Run DL-Protocol/Set O2 limit: Difference between revisions
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:::: '''Show DL-Protocol'''ย can be check-marked ([[File:Check-mark.png|17px]]) to hide or show the DL-Protocol window. Alternatively, the [[File:_Button_show-hide_DL-Protocol_window.png|17px]] button (upper left) in the DL-Procotol window can be used to hide or show the window. When DatLab is started for data recording, an empty DL-Protocol window shows up because no DL-protocol is specified at this moment. | :::: '''Show DL-Protocol'''ย can be check-marked ([[File:Check-mark.png|17px]]) to hide or show the DL-Protocol window. Alternatively, the [[File:_Button_show-hide_DL-Protocol_window.png|17px]] button (upper left) in the DL-Procotol window can be used to hide or show the window. When DatLab is started for data recording, an empty DL-Protocol window shows up because no DL-protocol is specified at this moment. | ||
:::: '''Synchronous DL-Protocol events'''. This | :::: '''Synchronous DL-Protocol events'''. This option is only available when the same DL-Protocol is selected (in 'Set DL-Protocol / O2 limit') for chamber A and B (protocol names are displayed in the name field of the DL-Protocol window). When checked [[File:Check-mark.png|17px]], the user only needs to follow one protocol sequence of either chamber A or B. For example, when an event is set for chamber A, it will also be automatically set for chamber B - the 'Event Information' window indicates "Set event in both chambers" in bold letters. ย | ||
:::: '''Set DL-Protocol / O2 limit''' | :::: '''Set DL-Protocol / O2 limit''' | ||
:::: '''A: Export DL-Protocol'''. The user can save changes in a DL-Protocol and | :::: '''A: Export DL-Protocol'''. The user can save changes in a DL-Protocol and export an user-modified DL-protocol (.DLPU) for reuse. To make changes in a DL-Protocol see: 'DL-Protocol window' [[File:Edit.png|60px]] | ||
:::: '''B: Export DL-Protocol''' applies for chamber B as described above in 'A: Export DL-Protocol'. | :::: '''B: Export DL-Protocol''' applies for chamber B as described above in 'A: Export DL-Protocol'. | ||
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::::At the top there are three buttons: [[File:_Button_show-hide_DL-Protocol_window.png|17px]] for hide/show the DL-Protocol window; [[File:Hide_marks.png|60px]] for hiding the marks of the DL-Protocol to focus only on the events, which have to be set sequentially when running the protocol; [[File:Edit.png|60px]] button, which opens the 'Edit DL-Protocol' window to make changes in concentration and titration volume in the events and marks of the DL-Protocol. These changes can be saved, see '''A: Export DL-Protocol'''. | ::::At the top there are three buttons: [[File:_Button_show-hide_DL-Protocol_window.png|17px]] for hide/show the DL-Protocol window; [[File:Hide_marks.png|60px]] for hiding the marks of the DL-Protocol to focus only on the events, which have to be set sequentially when running the protocol; [[File:Edit.png|60px]] button, which opens the 'Edit DL-Protocol' window to make changes in concentration and titration volume in the events and marks of the DL-Protocol. These changes can be saved, see '''A: Export DL-Protocol'''. | ||
::::Below the buttons the '''name field' displays the name of the loaded protocol. | ::::Below the buttons the '''name field' displays the name of the loaded protocol. | ||
::::The list in the DL-Protocol window shows the sequence of events and marks. The numbers in the event and mark names corresponds to the defined sequence in the DL-Protocol. Mark names are preceded by "'''>> M:'''", events are indicated by "'''>> E:'''" or "'''* E:'''". Every mark or event is unique and | ::::The list in the DL-Protocol window shows the sequence of events and marks. The numbers in the event and mark names corresponds to the defined sequence in the DL-Protocol. Mark names are preceded by "'''>> M:'''", events are indicated by "'''>> E:'''" or "'''* E:'''". Every mark or event is unique and must be set only once. However, there is an exception for events identified by "'''*'''", which can be set consecutively multiple times, as it is necessary for titrating the uncoupler (U) in SUIT protocols.ย ย | ||
== Running a DL-Protocol == | == Running a DL-Protocol == |
Revision as of 09:16, 13 July 2017
Description
DL-Protocols can be selected in DatLab (DL7.1) in the pull-down menu 'Protocol': Set DL-Protocol / O2 limit. A DL-Protocol defines the sequence of Events and Marks. Instrumental DL-Protocols are used for calibrations and instrumental quality control, typically without experimental sample in the incubation medium. DL-Protocols for Substrate-uncoupler-inhibitor titrations (see MitoPedia: SUIT) proceed stepwise to activate a sequence of coupling control states and pathway control states. A specific SUIT protocol can be assigned to O2k-chamber A or B or both. The Titration-Injection-microPump TIP2k can be programmed to control automatically TIP2k-protocols. A collection of evaluated and tested standard DL-Protocols are provided. These can be edited and saved under 'Lab protocols' or under the User logged into DatLab. Moreover, an automatic warning at low oxygen levels can be set to remind the user to re-oxygenate the chamber in time.
Abbreviation: n.a.
MitoPedia O2k and high-resolution respirometry:
DatLab
- Show DL-Protocol can be check-marked () to hide or show the DL-Protocol window. Alternatively, the button (upper left) in the DL-Procotol window can be used to hide or show the window. When DatLab is started for data recording, an empty DL-Protocol window shows up because no DL-protocol is specified at this moment.
- Synchronous DL-Protocol events. This option is only available when the same DL-Protocol is selected (in 'Set DL-Protocol / O2 limit') for chamber A and B (protocol names are displayed in the name field of the DL-Protocol window). When checked , the user only needs to follow one protocol sequence of either chamber A or B. For example, when an event is set for chamber A, it will also be automatically set for chamber B - the 'Event Information' window indicates "Set event in both chambers" in bold letters.
- Set DL-Protocol / O2 limit
- B: Export DL-Protocol applies for chamber B as described above in 'A: Export DL-Protocol'.
DL-Protocol window
- The DL-Protocol window appears to the very right for every chamber.
- At the top there are three buttons: for hide/show the DL-Protocol window; for hiding the marks of the DL-Protocol to focus only on the events, which have to be set sequentially when running the protocol; button, which opens the 'Edit DL-Protocol' window to make changes in concentration and titration volume in the events and marks of the DL-Protocol. These changes can be saved, see A: Export DL-Protocol.
- Below the buttons the name field' displays the name of the loaded protocol.
- The list in the DL-Protocol window shows the sequence of events and marks. The numbers in the event and mark names corresponds to the defined sequence in the DL-Protocol. Mark names are preceded by ">> M:", events are indicated by ">> E:" or "* E:". Every mark or event is unique and must be set only once. However, there is an exception for events identified by "*", which can be set consecutively multiple times, as it is necessary for titrating the uncoupler (U) in SUIT protocols.
Running a DL-Protocol
- DL-Protocol will inform you if a titration event is missed or a repetition of a non multiple titration occured (highlighted in red).
Titrations in SUIT protocols
- Stock concentration of substance B in the titration syringe, cB,in [mM] or [ยตM] as specified.
- Titration volume, v [ยตl]
- Chamber volume, V [ยตl]
- Final concentration, cB [mM] or [ยตM] as specified.
- cB [mM] = cB,in [mM] x v [ยตl] / V [ยตl]
- Example: Malate (M), cM,in = 800 mM stock; v = 5 ยตl titration volume; V = 2,000 ยตl chamber volume.
- cM [mM] = cM,in [mM] x v [ยตl] / V [ยตl] = 800 mM x 5 ยตl / 2,000 ยตl = 2 mM