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LODD: new ChEMBL SPARQL end point, requirements for embedding in LODD?

From: Egon Willighagen <egon.willighagen@gmail.com>
Date: Tue, 9 Feb 2010 11:07:39 +0100
Message-ID: <6aeb064b1002090207k5b85bcfdide57540cbe580904@mail.gmail.com>
To: public-semweb-lifesci <public-semweb-lifesci@w3.org>
Hi all,

as indicated on the LODD call, I had some trouble getting the ChEMBL
SPARQL end point somewhat faster. The end point has move to a new more
powerful Virtuoso server, also with more sane server settings:

http://chem-bla-ics.blogspot.com/2010/02/chembl-rdf-1sparql-end-point.html

The RDF graph links out to Bio2RDF, and the obvious next step is link
to in the LODD network...

However, I do not really seem to find requirements... I assume the
regular LD [0] rules apply? The ChEMBL data is only available as
SPARQL right now, but it a start... (the rest is a bit of PHP
wrapping. BTW, anyone aware of a simple PHP lib for that? It's not
much code, but I rather reuse anyway.)...

Second thing is how to provide links... the InChI is mentioned
(mis-capatalized at [1], which makes me wonder who I should ask for
permission to make (minor) changes to the wiki), but many DBs do not
have URIs which include the InChI, making it rather difficult to link
to that resource in a general, independent way... that is, there is no
[2] matching http://www4.wiwiss.fu-berlin.de/drugbank/snorql/?describe=http://www4.wiwiss.fu-berlin.de/drugbank/resource/drugs/DB00010.

More general, is there a requirement and/or policy on how the
resources should be linked up?

Looking forward to hearing from you,

Egon

0.http://www.w3.org/DesignIssues/LinkedData.html
1.http://esw.w3.org/topic/HCLSIG/LODD/Data/
2.http://www4.wiwiss.fu-berlin.de/drugbank/resource/drugs/InChI=1/C149H246N44O42S/c1-20-77(13)116(191-122(211)81(17)168-132(221)104(66-113(204)205)178-121(210)79(15)167-123(212)88(152)62-84-39-43-86(198)44-40-84)145(234)185-102(63-83-32-23-22-24-33-83)138(227)193-118(82(18)197)146(235)186-103(65-111(155)202)137(226)189-108(71-196)142(231)182-101(64-85-41-45-87(199)46-42-85)136(225)175-93(38-31-56-165-149(161)162)126(215)174-91(35-26-28-53-151)131(220)190-115(76(11)12)143(232)184-97(58-72(3)4)124(213)166-68-112(203)170-94(47-49-109(153)200)128(217)180-100(61-75(9)10)135(224)188-106(69-194)140(229)169-80(16)120(209)172-92(37-30-55-164-148(159)160)125(214)173-90(34-25-27-52-150)127(216)179-99(60-74(7)8)134(223)181-98(59-73(5)6)133(222)176-95(48-50-110(154)201)129(218)183-105(67-114(206)207)139(228)192-117(78(14)21-2)144(233)177-96(51-57-236-19)130(219)187-107(70-195)141(230)171-89(119(156)208)36-29-54-163-147(157)158/h22-24,32-33,39-46,72-82,88-108,115-118,194-199H,20-21,25-31,34-38,47-71,150-152H2,1-19H3,(H2,153,200)(H2,154,201)(H2,155,202)(H2,156,208)(H,166,213)(H,167,212)(H,168,221)(H,169,229)(H,170,203)(H,171,230)(H,172,209)(H,173,214)(H,174,215)(H,175,225)(H,176,222)(H,177,233)(H,178,210)(H,179,216)(H,180,217)(H,181,223)(H,182,231)(H,183,218)(H,184,232)(H,185,234)(H,186,235)(H,187,219)(H,188,224)(H,189,226)(H,190,220)(H,191,211)(H,192,228)(H,193,227)(H,204,205)(H,206,207)(H4,157,158,163)(H4,159,160,164)(H4,161,162,165)/f/h157,159,161,163-193,204,206H,153-156,158,160,162H2

-- 
Post-doc @ Uppsala University
Proteochemometrics / Bioclipse Group of Prof. Jarl Wikberg
Homepage: http://egonw.github.com/
Blog: http://chem-bla-ics.blogspot.com/
PubList: http://www.citeulike.org/user/egonw/tag/papers
Received on Tuesday, 9 February 2010 10:08:33 GMT

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