- From: Jerven Bolleman <me@jerven.eu>
- Date: Wed, 18 Jun 2014 17:31:07 +0200
- To: Bonnie MacKellar <mackellb@stjohns.edu>
- Cc: Alexander Garcia Castro <alexgarciac@gmail.com>, "public-lod@w3.org" <public-lod@w3.org>
Hi All, Linked life data is like the LOD cache a sparql endpoint provider supported endpoint as a community service/marketing effort. You can see when they loaded certain data and when it was last updated here: http://linkedlifedata.com/sources.html However, I would also point you to beta.sparql.uniprot.org and the rdf.ebi.ac.uk work, where you can get quite a lot of data right at the source. In sync with the respective data providers update flow. Regards, Jerven On 18 Jun 2014, at 17:16, Bonnie MacKellar <mackellb@stjohns.edu> wrote: > Hi, > > Thanks, I can do that. I was hoping to also hear about Linked Life Data, so I tried this, more general list. > > Bonnie MacKellar > mackellb@stjohns.edu > > > -----Original Message----- > From: Alexander Garcia Castro [mailto:alexgarciac@gmail.com] > Sent: Wednesday, June 18, 2014 11:13 AM > To: Bonnie MacKellar > Cc: Muntazir Mehdi; public-lod@w3.org > Subject: Re: Bio2RDF vs Linked Life Data > > Bonnie, why dont u address this issue with the bio2rdf mailing list? > > On Wed, Jun 18, 2014 at 9:59 AM, Bonnie MacKellar <mackellb@stjohns.edu> wrote: >> Thanks, that is useful! I’ve already taken a look at Bio2RDF Release >> 3, and it seems promising. >> >> >> >> I think keeping the data up to date is another challenge, at least for >> some of the datasets. And the problem of broken links – when I first >> started looking at this, I ran into a LOT of broken links. >> >> >> >> Bonnie MacKellar >> >> mackellb@stjohns.edu >> >> >> >> From: Muntazir Mehdi [mailto:muntazir.75@gmail.com] >> Sent: Wednesday, June 18, 2014 9:18 AM >> To: Bonnie MacKellar >> Cc: Kingsley Idehen; public-lod@w3.org >> >> >> Subject: Re: Bio2RDF vs Linked Life Data >> >> >> >> Hi, >> >> >> >> We at INSIGHT, Ireland are working on discovery of relevant datasets, >> specifically for Life Sciences use-case. A primary proposed for this >> purpose is an algorithm used for extraction of keywords (from local >> datasets), based on which single atomic lookups (no keyword search or >> any proprietary tool) on LOD datasets can be performed, is already >> published. Another algorithm, which uses the extracted keywords and >> queries the LOD datasets, was also accepted recently (not in >> proceedings yet). In our case, we use datasets listed on Bio2RDF Release2 & 3. >> >> While working on extending the algorithm, i observed that, the data in >> Bio2RDF has a high overlap (among datasets) and some data is also illegible. >> >> Bonnie, a recent initiative about Bio2RDF Release-3 can be useful for you. >> In my opinion, most of datasets listed there have live sparql >> endpoints & a clean set of stats are also available. If you are >> interested in RDF dumps, you can find them there as well. >> >> >> >> Bottom line, IMO, current Life Sciences LOD is clearly not in a very >> good shape, specially, considering the nature of domain, the >> reliability factor is very low. However, many fellows are working hard to improve it. >> >> >> >> Cheers, >> >> Mehdi >> >> >> >> On Wednesday, June 18, 2014, Bonnie MacKellar <mackellb@stjohns.edu> wrote: >> >> Hi, >> No I don't know this one. Is there any more information? What is >> the purpose of this repository? What datasets are cached? I tried >> clicking on the datasets link in the About tab, but get an error >> message " Resource /void/Dataset not found.". >> >> So this adds to my confusion. What are the differences between >> Bio2RDF, Linked Life Data, and OpenLink? Obviously, included datasets, >> but I have compared Bio2RDF and Linked Life Data on this dimension >> (and will soon, if I can get a list from OpenLink), but there is a lot >> of overlap. Other people must be also facing this choice, no? Are all >> of these sites stable? Up to date? How well do they work with tools >> like Silk? What if I eventually want to use a crawler like LSSpider >> instead of dumps, so that my results stay up to date? I would assume >> that these are all questions that application developers who want to use Linked Open Data would be asking. >> >> Thanks, >> Bonnie MacKellar >> mackellb@stjohns.edu >> >> >> -----Original Message----- >> From: Kingsley Idehen [mailto:kidehen@openlinksw.com] >> Sent: Wednesday, June 18, 2014 7:52 AM >> To: public-lod@w3.org >> Subject: Re: Bio2RDF vs Linked Life Data >> >> On 6/17/14 5:27 PM, Bonnie MacKellar wrote: >>> Yes, in fact, I have been using a dump from that site for most of my >>> preliminary work. But there is no working SPARQL endpoint, and there >>> is often a big gap between dumps. Plus, there are other datasets I >>> want to use as well. I am trying to understand the benefits of using >>> these platforms that bring everything together. >>> >>> Bonnie MacKellar >>> mackellb@stjohns.edu >> >> Have you looked at our live 50 Billion+ triples based LOD Cloud Cache >> [1] which does include data loaded from these projects, where the data >> is available as an RDF dump. You can start via a simple keyword search. >> >> Links: >> >> [1] http://lod.openlinksw.com -- LOD Cloud Cache [2] >> http://lod.openlinksw.com/c/IJ3UOS4 -- Default results page for >> pattern "Protein" >> [3] http://lod.openlinksw.com/c/GYIJAVW -- Entity Types associated >> with pattern "Protein" >> [4] http://lod.openlinksw.com/c/GYZPJFS -- Entity Relationship Types >> (Relations) in which an Entity associated with the pattern "Protein" >> plays the role of Subject >> [5] http://lod.openlinksw.com/c/F734UKK -- Entity Relationship Types >> (Relations) in which an Entity associated with the pattern "Protein" >> plays the role of Object. >> >> -- >> >> Regards, >> >> Kingsley Idehen >> Founder & CEO >> OpenLink Software >> Company Web: http://www.openlinksw.com Personal Weblog: >> http://www.openlinksw.com/blog/~kidehen >> Twitter Profile: https://twitter.com/kidehen >> Google+ Profile: https://plus.google.com/+KingsleyIdehen/about >> LinkedIn Profile: http://www.linkedin.com/in/kidehen >> >> >> >> >> >> >> -- >> >> >> >> Muntazir Mehdi >> >> Research Intern | Healthcare and Life Sciences Unit >> >> INSIGHT @ NUIG (Formerly DERI), Ireland >> >> Student | Department of Computer Science >> >> Technical University Kaiserslautern, Germany >> >> https://sites.google.com/site/muntazir75/ >> >> > > > > -- > Alexander Garcia > http://www.alexandergarcia.name/ > http://www.usefilm.com/photographer/75943.html > http://www.linkedin.com/in/alexgarciac
Received on Wednesday, 18 June 2014 15:31:42 UTC