Minimum information for fermentation experiments v1

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Attributes

NameTypeDescriptionPID helpUnit
Title*StringNot specifiedhttp://schema.org/name-
DescriptionStringNot specifiedhttp://schema.org/description-
biosafety levelStringBiosafety level of the corresponding samplehttp://fairbydesign.nl/ontology/biosafety_level-
geographic location (country and/or sea)StringThe geographical origin of the sample as defined by the country or sea. Country or sea names should be chosen from the INSDC country list (http://insdc.org/country.html).http://fairbydesign.nl/ontology/geographic_location_country_and_or_sea-
phaseStringA distinct stage in the fermentation process, such as lag phase, log phase, or stationary phase.http://fairbydesign.nl/ontology/phase-
phase durationStringThe total time duration of a specific phase in minutes during the fermentation process.http://fairbydesign.nl/ontology/phase_duration-
phase purposeStringThe intended outcome or goal of a specific phase in the process, e.g., growth or product synthesis.http://fairbydesign.nl/ontology/phase_purpose-
recipe urlStringstandard operating procedure (or protocol) for samplinghttp://fairbydesign.nl/ontology/recipe_url-
replicateStringA role played by a a biological sample in the context of an experiment where the intent is that biological or technical variation is measured.http://fairbydesign.nl/ontology/replicate-
sample collection device or methodStringThe method or deviced employed for collecting the samplehttp://fairbydesign.nl/ontology/sample_collection_device_or_method-
sample dry massStringmeasurement of dry mass at the time of sample collection; e.g. 0.05ghttp://fairbydesign.nl/ontology/sample_dry_mass-
sample materialStringSample material from which data deposited was generated, e.g. tissue fragment. If unknown please select "not provided".http://fairbydesign.nl/ontology/sample_material-
sample material processingStringAny processing applied to the sample during or after retrieving the sample from environment. This field accepts OBI, for a browser of OBI (v 2013-10-25) terms please see http://purl.bioontology.org/ontology/OBIhttp://fairbydesign.nl/ontology/sample_material_processing-
sample storage bufferStringbuffer used for sample storage (e.g. RNAlater)http://fairbydesign.nl/ontology/sample_storage_buffer-
sample storage conditionsStringConditions at which sample was stored, usually storage temperature, duration and locationhttp://fairbydesign.nl/ontology/sample_storage_conditions-
sample storage containerStringContainer that sample was stored in e.g. tube typehttp://fairbydesign.nl/ontology/sample_storage_container-
sample wet massStringmeasurement of wet mass at the time of sample collection; e.g. 0.23 ghttp://fairbydesign.nl/ontology/sample_wet_mass-
sampling time point*StringNot specifiedhttp://fairbydesign.nl/ontology/sampling_time_point-
volumeStringLiquid volume in the vesselhttp://fairbydesign.nl/ontology/volume-
scientific name*StringName of the organismhttp://gbol.life/0.1/scientificName-
ncbi taxonomy id*StringTaxonomic identifier of the sample according to https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi for example use 2582415 for a blank sample or 1510822 for pig metagenomehttp://purl.uniprot.org/core/organism-
collection date*StringThe date of sampling, either as an instance (single point in time) or interval. In case no exact time is available, the date/time can be right truncated i.e. all of these are valid ISO8601 compliant times: 2008-01-23T19:23:10+00:00; 2008-01-23T19:23:10; 2008-01-23; 2008-01; 2008.https://w3id.org/mixs/0000011-
sample storage temperatureStringtemperature at which sample was stored, e.g. -80https://w3id.org/mixs/0000110-
sample storage durationStringduration for which sample was storedhttps://w3id.org/mixs/0000116-
sample storage locationStringlocation at which sample was stored, usually name of a specific freezer/roomhttps://w3id.org/mixs/0000755-

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Created: 11th Nov 2025 at 10:52

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