Re: [Wikidata] Shape Expressions arrive on Wikidata on May 28th

I'd like to restate the initial question. Why did wikidata choose shex instead of other approaches? >From this very detailed comparison http://book.validatingrdf.com/bookHtml013.html (thank you Andra!) I could see arguments in both directions. I'm curious to know what swayed the wikidata

Re: [Wikidata] Wikidata Query Service + Mediawiki API = Love

Stas, One thing that would be extremely useful right away would be an integration of the free text search from MediaWiki API. That is one area SPARQL does not handle well, Mediawiki does well, and its pretty important for many applications. If there were some clever way of mixing (fast!) free

[Wikidata] Fwd: HCOMP Deadline May 4

-- Forwarded message -- Reminder: Deadline May 4th Full CFP: http://www.humancomputation.com/2017/submit.html The Fifth AAAI Conference on Human Computation and Crowdsourcing (HCOMP 2017) will be held in Quebec City, Canada, Oct. 24-26, 2017. It will be sponsored by the

Re: [Wikidata] Timeout querying for cities in Alaska

The 'all cities' part of your query seems strange. If you replace it with a simple 'instance of city' - ?x wdt:P31 wd:Q515 . it returns 145 results in 341ms. http://tinyurl.com/m4ffatg Why would you ask for things that have 'occupation' or 'position' with value city? Also, I'm not familiar with

Re: [Wikidata] [wikicite-discuss] Entity tagging and fact extraction (from a scholarly publisher perspective)

Denny, This is a really good question: "How bad / good does Wikidata as a whole fit the role of an open vocabulary for content tagging?" but I suspect that it needs some qualifiers on it. For what domains? For what purposes? I think the answer will vary by context and by timestamp. (But I

Re: [Wikidata] [wikicite-discuss] Entity tagging and fact extraction (from a scholarly publisher perspective)

Dario, One message you can send is that they can and should use existing controlled vocabularies and ontologies to construct the metadata they want to share. For example, MeSH descriptors would be a good way for them to organize the 'primary topic' assertions for their articles and would make it

Re: [Wikidata] Acquiring general knowledge from Wikidata

Slava, This sounds interesting I would be happy to be a test subject in the bio or semantic web domain. (There is no reason this project needs to be reviewed by Wikimedia Research or anyone else. The data is open, please go ahead and use it to do useful research like this.) Whether or not any

Re: [Wikidata] signing license declarations

That would be the ideal spot - if it said what portion of the data was CC0 or is specifically declared as such for the purposes of allowing it into wikidata. On Wed, Oct 5, 2016 at 10:40 PM, Federico Leva (Nemo) <nemow...@gmail.com> wrote: > Benjamin Good, 05/10/2016 23:33: >

Re: [Wikidata] signing license declarations

wrote: > Benjamin Good, 05/10/2016 19:44: > >> As a specific example, we have informal (e.g. an email to us) permission >> to import data from the Disease Ontology [2] and UniProt [3] but would >> like to make those informal agreements 'official' and public. >> > &

Re: [Wikidata] signing license declarations

Thanks Egon, thats a reasonable approach to keep the ball rolling. How do you plan to handle updates ? On Wed, Oct 5, 2016 at 12:15 PM, Egon Willighagen < egon.willigha...@gmail.com> wrote: > On Wed, Oct 5, 2016 at 7:44 PM, Benjamin Good <ben.mcgee.g...@gmail.com> > wrote: &g

Re: [Wikidata] pattern for linking to linked data ?

On Wed, Aug 17, 2016 at 11:44 AM, Andy Mabbett <a...@pigsonthewing.org.uk> wrote: > On 17 August 2016 at 00:43, Benjamin Good <ben.mcgee.g...@gmail.com> > wrote: > > > I am about to propose much more widespread use of Property:P2888 "exact > > match"

Re: [Wikidata] pattern for linking to linked data ?

Perhaps it would be more productive if I give a very specific example. (I'd prefer a general, wikidata-wide policy but it sounds like that isn't going to happen.) We are working on integrating wikidata with many of the ontologies that are part of the OBO Foundry [1]. These include, for example,

[Wikidata] pattern for linking to linked data ?

I am about to propose much more widespread use of Property:P2888 "exact match" for linking from a wikidata item to a URI that should resolve to linked data about the same concept from another semantic web resource. (amongst the biomedical items that our team works with) Is there any other pattern

Re: [Wikidata] Schema.org mappings in Wikidata

Perhaps the new 'exact match'? https://m.wikidata.org/wiki/Property:P2888 > On Jun 17, 2016, at 8:26 PM, Thad Guidry wrote: > > Oh boy. I thought I had a few things figured out with Wikidata...until > I read through the Property Talk discussions for > >

Re: [Wikidata] Genes, proteins, and bad merges in general

Hi Tom, I think the example you have there is actually linked up properly at the moment? https://en.wikipedia.org/wiki/SPATA5 is about both the gene and the protein as are most Wikipedia articles of this nature. And it is linked to the gene the way we encourage modeling

Re: [Wikidata] Communicating corrections back to data source

Hi Julie, We've thought a lot about this, but not done anything formally yet. There is an example of this happening to improve the disease ontology presented in this paper [1]. Mechanically, parties interested in a particular swath of data linked to their resource could set up repeated SPARQL

Re: [Wikidata] Possibility of data lock

+1000 to Markus K's main arguments above. Yes noise will be introduced as different people come in to make edits. Administrators locking them out isn't the best way to solve that problem in an open system. There are other options, as he raised - both technical and social. Our group maintains

Re: [Wikidata] WDQS URL shortener

awesome, thank you! In case its useful for anyone, I was using wikidata to teach biologists and chemists about knowledge graphs (many tinyurls toward the end) http://www.slideshare.net/goodb/computing-on-the-shoulders-of-giants On the second part of the course students were provided with the

Re: [Wikidata] WDQS URL shortener

I don't want to suggest a technology, but the URL shortener on wdqs has been EXTREMELY USEFUL to me and it would be major bummer to lose it. I recently taught a class and used a variety of examples of SPARQL queries over wikidata. Having that shortener made it much faster for me to assemble the

Re: [Wikidata] Aren't pages too long?

I think no one would disagree that the current viewing experience on the main wikidata.org interface is not ideal. Keep in mind though that this is fundamentally an impossible UI task. There are many many different ways that the data about an item in wikidata might be best used/viewed depending

Re: [Wikidata] item / claim usage tracking

If a group (lets say either mine or Lydia's team) was interested in doing what I propose, could we request and sign such an NDA? This doesn't seem insurmountable right ? On Tue, Apr 26, 2016 at 10:01 AM, Dan Garry <dga...@wikimedia.org> wrote: > On 26 April 2016 at 08:41, Benj

[Wikidata] item / claim usage tracking

I'll start with the simple question than give the longer context. Is there any way to know how many times an item or a claim appears in the results of a query to query.wikidata.org ? Are there any other ways to quantify query/application usage of specific wikidata content? Background. The

Re: [Wikidata] Brief demo of ConceptMap v1.1 - Creating dynamic concept maps from Wikidata

James, This is cool. The integration between Wikipedia and Wikidata is really smooth and useful. I wonder if you could let users do Wikidata editing right in context rather than having them have to find the link on the top there and jump out of the app and into the editor ? There might be

Re: [Wikidata] content for wikidata tutorial?

ionality" (though >>>> "people born since 1600 with no nationality" would have worked >>>> better), "people with no occupation", "buildings that don't have a >>>> 'located in' value", etc. >>>> >>>> Th

Re: [Wikidata] Data model explanation and protection

mage than good. Several P1889s would > be nice. > > I think, as someone suggested, that adding P1889 and having Wikibase > merging looking at P1889 would be a solution. > > > /Finn > > > On 11/10/2015 12:34 AM, Benjamin Good wrote: > >> Magnus, >> >>

[Wikidata] provenance tracking for high volume edit sources (was Data model explanation and protection)

In another thread, we are discussing the preponderance of problematic merges of gene/protein items. One of the hypotheses raised to explain the volume and nature of these merges (which are often by fairly inexperienced editors and/or people that seem to only do merges) was that they were coming

Re: [Wikidata] provenance tracking for high volume edit sources (was Data model explanation and protection)

unmerging > game. :-) > > /Finn > > > > On 11/10/2015 05:54 PM, Benjamin Good wrote: > >> In another thread, we are discussing the preponderance of problematic >> merges of gene/protein items. One of the hypotheses raised to explain >> the volume and nature of th

Re: [Wikidata] Data model explanation and protection

Magnus, We are seeing more and more of these problematic merges. See: http://tinyurl.com/ovutz5x for the current list of (today 61) problems. Are these coming from the wikidata game? All of the editors performing the merges seem to be new and the edit patterns seem to match the game. I thought

Re: [Wikidata] Use-notes in item descriptions

A section in the talk page associated with the article in question would seem to solve this (definitely real) problem? - assuming that a would-be editor was aware of the talk page. Alternatively, you could propose a generic property with a text field that could be added to items on an as-needed

Re: [Wikidata] Announcing Wikidata Taxonomy Browser (beta)

I am having the same kinds of 500 problems. Bitbucket is generally suffering today: http://status.bitbucket.org On Thu, Oct 22, 2015 at 12:27 PM, Markus Kroetzsch < markus.kroetz...@tu-dresden.de> wrote: > On 22.10.2015 19:29, Dario Taraborelli wrote: > >> I’m constantly getting 500 errors. >>

Re: [Wikidata] blog post: Poof it works - using Wikidata to build Wikipedia articles about genes

Hi everyone, thanks for the encouragement! The next technical step is actually a reworking of the template/lua code for producing that infobox. The current one works for the few genes I've manually tested it on, but the way it uses arbitrary access (via nesting structures in the template code)

[Wikidata] wikidata workflow in Wikipedia

I've noticed that a number of EN Wikipedia articles are starting to use wikidata e.g. all of these templates: https://en.wikipedia.org/wiki/Category:Templates_using_data_from_Wikidata This is great, and I have already started trying to encourage more of this in the areas we are working on (genes,

Re: [Wikidata] Freebase is dead, long live :BaseKB

They wrote a really insightful paper about how their processes for large-scale data curation worked. Among may other things, they investigated mechanical turk 'micro tasks' versus hourly workers and generally found the latter to be more cost effective. The Anatomy of a Large-Scale Human

Re: [Wikidata] Lists of things as entities in Wikidata

keep them around, then just give users a way to filter them out in your API's is all that I ask. :) Thad +ThadGuidry https://www.google.com/+ThadGuidry On Mon, Jun 15, 2015 at 10:53 AM, Benjamin Good ben.mcgee.g...@gmail.com wrote: This is an important question. There are apparently

[Wikidata] accessing data from a wikidata concept page

I recently introduced wikidata to a (very computationally savvy) colleague by sending him this link: https://www.wikidata.org/wiki/Q423111 His response is indicative of an interface problem that I think is actually very important: Is there a simple way to get the RDF for a given concept? The

Re: [Wikidata-l] Arbitrary access is coming to the first wikis

We have a hackathon starting tomorrow morning (California time). It would be fantastic if we could hack on adding our gene wikidata content to a Wikipedia instance using this new ability. We too have been anxiously awaiting this development. Is there a sandbox environment somewhere that we

Re: [Wikidata-l] Arbitrary access is coming to the first wikis

On Thu, May 7, 2015 at 12:32 PM, Lydia Pintscher lydia.pintsc...@wikimedia.de wrote: On Thu, May 7, 2015 at 9:28 PM, Benjamin Good ben.mcgee.g...@gmail.com wrote: We have a hackathon starting tomorrow morning (California time). It would be fantastic if we could hack on adding our gene

Re: [Wikidata-l] OWL based ontologies as basis for Wikidata item interactions and property proposal

could be generated as a whole. -Data could be queried/exported from WD based on an ontology by simply selecting the whole or parts of an ontology. This approach has been suggested and discussed by Benjamin Good, Elvira Mitraka, Andra Wagmeester, Andrew Su and me. As an example, we put together

Re: [Wikidata-l] visualizing wikidata structures?

, Have you checked tool-labs already? http://tools.wmflabs.org/hay/directory/#/keyword/wikidata Maybe you find something useful... Best, Claudia On Dec 15, 2014, at 12:42 PM, Lydia Pintscher lydia.pintsc...@wikimedia.de wrote: On Wed, Dec 10, 2014 at 8:28 PM, Benjamin Good ben.mcgee.g

[Wikidata-l] visualizing wikidata structures?

Are there are any tools currently that could do something like this: Input: A category/class - something that hangs off subclassOf P279 relationships. For example: gene Q7187 Output: an interactive visual representation of the properties that are being used by the entities connected to this

[Wikidata-l] problem on property list page

Sorry, not sure if this is the right place to post this bug report? https://www.wikidata.org/wiki/Wikidata:List_of_properties/all#Medicine reports quite a few messages like: *The time allocated for running scripts has expired.**The time allocated for running scripts has expired.**The time

Re: [Wikidata-l] question about wikidata query on string property

a string, a coordinate, etc. I *think* the reason you're getting some results for CLAIM[486:string] is because the system is somehow matching these up with the items that have null/unknown values for 486 and returning those. Andrew. On 27 October 2014 03:52, Benjamin Good ben.mcgee.g

Re: [Wikidata-l] question about wikidata query on string property

. On 24 October 2014 18:13, Benjamin Good ben.mcgee.g...@gmail.com wrote: Using the autolist 2 tool (http://tools.wmflabs.org/autolist/index.php), I enter the WDQ query: CLAIM[486:D008180] which I think means Give me the items that have MeSH id = D008180 . It does indeed return

[Wikidata-l] question about wikidata query on string property

Using the autolist 2 tool (http://tools.wmflabs.org/autolist/index.php), I enter the WDQ query: CLAIM[486:D008180] which I think means Give me the items that have MeSH id = D008180 . It does indeed return an item with that claim Q1495661 but also returns items that have an *no value* as the

Re: [Wikidata-l] Wikidata annotation tool

, 2014 at 10:54 PM, Benjamin Good ben.mcgee.g...@gmail.com wrote: Very cool project! It really shows some great potential for wikidata. In quickly playing with it I found it difficult to find properties that matched my intention most of the time. I think this is not the fault of the tool

Re: [Wikidata-l] Wikidata annotation tool

Very cool project! It really shows some great potential for wikidata. In quickly playing with it I found it difficult to find properties that matched my intention most of the time. I think this is not the fault of the tool but an indication of an area where wikidata could be improved (e.g.

Re: [Wikidata-l] all human genes are now wikidata items

Magnus is right on here. We are hoping to begin things by establishing wikidata as a central hub for gene identifier lookup and matching. (This is a big a problem in bioinformatics). With this (hopefully fairly bit stable) starting point of wikidata entities, we will be expanding the statements

Re: [Wikidata-l] all human genes are now wikidata items

potential for structuring large sets of biological data. Thanks for your excellent work! Cheers, Eric https://www.wikidata.org/wiki/User:Emw On Mon, Oct 6, 2014 at 4:21 PM, Benjamin Good ben.mcgee.g...@gmail.com wrote: I thought folks might like to know that every human gene (according

[Wikidata-l] all human genes are now wikidata items

I thought folks might like to know that every human gene (according to the United States National Center for Biotechnology Information) now has a representative entity on wikidata. I hope that these are the seeds for some amazing applications in biology and medicine. Well done Andra and

Re: [Wikidata-l] all human genes are now wikidata items

wrote: Wow! That's pretty cool work! Do you have any plans to keep the data fresh? On Mon Oct 06 2014 at 1:22:12 PM Benjamin Good ben.mcgee.g...@gmail.com wrote: I thought folks might like to know that every human gene (according to the United States National Center for Biotechnology

Re: [Wikidata-l] all human genes are now wikidata items

Would be happy to. Let me know suggested size and how to get it over to you. thanks -Ben On Mon, Oct 6, 2014 at 1:40 PM, Lydia Pintscher lydia.pintsc...@wikimedia.de wrote: Hey Ben and Andra, On Mon, Oct 6, 2014 at 10:30 PM, Benjamin Good ben.mcgee.g...@gmail.com wrote: Yes indeed we do

Re: [Wikidata-l] all human genes are now wikidata items

Sounds good. Will do. On Mon, Oct 6, 2014 at 1:53 PM, Lydia Pintscher lydia.pintsc...@wikimedia.de wrote: On Mon, Oct 6, 2014 at 10:48 PM, Benjamin Good ben.mcgee.g...@gmail.com wrote: Would be happy to. Let me know suggested size and how to get it over to you. Sweet. As long as you

Re: [Wikidata-l] Item both subclass and instance?

Based on the CHEBI ontology perspective, alcohol is a class with subclasses like 'aromatic alcohol' which has subclasses like 'benzyl alcohols' which has subclasses like 'methylbenzyl alcohol' and so on. These relationships seem worth capturing and subclass seems like a reasonable way to do it.

Re: [Wikidata-l] Wikimedian in Residence at the Royal Society of Chemistry

for the disease identifiers though of course we would love to have some feedback about that! -Ben On Fri, Sep 12, 2014 at 1:28 AM, Joe Filceolaire filceola...@gmail.com wrote: Is this being inported into wikidata? Joe On 11 Sep 2014 23:16, Benjamin Good ben.mcgee.g...@gmail.com wrote: FYI we are already

Re: [Wikidata-l] Wikimedian in Residence at the Royal Society of Chemistry

biology. On 11 September 2014 17:06, Benjamin Good ben.mcgee.g...@gmail.com wrote: Thats great Andy! Hope to see you connecting with https://www.wikidata.org/wiki/Wikidata:WikiProject_Molecular_biology - specifically with regard to drug information. cheers -Ben On Wed, Sep 10

Re: [Wikidata-l] Classes and Properties browser update

How are related properties calculated? Is the definition of a Class something that has a subclass relationship? Or? Very cool... -Ben On Mon, Sep 8, 2014 at 9:24 AM, Markus Krötzsch mar...@semantic-mediawiki.org wrote: On 08.09.2014 14:53, Markus Krötzsch wrote: ...

Re: [Wikidata-l] Python bot framework for wikidata

://www.mediawiki.org/wiki/PWB Both branches support Wikidata Best On 8/29/14, Benjamin Good ben.mcgee.g...@gmail.com wrote: Which python framework should a new developer use to make a wikidata editing bot? thanks -Ben

Re: [Wikidata-l] Python bot framework for wikidata

It does, but only on the very bottom with a see also. Somehow I ended up on https://github.com/jcreus/pywikidata first. which is two years out of date and very similarly named.. -ben On Fri, Aug 29, 2014 at 10:17 AM, Derric Atzrott datzr...@alizeepathology.com wrote: There is

[Wikidata-l] Python bot framework for wikidata

Which python framework should a new developer use to make a wikidata editing bot? thanks -Ben ___ Wikidata-l mailing list Wikidata-l@lists.wikimedia.org https://lists.wikimedia.org/mailman/listinfo/wikidata-l

Re: [Wikidata-l] 'Person' or 'human', upper ontologies and migrating 4 million claims

Tom, I totally agree with your sentiments here. Two questions. Do you believe there is any valuable use for upper ontologies in the wikidata system at all at this stage? Could you describe how you see a bubble-up classification scheme working in this context in a little detail? I can imagine

Re: [Wikidata-l] [Pywikipedia-l] wbsearchentities()

OK, thanks for your reply. We will watch for new developments and incorporate them into our work as they are ready. Keep up the good work on this important project! -Ben On Fri, Sep 13, 2013 at 1:20 PM, Daniel Kinzler daniel.kinz...@wikimedia.de wrote: Am 13.09.2013 18:24, schrieb Benjamin

Re: [Wikidata-l] GSoC projects related to Wikidata

Thanks Lydia, here is a direct link to our wikidata project idea. http://sulab.org/gsoc13/#idea1 There is clearly already a lot of interest in wikidata among the gsoc student community. If students (or potential mentors) have additional ideas for biology-related wikidata projects, please do get

Re: [Wikidata-l] gene templates - wikidata, when?

Thanks for the feedback. I think we will push forward and work directly on wikidata. This is a conversion from database(s)-wikipedia to database(s)-wikidata-wikipedia All of our code will be and is open source. We'd be happy to share and to build on what other bot developers are doing. Is

[Wikidata-l] gene templates - wikidata, when?

I am considering the task of converting the templates from the gene articles in Wikipedia (http://en.wikipedia.org/wiki/Portal:Gene_Wiki) to use/create wikidata assertions. This involves an extensive update of the template structure as well as the code for the bot that keeps them in sync with