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Re: [Obi-role-branch] is host a disposition (new name for thread)
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From: Chris S. <sto...@pc...> - 2009-04-27 20:50:10
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Sorry, wanted to make sure Barry was getting this. The essentiality is with respect to the pathogen (in this example Plasmodium falciparum) being hosted by humans (and A. gambiae). Cheers, Chris On Apr 27, 2009, at 4:27 PM, Chris Stoeckert wrote: > Jennifer beat me to responding. Here's my thinking along similar > lines .. > In the context of infectious disease, being a host has specific > requirements. For some eukaryotic pathogens such as the Plasmodiums > that cause malaria, the host(s) are critical to its life cycle. For > example, only humans and Anopheles gambia can serve as hosts to > Plasmodium falciparum - other mammals and mosquitos can not > (although they may serve as hosts for other Plasmodium species). So > humans have the disposition to be a host for Plasmodium falciparum > (Pf) transforming through life stages to become gametocytes when > infected by Pf sporozoites. > > Chris > > On Apr 27, 2009, at 4:15 PM, Fostel, Jennifer (NIH/NIEHS) [C] wrote: > >> i suspect that we disagree. >> >> in the malaria example, >> the pathogen Pfalciparum is a human pathogen because it has pfEMP1 >> which are able to bind to human cells. >> the generic human is a host for Pf because he or she contains cells >> with surface receptors for Pf. >> >> there are also presumably mutant humans lacking such surface >> receptors and mutations of Pf without the virulence factor; not >> clear if these are viable, but they do not inform the discussion. >> the generic human with the receptor has the disposition to be a >> host for Pf with or without meeting and Pf. >> >> Definition: A realizable entity [snap:RealizableEntity] that >> essentially causes a specific process or transformation in the >> object [snap:Object] in which it inheres, under specific >> circumstances and in conjunction with the laws of nature. A general >> formula for dispositions is: X (object [snap:Object] has the >> disposition D to (transform, initiate a process) R under conditions C >> >> X= human cells (or more generically the human) >> R = infection process >> C = when encoutering P falciparum in blood stream >> >> in an experiment, the human could also bear the (OBI role) host >> role for Pf, and Pf could bear pathogen role >> >> does this match your thinking? >> >> ...jennifer >> >> >> From: Lindsay G Cowell [mailto:cow...@mc...] >> Sent: Monday, April 27, 2009 2:44 PM >> To: Richard H. Scheuermann, Ph.D. >> Cc: OBI Developers; obi...@li... >> Subject: Re: [Obi-role-branch] disposition branch call today 11 >> eastern on centra >> >> >> hmmm. my first thought was that there is probably a disposition >> (D) to participate in a process (P) and a role (R) played by an >> entity when participating in P so that in many cases these are two >> sides of the same coin. but based on the bfo definitions for role >> and disposition (below), i would say that being a host, for >> example, "is not essential to a continuant in virtue of the kind of >> thing that it is" but that some continuants can serve as host in >> some contexts. i would say host is not a disposition because being >> a host does not "essentially cause a specific process or >> transformation" in the entity in which it inheres. >> >> i am hoping barry will comment ... >> >> name: role >> comment: Definition: A realizable entity [snap:RealizableEntity] >> the manifestation of which brings about some result or end that is >> not essential to a continuant [snap:Continuant] in virtue of the >> kind of thing that it is but that can be served or participated in >> by that kind of continuant [snap:Continuant] in some kinds of >> natural, social or institutional contexts. >> >> name: disposition >> comment: Definition: A realizable entity [snap:RealizableEntity] >> that essentially causes a specific process or transformation in the >> object [snap:Object] in which it inheres, under specific >> circumstances and in conjunction with the laws of nature. A general >> formula for dispositions is: X (object [snap:Object] has the >> disposition D to (transform, initiate a process) R under conditions >> C. >> >> ------------------------------------- >> Lindsay G. Cowell >> Assistant Professor >> Department of Biostatistics and Bioinformatics >> Duke University Medical Center >> 2424 Erwin Road, Suite 1102, 11086 >> Durham, NC 27705 >> (919) 681-6226 >> >> >> "Richard H. Scheuermann, Ph.D." <ric...@ut... >> > wrote on 04/27/2009 02:08:30 PM: >> >> > I actually think that they should be dispositions rather than >> roles. >> > >> > Richard >> > >> > On Apr 27, 2009, at 12:44 PM, Lindsay G Cowell wrote: >> > >> > >> > thanks for the forward. we have all of these although as roles >> > rather than dispositions. i can add the disposition terms if you >> > think we should have terms for both. >> > ------------------------------------- >> > Lindsay G. Cowell >> > Assistant Professor >> > Department of Biostatistics and Bioinformatics >> > Duke University Medical Center >> > 2424 Erwin Road, Suite 1102, 11086 >> > Durham, NC 27705 >> > (919) 681-6226 >> > >> > >> > Barry Smith <phi...@bu...> wrote on 04/27/2009 12:13:25 PM: >> > >> > > >> > > >Delivered-To: phi...@ma... >> > > >Delivered-To: phi...@bu... >> > > >From: "Richard H. Scheuermann, Ph.D." <richard. >> > > sch...@ut...> >> > > >Date: Mon, 27 Apr 2009 11:02:49 -0500 >> > > >To: "Fostel, Jennifer (NIH/NIEHS) [C]" <fo...@ni...> >> > > >X-Mailer: Apple Mail (2.753.1) >> > > >X-Scan-Signature: 74018b61a7b96a3c6dc22d0d41014132 >> > > >X-Spam-Score: -3.7 (---) >> > > >X-Spam-Report: Spam Filtering performed by mx.sourceforge.net. >> > > > See http://spamassassin.org/tag/ for more details. >> > > > -4.0 RCVD_IN_DNSWL_MED RBL: Sender listed at http:// >> www. >> > dnswl.org/, >> > > > medium trust [199.242.236.197 listed in list.dnswl.org] >> > > > 0.0 HTML_MESSAGE BODY: HTML included in >> message >> > > > 0.3 AWL AWL: From: address is in the auto white-list >> > > >X-Headers-End: 1LyTIS-0000ue-Au >> > > >Cc: OBI Developers <obi...@li...>, >> > > > "obi...@li..." >> > > > <obi...@li...> >> > > >Subject: Re: [Obi-role-branch] dispositoin branch call today >> 11 eastern on >> > > > centra >> > > >X-BeenThere: obi...@li... >> > > >X-Mailman-Version: 2.1.9 >> > > >List-Id: <obi-role-branch.lists.sourceforge.net> >> > > >List-Unsubscribe: >> > > ><https://lists.sourceforge.net/lists/listinfo/obi-role-branch>, >> > > > >> > > ><mailto:obi...@li...?subject=unsubscribe >> > >> > > >List-Archive: >> > > ><http://sourceforge.net/mailarchive/forum.php?forum_name=obi-role-branch >> > >> > > >List-Post: <mailto:obi...@li...> >> > > >List-Help: <mailto:obi-role-branch- >> re...@li...? >> > subject=help >> > > > >> > > >List-Subscribe: >> > > ><https://lists.sourceforge.net/lists/listinfo/obi-role-branch>, >> > > > >> > > ><mailto:obi...@li...?subject=subscribe >> > >> > > >X-PM-Spam-Prob: : 8% >> > > > >> > > >None of these seem to be in the OBI domain. They appear to be >> > > >natural dispositions, which I believe are being handled by the >> > > >Infectious Disease Ontology. >> > > > >> > > >Richard >> > > > >> > > >On Apr 27, 2009, at 8:52 AM, Fostel, Jennifer (NIH/NIEHS) [C] >> wrote: >> > > > >> > > >>material for starting discussion >> > > >>host disposition = disposition to allow pathogen to enter the >> > host organism >> > > >>pathogen disposition = disposition to enter the host organism >> and >> > > >>cause damage to host >> > > >>symbiote disposition = disposition to enter host orgasnism and >> > > >>benefit host organism and symbiote organism >> > > >>carrier disposition = disposition to allow entry for organism >> that >> > > >>is pathogen to another species, without harm or benefit to >> > carrier organism >> > > >> >> > > >>The host range or host specificity of a parasite is the >> collection >> > > >>of hosts that an organism can utilize as a partner >> > > >>quality of pathogen >> > > >> >> > > >>Jennifer Fostel, Ph.D. >> > > >>CEBS Scientific Administrator >> > > >>Global Health Sector, SRA International, Inc >> > > >> >> > > >>Laboratory of Respiratory Biology >> > > >>NIEHS, NIH >> > > >>PO Box 12233 Mail Drop F1-05 >> > > >>111 Alexander Drive >> > > >>Research Triangle Park NC 27709-2233 >> > > >> >> > > >>phone 919 541 5055 >> > > >>fax 919 541 1460 >> > > >> >> > > >> >> > > >><dispositions.pdf> >> > > >> > >> > >> > >> ------------------------------------------------------------------------------ >> > > >>Crystal Reports - New Free Runtime and 30 Day Trial >> > > >>Check out the new simplified licensign option that enables >> unlimited >> > > >>royalty-free distribution of the report engine for >> externally facing >> > > >>server and web deployment. >> > > >><http://p.sf. >> > > net/sfu/ >> businessobjects_______________________________________________ >> > > >http://p.sf. >> > > net/sfu/ >> businessobjects_______________________________________________ >> > > >>Obi-role-branch mailing list >> > > >><mailto:Obi...@li...>Obi-role- >> > > br...@li... >> > > >>https://lists.sourceforge.net/lists/listinfo/obi-role-branch >> > > > >> > > >> > >> > >> ------------------------------------------------------------------------------------------------ >> > > > >> > > >Richard H. Scheuermann, Ph.D. >> > > >Chief, Division of Biomedical Informatics >> > > >Director, Division of Translational Pathology >> > > >John H. Childers Professorship in Pathology >> > > >Department of Pathology >> > > >U.T. Southwestern Medical Center >> > > >5323 Harry Hines Blvd. >> > > >Dallas, TX 75390-9072 >> > > > >> > > >phone: 214-648-4115 >> > > >FAX: 214-648-4070 >> > > >email: >> > > ><mailto:ric...@ut...>richard. >> > > sch...@ut... >> > > >http://pathcuric1.swmed.edu/Research/scheuermann.html >> > > > >> > > > >> > > > >> > > >> > >> > >> ------------------------------------------------------------------------------ >> > > >Crystal Reports - New Free Runtime and 30 Day Trial >> > > >Check out the new simplified licensign option that enables >> unlimited >> > > >royalty-free distribution of the report engine for >> externally facing >> > > >server and web deployment. >> > > >http://p.sf.net/sfu/businessobjects >> > > >_______________________________________________ >> > > >Obi-role-branch mailing list >> > > >Obi...@li... >> > > >https://lists.sourceforge.net/lists/listinfo/obi-role-branch >> > > >> > > >> > >> > >> ------------------------------------------------------------------------------------------------ >> > >> > Richard H. Scheuermann, Ph.D. >> > Chief, Division of Biomedical Informatics >> > Director, Division of Translational Pathology >> > John H. Childers Professorship in Pathology >> > Department of Pathology >> > U.T. Southwestern Medical Center >> > 5323 Harry Hines Blvd. >> > Dallas, TX 75390-9072 >> > >> > phone: 214-648-4115 >> > FAX: 214-648-4070 >> > email: ric...@ut... >> > http://pathcuric1.swmed.edu/Research/scheuermann.html >> ------------------------------------------------------------------------------ >> Crystal Reports - New Free Runtime and 30 Day Trial >> Check out the new simplified licensign option that enables unlimited >> royalty-free distribution of the report engine for externally >> facing >> server and web deployment. >> http://p.sf.net/sfu/businessobjects_______________________________________________ >> Obi-role-branch mailing list >> Obi...@li... >> https://lists.sourceforge.net/lists/listinfo/obi-role-branch > > ------------------------------------------------------------------------------ > Crystal Reports - New Free Runtime and 30 Day Trial > Check out the new simplified licensign option that enables unlimited > royalty-free distribution of the report engine for externally > facing > server and web deployment. > http://p.sf.net/sfu/businessobjects_______________________________________________ > Obi-role-branch mailing list > Obi...@li... > https://lists.sourceforge.net/lists/listinfo/obi-role-branch |
