
name selection boxes as well as in the purification
reports. If you change the user name, all result
records associated with the user will be updated.
» Password: It is possible to password-protect a user
account with System Owner privilege. The password
will be used when entering the Data Administration,
System Settings, and Maintenance views.
» Privilege: A user can have chemist
or system owner privilege:
» Chemist: The user can set up and run
purifications, and view results.
» System Owner: The user has both the chemist
privilege (see above) and access to the Data
Administration view (see page 13), System Settings
view (see page 15) and Maintenance view.


System Settings
System Settings
Note: Only users with system owner privilege can change the
system settings.
Enter the software’s settings view (see Figure 24) by pressing
Menu and then System Settings. The following system settings
are available.
System
» Date (yyyy:mm:dd): Setting the date correctly ensures
an accurate date stamp for your purification reports.*
» Time (hh:mm:ss): Setting the time correctly ensures an
accurate time stamp for your purification reports.*
» Language: The language to be used in the
software’s purification mode. English is always
used in the Data Administration, System Settings,
and Maintenance views, and in the reports.
» Pressure Unit: The unit to be used by the system, bar or psi.
» Mouse Pointer: When connecting a mouse to one of the
USB ports, you need to enable the mouse pointer.
» Audible Alarm: If enabled, an audible warning will sound
whenever user interaction is required. Examples of
situations are: 1) rack change is needed, 2) high pressure,
3) misalignment of the collection arm, and 4) pump failure.
» RFID Rack Detection: If enabled, Selekt racks
are automatically identified by the system
when placed on the collection bed.
*The system has to be restarted for the new configuration to take effect.
Purification
Note: Collected flushes are added to the gradient in the report.
» Line Flush: If enabled, the system flushes the
column inlet line at the end of the run using the
run’s weakest solvent. Select whether to Collect
the flush (using the same collection criteria as
during the gradient run) or send it To Waste.
Note: If the automatic line flush is disabled (Off), ensure to
flush the column flow path before each run.
» Detector Flush: If enabled, the system flushes the internal
detector at the end of the run using the run’s strongest
solvent. Select whether to Collect the flush (same collection
criteria as during the gradient run) or send it To Waste.
Note: We recommend that the detector flush is enabled.
A contaminated detector flow cell has decreased
transmissivity, which causes increased noise levels,
decreased response, and difficulties performing UV Zero.
» Valley Fractionation: If enabled, fractionation
will occur on detected valleys.
» Auto Extend: If enabled and the collection criteria are still
met (light absorption is above threshold level) when the
system nears the end of a purification, the system extends
the gradient purification stage of the run with 25% of the
total gradient length using the final conditions of the run.
Figure 24.The System Settings view.

 Biotage®Selekt User Manual | © Biotage 2018
Maintenance
Maintenance
Warning
» There are potentially lethal voltages inside the system.
Do not remove the cover panels; there are no user serviceable
parts inside.
» If the system has been damaged or does not function properly,
shut it down immediately and contact Biotage®1-Point Support™
(www.biotage.com).
Calibrate the Internal UV Detector
If the internal detector needs to be recalibrated (e.g. when a
new flow cell has been installed), use the following procedure.
1. Press Menu and then Maintenance.
2. Press Calibrate UV Detector.... Read and follow the
instructions that appear on the screen.
Clean the Exterior of the System
Regular cleaning of the touch screen, if performed properly,
extends the touch screen life and reduces wear.
Warning
» When cleaning the touch screen, use only non ammonia-based
window cleaner and do not apply the liquid directly to the screen
as this could damage electronic components.
Note: Avoid harsh cleaners and chemicals, and moisture getting
into the system.
1. Shut down the system as described on page 10.
2. Disconnect the power cord from the power outlet.
3. Clean the touch screen using a clean, non-abrasive, dry cloth.
If this does not clean the screen properly, the cloth can be
lightly dampened with a non ammonia-based window cleaner.
After cleaning, wipe dry with a clean, non-abrasive cloth.
4. Clean the exterior surfaces of the system using a clean,
lint-free cloth lightly dampened with water. If required, a
small amount of mild soap may also be used. After cleaning,
wipe dry with a clean, lint-free cloth.
Clean the Flow Cell of the
Internal UV Detector
Warning
» Ultraviolet (UV) light can injure your eyes. Always turn off the
system before removing the flow cell. Never have the system
turned on when the flow cell is removed or when the retaining
nut is loosened.
Note: Always handle the flow cell using gloves and never touch
the fiber optics; see Figure 25.
Figure 25.The fiber optics on the flow cell. Do not touch.
Keep the detector flow cell clean and protect it from dust and
chemical spills. Particular attention should be paid to prevent
the flow cell from leaking.
A contaminated flow cell has decreased transmissivity, which
causes increased noise levels, decreased response, and
difficulties performing UV Zero.
To clean the detector flow cell:
1. Shut down the system as described in on page 10.
2. Remove the flow cell by holding the flow cell with one hand
while loosening the retaining nut.
3. Disconnect the inlet and outlet tubing from the flow cell and
visually inspect the cell for contamination.
Figure 26
A
C
B
D
.The flow cell of the internal detector. A = flow cell outlet tube,
B = flow cell, C = flow cell inlet tube, and D = retaining nut.
4. Flush the flow cell with a series of miscible solvents using
the injection maintenance kit supplied with the system.
Select the solvents based on the contamination. It is
possible to use both organic and inorganic solvents and
diluted solutions of acids (e.g. H2SO4or HNO3diluted with
distilled water in a ratio of 1:20 to 1:10), unless they react
with stainless steel, PTFE, or fused silica windows.


Maintenance
5. Visually re-examine cell windows for visible contamination.
If contamination is still present, repeat step 4. If you are not
able to remove the contamination, we recommend that you
replace the flow cell (P/N 415625SP) and recalibrate the UV
detector (see above).
6. Carefully insert the flow cell and close the retaining nut:
a. Insert the flow cell cone straight into its housing inside
the UV detector; see the highlighted section in Figure 27.
b. Close the retaining nut. Tip! At the last couple of turns,
hold the flow cell flat against the retaining nut while
closing the nut completely.
Note: The retaining nut should close with little effort. If it is
difficult to close, the flow cell is probably misaligned.
Figure 27.Cross section of the flow cell properly inserted into the
UV detector.
7. Reconnect the tubing to the flow cell.
Clean or Release Check Valves
Clean the Pump Check Valves
If the last purification of the day is performed with a
halogenated solvent (e.g. DCM), we recommend that you assign
methanol or a similar solvent to the inlet line used with the
halogenated solvent (see page 3) and flush the pump check
valves with at least 30 mL (see page 12).
Release Stuck Check Valves
Low or inconsistent flow delivery volume and/or superimposed
periodic UV or UV-VIS signals can be signs of stuck check valves.
Warning
» When releasing a stuck check valve, there is a risk of small
amount of solvent splashing out.
1. Release the pressure by slowly unscrewing the check
valve cap from one of the CV OUT valves using the Torx 50
screwdriver supplied with the system; see Figure 28.
2. Remove the check valve by pushing an unused pipette tip
or similar into the check valve and then pulling it out; see
Figure 29A.
3. Push on the ball inside the check valve using an unused
pipette tip or similar; see Figure 29B. Ensure that the
ball moves freely. Otherwise, replace the check valve
(P/N 415115SP).
4. Repeat the procedure for the other three check valves.
Figure 28.Removing the check valve cap from one of the CV OUT valves.
Figure 29
A B
.Release stuck check valves.
Manually Change Between Normal and Reversed Phase
To avoid issues during a solvent change, it is necessary to
perform the change throughout the entire chromatographic
system (i.e. in the reservoir, pump, tubing, and detector).
The procedure is to flush the system (see page 12), with
a series of mutually miscible solvents until a gradual change
to the new solvent is accomplished. If this procedure is not
followed, precipitation may occur not only in the flow cell of
the internal detector but also in other parts of the system.
For example, to change from an organic solvents to aqueous
solutions, it is necessary to flush the whole system with
acetone or an alcohol.

 Biotage®Selekt User Manual | © Biotage 2018
Maintenance
Leaks
Warning
» Always handle leakage immediately.
» Follow all generally-accepted lab safety procedures and
applicable laws and regulations.
» Always follow local and national safety regulations and the
solvent manufacturer’s safety, handling, storage, and disposal
recommendations; refer to the safety data sheets (SDS).
» Electrical equipment can introduce ignition hazards. Ensure that
all solvent manufacturers’ recommendations are followed with
respect to handling, ventilation and operating environment.
» Personnel working with or near the system must wear protective
clothing, safety gear, and eye protection in accordance with
applicable local and national safety regulations.
» Shut down the system before replacing any tubing. Use only
tubing designed for the Selekt system and supplied by Biotage.
Shut Down the System at Leakage
If a leakage is observed, shut down the system as follows:
1. If a purification is in progress, press and then Abort.
2. If a prime or flush is in progress (started by the user),
press Stop.
3. Press Menu, Shut Down, and then Yes to confirm.
4. When the message saying it is safe to turn off the system
appears on the touch screen, turn off the system. The power
switch is located on the left side of the system.
External Leakage
External leakage may occur due to e.g. loose fittings or
damaged tubing. Any leakage in the flow cell of the internal
detector is drained via the drip sheet; see Figure 30.
Figure 30.Drainage of leakage from the flow cell of the internal detector.
All external tubing on the system except for the tubing on the
collection arm can be replaced by the user; a list of spare parts
is available at www.biotage.com.
Note: All tube types, dimensions, and lengths are essential
for the performance of the system. Only replace tubes with the
equivalent tubes designed for the Selekt system and supplied
by Biotage.
If an external leakage is observed:
1. Shut down the system as described above.
2. Disconnect the power cord from the power outlet.
3. Remove the spillage using the appropriate safety
precautions. In the event of leakage from a column, allow
all solvent vapor to dissipate before removing the column.
Do not wipe away any excess solvent from the column
surface as this can generate additional static charge.
4. Check all external tubes and connections for leaks. Use
caution when finger tightening fittings to prevent stripped
threads or crushed ferrules. Replace damaged tubing.
5. If applicable, ensure that the drain tube for the optional
secondary solvent containment is not damaged and is
safely connected to the drain port at the rear; see Figure 31.
The other end shall be inserted into a waste reservoir.
Figure 31.The drain port on the optional secondary solvent containment.
6. Once you have located and resolved the leakage, reconnect
the system to power and turn on the system.
7. Check all tubes and connections for leaks using the flush
function; see page 12. Flush with water or another
suitable solvent.
8. If the problem persists:
a. End the flush by pressing Stop.
b. Shut down the system and disconnect the power cord
from the power outlet.
c. Contact Biotage®1-Point Support™.
Internal Leakage
Internal leakage, due to e.g. worn pump seals or tube fittings,
is drained through drain ports underneath the system.
If an internal leakage is observed:
1. Shut down the system as described above.
2. Disconnect the power cord from the power outlet.
3. Ensure that the leakage is not external; see above.
4. Contact Biotage 1-Point Support.