Jtuom

Babel user information

fi-N	Tämän käyttäjän äidinkieli on suomi.

en-3	This user has advanced knowledge of English.

sv-2	Den här användaren har medelgoda kunskaper i svenska.

fr-1	Cet utilisateur dispose de connaissances de base en français.

de-1	Dieser Benutzer beherrscht Deutsch auf grundlegendem Niveau.

This user is a member of
WikiProject Medicine.

Jouni T. Tuomisto
chief researcher
National Institute for Health and Welfare (THL)
Finland

Special interests: environmental health, decision support, open data.
Publication list

Global disease burden data from IHME institute Edit

Description of data import was moved to User:John Cummings/Dataimporthub#Global disease burden data from IHME institute. The last version on this page is archived.

A permanent link to IHME data: global disease burden (DALYs and deaths for 2016) [1]

Original data described and preprocessed in Opoasnet.

Remember also these: years of potential life lost (Q2852035), number of injured (P1339), number of missing (P1446), number of casualties (P1590), mortality in Finland (Q24175139)

See instructions on Wikidata:Data Import Guide and User:John Cummings/Dataimporthub. For SPARQL Wikidata:SPARQL tutorial.

Example query in SPARQL (finds 1048 rows but with poor sensitivity and specificity):

The following query uses these:

Items: disease (Q12136)

Properties: instance of (P31)   , subclass of (P279)   , ICD-10 (P494)  
```
PREFIX schema: <http://schema.org/>

SELECT ?disease ?diseaseLabel (MIN(?icd) AS ?ICD10) ?article WHERE {
  ?disease wdt:P31/wdt:P279* wd:Q12136.
  ?disease wdt:P494 ?icd.
  ?article schema:about ?disease.
  ?article schema:isPartOf <https://en.wikipedia.org/>.
  SERVICE wikibase:label { bd:serviceParam wikibase:language "en,[AUTO_LANGUAGE]". }
}
GROUP BY ?disease ?diseaseLabel ?article
ORDER BY ?diseaseLabel
LIMIT 2000
```

Try it!

Template: Medical properties Edit

Opasnet - Wikidata connection Edit

We start the pilot by adding some existing disease burden data from a credible source (IHME Institute) into Wikidata and link to those data from Wikipedia.

The first set of data that is to be uploaded to Wikidata is the burden of disease estimates. Global estimates from the IHME Institute to English Wikipedia to populate disease and risk factor pages. For details of this work, see Burden of disease.

When adding data to Wikidata, there are some tricks you should know. These can be found from the documentation as well, but I highlight some issues that may save time and trouble.

Items and properties Edit

Properties are things that define the relation of the item and the value. Technically, items and properties are wiki pages in Wikidata and they have a unique number starting with Q (items) or P (properties). A particular property only accepts certain kind of values. Often values are also items, but sometimes numbers or strings.

See 'Help:Modeling causes' for examples and discussion.

For diseases, use has contributing factor rather than has cause when linking risk factors, because almost always a disease has several risk factors, and often one risk factor works with others to cause a case. Also, even if a risk factor is the single cause of a particular case, we do not want to imply that ALL cases of that disease are caused by a single risk factor.

All statements should have references. References are also statement triplets within a main statement. This kind of references should be used, in the order of preference. For details, see Help:Sources.

inventory number (P217) for URN numbers (URN itself is not a property!?)
Stated in (P248) requires an item as the value. So, if you want to have e.g. a book as reference, you must first add the book as item to the database and then link to the item. See Help:Sources before doing this.
Reference URL (P854) is the default property for some reason. However, use it only if the reference already has been added to Wikidata as item.
- We probably should add URL items such as Burden of disease (for global numbers) and Burden of disease in Finland].
Imported from (P143) should be used if the data comes directly from another database. This is relevant if/when Opasnet (or part of it) is considered as a credible source and data can be directly downloaded from there.
- For example: Imported from (P143) Opasnet (Q7095608)

Also organisations can be used as references:

imported from (P143) National Institute for Health and Welfare (Q4354957)
- Institute for Health Metrics and Evaluation (Q6039400)
Opasnet (Q7095608) in Wikidata

Other useful:

Wikidata:Userboxes to identify oneself in Wikidata. Babel box is useful, because then Wikidata offers languages you actually know.
Wikidata:WikiProject Medicine
en:Module:Wikidata
en:Template:Wikidata value
Wikidata:Notes/Inclusion syntax
mw:Wikidata Toolkit

We need a properties and units of measurement. This is how it goes.

Incidence and disease burden have been suggested as properties, and I hope they are accepted. incidence (P2844) disease burden (P2854)
Life expectancy already exists as a property life expectancy (P2250). The unit year (Q577) is attached to it. See also en:Life expectancy
Applies to part applies to part (P518) property should be used for distinguishing subgroups such as sex, age etc. but only if the subject item is a population.
Point in time point in time (P585) property should be used to distinguish the year of observation.
Does item person-year exist so that it can be used in units such as DALY / 100000 person-years? Or does it need to be a property? Use metre metre (Q11573) as an example about what properties a unit item should have.
Other relevant properties:
- en:Disease burden Wikipedia article
- tuberculosis tuberculosis (Q12204) example of a well-developed disease item. en:Tuberculosis has an infobox example
- Wikidata property for places Wikidata property related to places (Q19829914) Wikidata property for describing places. Might be useful to characterise things in e.g. building model.

knowledge crystal result (Q23893445)
Disease burden of air pollution (Q23680551)
based on (P144) is used when you refer to several articles that were summarised in a knowledge crystal
stated in (P248) is used when you refer to a knowledge crystal or article that is within Wikidata, e.g. Lelieveld 2015 The contribution of outdoor air pollution sources to premature mortality on a global scale (Q23670156)
Global Burden of Disease (Q499419)
disease burden (Q5282120)
blood concentration (Q24276435) for e.g. exposure estimates
years of potential life lost (Q2852035),
number of injured (P1339), number of missing (P1446), number of casualties (P1590)
mortality in Finland (Q24175139)

Environmental and other pages where we might want to add infoboxes:

en:Dioxins and dioxin-like compounds
en:Disability-adjusted life year
en:Help:Infobox
en:Study 329 example of a study with an infobox
en:Template:Infobox drug
en:Template:Infobox medical condition
en:Template:Infobox medical intervention maybe not relevant for public health?
en:Template:Infobox pandemic not much used but might be interesting to ROKO
en:Template:Infobox nutritional value might be interesting for RAVY
sotkanet these indicators might link to DALY estimates or calculations [2]

Other things

Examples

lead (Q708) → "exposure" 0.5 umol/l

criterion used (P1013) blood concentration (Q24276435)

location (P276) India (Q668)

of (P642) child (Q7569)

point in time (P585) 2014

Useful properties Edit

Wikidata properties and lists of properties
By number	0–99 100–199 200–299 300–399 400–499 500–599 600–699 700–799 800–899 900–999 1000–1099 1100–1199 1200–1299 1300–1399 1400–1499 1500–1599 1600–1699 1700–1799 1800–1899 1900–1999 2000–2099 2100–2199 2200–2299 2300–2399 2400–2499 2500–2599 2600–2699 2700–2799 2800–2899 2900–2999 3000–3099 3100–3199 3200–3299 3300–3399 3400–3499 3500–3599 3600–3699 3700–3799 3800–3899 3900–3999 4000–4099 4100–4199 4200–4299 4300–4399 4400–4499 4500–4599 4600–4699 4700–4799 4800–4899 4900–4999 5000–5099 5100–5199 5200–5299 5300–5399
Other	Property proposals index Constraint violations Special real-time list Real-time list by datatype Database report Deleted properties

Sets and logical Edit

property does not exist. Use "id=new" if it's to be created.

Argumentation Edit

Title	ID	Data type	Description	Examples	Inverse
instance of	P31	Item	instance of: that class of which this subject is a particular example and member; different from P279 (subclass of); for example: K2 is an instance of mountain; volcano is a subclass of mountain (and an instance of volcanic landform)	Nelson Mandela <instance of> human	-
subclass of	P279	Item	subclass of: this item is a subclass (subset) of that item; all instances of this item are instances of that item; different from P31 (instance of), e.g.: K2 is an instance of mountain; volcano is a subclass of mountain (and an instance of volcanic landform)	apple <subclass of> fruit	-
is a list of	P360	Item	list: common element between all listed items	list of presidents of France <is a list of> human	has list
part of	P361	Item	part: object of which the subject is a part (if this subject is already part of object A which is a part of object B, then please only make the subject part of object A), inverse property of "has part" (P527, see also "has parts of the class" (P2670))	ear <part of> head	has part(s)
said to be the same as	P460	Item	said to be the same as: this item is said to be the same as that item, though this may be uncertain or disputed	Maidilibala <said to be the same as> Uskhal Khan Tögüs Temür	-
opposite of	P461	Item	opposite and antonym: item that is in some way the opposite of this item	war <opposite of> peace	opposite of
has part(s)	P527	Item	has part, consist of and meronymy: part of this subject; inverse property of "part of" (P361). See also "has parts of the class" (P2670).	United States Congress <has part(s)> United States Senate	part of
used by	P1535	Item	user: item or concept that makes use of the subject (use sub-properties when appropriate)	remote control <used by> television watcher	uses
uses	P2283	Item	use: item or concept used by the subject or in the operation (see also instrument [P1303] and armament [P520])	painter <uses> paintbrush and paint	used by
has quality	P1552	Item	quality: the entity has an inherent or distinguishing non-material characteristic. use a more-specific property when possible	human <has quality> gender	of
manifestation of	P1557	Item	manifestation: inherent and characteristic embodiment of a given concept	organism <manifestation of> life	-
subproperty of	P1647	Property	subproperty: all resources related by this property are also related by that property	parent taxon <subproperty of> subclass of	-
inverse property	P1696	Property	inverse: links a property to its inverse property (which relates the subject and object in reverse order)	part of <inverse property> has part(s)	-
equivalent class	P1709	URL	equivalence class: equivalent class in other ontologies (use property URI)	bus stop <equivalent class> https://schema.org/BusStop	-
input set	P1851	Item	input set: a superset of the domain of a function or relation that may include some inputs for which the function is not defined; to specify the set of only those inputs for which the function is defined use domain (P1568)	tangent <input set> set of real numbers	-
different from	P1889	Item	different from: item that is different from another item, with which it may be confused	Kowalski <different from> Kowalski	different from
properties for this type	P1963	Property	when this subject is used as object of "instance of", the following properties normally apply	bridge <properties for this type> number of spans and longest span	-
classification of race	P2502	Item	race for which this classification applies	general classification of the 2015 Coupe Sels <classification of race> 2015 Schaal Sels	results
statement is subject of	P805	Item	(qualifying) item that describes the relation identified in this statement	Barack Obama <statement is subject of> presidency of Barack Obama	-

Causalities Edit

Title	ID	Data type	Description	Examples	Inverse
approved by	P790	Item	guideline: item is approved by other item(s) [qualifier: statement is approved by other item(s)]	GNU General Public License <approved by> Open Source Initiative	-
statement disputed by	P1310	Item	controversy and opinion: entity that disputes a given statement	Waltz No. 17 in E-flat major, Op. posth. <statement disputed by> Chomiński catalog	-

Health-related Edit

Title	ID	Data type	Description	Examples	Inverse
has cause	P828	Item	cause: underlying cause, thing that ultimately resulted in this effect	mercury poisoning <has cause> mercury	has effect
has immediate cause	P1478	Item	cause: nearest, proximate thing that directly resulted in the subject as outcome or effect. Used in conjunction with 'has cause' (i.e. underlying cause) and 'has contributing factor'. See 'Help:Modeling causes'.	malaria <has immediate cause> Culicidae	immediate cause of
has contributing factor	P1479	Item	contributing factor: thing that significantly influenced, but did not directly cause, this outcome or effect. Used in conjunction with 'has cause' and 'has immediate cause'. See 'Help:Modeling causes'.	American Civil War <has contributing factor> caning of Charles Sumner	contributing factor of
immediate cause of	P1536	Item	cause: immediate effect of this cause	American Civil War <immediate cause of> assassination of Abraham Lincoln	has immediate cause
contributing factor of	P1537	Item	contributing factor: thing that is significantly influenced by this cause, but does not directly result from it. See 'Help:Modeling causes' for examples and discussion.	obesity <contributing factor of> heart disease	has contributing factor
has effect	P1542	Item	effect and cause: effect of this item	mercury <has effect> mercury poisoning	has cause

References Edit

These properties are in the order of preference. Stated in is used for references that are Wikidata items.

Title	ID	Data type	Description	Examples	Inverse
route of administration	P636	Item	route of administration: path by which a drug, fluid, poison, or other substance is taken into the body	aspirin <route of administration> intramuscular injection	-
symptoms and signs	P780	Item	symptom: possible symptoms or signs of a medical condition	meningitis <symptoms and signs> headache	-
disease transmission process	P1060	Item	pathogen transmission: process by which a pathogen is transmitted, equivalent to "transmitted by" in the relation ontology http://purl.obolibrary.org/obo/RO_0002451	influenza <disease transmission process> airborne transmission	-
population	P1082	Quantity	number of individuals and human population: number of people inhabiting the place; number of people of subject	San Francisco <population> 892,533	-
prevalence	P1193	Quantity	prevalence: portion in percent of a population with a given disease or disorder	Huntington's disease <prevalence> 0.000123	-
manner of death	P1196	Item	manner of death: general circumstances of a person's death; e.g. natural causes, accident, suicide, homicide, etc. Use 'cause of death' (P509) for the specific physiological mechanism, e.g. heart attack, trauma, pneumonia etc.	Adolf Eichmann <manner of death> capital punishment	-
number of injured	P1339	Quantity	injury: number of people with non-fatal injuries in an event	September 11 attacks <number of injured> 6,000	-
number of missing	P1446	Quantity	number of people missing after an event - qualify with "point in time (P585)"	2013 Lushan earthquake <number of missing> 23	-
number of survivors	P1561	Quantity	number of people surviving an event	Essing bridge accident <number of survivors> 1	-
number of casualties	P1590	Quantity	number of people dead or injured because of this event. Used when precise data on number of deaths and number of injured is unavailable.	Hurricane Patricia <number of casualties> 8	-
number of cases	P1603	Quantity	number of infected: cumulative number of confirmed, probable and suspected occurrences	Western African Ebola virus epidemic <number of cases> 13,703	-
side effect	P1909	Item	side effect and adverse drug reaction: effect of a medication or procedure, that occurs next to the desired effect	influenza vaccine <side effect> sore throat	-
half-life	P2114	Quantity	half-life: time required for the amount of something to fall to half its initial value	uranium-235 <half-life> 704,000,000 annum	-
life expectancy	P2250	Quantity	life expectancy: average life expectancy for this group or species	Pug <life expectancy> 13.5 year	-
event interval	P2257	Quantity	recurring entity: standard nominal interval between scheduled or regularly recurring events. Include unit of time, e.g. "year" (Q577). 1/(event frequency). time period of periodically occurring event	Olympic Games <event interval> 4 year	-
minimal lethal dose	P2300	Quantity	lowest published lethal dose: lowest concentration of a toxic substance in an environmental medium that kills individual organisms or test species under a defined set of conditions	acetone <minimal lethal dose> 45.455 parts per million	-
incidence	P2844	Quantity	incidence: probability of occurrence of a given condition in a population within a specified period of time	hepatitis C <incidence> 0.5 cases per 100000 person-years	-
disease burden	P2854	Quantity	disease burden: impact of a health problem as measured by financial cost, mortality, morbidity, or other indicators. It is often quantified in terms of quality-adjusted life years (QALYs) or disability-adjusted life years (DALYs)	tuberculosis <disease burden> 34,200,000 disability-adjusted life year	-

Property constraints Edit

Title	ID	Data type	Description	Examples	Inverse
stated in	P248	Item	reference: to be used in the references field to refer to the information document or database in which a claim is made; for qualifiers use P805; for the type of document in which a claim is made use P3865	→ Property talk:P248	-
PubMed ID	P698	External identifier	PubMed ID and PubMed: identifier for journal articles/abstracts in PubMed	A Study of Variables Affecting the Quality of Platelets Stored at “Room Temperature” <PubMed ID> 823	-
DOI	P356	External identifier	digital object identifier: serial code used to uniquely identify digital objects like academic papers (use upper case letters only)	Ecological guild evolution and the discovery of the world's smallest vertebrate <DOI> 10.1371/JOURNAL.PONE.0029797	-
inventory number	P217	String	accession number: identifier for a physical object or a set of physical objects in a collection	The Night Watch <inventory number> SK-C-5	-
reference URL	P854	URL	URL: should be used for Internet URLs as references. Use "Wikimedia import URL" (P4656) for imports from WMF sites	George Washington <reference URL> http://cths.fr/an/prosopo.php?id=107557	-
imported from Wikimedia project	P143	Item	Wikimedia Foundation project: source of this claim's value; used in references section by bots or humans importing data from Wikimedia projects	→ Property talk:P143	-
PubMed Health	P653	External identifier	PubMed: identifier for a physiological condition, in the PubMed Health website	myocardial infarction <PubMed Health> PMH0001246	-
related property	P1659	Property	related property: used to indicate another property that might provide additional information about the subject	website account on <related property> Twitter username and Facebook ID	-

Other Edit

Title	ID	Data type	Description	Examples	Inverse
property constraint	P2302	Item	property constraint: constraint applicable to a Wikidata property	IMDb ID <property constraint> distinct-values constraint	-
exception to constraint	P2303	Item	item that is an exception to the constraint, qualifier to define a property constraint in combination with P2302	traffic sign <exception to constraint> Shin-Tomei Expressway	-
group by	P2304	Property	GROUP BY: qualifier to define a property constraint in combination with P2302 (Wikidata property constraint) that is used to group constraint violations in constraint violation reports	→ Property talk:P2304	-
item of property constraint	P2305	Item	allowed-entity-types constraint: qualifier to define a property constraint in combination with "property constraint" (P2302)	mass <item of property constraint> kilogram	-
property	P2306	Property	Wikidata property: qualifier to define a property constraint in combination with P2302 (property constraint), or to limit the scope of Q44292881 (wikidata statement)	→ Property talk:P2306	-
Wikimedia Commons namespace	P2307	String	qualifier used with the Commons link property constraint (Q21510852) to specify acceptable Wikimedia Commons namespaces that a property value can link to	→ Property talk:P2307	-
class	P2308	Item	class: qualifier to define a property constraint in combination with "property constraint" (P2302)	→ Property talk:P2308	-
relation	P2309	Item	relation and relation: qualifier to define a property constraint in combination with P2302. Possibly values are: "instance of", "subclass of" or "instance or subclass of". The qualifier to use with the property "relative" is "type of kinship" (P1039), not this.	→ Property talk:P2309	-
minimum date (property constraint)	P2310	Point in time	qualifier to define a property constraint in combination with "property constraint" (P2302)	→ Property talk:P2310	-
maximum date (property constraint)	P2311	Point in time	qualifier to define a property constraint in combination with "property constraint" (P2302). Use "unknown value" for current date.	→ Property talk:P2311	-
maximum value	P2312	Quantity	maximum: qualifier to define a property constraint in combination with P2302. "no value" can be used to specify no upper bound	range constraint <maximum value> 1,234	-
minimum value	P2313	Quantity	minimum: qualifier to define a property constraint in combination with P2302	range constraint <minimum value> 0	-
comment (DEPRECATED)	P2315	Monolingual text	to be deleted: replace with "syntax clarification" (P2916) or add the usage note in the items description.	→ Property talk:P2315	-
constraint status	P2316	Item	Wikidata constraint status: qualifier to define a property constraint in combination with P2302. Use values "mandatory constraint" or "suggestion constraint"	property scope constraint <constraint status> mandatory constraint	-

property does not exist. Use "id=new" if it's to be created.

Title	ID	Data type	Description	Examples	Inverse
follows	P155	Item	follows: immediately prior item in a series of which the subject is a part, preferably use as qualifier of P179 [if the subject has replaced the preceding item, e.g. political offices, use "replaces" (P1365)]	Star Wars: Episode V – The Empire Strikes Back <follows> Star Wars: Episode IV – A New Hope	followed by
followed by	P156	Item	followed by: immediately following item in a series of which the subject is a part, preferably use as qualifier of P179 [if the subject has been replaced, e.g. political offices, use "replaced by" (P1366)]	March <followed by> April	follows
applies to part	P518	Item	part, aspect, or form of the item to which the claim applies	Lady with an Ermine <applies to part> painting support	-
start time	P580	Point in time	start time: time an entity begins to exist or a statement starts being valid	Japan <start time> 10 January 1920	-
end time	P582	Point in time	end time: time an entity ceases to exist or a statement stops being valid	Baroque <end time> 1750sdate QS:P,+1750-00-00T00:00:00Z/8	-
point in time	P585	Point in time	point in time: time and date something took place, existed or a statement was true	2012 United States presidential election <point in time> 6 November 2012	-
of	P642	Item	(This property is being deprecated, see details at WD:P642) qualifier stating that a statement applies within the scope of a particular item	→ Property talk:P642	has quality
cause of destruction	P770	Item	cause of destruction: item which caused the destruction of the subject item	Colossus of Rhodes <cause of destruction> earthquake	destroyed
separated from	P807	Item	subject was founded or started by separating from identified object	Presbyterian Church in America <separated from> Presbyterian Church in the United States	merged into
excluding	P1011	Item	exception: usually used as a qualifier	British Islands <excluding> Republic of Ireland	-
including	P1012	Item	usually used as a qualifier	2015 San Bernardino shooting <including> suspect	-
criterion used	P1013	Item	criterion and declared deserted: property by which a distinction or classification is made	north <criterion used> direction	-
product or material produced or service provided	P1056	Item	product: material or product produced by a government agency, business, industry, facility, or process	Jaduguda Uranium Mine <product or material produced or service provided> uranium	-
proportion	P1107	Quantity	proportion: to be used as a qualifier, value must be between 0 and 1	mayonnaise <proportion> 0.7	-
quantity	P1114	Quantity	number of objects: number of instances of this subject in the universe of the subject (the actual number of instances in Wikidata may be lower or higher)	U.S. state <quantity> 50	-
valid in period	P1264	Item	time period when a statement is valid	Tübingen <valid in period> standard time	-
facet of	P1269	Item	aspect: topic of which this item is an aspect, item that offers a broader perspective on the same topic	water (data page) <facet of> water	-
ranking	P1352	Quantity	ranking: subject's ordinal position as qualitatively evaluated relative to other members of a group	Xu Xin <ranking> 1	-
replaces	P1365	Item	replaced entity: person, state or item replaced. Use "structure replaces" (P1398) for structures. Use "follows" (P155) if the previous item was not replaced or predecessor and successor are identical	Barack Obama <replaces> George W. Bush	replaced by
replaced by	P1366	Item	replacing entity: other person or item which continues the item by replacing it in its role. Use P156 ("followed by") if the item is not replaced nor identical, but adds to the series (e.g. books in a series).	Ptolemy XII Auletes <replaced by> Cleopatra	replaces
definition domain	P1568	Item	domain of a function: set of "input" or argument values for which a mathematical function is defined	square function <definition domain> set of real numbers	-
Wikidata property	P1687	Property	Wikidata property: main Wikidata property for this item	academic discipline <Wikidata property> studied by	Wikidata item of this property
measurement scale	P1880	Item	measurement scale: scale by which a phenomenon is measured	earthquake <measurement scale> Richter scale	-
relative to	P2210	Item	reference point: qualifier: what a statement value is relative to	Zugspitze <relative to> Normalhöhennull	-
intended public	P2360	Item	target audience: this work, product, object or event is intended for, or has been designed to that person or group of people, animals, plants, etc	Naive Set Theory <intended public> teenager	-
results	P2501	Item	results of a competition such as sports or elections	2015 Schaal Sels <results> general classification of the 2015 Coupe Sels	classification of race