Electrophysiology Terminology

TermDefinition
1. General features
Date and timeThe date and time on which the work described was initiated given in the ISO:8601 representation. YYYY-MM-DDThh:mm:ss
Responsible person or roleThe (stable) primary contact person for this data set; this could be the experimenter lab head; line manager etc. Where responsibility rests with an institutional role (e.g. one of a number of duty officers) rather than a person give the official name of the role rather than any one person. In all cases give affiliation and stable contact information that consists of (i) Name (ii) Postal address and (iii) Email address.
Experimental contextThe name of the project study or wider investigation of which the ”experiment” is a part (if appropriate).
Electrophysiology typeThe type of electrophysiology recording reported as ‘extra cellular’ or ‘intra cellular’
2. Study subject(derived from MIAME 1.1 [4])
GenusThe genus classification of the study subject according to the NCBI taxonomy classification
SpeciesThe species classification of the study subject according to the NCBI taxonomy classification
StrainThe strain; genetic variant classification of the study subject if appropriate. Note this is not cell line (see x.x)
Cell lineThe identifier for the immortalised cell line if appropritate.
Genetic characteristicsThe genotype of the study stubject. Genetics characteristics include polymorphisms; disease alleles and haplotypes.
Genetic variationThe genetic modification introduced in addition to strain if appropriate.
Disease stateThe name of the pathology diagnosed in the subject. The disease state is “normal” if no disease state has been diagnosed.
Clinical informationA link; summary or reference to additional clinical information if appropriate.
SexThe sex of the subject in terms of either male female or hermaphrodite.
AgeThe time period elapsed since an identifiable point in the life cycle of an organism. If a developmental stage is specified the identifiable point would be the beginning of that stage. Otherwise the identifiable point must be specified. For example: 2 hours post surgery.
Development stageThe developmental stage of the study subject’s life cycle
Subject labelIf the subject has been chemically labeled or stained; state the label name.
Subject identifierThe type and value of the identifier assigned to the subject.
Subject identifier typeThe type and value of the identifier assigned to the subject. For example: vendor or patient identifier. For patients
Subject identifier valueThe unique string which corresponds to the identifier type.
Associated subject detailsThe organisation (e.g vendor) or individual repsonsible for the subject.
Preparation protocolThe surgical procedure or the preparation protocol implmented to obtain the specific sample for recording.
Preparation dateThe date the surgical procedure or the preparation protocol was performed to obtain the specific sample for recording. Given in the ISO:8601 representation. YYYY-MM-DDThh:mm:ss
3. Recording Location
Location structureThe anatomical part or structure of the subject under investigationor recorded from. For example brain or cell culture.
Brain areaIf the anatomical structure under study from 3.(a) is the brain then state the location. If the anatomical structure under study is the mammalian brain then state the location using Neuronames. (http://braininfo.rprc.washington.edu/aboutfolder/aboutbi.html).
Slice thicknessThe thickness of the recording slice in milimeters.
Slice orientationState the planes of the slice in terms of either i) coronal (width ways) ii) saggital (lengthways parallel to midline) or iii) tangential (lengthways perpendicular to midline).
Target cell typeThe cell type of the anatomical structure given in 3.(a) under investigation if non mixed. If mixed the target cell type should be provided
Confirmed cell typeThe method of coordinate assignment given in Section 2.3.1 of the MINI Standard. Reported as ‘anatomy confirmation’;‘estimation’ or chemical label (this includes antibodies and staining). The label used should be reported in section 2.(l). Additional information such as recodings or image files which also confirm the location can be referenced here.
4. Task(if appropriate)
ProtocolA description of the task protocol undertaken by the subject
Sensory conditionsThe sensory conditions during the task protocol
EquipmentThe Model Name; Model Number and Manufacturer for equipment used in the task protocol
RecordingIf the task is recorded state how and what data types are being recorded
5. Stimulus(if appropriate)
ProtocolA description of the stimulus protocol undertaken by the subject
SensoryConditions The sensory conditions during the stimulus protocol
SolutionsDescription of the solutions used in terms of name components with concentrations (if appropriate).
EquipmentThe Model Name; Model Number and Manufacturer for specialised equipment used during the stimulus protocol. If electrode(s) are used then they should be described.
RecordingIf the stimulus is recorded state how and what data types are being recorded
6. Behavioural event(if appropriate)
EventA description of the behavioural event observed
EquipmentThe equipment use to record the behavioural event; if recorded in terms of The Model Name; Model Number and Manufacturer.
Behavioural event recordingThe type of recording of the behavioural event; the file format and the format encoding.
7. Recording
ProtocolA description of the recording protocol
ConditionsThe subject conditions during the recording. Invivo or invitro preparation? If invivo was it anethesitised or awake? If awake what was the stimulus condition?
Containing deviceContaining device temperature of the subject or sample (for example: a bath): Include temperature if appropriate.
SolutionsDescription of the solutions used in terms of name; components with concentrations (if appropriate).
Solution flow speedThe flow speed of the solution in terms of ml/min.
ElectrodeThe type of electrode and the Model Name Model Number and Manufacturer for specialised equipment
Electrode configurationThe configuration or arrangement of the electrode. For example: a 2-dimensional array. Also state the distance between each electrode. If the study uses voltage clamp in a patch configuration; state the access resistance (the resistance of the cell membrane that is in series with the electrode resistance).
Electrode impedanceThe electrode range or impedance of the electrode
AmplifierThe Model Name; Model Number and Manufacturer of the amplifier
Filter(if appropriate) The Model Name; Model Number and Manufacturer of the filter
Filter settings(if appropriate) The settings or the parameters of the filter
RecorderThe Model Name; Model Number and Manufacturer of the recorder
8. Time series data
Data formatThe name of the data format of the time series data and specific encoding. For example: ASCII or binary encoding.
Sampling RateThe sampling rate of the recording
File locationThe time series file location should be made available when the experiment is published. For example: using a Uniform Resource Identifier (URI) or a Digital Object Identifier (DOI)