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USER'S GUIDE to SOFTWARE

1. FP TOTAL MOVEMENTS Total movements in the floor plane Each movement is a series of successive coordinate changes with no rest Same coordinates for at least 1 sample interval FP TOTAL MOVEMENT TIME The sum total of elapsed time of all movements in the floor plane See Ambulatory Move Time FP TOTAL MOVEMENT DISTANCE The sum total of all vectored coordinate changes in the floor plane See Ambulatory Distance FP AVERAGE DISTANCE PER MOVE TOTAL The total distance moved divided by the number of movements in the interval FP MEAN VELOCITY ALL MOVEMENTS The mean velocity of all FP coordinate change defined movements See Mean Ambulatory Velocity FP LATENCY TO FIRST MOVEMENT This datum records 6 numbers measuring the latency from run start to the first FP coordinate change and then to the 5th 10th 20th 50th and 100th unit inches or centimeters of distance traveled FP JUMPS FROM FLOOR PLANE The total number of time contiguous 0 0 coordinate sets which do not exceed 2 seconds A run of 0 0 coordinate sets exceeding 2 seconds will cause an Animal Escaped Removed service call unless this feature is disabled when logging in to run a session FP REST TIME The total session time less Total Movement time HOME BASE The set of coordinates at which the subject spent the most time This datum cannot be plotted in a histogram because it is a single set for the entire run FP HOME BASE TIME
2. ru Scan 2 0 USER S GUIDE to SOFTWARE COPYRIGHT 2000 VERSION 2 000 00 01 21 200401 21 2004 sl 1 et re COULBOURN FHUSram proroseam LITE TIMER m5 x STARTARE SUME Tru Scar 2 0 CONTENTS BEFORE YOU SET UP THE ARENAS ENVIRONMENT HARDWARE CONFIGURATION AND OPTIONS TRU SCAN LINC AND COMPUTER SETUP SETTING UP THE LINCS INTERFACE CARD INSTALLATION MONITOR SETUP PRINTER SETUP SOFTWARE INSTALLATION DEFINITIONS AND TERMINOLOGY MEASUREMENT CAPABILITIES SUMMARY STATISTICS FP FLOOR PLANE SENSOR MEASURES VP VERTICAL PLANE SENSOR MEASURES NP NOSE POKE SENSOR RING USING TRU SCAN 2 0 SOFTWARE CREATE SELECT PROJECT DATABASE DATA FILE ORGANIZATION FILE NAME ATTRIBUTES FILE OPTION SETUP OPTIONS FILE OPTION CAGE AND BEAM TRACKING CHECK FILE OPTION CREATE AN EXPERIMENT PROTOCOL POTOCOL NUMBER TERMINATE on TIME or TASK EXPERIMENT TIME UNITS EXPERIMENT RUN TIME PAUSES STIMULUS PRESENTATION DATA ANALYSIS EXPERIMENT RUN HISTOGRAMS POST STIMULUS HISTOGRAMS SELECTING DATA FILE OPTION REVIEW EXPERIMENT PROTOCOL S FILE OPTION CREATE REVIEW SUBJECT DRAW LIST S FILE OPTION RUN A SESSION LOG IN CHECK EQUIPMENT TEST SESSION NO DATA RECORDED SELECT PROTOCOL S TO RUN SELECT SUBJECT DRAW LIST YOKED PROTOCOL OPTION MULTIPLE PROTOCOL OPTION THE SESSION RUN THE RUN SCREEN STATION STATUS CELLS STIMULUS STATUS CELLS TRACKING CELLS EXPERIMENT RUN IN
3. PROTOCOL NUMBER First designate a protocol number 01 through 99 If you select a number that has already been used a warning will appear when you try to save TERMINATE on TIME or TASK The usual election is termination on time but you may also Terminate on Task A task type protocol is defined as one in which a defined behavioral sequence determines completion of the run Currently the only defined task is the nose poke task EXPERIMENT TIME UNITS Here you enter the time units either minutes or seconds to be used for the experiment run length and pauses The election here also applies to histogram bin widths so don t specify minutes if you want to run for ten minutes with an experiment run histogram using twenty bins of thirty seconds each You should specify seconds and set the experiment run time to 600 seconds with bin widths of 30 seconds 24 EXPERIMENT RUN TIME Next enter the experiment run time duration specifying the number of units selected above If there are no pauses or stimuli you may proceed directly to the data section and select Experiment run histogram PAUSES Pauses are used to allow the experimenter to treat the subject in some way usually for injection or oral administration of a compound The portion of the experiment run before the pause provides baseline data and the portion after resuming the run provides the dependent data To place a pause or 2 in the run all you have to do is specify when
4. CAGES It all starts with the activity field arena or cage In the Tru Scan system there are two arena sizes one for small mouse sized animals and one for larger rat sized animals Competitors systems run rats and mice in the same arena we provide different sized arenas with the appropriate beam spacing for each Our arena features a slide out floor molded like the drop pan in a conventional cage so that cleaning is simplified You don t have to take the whole cage out of the station case to wash it All you have to do is push the floor out drop the residue and wipe clean between running animals so that the next animal you run is not distracted You can even replace floors with freshly washed ones from a stock of spares upon completion of each run to avoid contamination or olfactory cueing from the previous animal SENSOR RINGS Tru Scan s photobeam sensor rings are separate from the station s processor rather than being built together in a large case in which a clumsy single piece test arena rests There is only one type of sensor ring sized for each arena as shown to the right It senses in two dimensions The same ring is used for FP floor plane sensing NP nose poke and VP rearing or vertical plane The connector into which you plug the ring determines its recording function as shown on the Linc rear panel illustration below The system logs coordinates instead of just a yes or no when 7 monitoring nose poke or
5. Tru Scan 2 0 software may be used with Windows 2000 or XP DO NOT install the Tru Scan 2 0 software until the PCI 3 drivers and interface card have been installed in the computer If you are updating your system from an earlier version of Tru Scan to Tru Scan 2 0 it is NOT necessary to remove your previous version Once the PCI 3 drivers and interface card have been installed in the computer place the Tru Scan 2 0 software CD in the CD drive The software installation should start automatically but in the event that it does not start automatically START in Windows and then select Run Type X setup where X is the drive designation and follow the on screen instructions to complete the installation DEFINITIONS AND TERMINOLOGY ARENAS Tru Scan arenas cages are shipped fully assembled for floor plane or floor plane and nose poke use Place the arena on the table with the short wall the one that does not come fully down to the base plate toward the front of the work surface Slide the drop pan into the channels of the left and right bottoms of the walls while it is flush with the base plate BEAM BREAKS In the Tru Scan system coordinates of the body center of the subject are determined by scanning the photobeams finding the weighted shadow center of the animal and then analyzing the locations of new coordinates with their run time date stamps CAGES See ARENAS COORDINATE CHANGE This is the difference in the spatial location of
6. CW Clockwise turns into 4 sequential CW quadrants about the center of the arena FP CENTER POINT ROTATIONS CCW Counterclockwise entries into 4 sequential CCW quadrants about the center of the arena STEREOTYPY NOTE We use stereotypy as it is used by others in the field that is to provide a measure of repetitive behaviors which do not contribute to large location changes progressively further from the starting point ambulation or traveling However the movements covered by this definition do cause beam breaks thus contributing to overall activity counts Since the calculation is provided to get a more accurate assessment of ambulation traveling movement by subtraction of the measure from total movements it is offered as a stand alone measure as well for whatever other purpose you may deem useful However we must note that open field photobeam activity monitors with typical spatial and temporal resolution are not a robust choice of instrumentation for the general study of stereotypy This is not for example the instrumentation venue in which to attempt discrimination between ambulation and stereotypic ambulation nor ear scratching head swinging or bobbing Though certainly some of these movements are recorded they can not be reliably recorded for obvious instrumentation reasons For the purpose for which the measure is taken however it is only those that are sensed that need to be considered and of course those that are missed d
7. Found New Hardware Wizard This wizard helps vou install software for PCI ANT 32 e IF your hardware came with an installation CD lt lt floppy disk insert it now What do vou want the wizard ta do CO Install from a list or specific location Advanced Click Next to continue 11 Now run InstaCal from the Program group Measurement Computing 12 The PCI INT32 PCI 3 Interface Card should be detected Select OK 13 Exit the InstaCal program and remove the Compact Disc from the CD drive __ File Install Calibrate Test Help IPEE rr rr Plug and Play Board Detection The following plug and play devices have been detected Iw PCIHNT32 bust 2 devi 1 Check those devices you wish to have added to the configuration file The PCI 3 Computer Interface Card can be installed any ISA slot of your NOTE 118 16 and 18 165 L18 16S C and PCI 2 cards do not work with Tru Scan 2 0 You must have a PCI 3 computer interface card MONITOR SETUP A 17 inch monitor is strongly recommended This is important for Tru Scan software because some of the windows are very large with a lot of detail Be sure to set up your monitor properly 800 X 600 minimum so that you can see all of the windows PRINTER SETUP Follow normal procedures and instructions for setting up your printer for your computer Tru Scan will print to the default printer SOFTWARE INSTALLATION
8. The time spent at the coordinate set above AMBULATORY MOVEMENT NOTE These measures reflect total movements less stereotypy the larger stereotypy if both are specified Though they require stereotypy calculations be made you need not select any of the Stereotypy options when you select ambulatory measures We recommend that you use Total Movements unless your protocol requires actual Ambulatory Movements because it takes less processing time and the result differs little from total distance measures for most experiments 12 FP AMBULATORY MOVE TIME The total elapsed time of all FP movements less stereotypy move time See Total Movement Time FP AMBULATORY DISTANCE The FP Total Movement Distance less the stereotypic movement distance See Total Movement Distance FP MEAN AMBULATORY VELOCITY The mean velocity of all FP movements less stereotypic movements See Mean Velocity FP AMBULATORY MARGIN DISTANCE The FP Total Movement Distance less the stereotypic moves which occurred within a 2 5 beam margin of the arena wall FP AMBULATORY CENTER DISTANCE The FP Total Movement Distance less the stereotypic moves which occurred within the arena center area a 2 5 beam margin away from the arena wall CENTER POINT ROTATION NOTE Center point rotations turns are defined as movements where the animal enters 4 radially contiguous quadrants in ascending or descending order without interruption FP CENTER POINT ROTATIONS
9. Time less the R Half Total Movement Time in the vertical plane NP NOSE POKE SENSOR RING NP TOTAL ENTRIES The total number of entries into any hole of the nose poke floor hole board during the entire run NP TOTAL TIME IN HOLES The total time the animal s nose was in any hole during the entire run NP BAITED HOLE TASK 13 In this selection you may select which holes are baited form the selection window which has a map of the floor The default is for 16 holes This datum option is selected as a cluster all of the measures below when you select the Task measure All are available when you review data NOTE When you create a protocol you have the option to TERMINATE ON TASK If you elect to terminate on time the default mode the task time may be less than the run time The task is defined as the time from the beginning of the run to the point at which the last baited novel hole is entered all baited holes entered at least once Some of the measures will continue to accumulate after the last hole is visited Terminating on the task ends the experiment run and avoids this problem but allows only the data under this defined task to be measured 17 The following 13 items are a subset of the single selection NP BAITED HOLE TASK 13 NP LATENCY Nose Poke Latency The time from the beginning of the run to the entry into the first hole NP TASK TIME Nose Poke Task time The time from the beginning of the run to t
10. a turn Subjects jump floor to floor in less than 1 2 second For rotation 250 milliseconds is recommended and for jumping 100 milliseconds Getting good data for stereotypic movement is also a function of the sample interval You will probably experiment depending upon the topography of the response for both rats and mice The nose poke data are exceptions to the overall speed setting Both rats and mice can get in and out of a hole with a food pellet in less than a second The nose poke ring is scanned twice by the Linc s microprocessor in each interval once at the beginning and once 450 milliseconds later The second scan is not known to the host computer If the nose is in the beam on either scan it is reported only once to the host This is done so that you won t have to use more than a 1 second system sample speed just to do nose poke if the other measures you are taking don t require it When you use higher sample speeds the extra scan is not performed DATA FILE ORGANIZATION Tru Scan 2 0 software has an automatic system for creating data files with provision for the user to enter a subject 1 0 code of up to 6 alphanumeric characters The automatic portion of the data file names are entered automatically when you run a session Each character in the file name codes key specifications to facilitate file sorting and filtering for archiving retrieving reviewing comparing different aspects or recalculating data at a later time You m
11. and menu bars will display the database code along with the description of the project the date time session number the name or operator code you entered and the name and number of the subject 1 0 draw list if you use one All of this information is appended to the R and E type session files automatically and some of it is also part of the file name Other information which will appear 30 in the file name such as animal D run number and station will be displayed in the information cells of the run screen THE RUN SCREEN MAIN MENU BAR The main menu bar active in the Run Session window offers the options listed below Please note that clicking on an option in the menu bar takes you directly to the selected pop up window because Windows suspends program function during the time a pull down is present This would result in a Suspension of data acquisition while the pull down is present ABORT This window is used to stop an experiment run in one or more designated stations all stations or to abort the entire session When you do this raw data for each experiment will be filed under the A type data file code END TERMINATE This is how you end a session and present the window to review and handle the data It is explained below under TERMINATING A SESSION AND REVIEWING THE DATA ALARMS This allows you to turn on or off a beep alarm to be sounded by the computer upon the occurrence of paused finished and or service st
12. beginning of the run until all holes have been visited at least once thus defining the end of the task ADDITIONAL NOSE POKE DATA These data cannot be averaged They are available at the end of the session to view print or export They are selected in the lower part of the Select Datum box FP TRACK PLOT A bird s nest track of the animal s trail in the floor plane during the entire run VP TRACK PLOT A bird s nest track of the animals trail in the vertical plane during the entire run NP RUN HOLE SEQ TRACK PLOT A hole to hole track of the animals trail of entries into holes and into the nose poke sensor ring plane during the entire run 18 NP TASK HOLE SEQ TRACK PLOT A hole to hole track of the animals trail of entries into holes and into the nose poke sensor ring plane only during the task portion of the run NP NUMBER OF TASK ENTRIES PLOT An array of 16 cells corresponding to the nose poke holes on the hole board each containing the number of entries during the task NP NUMBER OF POST TASK ENTRIES PLOT An array of 16 cells corresponding to the nose poke holes on the hole board each containing the number of entries after the task through the end of the run NP NOVEL HOLE SEQ LIST An array of 16 cells corresponding to the nose poke holes on the hole board each containing a number corresponding to the order in which the novel entry to that hole was made in sequence NP ENTRY LIST A c
13. if any are blocked It will also ascertain which rings are connected to make sure that those required for your protocol are present If you specify a protocol for which sensor ring s are required but not installed in one or more stations an advisory window will appear and you will not be able to proceed until you install the requisite ring s and recheck the stations As the check progresses the small square boxes representing the 10 stations 0 through 9 will be black until the computer checks that station After the computer checks each Linc the box will turn green if that station is present powered and ready to run Those that are not remain black you are not going to use one or more of the available stations you may click on its green box to exclude it from this session the box will turn white This will not turn off the power at the station but it will keep the computer from sampling it during the session If all stations are connected to a common switched power outlet UPS or switch strip there is no harm in leaving excluded station Lincs powered for the duration of the session WHAT CANNOT BE CHECKED Software cannot check for proper ring orientation top up and front to front nor can it check for connection of stimulus devices universal stimulus device inputs all look the same to the check operation You must check these two things TEST SESSION NO DATA RECORDED You may want to run a test or play session to fami
14. left half of the arena FP L HALF ENTRIES The number of times the animal entered the left half of the arena FP L HALF TOTAL MOVEMENTS Total movements in the left half of the arena FP L HALF TOTAL MOVEMENT TIME The total elapsed time of all movements in the left half of the arena FP L HALF LEFT HALF REST TIME L Half Time less the L Half Total Movement time FP B HALF TIME The total time spent in the back half of the arena FP B HALF ENTRIES The number of times the animal entered the back half of the arena FP R HALF TIME The total time spent in the right half of the arena FP R HALF ENTRIES The number of times the animal entered the right half of the arena FP R HALF TOTAL MOVEMENTS The total elapsed time of all movement episodes in the right half of the arena R HALF TOTAL MOVEMENT TIME The total elapsed time of all movements in the right half of the arena R HALF LEFT HALF REST TIME R Half Time less the R Half Total Movement time FP F HALF TIME The total time spent in the front half of the arena FP F HALF ENTRIES The number of times the animal entered the front half of the arena FP HALF ARENA LATENCY amp FIRST VISIT DURATION These two measures are automatically selected when selecting any half datum above Latency is the time from the start of the run to the first entry into the selected half Visit duration 1 for the first visit L F TIME The total time spent i
15. of a run experiment specifying control and data acquisition variables These include the time duration of the experiment which how many and the duration of stimulus presentations if any how many and the duration of pauses if any and the data analysis format desired Protocols may be designed at any time and filed by number for later use in sessions When a session is run one is selected and assigned to a station by entering the protocol number for each or all station s NOTE Coordinates for the animal center position are computed for every scan interval If the position has changed they are logged with a real time date The protocol s experiment duration pause s and stimulus presentation s are the only protocol specifications which have an effect on the recorded behavior The data analysis portion of the protocol is appended to the experiment data files only for current presentation and filing of analyzed experiment data At the end of a session both the raw coordinate data behavior and the analyzed experiment data are filed in separate data files Thus the raw data from any animal or group of animals in any project session or experiment may be rerun in a new protocol with different data analysis specifications at any time in the future This is a powerful and unique feature of Tru Scan software You can go back and find things you weren t looking for when you first ran the experiments without running new subjects SESSION A ses
16. you decided to rerun the experiment to see if you could find and quantify this behavior You set up a new protocol also using the 1 hour session but now with a 10 bin histogram to break the time down and added two more measures Corner Time and Rest Time Suspicion confirmed You discovered that they had been huddling in a corner for the first 12 minutes of the experiment and then producing all of the movement data in the last 48 minutes No problem no new animals no wasted time just rerun the old files you can even use the new protocol number for future runs 5 AVERAGE E FILES Here you can average any selected E Files Selection is by the same sort and filter methods as above It is important to note that you may select a single E type file here When you do it will create an X type file for the single experiment Of course averaging an N of one accomplishes nothing mathematically but it will change the file designation to an X type To keep things clean simple and foolproof Tru Scan allows the averaging of like file types only E with E and X with X 6 AVERAGE X FILES Here you can average any selected X Files If you average X Files with X Files don t forget that you will not get a standard deviation To produce a standard deviation your final record must be the result of calculations from original E Files 7 EXPORT DATA You may elect to prepare space delimited ASCII files for export to your spreadsheet in this window R and E type
17. Analysis SELECTING DATA After selecting either type of histogram and entering the bin specifications go to the datum list and select each datum that you want to be analyzed You may click to select any one or more datum by clicking on each one you wish to analyze Each datum may be viewed individually for each experiment run in the session at session end Remember don t select more data than you are reasonably sure that you want to analyze It takes time to do the analysis and you can always go back and rerun the R data as a new experiment Now that you are finished constructing a protocol you simply click in the create window to store the protocol You may create and store up to 99 different protocols in each of the 260 databases Once created they may be used to run experiments at any time by simply entering the number in the log in window when you are ready to run a session The ability of Tru Scan to store protocols makes it very easy to have many different experimenters with different project databases and protocols using the equipment concurrently It is not necessary to rewrite the protocol each time the experiment is run just call up the number FILE OPTION REVIEW EXPERIMENT PROTOCOL S To look over the list of protocols that have been created you may go to the main menu and click on Review Experiment Protocol s The Review Protocol s window will appear allowing you to click on VIEW LISTING to look up protoc
18. Data acquisition and experiment run time are suspended during pauses After treating the subject press the Start Resume switch on the station Linc to resume timing and data acquisition The RUNNING status will resume along with the red indications on the Linc and the screen You may not click on the yellow screen Pause cell to restart it must be done at the arena on the Linc station box switch This is to insure that the operator does not inadvertently restart the run without at least going to the animal in the arena When the experiment has run its course through the time specified by the protocol the blue FINISHED status will show indicating that you may remove the animal and start the next one If an experiment run has not been completed with a Finished indication removal of the animal will cause the Service indication to appear in the status cell except of course during a pause This indicates that the animal was removed or escaped before the run was finished When a run is finished and the blue Finished status indication is given an automatic beam check is performed when the animal is removed for at least 5 seconds This assures that the beams were operating correctly at the beginning and end of each run If there is an obstruction the station will not leave the finished status because it doesn t know the animal was removed it still sees something the beams feces on the wall etc When there is a five second period w
19. FORMATION CELLS TERMINATING A SESSION AND REVIEWING THE DATA FILE OPTION IMPORT SESSION FILE OPTION STATISTICAL REVIEW ANALYSIS FILE OPTION DATABASE MAINTENANCE FILE NAME CODES DEFAULT PASSWORD SETTING Oi BEFORE YOU SET UP THE ARENAS on the four sensor ring support posts on the arena base plate They are installed with recessed set screws that are covered with varnish to suggest that they should not be moved They should never or only with full understanding be moved because we have worked out a system of standard heights for all accessories referenced from these locations If you move them your data may not be comparable for standard FP floor plane recording nose poke recording shock floor recording etc We are also attempting to make data recorded by different labs comparable Data taken at different beam elevations with respect to the floor even though the animal still breaks the beams and the system records data are not necessarily the same If the beams are low you get leg and tail breaks if high you get center of the back and ear breaks With Tru Scan you get comparable data for similar size animals of a given species when using any of the floor options The Tru Scan system is designed to place the beams at the proper height for floor plane recording of the small to average subjects when the ring rests on the factory installed collars and the subject is on the drop pan floor A set of washe
20. H13 15 or H13 16 Shocker Refer to the Habitest Users Guide for information Connect the shocker operate wires to the Timer stimulus output on the back of the station Linc blue pin to Gnd jack and black pin to 5 jack Set the shocker to the desired level typically 0 5 to 1 mA It should be controlled by the Tru Scan Linc hardware timer typically for several seconds ELECTRODE and CANNULA SUPPORT ARM A support arm to carry cannular and electrical swivels for infusion stimulation and physiological recording is available to position over the cage Our standard mounting stand V99 50 is used to carry the arm Mount the support arm assembly on the end of the cross rod of the mounting stand Mount the rod on the vertical rod using a cross connector so that the yoke hangs down with the balance arm below the cross rod with the end over the center of the cage With the swivel or electrodes attached slide the counterweight closer to or further from the pivot to balance the arm SPEAKER The speaker mounts on a bracket that clamps to the arena wall The speaker H12 01M is driven by the audio power output of the A69 20 White Noise and Tone Module which is in turn operated by one of the stimulus drivers on the back of the Tru Scan Linc station control box Mount the speaker module on the arena wall with the bracket and connect the speaker wires to the mating connector on the back of the audio source module Connect the operate wires of the source modu
21. RMINATING A SESSION AND REVIEWING THE DATA This is how you terminate a normal session When you click on End Terminate in the top menu bar the Terminate Session window appears Your computer will calculate all of the data for the session specified by you when you first created the protocols run in the current session This may take some time depending on the speed of your computer and of course the number of measures specified and their complexity If you opted to bypass calculations in the log in screen they will not be performed at this time but of course the raw data will be saved allowing you to perform the calculations later under Statistical Review and Analysis In this window you may also elect to Average Data for the session to Display Data for the session and to Save Data for the session AVERAGE DATA X FILES After the appearance of the End Terminate screen and the completion of calculations by the computer you have the opportunity to select one or more of the three function boxes In the first box Average Data you may calculate session averages for all like protocols run in the session You must assign your own file name to an averaged or X file Standard deviations are automatically computed for 3 or more averaged files They are listed with each datum and printed above each histogram bar as a A NOTE When averaging X files with X files the SD is lost because the original E files are not carried with the X f
22. TOGETHER Under the single experiment election there is provision for yoking the experiments That is having them all start and end together If you want yoking click on Yoked to override Same the default option which provides independent start and stop If you elect to yoke experiments none of the experiments will start until the last animal has been placed in the last active arena and the last Start Resume switch has been pressed started stations show paused until the last station s start is pressed The same holds for pauses in yoked experiments all will stop together because they are timed together and on the last resume press all stations resume together Yoking is the only condition under which stations do not start stop and resume independently It is provided for two primary reasons First so that if an auditory or bright light stimulus is to be used in multiple stations in the same experimental room all subjects will hear or see the stimulus at the same time Second so that in a single 29 room situation where a pause is employed for animal handling and treatment the resumption of recording will be delayed until the commotion of handling all animals in the room is finished MULTIPLE PROTOCOL OPTION you want to run two or more different protocols in different stations in a session click on Multiple Experiment Protocol This will override the default for a single protocol and allow you to enter the protocol
23. alyze data using more and shorter histogram bins for example to find effects that were missed or to look at other behaviors that were not included in the original analysis protocol You can go back months or years to earlier experiments with totally different independent variables and rerun them to see if something discovered in a current run may also have been present before but was overlooked because different data aspects were studied This feature contributes to meeting requirements for running as few animals as possible and using extant data wherever possible Second the raw data may be easily exported using Tru Scan s automatic formatting for export to a spreadsheet This allows the user to perform statistics not covered by our automatic data analysis protocols PRECISION Tru Scan s precision is 32 X 32 twice the cage s beam resolution 0 5 inch 1 27 cm for the beam spacing of the large cage and 0 3 inch 76 cm for spacing of the small cage This is accomplished by calculating the spread between the lowest and the highest beam blocked and defining the coordinate as one half the distance between the two 23 4 5678 9 23 45 67 8 9 If an odd number of beams are blocked then the coordinate is on a beam location For example 2 to 6 4 as shown to the left side of the figure above However if an even number is broken then the coordinate will be on a half space as shown to the right 2 to 7 4 5 and will be reported as such Of cours
24. atus indications This is accomplished here rather than in the Log in window so that you can change the alarms during a session JOURNAL You may access this window at any time during the session to append notes to the entire session file or to any station s data file s for the current run You may recover them in any review function HELP The help screen offered here applies to software help text It is an abbreviated form of the text information presented in this manual STATION STATUS CELLS In addition to black coded status indications for Absent Unused and Withdrawn and a white coded Service status all of which are discussed later there are active status codes to show the status of a running experiment The five phases of each experiment run are shown by the status cells under each station Each experiment passes through this sequence SUBJECT 1 0 coded magenta in status cell READY coded green RUNNING coded red PAUSED if used coded yellow and FINISHED coded blue SUBJECT I D start a run you must double click on the magenta SUB 1 0 cell to identify the next subject and cause its number to be entered into the station s subject I D cell When the subject 1 0 is entered either manually or automatically from a draw list the program will progress to the ready state If you have created a Subject 1 0 Draw List and opted to use it in this session to identify the next subject to run the
25. ay filter or sort on any automatically entered attribute and or each some or all of the 6 characters of the subject I D you enter Tru Scan 2 0 uses a 14 character file name The first two characters are the project database you selected or created when you opened the program They are inserted automatically for each session you run as long as the program remains open The next 6 characters are the subject 1 0 you enter or that your subject draw list enters for you before you initiate each run in a station during the session Judicious naming or numbering of your subjects done in conjunction with the project database code you select will give you powerful archiving tools The remaining 6 characters and the extension are entered automatically by Tru Scan These along with all of the others above are detailed under File Name Attributes list next 21 FILE NAME ATTRIBUTES A9XXXXXX123456 E99 9 Project DB code 0 to Z9 260 projects XXXXXX User s animal 1 0 alphanumeric 1 2 amp 3 Session number up to 999 sessions 4 amp 5 Run number up to 99 runs per session 6 Station number 0 through 9 E Data type 99 Protocol number 01 to 99 Data Type Letter codes A Aborted raw data E Experiment summary analysis file N New experiment from raw data files R Raw data files X Averaged E type data files Table data files have as the first of 8 characters and bear either an
26. ble station If you elect to run different protocols in different stations you must manually enter subject I D Tru Scan allows you to create for each database up to 99 subject I D lists of up 990 subjects in each list a full house 99 runs in 10 stations the session limit In this window you may REVIEW the list of I D lists EDIT an 1 0 list change the order add and delete subjects create a NEW list and finally you may PRINT any list so that you can distribute it to assistants file it with reports post it in the animal housing room etc 2f FILE OPTION RUN A SESSION Experiments are run in a session Go to the file menu and click on Run a Session The first of two main windows the log in window will appear Here is where you log in to run a session You don t have to create your experiments or do other lengthy operations in this window all you have to do 15 Enter your name or other Operator I D Initiate the Automatic Equipment Check Select the Protocol s you want to run Select the Subject Draw List to use if any Select the Data File type LOG IN Enter your name or other Operator I D and session description You must enter something even an X to proceed The operator 1 0 and description along with the date provided by the computer are appended to session file headers The operator name is recoverable under Journal along with journal notes if any in the session review window TS TRUSCAN P
27. cage SYSTEM CARD and SOFTWARE The Cl Tru Scan system requires no expensive multiplexers or other elaborate hardware to start up a basic system A system requires one Tru Scan Linc and a PCI 3 interface card for your computer 2 0 GHz Pentium 4 with a PCI slot 512 MB RAM 20 GB hard drive a CD drive and Windows 2000 or XP with Tru Scan 2 0 software to run one station For more stations add Lincs an L18 16XHS 10A multi cable Expander Box and arenas CI 3 CARD IN COMPUTER CONNECTED TO SEPARATE N INPUT OF THE L18 16XHS 10A THE SYSTEM CAN EXPANDER RUN UP TO 10 LINCS FROM THE FIRST POSITION gt 690000006 Pond LIGHT DARK BOX The light dark or retreat box covers 1 2 of the cage and has a door to allow the animal to enter or leave This box differs from devices in other systems in that it is a complete 5 sided box and comes fully to the floor with no distracting light gap or holes at the bottom needed to pass photobeams This is accomplished by fabricating the box from the same plastic filter material as is used for the beam filters on the sensor rings This material is opaque to visible light appearing black but transparent to the beams Since the entire wall passes photobeams it is possible to sense at any height to detect rearing in this box something you can t do with metal boxes with holes for the beams The door is centered on the long side placing it in the exact center of the arena when the box is placed agains
28. dinates for at least 1 sample interval VP TOTAL MOVEMENT DISTANCE The sum total of all vectored coordinate changes in the floor plane VP STEREOTYPY 1 MOVES VP STEREOTYPY 1 EPISODES VP STEREOTYPY 1 TIME VP STEREOTYPY 2 MOVES VP STEREOTYPY 2 EPISODES VP STEREOTYPY 2 TIME VP Stereotypy measures are analogous to those in the FP floor plane 16 HALF TIME NOTE The left and right halves of the arena offer more analysis selections to provide more information when using a light dark box VP L HALF TIME The total time spent in the left half of the vertical plane VP L HALF ENTRIES The number of times the animal entered the left half of the vertical plane from the bottom or the right VP L HALF TOTAL MOVEMENTS The total movements in the left half of the vertical plane VP L HALF TOTAL MOVEMENT TIME Total movement time in the left half of the vertical plane VP L HALF LEFT HALF REST TIME The L Half Time less the L Half Total Movement Time in the vertical plane VP R HALF TIME The total time spent in the right half of the vertical plane VP R HALF ENTRIES The number of times the animal entered the right half of the vertical plane from the bottom or the left VP R HALF TOTAL MOVEMENTS The total movements in the right half of the vertical plane VP R HALF TOTAL MOVEMENT TIME Total movement time in the right half of the vertical plane VP R HALF LEFT HALF REST TIME The R Half
29. display the following screen INE A UREMENT COMPUTING 1 Install InstaCal View Reade tst Install the DAS Wizard Demo Visit our Web Site Explore This CD 1 Select Install InstaCal button A window will appear instructing you to exit all windows programs Select Next gt 2 Another window will appear specifying the Install directory C MCC Select Next gt 3 The installation procedure will specify that icons will be added to the Program Folder Measurement Computing Select Next gt 4 The installation will begin Once the installation is completed a screen will appear offering you the opportunity to view the Read file for InstaCal It is not necessary that you read this file 5 Shut down the computer leaving the InstaCal Compact Disc in the CD Drive 6 Now reboot the computer After the computer has fully rebooted shut the computer down and install the PCI INT32 Interface Card PCI 3 in any available PCI slot in the computer 7 Once the PCI 3 Card is installed reboot the computer 8 Windows should indicate that new hardware has been located If not select Add Remove Hardware from Control Panel 9 Choose the Install the software automatically Recommended option and select Next gt 10 Once the PCI INT32 installation is completed a new window will appear Select the Finish button to close the Installation Wizard Found New Hardware Wizard Welcome to the
30. e this is true for both the X and Y axes of the sensor rings These calculations are accomplished by the microprocessor in the Tru Scan Linc station box to distribute processing time between stations and the host NOTE The actual calculation is weighted so that if the animal s body breaks a group of beams and his tail breaks a single distant beam the center will be calculated neither as the group center nor as the full span between the farthest point of the body and the tail It will be weighted toward the body 11 SUMMARY STATISTICS The statistics listed in this section may be selected by simply pointing and clicking for each experiment Each statistic may be presented as a session histogram experiment data interval or a post stimulus histogram Specify any number of bins and bin width time desired Each may be viewed as a list at the end of the session and be plotted and printed if desired session totals are also generated automatically All selected data will be analyzed and presented in the same way whenever the experiment protocol is run in the future without selecting again Other statistics can be added please inquire NOTE STATISTICS DEFINED IN ITALICS are not selected in protocol creation rather they are selected at the end of the session and calculated from other selected data FP FLOOR PLANE SENSOR MEASURES MOVEMENTS NOTE These measures represent all X Y coordinate changes in the floor plane inclusive of stereotypy
31. extension page 35 for a copy sheet of filename attributes you can post on a wall for quick reference FILE MENU OPTIONS Click on File The menu looks like this Setup Options Cage and Beam Tracking Check Create an Experiment Protocol Review Experiment Protocol s Create and Review Subject Draw Lists RUN A SESSION Import Session for Review Statistical Review Analysis Database Maintenance Exit TS99 and Save Current Data FILE OPTION SETUP OPTIONS Selecting this option takes you to the same screen that appears when you bring up Tru Scan You may not make changes to the cage size or data sampling rate here this is simply for review of the setup variables You may however change the Tru Scan interface card address in case you need to shuffle card addresses for another application package which has a card The password may be changed here See page 36 for the factory set password 22 FILE OPTION CAGE AND BEAM TRACKING CHECK There are two ways to graphically track in real time The Cage and Beam Tracking Check option allows you see how the system s beams track an animal and to give you a feel for soeed when using the various sample intervals It also allows you to check any sensor ring for proper function It will fully test all of a sensor ring s components for proper functioning If you want to check a ring which will ultimately be used in another plane for proper functioning you may plug it into the F
32. f 16 Nose Poke Experiment Units Minutes Seconds Experiment Hun Time 60 Pause at Pause at Create Stimulus Lists Stimulus 1 List NOTE To revier a stimulus list click Stimulus 3 List checked Stimulus 4 List User Defined Datum one Selections one Analysis NP Hole Selections Define Task STPr 2 TIME CUSTOM ZONE TIME b4 CELL ZONE TIME T6 CELL ZONE TIME MARGIN DISTANCE MARGIN TIME CENTER DISTANCE CENTER TIME CENTER ENTRIES L HALF TIME L HALF ENTRIES B HALF TIME B HALF ENTRIES Ok Cancel Data f Experiment Run Histogram Review Hiz Post Stimulus Histogram Click OLE when finished to store the new protocol Ok Cancel TRUSCAN Project tele 10 09 THE PROTOCOL CREATION SCREEN SELECTING THE CUSTOM ZONE TIME ANALYSIS ELEMENT 23 S TRUSCAN Project B4 Memory TestPhase2 55 18 File Abort End Terminate Alarme Journal Help i M Bl Current one is Zane 10 v Use Color aW Create Enter Prot OTT Emm pp Clear All T Pause at EE 10 10 GEM Close EM i 7 Cancel S EE ET SY E Data Expe 9 Post Click AStart e m TRUSCAN Project 4 tide 10 08 4M THE CUSTOM ZONE CREATION SCREEN SELCTED IN THE PROTOCOL CREATION WINDOW
33. files for each experiment may be filed here You may filter and sort as in Review E Files above to create a list of files to export The first letter for the file will be T the next 7 letters are to be designated by you and the extension will still bear the R or E type designation and the protocol number FILE OPTION DATABASE MAINTENANCE ABORTED DATA If you do not have to keep aborted data files you may delete them from here You will be cautioned that you may wish to save the database and given the option to do so 36 FILE NAME CODES PROJECT SUBJECT SESSION RUN STATION DATA PROTOCOL A9 Project Database code A0 Z9 260 projects XXXXXX User s animal 1 0 alphanumeric 123 Session number up to 999 sessions 45 Run number up to 99 runs per session 6 Station number 0 through 9 Data type 99 Protocol number 01 to 99 Data Type Letter codes A Aborted raw data E Experiment summary analysis file N New experiment from raw data files R Raw data files X Averaged E type data files Table data files have a T as the first of 8 characters and bear either an E or R extension 37 DEFAULT PASSWORD SETTING TRUSCAN The initial factory set password was placed here on the last page in the manual in case you want to remove the page To change the password open the Setup Options file and follow the instructions 38
34. ge 2 VERTICAL VP SENSING To use a ring to measure vertical or VP plane sensing rearing it must be mounted on elevation rods Elevation Rod Kit E63 91 To install the posts screw the threaded end of each post into the short post on the cage base Place the support ring with the thumbscrew at the desired height and tighten Then connect the sensor ring to the corresponding input on the back of the Linc and place it on the adjustable stops of the elevation posts To move the supports to a new height loosen the screw move the support and turn the screw tight again Make sure that all four supports are at the same height STIMULI The Tru Scan system is unique among activity systems in that the software can control up to four independent stimuli from each and every station interface see Linc below Each interface has four driver outputs one with a millisecond precision timer Infusion pumps stimulators tones clicks white noise strobe lights foot shock or relays to control other devices may be turned on and off during the experimental session to assess the effect of the stimulus on behavior You can eliminate animal handling variables for injections of one or more compounds during a run by controlling infusion pumps with stimulus outputs Study freezing or hyperactive behaviors induced by sound shock or other stimuli Software protocols allow for not only session histograms but also post stimulus histograms to easily assess such stimul
35. he Nth novel entry all baited holes entered at least once NP TASK ENTRIES Nose Poke Task Entries The total number of entries from the beginning of the run to the Nth novel entry all baited holes entered at least once NP POST TASK ENTRIES Nose Poke Post Task Entries The total number of entries after the Nth novel entry all baited holes entered at least once to the end of the run NP TASK NOVEL IRT Nose Poke Novel IRT The mean Inter Response Time or the time between novel hole entries NP TASK REPEATS Nose Poke Repeat Entries in holes previously entered including successives in the current hole NP TASK DISTANCE TRAVELED The total floor plane distance traveled during the nose poke task time NP OF TASK RESTING The of total time resting during the nose poke task NP TASK ERRORS Nose Poke Task Errors The total number of entries in unbaited holes from the beginning to task completion NP TASK WORKING MEMORY RATIO Novel entries into baited holes divided by the number of entries and reentries into baited holes NP TASK REFERENCE MEMORY RATIO Entries and reentries into the baited holes divided by the total number of entries into baited and non baited holes TASK LATENCY TO FIRST BAITED HOLE The time from the beginning of the run to the time the animal pokes its nose into the first baited hole NP TASK TIME IN BAITED HOLE The cumulative time the animal s nose was in any baited hole from the
36. here there is no beam obstruction and the beams are all working properly the blue finished light will extinguish and all of the lights on the Linc will be off The next subject I D must be entered for the green ready light to appear on the Linc and in the station s status cell See bypassing next paragraph Be careful to remove one animal before placing the next animal in the arena If you have one animal in one hand and the other animal in the other hand and less than 5 seconds elapses before you replace the first animal with the second the beams will not see an empty arena for the requisite 5 seconds and the blue light will not go off If this happens remove the new animal for at least 5 seconds You may bypass the beam check by double clicking on the blue cell so that you can run the same animal again without having to remove handle it You must bypass when doing multiple runs without a floor ring e g when doing a nose poke protocol because no check can be made A white SERVICE indication in the status cell bar indicates that something is wrong and needs attention Clicking on the lighted SERVICE cell in any station brings up the Service Window This window will display the error and the suggested corrective action in red type and guide you through the procedure if any that you may wish to take regarding data for the run This indication covers things like blocked beams missing subjects loose cables etc Three successive failure
37. ile averages thus the standard deviations cannot be computed If you want SD s for two averaged X files you must return to both groups of the original E files and average all of them into one X file together at the same time REVIEW DATA In the box below the X file creation election select which type of data you want to review E type Experiment files or X type Averaged files REVIEWING E TYPE FILES If you elect to review the E type files all experiments run in the session will appear in a cell array showing the 10 stations across the top with the experiment runs in columns below You may view each and every datum from each and every subject or to just spot check a few of them 33 The screen shows stations across the top row and runs down the column below each station It looks similar to the run screen but it is wider to accommodate the entire file name of each run rather than just the subject 1 0 portion shown in the run screen so you will have to scroll to the right to see the higher stations Each station s experiment runs are presented in sequence from the first to the nth run going down the column of cells Each experiment a run in a station is posted to this array using the file name automatically assembled when each was started To review the data for a run click on any cell You will have 5 buttons from which to choose You may View All Data Print All View Datum or bring up either the session or experiment r
38. le to a stimulus control output on the back of the station Linc blue pin to Gnd jack and black pin to 5 jack Select a tone or noise as desired and set the attenuation control knob for the desired sound level STAND MOUNT TV CAMERA This is an ultra miniature closed circuit TV camera to provide for viewing and VCR recording of behavior in the arena TRU SCAN LINC AND COMPUTER SETUP SETTING UP THE LINCS Each Linc station box is powered by a wall mount power supply There is a power switch on each Linc but you may want to use multi outlet strips with master switches to make it easier to turn a multi station system on and off as a group Connect the power supply cord to the back of the Linc box The POWER light on the left of the Linc s face panel indicates that it is powered THE POWER SWITCH IS ON THE REAR The ON LINE light will not be lit until the Linc is connected to a computer via the interface card and the computer is powered The Run Status lights are controlled by software to indicate the status of the experiment They correspond to the status bar in the Session window the computer screen and are convenient for the operator when the computer is in another room Connect the PCI cable included with the PCI 3 KIT from the PCI 3 interface card or from the L18 16XHS 10A multi connector box if you have a multi station system to the LabLinc Cable connector on the back of the Linc box Note The L18 16XHS 10 expander b
39. liarize yourself with the equipment or to check the functioning of a new protocol pauses stimulus presentations pump function etc You may or may not want to log these data in your database If not just click on the box at the bottom of the check window to eliminate any filing of data for the session SELECT PROTOCOL S TO RUN Select the protocol s you want to run There is a protocol review list window in this screen but you may not use it to select a protocol to run It is only a memory refresher This is because you have a choice of running a single protocol in all stations or entering different protocol numbers in each station or in groups of stations The default setting is for a single protocol If this is what you want to run just enter the protocol number in the top box This will set up the session to run the specified protocol in all active stations If you want to run a multi protocol session use the lower boxes and enter the number of each protocol to be run in the box representing the station in which you wish to run that protocol SELECT SUBJECT DRAW LIST If you created a subject draw list that will be used in this session you must override the manual subject I D default and select either the random or in order list use option Then you must enter the number of the list you want to use NOTE Subject LD draw lists may only be used single protocol sessions YOKED PROTOCOL OPTION ALL STATIONS START AND STOP
40. loor connector for this check if it works here it will work in any location No data are created under this File option for tracking The screen is a graphic representation of the arena showing the last 10 positions of the subject as a series of following dots showing the subject s track on the coordinate grid As each new position is occupied the oldest 11th position is erased NOTE There is also a provision for real time tracking while running an animal in a regular experiment To do this click on the station cell in the tracking row of the run screen FILE OPTION CREATE AN EXPERIMENT PROTOCOL Before you can run experiments you must specify an experiment protocol The protocol defines the duration of the experiment pauses if any to inject or otherwise treat the subject stimulus presentations if any and data analysis specifications To create a protocol click on File to bring down the menu Then click on Create an Experiment Protocol This window is where you specify all of the parameters that will define an experiment protocol and then save it to the protocol list from which it may be called at any future time for a session run TRUSCAN Project B4 Memory Test Phase 2 Ble barb Alene Joumal Help Expenment Run Histogram Humber af bins Data Intervals Calculate C Width of bins Data Intervals Seconds a Create a New Exp Enter Protocol Number 33 Description 4 o
41. m different size cages cannot be averaged 4 Select the sample interval the inter scan or data sample time interval by clicking on 1 Second 500 Milliseconds 250 Milliseconds or 100 Milliseconds This does not affect the one second resolution of experiment time or data bins Your present computer s speed may not let you run all 10 stations at the higher speeds Notes on sample interval You may not change the measurement units the cage size specification or the sample interval in a database after you have created your first protocol This protects files with different time or dimensionally related data from being averaged Long strings of the same coordinate data reflecting no movement are not recorded Rather only new coordinates with a time stamp of course are stored Tru Scan s selectable sample time resolution means that the subject s position may be determined at the number of times per second you select depending upon your needs The system allows you to select in the setup options window sample times up to 10 times per second sample intervals of 1 second 500 250 or 100 milliseconds Data are always presented on the monitor screen in 1 second increments because in the time frame of a run any faster would be visual overkill Generally speaking higher speed is not necessary for most data in most applications For FP tracking distance and velocity measures and most time measures a one second sample is adequate Faster sa
42. ments You can run new experiments using the raw data files from previously run experiments without running animals again and you can convert any and all sorted or filtered data for export to a spreadsheet 1 REVIEW A SESSION To review a session click on the option and a window will appear where you select the session from a pop up window Click on O K and the data for a session will appear in the same manner with the same options as when the session was terminated A window will appear with data in a similar format for review and plotting or printing This is where the calculations will be made if the no calculation option was taken when you ran the session and the calculations have not yet been made Just click on Recover to make the calculations at this time 2 REVIEW E FILES When you click here a window will appear where you can create a file list based on any attributes of the file name You can select subjects on any one or more of the 6 characters of the 1 0 for any protocol session session series station or run number You can then review print plot and save plots as graphics files for each datum in the protocol or export the list for special analysis 3 REVIEW X FILES Selecting this option produces a window where you can select X Files to review print plot save plots as graphics files for each datum in the protocol or export the list for special analysis 35 4 RUN A NEW EXPERIMENT Torun anew experiment from existing ra
43. more 2X2 coordinate cells from an 8X8 array of 64 cells the same cells in the 64 cell array below CONFIGURATION SETUPTIP To create the zones select the datum in the list and just point and click on each cell that you want to become a member of each group You may create up to 16 zones using all or only some of the cells The same cells may be used in multiple zone definitions Specify any shape with any spatial arrangement as small as a 2X2 square Gerrymander if you wish cell groups need not be contiguous FP 64 CELL ZONE TIME The total time spent in each of 64 cells a preconfigured zone array of 8 by 8 groups of 2 by 2 coordinate sets 16 CELL ZONE TIME The total time spent in each of 16 cells a preconfigured zone array of 4 by 4 groups of 4 by 4 coordinate sets FP MARGIN DISTANCE The total distance traveled within a 2 5 beam margin of the walls FP MARGIN TIME The total time spent within a 2 5 beam margin of the walls FP CENTER DISTANCE The total distance traveled in the arena center The arena center is the region that is more than 2 5 beam spaces away from the arena walls 14 FP CENTER TIME The total time spent in the arena center FP CENTER ENTRIES The number of times the animal entered the arena center HALF TIME NOTE The left and right halves of the arena offer more analysis selections to provide more information when using a light dark box L HALF TIME The total time spent in the
44. mpling would give only marginally more accurate data millisecond zigzag by vectoring a 20 few more points between the two points taken at lower speed This would create more data require more disk space and more calculation time at the close of a session You may select any sample resolution you feel is necessary run as many stations up to 10 as you wish and select every datum in the list Even with this version of Tru Scan and a fast computer analysis time will still be greater if you select a rapid sample rate and select data to analyze with abandon Don t forget you can rerun experiments and specify one or more new datum in the future so don t overselect now just to make sure you have everything you that think you may need later Ambulatory AMBL measures require both a stereotypy and X Y coordinate calculation pages 11 amp 12 The former is subtracted from the latter Stereotypic movements are very few Their occurrence when defined by a 1 second sample rate is very low Therefore their contribution to distance velocity etc is insignificant at a 1 second sample rate Stereotypy measures are used in Tru Scan primarily for ambulatory measures made at higher speeds Using AMBL measures requires 3 times more processing than the Total Movements measures Higher speeds are necessary for stereotypy rotations and jumps At a one second sample speed it takes 3 seconds to make a triangle the minimum polygon necessary to define
45. n end to create E type Experiment summary analysis files Selection of data types is made from a table The list with precise definitions for each datum is given in pages 11 through 18 Each datum in the list may be selected for experiment run distribution sorts or histograms referred to as data intervals in other systems and post stimulus distribution sorts or histograms Experiment Run and Post Stimulus Histograms are mutually exclusive you may use one OR the other You may however present stimuli when using either type Experiment run histograms simply divide an experiment into equal time intervals and compute each selected datum for each interval or bin of the entire experiment Post stimulus histograms divide a specified time following the ONSET of a stimulus presentation into a number of equal intervals and handle data in the same way Post stimulus histograms are a very powerful tool for probing the effects of a stimulus on a subject suppression freezing facilitation fear conditioning etc as a function of other independent variables The suggested limit for the number of histogram bins for each datum is 50 for printing purposes The print graphics can adequately resolve 100 bins but the time axis labels will be removed above 50 The limitation does not apply to numeric lists they print at the same resolution regardless of length EXPERIMENT RUN HISTOGRAMS To select the data you want to study over the course of the experimen
46. n the left front quarter 8X8 beams of the arena 15 FP L F ENTRIES The number of times the animal entered the left front quarter 8X8 beams of the arena L R TIME The total time spent in the left rear quarter 8X8 beams of the arena L R ENTRIES The number of times the animal entered the left rear quarter 8X8 beams of the arena TIME The total time spent the right rear quarter 8X8 beams of arena FP R R ENTRIES The number of times the animal entered the right rear quarter 8X8 beams of the arena FP R F TIME The total time spent in the right front quarter 8X8 beams of the arena FP R F ENTRIES The number of times the animal entered the right front quarter 8X8 beams of the arena FP L F CORNER TIME The time spent in the left front corner 4X4 beams of the arena L R CORNER TIME The time spent in the left rear corner 4X4 beams of the arena FP R R CORNER TIME The time spent in the right rear corner 4X4 beams of the arena FP R F CORNER TIME The time spent in the right front corner 4X4 beams of the arena VP VERTICAL PLANE SENSOR MEASURES VP ENTRIES The total number of times any part of the animal entered the vertical plane VP TIME The total time any part of the animal spent in the vertical plane VP TOTAL MOVEMENTS Total movements in the vertical plane Each movement is a series of successive coordinate changes with no rest same coor
47. next subject to run will appear in the subject 1 0 window when you double click on the magenta SUB I D cell Each subject s 1 0 will be presented either in the order listed or at random according to your selection when logging in Alternatively you may have elected to not use a list and to manually enter the 6 characters of the subject 1 0 in the 1 0 window Either way you must double click on the magenta cell to bring up the 1 0 window for each of the subjects as you run them so that their I D will be appended to the file name You must have a green READY indication before you can run the animal You may start the experiment only if the ready indication is showing in the status cell and the green light is lit on the station Linc AND there is a subject in the animal in the arena 31 When you press the Start Resume switch the experiment will start running and a red RUNNING indication will appear in the status bar along with the corresponding red light on the station Linc unless you are running a yoked session in which case started stations will show paused until the last one is started If you created the protocol with a pause a yellow PAUSED indication will be presented in the status bar along with a yellow paused light on the station Linc box when the pause is in effect during an experiment run Pauses will only occur if specified in the protocol or if you have not yet started all of the animals in a yoked protocol
48. numbers you want to run in each station You just type in the protocol number in each of the lower set of boxes beside each station number Obviously yoking cannot be used here Neither will you be able to use subject draw lists not so obvious but the software code would be a nightmare THE SESSION RUN You are now ready to run experiments in a session Click on the RUN box in the log in window and the second screen for running experiments will appear It is the session run window or Run Screen THE RUN SCREEN TS TRUSCAN Project B1 Demo Test COULBOURN INSTRUMENTS Tru Scan Photobeam Activity System File Abot End Tenminate Alarme Journal Help PROJECT Demo Test SESSION 2 Dual elevation movements Staion 7 2 3 4 5 6 7 6 3 STATUS Simi Ped CTT Se 20 FunNe LT ERE Move Time Enter Subject ID Enter Subject ID far this run M 25406 ae Cancel AStart es rRuscaN Project n 2 41 PM Now that you have logged in and brought up the run screen everything is ready to start putting animals in the cages and start the experiment s The run screen will be present until the session is terminated The masthead the yellow banner at the top of the screen just under the title
49. o not contaminate the ambulation or traveling data anyway STPY 1 MOVES This stereotypic movement is defined as the total number of coordinate changes less than plus or minus 0 999 beam spaces in each FP X and Y dimension and back to the original point that do not exceed 2 seconds apart Three such movements must be made before a stereotypy episode starts When it does the qualifying 3 movements are included in the total number of moves When the subject moves outside of the region of qualified coordinates or fails to move within them for 2 seconds the episode breaks and its current position becomes the new starting point STPY 1 EPISODES The total number of episodes of stereotypic moves defined in Stpy 1 Moves above STPY 1 TIME Stereotypy Time The total time of episodes of stereotypic behavior defined in Stpy 1 Moves above 13 STPY 1 IRT This measure is automatically selected with any Stpy datum above Stereotypic Inter Response Time for moves defined in Stpy 1 Moves above This measure is an inter event or inter response time histogram for each qualifying movement for the duration of all stereotypic episodes The bin widths are equal to the sample interval of the database in which you are working Each bin is populated by the total number of movements bearing an inter event time equal to the elapsed time for that bin The histogram will show the distribution of elapsed times so that you can determine the stereoty
50. ols by number with the description appended when they were created Here you may also DELETE A PROTOCOL Before deleting protocols if you need these data save your database to a permanent medium because deleting a protocol also causes all data raw and experiment acquired under that protocol to be deleted We delete the data with the protocol to avoid the disastrous consequence of future use of the same protocol number for a different protocol structure and a subsequent combining of data bearing the same number From this window you may also review the parameters of a specific protocol Just click on the REVIEW PARAMETERS box This will bring up the Review Protocol Parameters window This window allows you to review all of the parameters specified for a protocol including run time pauses stimuli and the data acquisition format It looks very much like the create window FILE OPTION CREATE REVIEW SUBJECT DRAW LIST S Tru Scan allows you to create lists of subjects 6 character alphanumeric subject I D which can be called up when you run an experiment session The 1 0 will be entered automatically along with the other automatic filename attributes You may manually enter a subject I D or draw from this list to select the next subject to be run You may draw at random or in the order the list was created Lists may only be used when the same protocol is run in all stations in a session The list always posts subjects to the next availa
51. omplete list of the times for each sample interval and hole numbers when the animal s nose was in each numbered hole 19 USING TRU SCAN 2 0 SOFTWARE CREATE SELECT PROJECT DATABASE This window comes up when you initiate the program The first thing you must do 1 to select an existing database you wish to run or to create a new database In this window there is also an option to copy databases to a high capacity portable storage medium or to other locations on your hard drive and to delete one or more of the current databases When you elect to delete a database you will be advised to first make a copy for archival purposes To do this highlight the database to be copied select the path and click on SAVE If you are going to create a new database you will have to specify 5 setup items 1 Select a code and a name for the database You may select any letter number combination from AO through Z9 giving you a total capability of 260 databases Use these letters and numbers in any nominal or attribute code you wish 2 Select cage size large for rat or small for mouse 3 Select distance measurement units in Inches or Centimeters The data will be calculated using 1 inch or 2 54 cm for each beam space for large cages and 0 6 inch or 1 52 cm for small cages If you enter the wrong size for your cages all distance data will be in error by a factor of 0 6 or its reciprocal You cannot mix cage sizes in a database because data fro
52. ou run regardless of the data analysis specifications in the protocol Raw data consist of every new coordinate set for every sensor ring for every user selected sample interval The sample interval is the sampling resolution selected in Project Database not the experiment time units selected in protocol construction Once every selected time unit the computer services all stations and takes the X Y center coordinates which are computed by each Linc s microprocessor These 6 numbers X and Y for each of 3 rings are appended with a run time date from the beginning of the experiment and posted to a data file as R type data 25 Data analysis computations are performed by the computer at session end from the date stamped coordinate set list The operations performed on the raw data include 1 Computation of distance traveled by adding vectored differences in position 2 Movement time by adding the time of time continuous sequences of different coordinates sets rest time by subtracting the time between two sequentially listed coordinate sets bearing sample interval dates spaced by more than one sample interval and 3 other aspects of the raw data derived by mathematical and sorting operations Depending upon how many and which data you select the time from terminating a session to display of the data options window will vary and can become lengthy The analysis that you select for a given protocol is computed from the raw data at sessio
53. ox is not compatible with the PCI 3 interface card You must have the L18 16XHS 10A Set each Linc s station number on the digit switch on the front of the unit Each station Linc box in a system must have a unique number Connect the sensor rings that will be used with each station to the input on the back labeled for the function that you wish the sensor ring to monitor It is not necessary that all stations have the same ring configuration It is possible to run different protocols in differently configured stations during the same session All that the computer will require is that a given station have all the sensor rings installed that are required for the protocol that is selected for that station If you inadvertently choose a protocol for a given station that requires rings that are not present in that station a message will appear You will not be allowed to proceed until you either select a protocol which does not require those rings or install the requisite ring s on the station and recheck the stations Connect the stimulus devices that will be used with each station to the appropriate stimulus output control on the rear panel of that station s Linc Unlike sensor rings these devices cannot be checked by software inputs are electrically isolated Be sure the correct stimulus device is connected to the output called for in the protocol s used The minimum software setting for stimuli 1 2 and 3 is one second duration The timer o
54. pic frequency and consistency A bimodal distribution may reflect two or perhaps more types of stereotypy STPY 2 MOVES This stereotypic movement is defined as the total number of coordinate changes less than plus or minus 1 499 beam spaces in the FP X and Y dimension and back to the original point that do not exceed 2 seconds apart Three such movements must be made before a stereotypy episode starts When it does the qualifying 3 movements are included in the total number of moves When the subject moves outside of the region of qualified coordinates or fails to move back to the starting point for 2 seconds the episode breaks and its current position becomes the new starting point STPY 2 EPISODES The total number of episodes of stereotypic moves defined in Stpy 2 Moves above STPY 2 TIME Stereotypy Time The total time of episodes of stereotypic behavior defined in Stpy 2 Moves above STPY 2 IRT This measure is automatically selected with any Stpy 2 datum above The same measure as Stpy 1 IRT above except applied to the Stpy 2 qualifier definition ZONE ANALYSIS NOTE In this section there is one custom zone configuration option and 16 standard or precontigured datum zones for quick selection You may elect to compute time in all 17 as well as distance in some and the number of entries in others FP CUSTOM ZONE TIME Here you may elect to configure any pattern of up to 16 zones composed of groups of one or
55. r the Linc timer and the Linc timer will turn the stimulus on for the duration set on the digit switches on the front panel You may set this timer for time intervals from 10 milliseconds 001 to 9 99 seconds 999 in 10 millisecond increments You may present the Linc timed stimulus up to 99 times during an experiment run For safety we recommend that you use this timer rather than a computer controlled stimulus duration stimuli 1 3 for shock and infusion because the others are suspended by pauses If a stimulus 1 2 or 3 has been set to be turned on for a duration that overlaps a pause onset the stimulus will be on for the DURATION SET PLUS THE DURATION OF THE PAUSE because a pause suspends timing This is a very important factor to consider when using any SHOCKER STIMULATOR or INFUSION PUMP We recommend that these devices be controlled by the Linc hardware timer Its timing and offset turnoff are not suspended by pauses Stimulus devices are controlled by the stimulus outputs on the back of the Linc DATA ANALYSIS Data analysis for a given experiment is specified by the protocol structure It is in this set of windows that you specify what measure of the subject s behavior is of interest It is the selected and analyzed aspect of the raw data that will be presented at the end of the session for review printing and filing as E type Experiment summary analysis data Note that all raw coordinate data are saved in every experiment that y
56. r to share it with a colleague collaborator To bring the session file into the program just click on the Import Session for Review file option select the directory and session you wish to import if it is not a single file disk NOTE The time unit cage size and unit of measure must be the same when importing a session from another database 34 FILE OPTION STATISTICAL REVIEW ANALYSIS TRUSCAN Project B4 Memory Test Phase 2 Ble barb Alene Joumal Help M Statistical Review Analysis lOl x REVIEW a Session tc Review E Files by User Defined Criteria Sort By Session Protocol t Station Run Filter by Subject I D First Last 1 Session Protocol Pome Poe EE 4 REVIEW E Files by User REVIEW Files RUN NEW EXPERIMENT Re define data Sub 0 Chars Ce 10 26 3 C 4C 5C B Run o as rs Filter pel AVERAGE E files AVERAGE X files Export Create export file ir Close Vien AI Data View Datum Journal Export File Export All Summary e Close A TRUSCAN Project G 1014 am In this window you can look over historical data From here it is possible to sort or filter data by protocol session station run and any one or all of the 6 characters of your subject 1 0 You can average data from some or all of your experi
57. rearing This is especially important for nose el 4 poke measurement with the 16 cup food pellet tray under the floor Pellet removal and repetitive entries through the poke hole can be sensed for full analysis of the sequence and repetitive error entries into holes from which the food pellet has already been removed If you have only one ring and want to switch from floor plane activity to another measure all you need do is reconnect the ring to another connector on the back of the Linc STIMULI POWER SUPPLY T 9V 1000MA LAB LINC CABLE NOSE POKE VERTICAL FLOOR FP SENSING For FP or floor plane activity monitoring connect a ring to the 9 pin connector labeled for Floor recording Drop the ring down over the cage and posts allowing it to rest on the stop ring This will place the ring at the optimum height for recording See page 2 NOSE POKE NP SENSING To use a ring for nose poke NP recording plug the ring into the input labeled Nose Poke and drop it down over the cage and posts allowing it to rest on the factory installed support collars Add the nose poke floor by placing it into the cage and allowing it to rest on the drop pan floor The nose poke ring when used alone is in the proper position to look between the floor and the food tray When using a nose poke ring with a floor ring the nose poke ring rests on the factory installed support collar and the floor ring rests directly on the nose poke ring below See pa
58. roject B4 Memory Test Phase 2 Log In to Hun Session Ble Emdslemnae Alene Joumal Help Operator Protocol Review Session Description EQUIPMENT CHECK PROTOCOLS SINGLE EXPERIMENT PROTOCOL IN ALL STATIONS ENTER protocol number to be run Subject 1 0 User Defined From List in Order From List at Random POWERED AND USED IN THIS RUN PRESENT OR NOT POWERED USED IM THIS RUM SAME protocol all active stations start end independently C YDKED protocol all active stations startend together gt List Selection i without replacement T oking Click on green powered station numbers at top to exclude them from this run session Use Yoked fer protocols with audio and visual stimuli when the cages test arenas are in common area NO Permanent Files Equipment test Session ges Disable Animal Removed Alarm MULTIPLE EXPERIMENT PROTOCOL ENTER protocol number ta be run in each station of 3 4 j 8 i 3 2 All active stations 3 7 startend independently Hun Cancel 4g 5 TRUSCAN Project tele 10 15 CHECK EQUIPMENT Initiate the Automatic Equipment check This will cause the computer to poll the stations to determine which of them are turned on and ready to run The computer will also automatically check all beams for obstructions and 28 advise you which ones
59. rs is supplied with the arena to place the ring higher for extra large subjects so that you don t have to move the collars WITHOUT WASHER WITH WASHER When you place a nose poke floor with its integral pellet tray in the arena it rests on the drop pan floor When the sensor ring is resting on the factory installed collars without the washers supplied for extra large animals the beams will be at exactly the correct height to pass above the tray and beneath the nose poke floor When you add a second ring to record floor plane movements along with nose poke just sit it on the first ring The beam will be exactly as far above the nose poke floor as it was above the drop pan floor in the lower position NOSE MUST BREAK BEAM TO RETRIEVE A PELLET NOSE ACCESS HOLES FOOD PELLETS BEAMS THE SAME HEIGHT ABOVE RESPECTIVE FLOORS Considering standardized measurements while designing Tru Scan also gave rise to making different size arenas with different beam height and spacing for rats and mice Running mice in rat arenas with rat beam spacing and rat beam height just doesn t produce comparable data no matter what our competitors tell you If you run mice in a coordinate system spaced for rats the program will see mice as lost when they are between beams You can get away with doing this a new break type system but data aren t nearly as precise as with Tru Scan s computed coordinate system See page 8 Beam Breaks ARENAS
60. s with attempts to retry will cause the data for the current run only not prior runs to be filed as Aborted and the station to be withdrawn from the session When this happens the status cell will show WITHDRAWN in black This will not affect the successful completion of the session vis vis the other stations Nor will it affect the functioning of the subject draw list since the list simply posts subjects for the next selected available station The BLACK STATION STATUS CELLS will show for all stations not currently in use A black ABSENT will appear for stations that were not connected or were unpowered at log in UNUSED is shown for those stations connected and powered but which have been designated by clicking on the green box in the Log in window to not be used in this session The WITHDRAWN status for a station indicates two perseverative failures in attempting to correct a service problem STIMULUS STATUS CELLS The STIMULUS status cells in the row below the station status cells show the stimuli which are specified for a protocol by numbers 1 2 3 and 4 to the left of the in the stimulus cell for each station The stimulus numbers will appear to the right of the for the duration that the stimuli are actually being presented The indication for stimulus 4 the hardware timed stimulus is present for 1 second when the hardware timer is triggered to start 32 THE TRACKING CELLS The gray row of cells just below
61. sion is the period of time from the time an operator logs on and selects the protocol s until the time that the last animal in all active stations is finished and data are filed and if desired displayed and or printed A session may consist of running one single animal experiment in one station or any number of animals in one or more of up to 10 stations STATION A station is the environmental hardware in which a subject is run It consists of a cage arena with up to 3 sensor rings up to 4 optional stimulus devices and a Tru Scan Station Linc control box The system accommodates up to 10 stations Sessions may run with any mix of protocols in the stations from the same in all stations up to 10 different protocols one in each of the 10 stations See page 5 for station hardware diagram 10 MEASUREMENT CAPABILITIES Tru Scan software is the most versatile and the simplest to use in the industry You simply point and click your way to create an experiment protocol which includes subject I D automatic data filing experiment control with stimulus presentations if desired and fully automated data analysis with tabular and graphic presentation printing and export for all measures listed under Summary Statistics below RAW DATA data are filed as raw coordinate sets for each of the 1 to 3 sensor rings with real time dates This lets you do two very important things First any experiment can be rerun without animals to re an
62. t click on Experiment Run Histogram the specification window will appear The experiment run time selected in the previous window will be shown for convenience in selecting bins You may specify either the number of intervals you want and let the program compute the bin width or you may specify the bin width and let the program compute the number of bins After entering either click on Compute and the computer will do the math and post the other number in the other box If you select a number that does not work out to the session length and a bin would be truncated you may respecify a number that works out evenly You must specify a number even if itis 1 The time units of the bin widths are determined by the Experiment Time Units that you selected before and are shown in green below the Compute button POST STIMULUS HISTOGRAMS If you have selected one or more stimuli to be presented and want to use post stimulus histograms click on Post Stimulus Histogram When you click on Post Stimulus Histogram the histogram specification window will appear The experiment run time you selected before will be shown for your convenience in specifying the number and width of bins Here you specify the number of intervals and the width of each following the OFFSET of each stimulus in the experiment for which you want to analyze selected data The single width applies to all The width of the bins for post stimulus histograms may be specified in min
63. t a wall Data acquisition protocols allow selection of any half of the cage as the data area so that number of entries movements time spent in the box etc may be recorded easily The light dark box is simple to install Grasp the handle on the top and lower it into the cage making sure that the pins on the long side are placed over one of the walls of the cage You may use any side you wish just make sure you have selected the corresponding half of the cage in your data acquisition protocol SHOCK FLOOR The optional shock floor may be connected to any of our shockers and controlled by one of the stimulus outputs of the Tru Scan station control Linc The floor is simply dropped in and lifted out from the top of the arena The printed circuit board which supports and distributes shock to the grids rests on the floor The shock wires are routed under the arena wall at a corner between the wall supports A spacing gage supplied with the floor is used to set a second set of collars also supplied with the floor to the proper elevation for standard floor plane recording Pass the shock wires under the right rear wall and lower the shock floor to rest on the drop pan floor The shock floor is higher than the pan floor so you will have to use the extra set of collars and the spacing gage supplied to elevate the FP sensor ring to the same height above the shock floor as it was above the drop pan floor Connect the shock wires to the
64. the pause begins it will persist until you manually restart the run Time units of seconds or minutes are determined by the time unit for the experiment you selected above note this is not the sample interval When a pause occurs the experiment run time is suspended and no data are acquired until the Start Resume switch on the Tru Scan Linc station box is pressed See Warning Caution RE stimuli and pauses below STIMULUS PRESENTATION To add stimulus presentations to your protocol check one of the four select boxes and the presentation list window will appear Like pauses stimulus presentation onsets are also specified as to when they are to start in minutes or seconds into the run depending upon the Experiment Time Units you selected in the top creation window Stimuli 1 2 and 3 are timed by the computer so you must specify both the onset and offset start and stop times These 3 stimuli may be controlled with a resolution of one second Placement accuracy is better than 1 millisecond You may create a list to present each of these 3 stimuli up to 99 times during the run Stimulus 4 is timed by the Tru Scan station Linc This allows you to present very brief durations of a stimulus because the resolution of the hardware timer in the Linc is 10 milliseconds To present stimulus 4 specify the onset time in the list creation box The computer will control the time into the experiment run that the stimulus is turned on It will trigge
65. the stimulus cells is the tracking row You may track the position of any animal in any cage in real time during an experiment A double click in one of these cells will present a grid for the corresponding station representing the beams in the arena You may select any active station for this function The running trail graphic is similar but slower to the one described under the main file menu option Tracking Check above This running trail gives added insight into the current behaviors indicated in the Movements and Move Time cells below in each column EXPERIMENT RUN INFORMATION CELLS The three rows of cells under tracking show the protocol number the subject I D portion of the file name and the run number currently running The rest of the data file name information is derived from the column station number and the session number shown in the header The TIME REMAINING cells below each station show the time remaining in the run for the experiment in the corresponding station The screen is updated every second and since stations may run in fractions of a second or are not always started in synchrony the remaining time will be shown to the nearest 1 10th of a second The two rows of real time data cells below the time remaining bar show current behavior in real time MOVEMENTS and MOVE TIME give the best indication of overall activity so that you can keep track of an animal s general performance at a glance during a run TE
66. the subject from one beam scan to the next scan which shows a change in location Coordinates and their run time dates are the basis for all measurements in the system DATA PRINT INTERVAL This is a term for one of the bins of an interval histogram that spans the experiment duration Data interval is used to mean the time width of a histogram bin in Tru Scan EXPERIMENT RUN An experiment is referred to as a run Arun is an experiment run of a single subject any one of a number of subjects in a sequence in a single station of up to 10 stations in a system during a session PROJECT DATABASE The project database defines a database in which different experiment protocols may be created and executed time after time with the experimental results being analyzed and stored in that database Tru Scan s multi database system provides for multiple users and projects having different data management related variables Most significant of these are the speed with which the photobeams are scanned and the subsequent time resolution of the data This along with the size of the arena rat or mouse and the units of measure English or metric define sets of data which cannot be averaged with one another The use of separate databases for different projects or users provides convenience for archiving and subsequent group analysis of data PROTOCOL The protocol or experiment protocol as it relates to the running Tru Scan software is the structure
67. tion and format and name the file PRINTING DATA While each list or plot is open it may be printed If you have a printer connected to your computer just click on PRINT and the table or graph will be printed on the default printer REVIEWING X TYPE FILES When you select this option a window will appear where you can view the session average X file s if you created them under the option in this window X file histograms have the standard deviation shown as a D over each bar SAVE DATA CREATING T FILES You may elect to prepare space delimited ASCII files for American or European format and save them to disk for import to your spread sheet with this election R type files for each experiment are saved to disk here The first letter for the file will be T the next 7 letters are to be designated by you and the extension will still bear the R or E type designation and the protocol number SAVING THE SESSION FILE This election saves both the E and R type files to tape disk or another location on your hard drive to e mail it etc This is a good place to save for backup on a session by session basis or to copy data to forward to a colleague on disk or by e mail You may later import the session data into your computer or another computer for review using the same review operations available at End Terminate FILE OPTION IMPORT SESSION This option allows you to import a session you have saved above and install it in another compute
68. un journal You may view numeric lists singly for each datum or in a group for all data Graphic plots of each datum may only be viewed one at a time There is not enough room to display plots of all data in a run in one printable window so it is limited to one View All Data will list all of the data you selected for the protocol formatted in a row for each datum with a series of columns representing the time bins you selected for the protocol You may print this list View Datum gives you the option to view a list of a single datum or more importantly to view a graphic plot of that datum You select from the list for each datum you wish to see The selection list is in the same form as the datum list from which you selected when you created the protocol It is of course limited to those datum items you selected Graphics scaling is automatic the most populous bin will fall in the highest vertical scale segment and your selected number of bins will be full horizontal scale The suggested limit for the number of histogram bins for each datum is 50 for printing purposes The print graphics can adequately resolve 100 bins but the time label is removed above 50 bins The limitation does not apply to numeric lists they print at the same resolution regardless of length They will just be multi page documents SAVING and EXPORTING GRAPHICS Graphs may be saved as JPEG or Bitmap files for importing into your publication documents Just select the op
69. us related behaviors NOSE POKE FLOOR The optional nose poke floor has a 4X4 array of holes with an underlying food tray The floor stands on integral posts that elevate it to exactly the correct height for the beams to pass between the floor and the tray Because Tru Scan software records the actual coordinates from all 3 sensor rings it is possible to analyze through which hole and at what time the animal pokes its nose It is a simple matter to devise protocols for spatial learning and memory testing using this feature CONFIGURATION AND OPTIONS COULBOURN TRUSCAN proreseam LITE TIMER mS x 10 START RESUME STATION INTERFACE Each station requires a station interface box or Tru Scan Linc The Linc contains a microprocessor to communicate with the host computer control the sensor rings up to 3 for each station and stimulus devices up to 4 for each station process beam breaks into X Y coordinates and to report station configuration and proper functioning SENSOR RING FUNCTION Since there is only one type of sensor ring the connector input on the station Linc box determines defines the function of the ring There are three 9 pin cable connections on the back of the Linc They are labeled Floor for FP data Nose Poke for NP data and Vertical for VP data NOTE Rings must be mounted with the name up and to the front so that data specifying position will be correct 0X OY coordinates are at the left front of the
70. utes or seconds for fleeting effects For these histograms you specify both the number and width because they are independent of session length If you select a number and width of bins that add to a total time which exceeds the spacing between presentations of one of the stimuli which you specified previously a message will appear to advise you that they overlap and that this is not allowed You will be asked to respecify The same is true if a bin runs past the end of the session 26 All post stimulus histograms will automatically have one more bin added A bin with a width equal to your specification will be analyzed before the ONSET of each stimulus presentation This 1st bin provides a baseline to which to compare the behavior after the stimulus NOTE Post stimulus histograms are averaged and presented as a single averaged list or plot for all presentations of each of up to four one of each type stimuli in an experiment run If you want to have a set of separate histograms for a presentation by presentation series use multiple experiment runs with a single stimulus presentation with a post stimulus histogram or use an experiment run histogram placing the stimulus at the onset of the second bin to provide a baseline in the first If you still want an average for a single animal in a multi run session you may average all of the runs all animals in the session X file at session end or each of the animals runs under Statistical Review and
71. utput stimulus number 4 is used for very brief stimulus presentations The time range may be set from 10 milliseconds to 9 99 seconds Accuracy is greater than a tenth of a millisecond When you select this output in software to control a stimulus don t forget to set the timer to the desired time Stimulus Status is shown in the status cell when the corresponding stimulus output driver is powered on INTERFACE CARD INSTALLATION IMPORTANT The drivers on the CD included with the PCI 3 KIT must be installed BEFORE installing the PCI 3 Measurement amp Computing PCI INT32 interface card in the computer If you are updating your system from an earlier version of Tru Scan to Tru Scan 2 0 it is NOT necessary to remove your previous version You will need to remove the PCI or ISA interface card from the computer that was used with your previous version and then follow the installation instructions as follows Be sure to turn the computer off whenever installing or removing interface cards in the computer Two Compact Discs were included with your system Tru Scan 2 0 and InstaCal included with the PCI 3 Kit InstaCal must be installed first Before beginning the installation exit all Windows programs Insert the InstaCal CD into the CD drive of the computer The program should start automatically but if it does not select Run from the Programs menu and choose the setup exe file from the CD drive Select the OK button and the monitor will
72. w data files click on this option and a window will appear Here you can select one or more raw data files to run by the same sort and filter methods as in Review E Files above You can create and run a new experiment with new data you did not originally select when you created the old protocol New experiments may also be printed plotted saved as graphics files for each datum in the protocol or exported for special analysis You must specify the new experiment s data analysis protocol You cannot change parameters for experiment run length pauses or stimuli because the data from the original experiment would not be comparable after alll the behavior did occur in the context of these parameters These parameters are carried forward from the raw data files for your new experiment You may only change the data analysis parameters This also limits you to rerunning with the same type of histograms If the original experiment was a post stimulus histogram type then any rerun will also be of this type The opposite is also true for session sweep experiment types Why rerun experiments Suppose you ran some experiments last year using a 1 hour session and a single bin experiment run histogram 1 data interval of Movements and X Y Distance Traveled Somewhere along the way you suspected that animals subjected to the independent variables in these experiments were hanging out in a corner and not moving very much for the early part of the experiment So

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