SA Instruments 1030 User manual

Model 1030
MR-compatible
Small Animal Monitoring
and Gating System
Operation Manual

Revision C, August 2013
Copyright 2013 by Small Animal Instruments, Inc.
All rights reserved
Document number 211002
Mouse aortic root study
9.4T vertical field
ECG and respiratory gated
90 second image, without contrast
Mount Sinai School of Medicine, New York, NY
Departments of Radiology and Cardiology
Zahi A. Fayad, PhD
Juan Gilberto Aquinaldo, MD
Vitalii V. Itskovich, PhD
Mark Lieb, MD

Table of Contents
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Introduction ............................................................................................................... vii
Chapter 1:
System Overview ......................................................................................................1-1
Monitoring and gating .................................................................................................1-1
System components ...................................................................................................1-1
Chapter 2:
System Setup ............................................................................................................2-1
Installation of software.................................................................................................2-1
Setting up the hardware...............................................................................................2-1
Communication port assignment .................................................................................2-3
Setting the communication port in PC-sam..................................................................2-3
Testing the monitoring and gating system ...................................................................2-3
Testing the heater system............................................................................................2-4
Step by step instructions for monitoring and gating.....................................................2-5
Recommendations for daily operation .........................................................................2-6
Chapter 3:
PC and ERT Control/Gating Module ........................................................................3-1
Overview .....................................................................................................................3-1
Monitor display ............................................................................................................3-1
Labeling convention for respiration channels...............................................................3-4
User input channels ....................................................................................................3-4
ERT Control/Gating Module input/output connections.................................................3-5
Gate output pulse signal configuration ........................................................................3-5
Altering monitor configuration .....................................................................................3-5
SnapShot key .............................................................................................................3-7
Trend key ....................................................................................................................3-7
GATING SETUP window.............................................................................................3-8
R-DETECT setup window............................................................................................3-9
CHARGER window......................................................................................................3-11
Chapter 4:
ERT Module ...............................................................................................................4-1
Overview .....................................................................................................................4-1
Positioning the ERT Module .......................................................................................4-1
Attaching ECG electrodes ...........................................................................................4-1
Connecting the Battery Pack Cable ............................................................................4-2
Positioning ECG lead wires .........................................................................................4-2
Attaching the pneumatic respiration pillow sensor.......................................................4-5
Attaching the temperature probe .................................................................................4-5

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Positioning the thermister temperature probe.............................................................. 4-7
Charging the ERT Battery Pack................................................................................... 4-7
ERT Battery Pack Protection Circuit............................................................................ 4-8
Setting the 50/60 Hz notch filter................................................................................... 4-8
Chapter 5:
Simulator ................................................................................................................... 5-1
Overview ..................................................................................................................... 5-1
Operation .................................................................................................................... 5-2
Battery replacement .................................................................................................... 5-3
Capnograph and ventilator option ............................................................................... 5-4
Chapter 6:
Air Heater System ..................................................................................................... 6-1
Overview ..................................................................................................................... 6-1
Heater components .................................................................................................... 6-1
Heater control .............................................................................................................. 6-3
Heating the mouse ...................................................................................................... 6-4
Chapter 7:
Trends......................................................................................................................... 7-1
Overview ................................................................................................................... 7-1
TrendMap viewer display............................................................................................. 7-1
Source Trend key ..........................................................................................................7-3
Get and Save Setup keys .............................................................................................7-3
TREND ORDER ADJUSTMENT window ......................................................................7-3
Mark Stop and Mark Stop keys......................................................................................7-4
Define Output key..........................................................................................................7-4
Selecting events recorded in Trend data ......................................................................7-5
Trend data item list ........................................................................................................7-5
Chapter 8:
SnapView......................................................................................................................8-1
Overview........................................................................................................................8-1
SnapView display...........................................................................................................8-1
SETUP window..............................................................................................................8-2
ReRun key.....................................................................................................................8-3
Print key.........................................................................................................................8-3
Export key......................................................................................................................8-3

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Chapter 9:
Additional Features.................................................................................................... 9-1
SYSTEM INFORMATION window............................................................................... 9-1
SET COLORS window................................................................................................. 9-2
ALARMS window......................................................................................................... 9-3
Cardiac and respiratory sweep gates........................................................................... 9-4
Freeze/thaw key........................................................................................................... 9-5
Event key .................................................................................................................... 9-5
Chapter 10:
Invasive Blood Pressure .........................................................................................10-1
Overview .....................................................................................................................10-1
Fiber optic communication cable connections.............................................................10-1
IBP Transducers .........................................................................................................10-1
Animal cannula ...........................................................................................................10-4
Flushing the IBP transducer and cannula ...................................................................10-5
Making blood pressure measurements .......................................................................10-5
Zeroing the invasive blood pressure transducer .........................................................10-6
Calibrating the invasive pressure transducer ..............................................................10-6
Charging the IBP Module internal battery ...................................................................10-6
Spare channels for auxiliary data ................................................................................10-7
Chapter 11:
Pulse Oximetry Module ............................................................................................11-1
Overview .....................................................................................................................11-1
Oximeter components and connection……………………............................................11-1
Display configuration ...................................................................................................11-2
Changing sensor clips and forms.................................................................................11-2
Attachment of fiber optic oximetry sensors..................................................................11-4
PC-sam’s main display ...............................................................................................11-5
Plethysmogram gate threshold ...................................................................................11-6
Chapter 12:
Fiber Optic Temperature ........................................................................................... 12-1
Overview...................................................................................................................... 12-1
Components and connections ..................................................................................... 12-1
Display configuration.................................................................................................... 12-2
Attaching, handling and cleaning fiber optic temperature probes................................ 12-2
PC-sam’s main display ................................................................................................ 12-3
Heater control ............................................................................................................. 12-3

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Chapter 13:
Fiber Optic Pressure.................................................................................................. 13-1
Overview...................................................................................................................... 13-1
Sensor extensions and connections............................................................................ 13-1
Fiber optic communication cable connections ............................................................ 13-2
Handling and cleaning the fiber optic pressure sensor ............................................... 13-2
Display configuration.................................................................................................... 13-4
Calibrating fiber optic pressure sensor ....................................................................... 13-4
Zeroing the fiber optic pressure sensor ...................................................................... 13-5
Inserting the fiber optic pressure sensor...................................................................... 13-6
PC-sam’s main display ............................................................................................... 13-6
Procedure for making IBP measurements from the rat tail artery ............................... 13-7
Chapter 14:
Capnograph and Ventilator...................................................................................... 14-1
Overview..................................................................................................................... 14-1
Ventilator MR-compatible Valve Assembly................................................................. 14-1
Ventilator setup in MR ................................................................................................ 14-2
Ventilator operation .................................................................................................... 14-3
microCapStar Capnograph......................................................................................... 14-3
Capnograph setup in MR ........................................................................................... 14-3
Capnograph operation ............................................................................................... 14-4
Capnograph/Ventilator Interface Module.................................................................... 14-4
Display configuration .................................................................................................. 14-4
PC-sam main display ................................................................................................. 14-5
Chapter 15:
Advanced Features.................................................................................................... 15-1
Manual E-RespTM thresholds ..................................................................................... 15-1
Inversion timing............................................................................................................ 15-3
USER RESP SETUP window ..................................................................................... 15-3
USER IBP SETUP window ......................................................................................... 15-4
AUTO EVENT for time stamping ................................................................................ 15-5
ADVANCED GATING SETUP window ....................................................................... 15-6
Auto Track .................................................................................................................. 15-6

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Chapter 16:
Signal Breakout Module............................................................................................ 16-1
Overview...................................................................................................................... 16-1
Input/output connections.............................................................................................. 16-1
Setup and use ............................................................................................................. 16-2
Using multiple Signal Breakout Modules ..................................................................... 16-3
Signal Breakout Module data formats ......................................................................... 16-4
Capturing ASCII slow data from the serial output ....................................................... 16-4
Capturing ASCII waveform data from the serial output ............................................... 16-4
Capturing digital waveform data from the serial output ............................................... 16-5
Chapter 17:
Fiber Optic Universal Gating Module.......................................................................17-1
Overview......................................................................................................................17-1
Controls and connections ............................................................................................17-1
Setup and use .............................................................................................................17-2
Chapter 18:
Micro-Imaging MR Systems ..................................................................................... 18-1
Overview..................................................................................................................... 18-1
Micro-Imaging kit......................................................................................................... 18-1
Micro-Imaging equipment setup ................................................................................. 18-2
Bruker Micro 2.5 Mouse and Micro 2.5 AHS/RF Imaging Probes .............................. 18-3
Bruker Mini 0.5 AHS/RF Imaging Probe ..................................................................... 18-4
Bruker Micro-Imaging kit components ........................................................................ 18-5
Chapter 19:
Water Bed Heater System ........................................................................................ 19-1
Overview..................................................................................................................... 19-1
Operation in the standalone mode.............................................................................. 19-1
Operation with a SAII monitoring and gating system.................................................. 19-1
WBH USER INTERFACE window ............................................................................. 19-2
TEST AND SERVICE window ................................................................................... 19-3
Circulation Module input output connections ............................................................. 19-4
Heater Module input output connections ................................................................... 19-5
Water Beds................................................................................................................. 19-6
Water Bed Heater System setup in MR ..................................................................... 19-6
Turning on the Water Bed Heater control .................................................................. 19-9
Changing the water bed.............................................................................................. 19-9
Polyether as an alternate fluid ................................................................................... 19-9

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Appendix A:
Product Specifications ............................................................................................. A-1
Appendix B
Supplies and Accessories ....................................................................................... B-1
Appendix C:
Troubleshooting ........................................................................................................ C-1
ERT communication error ........................................................................................... C-4
Check communication between the PC and ERT Control/Gating Module .................. C-4
No heat from the heater .............................................................................................. C-5
Low heat from the heater ............................................................................................ C-5
Gating setup when large artifacts are present in the ECG waveform ......................... C-6
Appendix D
Routine Maintenance ................................................................................................ D-1
Cleaning the Monitor's Surfaces or Probes ................................................................. D-1
Charging the Battery ................................................................................................... D-1
Servicing the Circulation Module ................................................................................. D-1
Appendix E:
Example waveforms ................................................................................................. E-1
Appendix F
Warranty, Service and Support ................................................................................ F-1

Introduction
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This Operation Manual accompanies the release of Revision 7.12 of the PC software
for SAII’s Model 1025, 1025L, 1025T and the Model 1030 next generation MR-
compatible Small Animal Monitoring and Gating System. Nearly every major medical
school in the world has at least one of SA Instruments monitoring and gating systems
and many have several. We are grateful to all those medical researchers who have
used SAI equipment and offered constructive comments allowing us to improve the
performance and capabilities of our systems.
The Model 1030 monitoring and gating system measures and records physiological
parameters of small animals. It currently measures ECG, respiration (two ways),
temperature (two ways), pressure including invasive blood pressure (two ways), oxygen
saturation, end-tidal CO2and minimally inspired CO2 . In addition there are four user
auxiliary input channels which can be used as a data interface for equipment such as a
stimulator, ventilator, additional probes, the MR scanner, etc.
The system generates an output trigger or gate based on a user defined algorithm
composed of nearly any combination of the measurements. It also provides flexible
control for air and fluid based heaters to regulate animal temperature and incorporates
a MR-compatible ventilator to regulate and control animal respiration.
Chapters 2. 3, and 4 of the Operation Manual cover basic system operation. This
information may be all that is needed for some users. Viewing and reformatting trend
data for export to a spread sheet program is covered in Chapter 7. The SnapView
program to view SnapShot data files is covered in Chapter 8. Many advanced features
such as the advanced gating menu, time stamping and inversion timing are discussed
in Chapter 15. A troubleshooting guide with useful tips is presented in Appendix C.
I encourage new users as well as those familiar with most of the system’s capabilities to
study the waveform examples in Appendix E. Valuable information on obtaining reliable
triggers even when large artifacts are present in the ECG waveform can be found in
Appendix C. The waveform examples and associated comments should help
overcome most of the pitfalls present in monitoring and gating small animals in the MR
environment.
Visit our web site www.i4sa.com for latest information on software and hardware
upgrades and extended system capabilities. PC-sam software upgrades are free on
SAII’s website.
Please do not hesitate to contact us at [e-mail] or [phone], if you
have questions, comments or need additional information.
Ron Morris
President
SA Instruments, Inc.
Stony Brook, New York, USA
August 2013

Introduction
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Chapter 1
System Overview

Chapter 1
System Overview
Revision C, August 2013 1-1
Monitoring and gating
The Model 1030 monitoring and gating system was designed specifically to meet the
physiological monitoring and gating needs for anesthetized mice, rats and larger
animals in the high field MR environment. Both anesthesia and the local environment
can adversely alter animal physiology. For that reason, research experiments often
require measurement of physiologic parameters for heart rate, respiration rate,
temperature, blood pressure, etc. It can also be necessary to control the temperature of
the animal. For example, sedated mice can have heart and respiration rates depressed
by more than a factor of two when exposed to a room temperature environment.
Motion artifacts in MR images can be eliminated or greatly reduced by employing gating
techniques during the acquisition of the MR image data. By synchronizing MR data
collection with the electrocardiogram, images can be obtained at specific times during
the animal’s cardiac cycle. These images, which are free of cardiac motion, can be
viewed individually or in a cine time sequence to visualize heart movement.
Motion artifacts due to breathing can also be eliminated or reduced by synchronizing
MR data collection with the respiratory cycle. Typically the largest movement of the
diaphragm and abdomen is during inspiration. Thus, selective acquisition of MR data
during expiration can be effective in reducing breathing artifacts.
In some cases it is advantageous to employ gating combinations to trigger MR data
acquisition. For example, both cardiac and respiratory gating can be employed to
selectively acquire cardiac data only during expiration. These acquisition techniques
can produce anatomic images free of breathing, heart and/or blood flow artifacts.
System Components
The Model 1030 monitoring and gating system consists of data acquisition modules
located near the animal and a Control/Gating Module connected to a PC located near
the operator console. The PC displays multiple waveforms, measured values, trends
and gating pulses, which can be used to trigger MR data collection. The data
acquisition modules are controlled by menu driven software from the PC. A SAII heater
system, either air or water, can be used with the monitoring system to regulate the
temperature of smaller animals in the magnet bore.
The in bore ERT Module measures ECG using three leads with needle or surface
electrodes, respiration from a small pneumatic pillow sensor and/or from the movement
of one ECG lead in the strong magnetic field and temperature with a small rectal
thermister probe. Power is supplied by an external, rechargeable battery. ECG,
respiration and temperature measurements are transmitted out the magnet bore on an
optical fiber to the ERT Control/Gating Module.
The ERT Control/Gating Module resides outside the RF shielded room near the MR
operation console. It receives data from the ERT Module and any of several optional
acquisition modules. The ERT Control/Gating Module sends data to the PC for display
and receives user instructions from the PC to control measurement and gating
functions. Gates from ECG, respiration and any of the available options are generated
by the ERT Control/Gating Module’s microprocessor and sent to the MR system. The
delay from the R-wave peak to the MR system gate is user selectable as is the

System Overview
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expiration gate delay and width. Two auxiliary gate input channels allow the user to
synchronize gating to other external devices such as a ventilator and/or the scanner’s
imaging sequence. A fiber optic output provides control for the air Heater Module.
The air Heater System supplies warm air in the magnet bore. A Fan Module located in
the low fringe field of the magnet delivers cool room air to the Heater Module located
near the magnet bore. The ERT Control/Gating Module, using the measured value of
rectal temperature and a user defined set point, controls current to the heating element
in the Heater Module to regulate the animal’s temperature.
The following optionsare available for use with the Model 1030: invasive blood
pressure (IBP) measuring systolic, diastolic and mean arterial pressure, pulse oximetry
using fiber optic sensors to measure oxygen saturation (SpO2), heart rate and pulse
distension, fiber optic temperature (FOT) to measure rectal or skin temperature, an
ultra-miniature fiber optic pressure (FOP) system with fiber optic sensors to make
minimally invasive pressure measurements, capnography measuring end-tidal and
minimally inspired CO2 , a Water Bed Heater System to control the animal’s temperature
and a ventilator to regulate respiration and to control the tidal gas volume delivered to
the animal. All of these options are covered in later chapters of this manual.

System Overview
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System Overview
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Chapter 2
System Setup

Chapter 2
System Setup
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Installation of software
If the system was supplied with a PC, the software will already be installed. To start the
monitoring system double click the PC-sam icon on the desktop (refer to Chapter 3). To
view and format trend data click the TrendMap icon on the desktop (refer to Chapter 7).
To view saved SnapShot data files click the PC-sam icon on the desktop and select the
SnapView option.
If the system was not supplied with a PC, install the software following the instructions
on the inside cover of the CD. Specification requirements for the PC are listed in
Appendix A. If a USB port is being used to communicate between the PC and ERT
Control/Gating Module, use the appropriate driver from the USB Serial Converter CD
supplied with the system.
Windows can go to sleep and be difficult to awaken. Follow these instructions to disable
hibernation on your PC:
Windows XP: click Start>Settings>Control Panel>Power Options and open the
hibernate tab. Clear the hibernate check box.
Windows Vista or seven: click Start>Control Panel>Power Options and select
“Power Management Off”.
Setting up the hardware
The Model 1030 has several optional functions. This manual assumes all functions are
present with the system. Ignore those sections of the manual for options not present
with your system. Refer to Appendix B for a list of major system components and
accessories. Refer to Chapters 10 through 14 for instructions on setting up and testing
the following options: IBP, Pulse Oximetry, Fiber Optic Temperature, Fiber Optic
Pressure, Capnograph and Ventilator.Refer to Chapter 19 for instructions for the Water
Bed Heater System.
1. Locate the two simplex fiber optic cables (25SFOC-23) and fan air hose
(FAH-
20), which is the longer of two heater hoses. If the MR scanner has a RF room, it
will be necessary to install the fiber optic cables and air hose passing through
wave guides. Follow the color code on the fiber optic cables connecting gray
plugs to gray receptacles and blue plugs to blue receptacles. Note: the simplex
fiber for the ERT Module will have a gray plug near the magnet while the fiber for
the Heater Module will have a blue plug near the magnet.

System Setup
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2. Connect the ERT Control/Gating Module (720200) to the PC using the serial
interface cable
(CGIC-201).
3. Power the ERT Control/Gating Module with the external 12 VDC power supply
(PS-2-12-CG).
4. Connect the ERT Control/Gating Module to the ERT Module (110100) using the
simplex fiber optic cable. Connect to the port on the ERT Control/Gating Module
labeled “ECG” and to the ERT Module’s “Gray Fiber” port. Note no connection
is made to the blue fiber port.
5. Connect the ERT Module Battery Pack (ERTBP3-108-PCC) to the ERT Module
using the ERT Module Battery Pack Cable
(BPC-210). A red light should be
visible in the fiber optic port labeled “gray fiber”. The battery pack should be
connected to the ERT battery charger when not in use. The ERT battery pack
charger is internal to the ERT Control/Gating Module. An optional ERT Battery
Pack Wall Charger (BPCG-210) is also available.It is not necessary to deep
discharge the battery or to disconnect it from the charger after it is fully charged.
6. Set the options switch on the ERT Control/Gating Module to “options not in use”.
7. Position the Heater Module (76n100) near the magnet bore and connect it to AC
power. Connect the fan air hose (FAH-20) (long tube) to the port on the Heater
Module labeled “Fan”. Connect the warm air hose (WAH-5) (short tube) to the
port on the Heater Module labeled “Warm Air”. Connect the simplex fiber optic
cable to the fiber optic receptacle on the Heater Module and ERT Control/Gating
Module labeled “Heater Control”.
8. Locate the Fan Module (77n100) in a low region of fringe field and connect to AC
power and to the fan air hose. Note: In some situations it may be desirable to
locate the Heater Module outside the magnet room or to locate the Fan Module
in the magnet room (refer to Chapter 6).
Warning: the Fan Module is magnetic and must be
fix mounted if located in the magnet room.
9. To provide a trigger to the MR system, connect a BNC cable (not supplied) from
the MR scanner’s gate input to the GATE connection on the ERT Control/Gating
Module. Note the ERT Control/Gating Module is shipped from the factory with
the gate output pulse configuration set to either “active low” or “TTL” based on
your scanner’s gating signal requirements. The gate output pulse configuration
can be changed (refer to Chapter 3).