Knowledge Base

9 Acquire Data

There are three ways of acquiring data with your DanioVision system. For every option it is possible run single trials, but it is also possible to carry out batch acquisition.

acquire data live (page 69). The larvae are tracked as they move in

their wells. acquire data live and record video simultaneously (page 70). The larvae are tracked as they move in their wells while at the same time a video is recorded. This gives you to opportunity to redo the tracking if necessary, either per trial or using batch acquisition.

record video, then acquire data (page 71). You record a video first

and then track the subjects offline from the video. Please note that if you only record video with EthoVision XT, Trial Control is not applied. So, for example, the white light is not switched on and off, if you only record video. Before you start acquiring data, make sure you have carried out all the necessary checks of the system (see page 32).

Notes

The DanioVision Observation Chamber is designed to block light from the outside. However, it cannot be guaranteed that it is completely dark inside the chamber. For experiments that require absolute darkness, place the DVOC in a dark room.

important In long experiments, evaporation may occur for both

the wells in the plate and the basin. Check the wells every 24 hours and if necessary, refill them. Refill the basin every 2-3 days using the Basin Refill tool. For details, see the Reference Manual - DanioVision Temperature Control Unit DV-TCU. Please read the section in the next pages that applies to your setup. For more information, see Acquire Data in the EthoVision XT Help.

Acquire Data Live

1. Make sure the camera is connected to the EthoVision XT computer

and that Live tracking is selected as Video Source in the Experiment

Settings. 2. Optionally, plan your trials in the Trial list and select the Arena settings, Detection settings and Trial control settings for each trial. 3. Choose Acquisition > Open Acquisition. 4. If no trials are planned, click the New trial button in the Playback Control window or press Ctrl+F3. 5. In the Acquisition Settings pane, select whether you want to track only the next planned trial or whether you want to track all planned trials without having to start the next trial manually. If you want to track all planned trials, specify the inter-trial interval. Enter a time long enough to be able to change well plates. When you change the well plate between trials, you can start the next trial without waiting that the inter-trial interval is reached. To do

this, click the Skip remaining interval button in the Playback

Control window. 6. Select whether you automatically want to start the analysis after the tracks are acquired. If that is the case, first define your

dependent variables in an Analysis Profile (see Analyze data on page

113). Optionally, first make a Track Smoothing profile and a Data profile to make a selection out of your data. 7. Select whether you want to use the Track smoothing profile, Data profile, and Analysis profile that are highlighted in blue in the Experiment Explorer for analysis, or that you want to run analyses for all possible profile combinations. In the latter case, first delete all profiles you do not need for analysis. If you want to carry out

analyses for only a selection of profiles, deselect the check box Auto-

start analysis and carry out batch analysis after acquisition (see step

5 on page 115). 8. Put the well-plate into the DanioVision chamber. 9. Click the Auto-detect button. A Re-initialize window with a timer appears. Wait until it disappears.

important Use the Auto-detect button every time you change a

well-plate.

10.To start the trial, click the Start trial button in the Playback Control

window (or press Ctrl+F5). 11. To stop the trials, wait until Trial Control automatically stops the

trials. To stop acquisition manually click the Stop trial button in the

Playback Control window (or press Ctrl+F6). If you stop the trials

manually, automatic analysis does not start. Also, for batch analysis, the next trials are not started if you stop a trial manually.

note The recommended maximum trial duration when acquiring live

without recording video is 72 hours (3 days).

Acquire Data Live And Record Video

Simultaneously

To save video when doing tracking, follow the procedure above, with

the difference that in step 4 you select the check box Save video in the

Acquisition Settings pane. If you realize tracking was not optimal, you can re-do tracking from the acquired video.

note The recommended maximum trial duration when acquiring live

and recording video simultaneously is 60 minutes. Longer trials produce video files of excessive size, more difficult to manage. Furthermore, if one large video gets corrupted then you lose more data.

Record Video, Then Acquire Data

If you use the option Save video only, track later, Trial Control is not

applied so you cannot control the white light of the DanioVision Chamber with EthoVision XT. To save video when doing tracking, follow the procedure on page 69,

with the difference that in step 4 you select Save video only, track later

in the Acquisition Settings pane. Also make sure that the trial is time

limited, either with a time condition in the Trial Control start-stop rule, or with a Maximum Trial duration setting (page 58). Next, you can acquire data using batch acquisition. Plan your trials in the Trial list and specify the video and optionally Arena Settings, Trial Control Settings and Detection Settings for each trial.

note The recommended maximum trial duration when recording video

is 60 minutes. Longer video recordings produce files of excessive size, more difficult to manage. Furthermore, if one large video gets corrupted then you lose more data.

Drain And Clean The System

At the end of the experiment, we recommend to remove all the water from the basin and the tubes.

If you use the Temperature Control Unit, DV-TCU, set it to Fill/Drain and

follow the instructions in the manual Reference Manual - DanioVision Temperature Control Unit DV-TCU.pdf. To prevent the growth of algae in the system: Always drain the system after use. Do not expose the system and the tubes to sunlight.

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Source: Reference Manual - DanioVision DVOC-0041