Talk:MitoPedia: Oroboros QM

Work in progress

Keywords - definitions

• MitoFit data repository - MitoFit data bank

• Experiment

• Experimental assay
• Experimental assay series
• Dataset

• Sample

• Sample type
• Sample group
• Sample size
• Population

• MitoFit protocols

• Laboratory protocols
• Harmonization protocols (Begley, Ioannidis 2015)
• Solution protocols: media, substrates, uncouplers, inhibitors used in SUIT protocols, permeabilization agents, etc.
• Instrumental performance protocols
• Mitochondrial preparation protocols including biopsy sampling, tissue storage, cell preparation protocols, etc.
• Respirometric OXPHOS data acquisition and analysis protocols

• Normalization protocols

• MitoFit proficiency test

• Standardization
• Harmonization
• Standard operating procedures
• Subprotocols

• MitoFit team

• MitoFit moderator
• MitoFit accreditation panel

• MitoFit registered project

• MitoFit pre-registered project
• Prespecified protocols (Begley, Ioannidis 2015)
• Time-stamped protocols (Begley, Ioannidis 2015)
• Publicly deposited protocols (Begley, Ioannidis 2015)

Work flow

For registration of protocols, a project is announced with reference to:

MitoPedia protocols

• Sample preparation protocols
• Solution protocols
• Chemicals
• Procedure protocols: (a) Platform-specific (ORO SOPs); (b) General (e.g. O2 calibratio principles).
• SUIT protocols

MitoPedia protocols are moderated by the MitoFit moderators (MitoFit team), either as protocols with direct reference to publications available to the scientific communicty, or protocols additionally described and made available in Bioblast with full information on authors (including contact details), author contribuitons, and editor (moderator) in charge.

Pre-registration of a project

Pre-registration of a project requires submission to a MitoFit moderator (editor) the protocol details with reference to MitoPedia protocols, or with submission of protocols for publication (Open Access) in MitoPedia. The MitoFit (Bioblast) editors will edit the submitted protocols (layout) and insert into Bioblast submitted pre-registrations and protocols. Guidelines will be defined.

MitoFit accreditation

The MitoFit moderators (editors) will set up a MitoFit accreditation panel, into which the registrant will be included (perhaps not in the long run, to avoid conflict of interests) and/or for which the registrant can suggest delegates (compare peer review).

Accredited MitoPedia protocols are (additionally) labelled as MitoFit protocols.

After accreditation of a pre-registered MitoFit project, this becomes labelled and listed (additionally) as MitoFit registered project. This is possible before (advance registration), during progress, and after completion of a study (post-registration).

A MitoFit registered project receives a code for feeding data into the MitoFit data bank.

Links to Publications

MiPMap

• Population

1. Property:Mammal and model
2. Property:Nonmammal
3. Property:Tissue and cell
4. Property:Cell line

• Sample type

= Population and Preparation

1. Property:Preparation
2. Property:Enzyme

• Pathophysiological arms of an Experiment

1. Property:Stress
2. Property:Diseases

• Respiratory control

1. Property:Respiration and regulation
2. Property:Coupling states
3. Property:Substrate states

• Instrumental platform

1. Property:High-resolution respirometry

Links to MitoPedia

• MitoPedia