14:59:36 <RRSAgent> RRSAgent has joined #hcls
14:59:36 <RRSAgent> logging to http://www.w3.org/2008/03/11-hcls-irc
14:59:45 <ericP> Zakim, this is COI
14:59:45 <Zakim> sorry, ericP, I do not see a conference named 'COI' in progress or scheduled at this time
14:59:48 <ericP> Zakim, this is HCLS
14:59:48 <Zakim> ok, ericP; that matches SW_HCLS(Bio-Ont WG)11:00AM
14:59:57 <ericP> Zakim, dial ericP-office
14:59:58 <Zakim> ok, ericP; the call is being made
14:59:59 <Zakim> +EricP
15:00:06 <ericP> Zakim, who is here?
15:00:11 <Zakim> On the phone I see +1.519.488.aaaa, EricP
15:00:19 <Zakim> On IRC I see RRSAgent, Zakim, holger_stenzhor1, ericP
15:01:13 <ericP> Zakim, 1.519.488.aaaa is ChristienCocos
15:01:13 <Zakim> sorry, ericP, I do not recognize a party named '1.519.488.aaaa'
15:01:31 <ericP> Zakim, who is here?
15:01:31 <Zakim> On the phone I see +1.519.488.aaaa, EricP
15:01:31 <Zakim> On IRC I see RRSAgent, Zakim, holger_stenzhor1, ericP
15:01:40 <ericP> Zakim, +1.519.488.aaaa is ChristienCocos
15:01:40 <Zakim> +ChristienCocos; got it
15:01:52 <Zakim> +Jennifer
15:02:28 <Zakim> +Rachel
15:03:08 <Zakim> +Kerstin_Forsberg
15:03:36 <ericP> holger_stenzhor1, are you dialing in?
15:03:45 <holger_stenzhor1> yes
15:04:00 <Zakim> +[IPcaller]
15:04:04 <Zakim> +Bo
15:04:07 <Zakim> +Jyoti
15:04:21 <ericP> Zakim, [IPcaller] is holger_stenzhor1 
15:04:21 <Zakim> +holger_stenzhor1; got it
15:04:23 <holger_stenzhor1> Zakim, +[IPcaller] is holger_stenzhorn
15:04:23 <Zakim> sorry, holger_stenzhor1, I do not recognize a party named '+[IPcaller]'
15:04:33 <ericP> Zakim, IPcaller is holger_stenzhor1 
15:04:33 <Zakim> sorry, ericP, I do not recognize a party named 'IPcaller'
15:04:42 <Jyoti> Jyoti has joined #hcls
15:04:53 <Helen> Helen has joined #hcls
15:05:33 <ericP> Zakim, who is here?
15:05:33 <Zakim> On the phone I see ChristienCocos, EricP, Jennifer, Rachel, Kerstin_Forsberg, holger_stenzhor1, Bo, Jyoti
15:05:35 <Zakim> On IRC I see Helen, Jyoti, RRSAgent, Zakim, holger_stenzhor1, ericP
15:06:05 <holger_stenzhor1> slides at: www.ifomis.org/acgt/coi-presentation
15:06:16 <ericP> Zakim, please mute Jyoti 
15:06:16 <Zakim> Jyoti should now be muted
15:06:18 <Zakim> +Helen_Chen
15:06:20 <holger_stenzhor1> sorry - 
15:06:22 <ericP> Zakim, please unmute Jyoti 
15:06:22 <Zakim> Jyoti should no longer be muted
15:06:25 <holger_stenzhor1>  www.ifomis.org/acgt/coi-presentation.ppt
15:06:27 <ericP> Zakim, please mute Bo
15:06:27 <Zakim> Bo should now be muted
15:06:32 <ericP> Zakim, please unmute Bo
15:06:32 <Zakim> Bo should no longer be muted
15:07:56 <ericP> ericP has changed the topic to: http://www.w3.org/mid/DBA3C02EAD0DC14BBB667C345EE2D12401E2B3CE@PHSXMB20.partners.org
15:08:01 <ericP> http://www.w3.org/mid/DBA3C02EAD0DC14BBB667C345EE2D12401E2B3CE@PHSXMB20.partners.org
15:08:59 <ericP> Zakim, pick a victim
15:08:59 <Zakim> Not knowing who is chairing or who scribed recently, I propose Jyoti
15:09:00 <Jyoti> Jyoti has left #hcls
15:09:08 <Jyoti> Jyoti has joined #hcls
15:09:23 <Jyoti> Hi
15:09:31 <ericP> chair: ericP
15:09:34 <ericP> meeting COI
15:09:40 <ericP> meeting: COI
15:09:47 <ericP> scribe: Jyoti 
15:09:54 <ericP> topic: ACGT ontology representation of Diabetes Patient Data
15:10:19 <ericP> http://www.ifomis.org/acgt/coi-presentation
15:10:32 <Jyoti> Holger: I spoke with Chris this morning and will be presenting the slides
15:10:36 <ericP> => http://www.ifomis.org/acgt/coi-presentation.ppt slides
15:12:08 <Jyoti> Cris: I will give the presentation. ACGT means advanced clinical genomic trails.
15:12:40 <ericP> Zakim, ChristienCocos is really CristianCocos
15:12:40 <Zakim> +CristianCocos; got it
15:15:27 <Jyoti> ACGT is an OWL-DL ontology. Formally defined relations and other restrictions.
15:16:41 <Jyoti> ACGT leverages BFO (Basic Formal Ontology) as the top-level ontology
15:19:44 <ericP> Chris: adding an OWL anatomy ontology
15:20:05 <Jyoti> As of Oct 2007, there were a total of 1109 classes (primitive: 1028, defined: 81)
15:20:24 <Jyoti> Cris: there were a total of 121 restrictions
15:25:23 <ericP> Cris: constraints extension includes identifying disjoint classes
15:25:28 <Jyoti> Cris: important upcoming work is to start adding FMA (anatomy) classes
15:27:08 <ericP> Helen: will you be able to do classifications with your reasoner after adding FMA?
15:27:54 <ericP> Cris: old slides; we have given up on this because FMA doesn't lend itself well to OWL
15:28:02 <ericP> Helen: try Galen
15:28:21 <ericP> Cris: Alan Rector suggested we set our sights on something more modest
15:28:33 <Jyoti> Cris: we spoke with Alan Rector and he suggested something less complex
15:34:19 <Jyoti> Cris: "Patient" is a role in ACGT and Jennifer agrees with that characterization
15:38:17 <Jyoti> ericP: difference between a role and a object?
15:38:45 <Jyoti> Cris: role is a dependent continuant and object is an independent continuant. 
15:39:36 <Jyoti> Cris: dependent continuant depends on something else for its own existence. E.g., quality of an "item" depends on the "item" for its own existence.
15:40:10 <Jyoti> Cris: role is a dependent continuant because certain entities can play different roles, and so it can attach to independent continuant at different times
15:47:15 <Zakim> -CristianCocos
15:47:53 <ericP> [slide 26]
15:49:07 <Jyoti> Holger: ACGT contains concepts for clinical trials and genomic research
15:52:12 <Jyoti> Holger: concepts/relationships encoded in the ontology are represented in Trial of Principle (TOP Trial) forms
15:55:19 <ericP> Topic: Discussion on Logistics for loading and using Patient Data
15:55:22 <Jyoti> ericP: we will discuss the last agenda item
15:55:56 <Jyoti> ericP: we will NOT discuss the last agenda item :-)
15:56:12 <ericP> Topic: Mappings if any between ACGT ontology and CDISC/HL7
15:57:00 <ericP> holger_stenzhor1: was hoping Christian could address this
15:57:02 <Jyoti> Holger: Cris will probably be able to explain the mapping issue much better. ACGT does not directly encode the mappings directly.
15:57:24 <Jyoti> Holger: ACGT partners (from Greece?) will be addressing the mapping issue
15:58:20 <ericP> Action: Holger to invite Chris to discuss Mappings if any between ACGT ontology and CDISC/HL7 or to provide a narrative himself
15:58:58 <Jyoti> Helen: is ACGT.owl is the latest file?
15:59:03 <holger_stenzhor1> www.ifomis.org/acgt/1.0
15:59:04 <Jyoti> Holger: yup its latest
15:59:23 <ericP> => http://www.ifomis.org/acgt/1.0 ACGT ontology
16:01:04 <ericP> Topic: overall mapping plan
16:07:15 <Jyoti> Helen: we should think how the inclusion/exclusion criteria is not buried under the SPARQL query
16:07:31 <Jyoti> Helen: these criteria are part of the trials protocol itself
16:08:09 <Jyoti> ericP: not sure if there are other ways of encoding the inclusion/exclusion apart from it being a part of the query
16:09:20 <Zakim> -Kerstin_Forsberg
16:09:45 <ericP> RRSAgent, please draft minutes
16:09:45 <RRSAgent> I have made the request to generate http://www.w3.org/2008/03/11-hcls-minutes.html ericP
16:09:48 <Zakim> -Jennifer
16:09:52 <Zakim> -Bo
16:09:56 <Zakim> -holger_stenzhor1
16:10:02 <Jyoti> Jyoti has left #hcls
16:10:06 <Zakim> -Jyoti
16:18:26 <Zakim> -Rachel
16:19:33 <Zakim> -EricP
16:19:35 <Zakim> -Helen_Chen
16:19:35 <Zakim> SW_HCLS(Bio-Ont WG)11:00AM has ended
16:19:36 <Zakim> Attendees were EricP, Jennifer, Rachel, Kerstin_Forsberg, Bo, Jyoti, holger_stenzhor1, Helen_Chen, CristianCocos
16:32:43 <holger_stenzhorn> holger_stenzhorn has joined #hcls
16:34:20 <holger_stenzhor1> holger_stenzhor1 has joined #hcls
17:31:06 <Zakim> Zakim has left #hcls
18:24:00 <ericP> RRSAgent, please draft minutes
18:24:00 <RRSAgent> I have made the request to generate http://www.w3.org/2008/03/11-hcls-minutes.html ericP
18:24:08 <ericP> RRSAgent, please make log world-visible