Re: BioRDF Telcon

Today's minutes are available at: http://esw.w3.org/HCLSIG_BioRDF_Subgroup/Meetings/2010/10-04_Conference_Call Thanks to Lena for scribing. M. Scott Marshall is now the new chair of BioRDF!! He will announce the next BioRDF call. Cheers, -Kei Kei Cheung wrote: This is a reminder tha

BioRDF Telcon

ver=irc.w3.org:6665&channel=%23hcls for IRC access. * Duration: ~1 hour * Frequency: bi-weekly * Convener: Kei Cheung * Scribe: to-be-determined ==Agenda== * Introduction * Revision of ISWC'10/SWPM-2010 paper * Next phase of BioRDF

Re: BioRDF Telcon

Today's minutes are available at: http://esw.w3.org/HCLSIG_BioRDF_Subgroup/Meetings/2010/09-27_Conference_Call Thanks to Simon Twigger for giving an informative presentation. Cheers, -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT

BioRDF Telcon

at/?server=irc.w3.org:6665&channel=%23hcls for IRC access. * Duration: ~1 hour * Frequency: bi-weekly * Convener: Kei Cheung * Scribe: to-be-determined ==Agenda== * Introduction * Presentation on Rat Genome Database (Simon Twigger) * Update ( ISWC'10/SWPM-2010 paper was accetped, but r

Re: BioRDF Telcon

Today's minutes are available at: http://esw.w3.org/HCLSIG_BioRDF_Subgroup/Meetings/2010/09-13_Conference_Call Thanks to Satya for scribing. Cheers, -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (5 pm CET) on Monday, September 13

BioRDF Telcon

at/?server=irc.w3.org:6665&channel=%23hcls for IRC access. * Duration: ~1 hour * Frequency: bi-weekly * Convener: Kei Cheung * Scribe: to-be-determined ==Agenda== * Introduction * Update (paper was submitted to ISWC'10/SWPM-2010) * Follow up and next steps

Re: BioRDF Telcon

Today's minutes are available at: http://esw.w3.org/HCLSIG_BioRDF_Subgroup/Meetings/2010/08-30_Conference_Call Thanks to Matthias for scribing. Cheers, -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (5 pm CET) on Monday, August 30

BioRDF Telcon

ver=irc.w3.org:6665&channel=%23hcls for IRC access. * Duration: ~1 hour * Frequency: bi-weekly * Convener: Kei Cheung * Scribe: to-be-determined ==Agenda== * Introduction * Paper submission to ISWC'10/SWPM-2010

Re: BioRDF Telcon

Today's minutes are available at: http://esw.w3.org/HCLSIG_BioRDF_Subgroup/Meetings/2010/08-23_Conference_Call Thanks to Matthias for scribing. Cheers, -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (5 pm CET) on Monday, August 23

BioRDF Telcon

ver=irc.w3.org:6665&channel=%23hcls for IRC access. * Duration: ~1 hour * Frequency: bi-weekly * Convener: Kei Cheung * Scribe: to-be-determined ==Agenda== * Introduction (Kei) * Gene list RDF representation (Lena, Satya, Michael, Jun, and Scott) * Paper submission to ISWC'10/SWPM-2010 (All)

Re: BioRDF Telcon

The minutes for today's call are available at: http://esw.w3.org/HCLSIG_BioRDF_Subgroup/Meetings/2010/08-16_Conference_Call Thanks to Jun for scribing. Cheers, -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (5 pm CET) on Monday, A

BioRDF Telcon

ver=irc.w3.org:6665&channel=%23hcls for IRC access. * Duration: ~1 hour * Frequency: bi-weekly * Convener: Kei Cheung * Scribe: to-be-determined ==Agenda== * Introduction (Kei) * Gene list RDF representation (Lena, Satya, Michael, Jun, and Scott) * Paper submission to ISWC'10/SWPM-2010 (All)

Re: Fwd: RDF from Atlas

One thing for all of us to think about is how to increase expressivity without introducing too much complexity. Just my two cents. Cheers, -Kei Christoph Grabmueller wrote: Scott, I don't mind at all if you CC this to the HCLS mailing list. I am aware though that a full representation of Ar

Re: BioRDF telcon call

Today's minutes are available at: http://esw.w3.org/HCLSIG_BioRDF_Subgroup/Meetings/2010/08-09_Conference_Call Thanks to Lena for scribing. Cheers, -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (5 pm CET) on Monday, August 9

BioRDF telcon call

irc.w3.org:6665&channel=%23hcls for IRC access. * Duration: ~1 hour * Frequency: bi-weekly * Convener: Kei Cheung * Scribe: to-be-determined ==Agenda== * Introduction (Kei) * Gene list RDF representation (Lena, Satya, Michael, Jun, and Scott) * Paper submission to ISWC'10/SWPM-2010 (All)

Re: BioRDF Telcon

Today's minutes are available at: http://esw.w3.org/HCLSIG_BioRDF_Subgroup/Meetings/2010/08-02_Conference_Call Cheers, -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (5 pm CET) on Monday, August 2 (see details below). Cheers,

Re: BioRDF Telcon

Thanks for correcting that, Scott. I'm still not quite out of my Asian time zone. :-) -Kei is M. Scott Marshall wrote: Hi Kei, I think that 11AM EDT = 5PM CET. Cheers, Scott On Jul 31, 2010 8:26 AM, "Kei Cheung" <mailto:kei.che...@yale.edu>> wrote: This is

BioRDF Telcon

This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (4 pm CET) on Monday, August 2 (see details below). Cheers, -Kei == Conference Details == * Date of Call: Monday, August 2, 2010 * Time of Call: 11:00 am Eastern Time (4 pm CET) * Dial-In #: +1.617.761.6200 (Cambrid

Re: BioRDF minutes

yet. Would you rather postpone it to August 2? cheers, Jun Kei Cheung wrote: Hi Jun et al, Thanks a lot for keeping things going while I was away. I just got back from Hong Kong and am recovering from the trip. Let's plan on having the next call on Aug. 2. This will give me some time to

Re: BioRDF minutes

Hi Jun et al, Thanks a lot for keeping things going while I was away. I just got back from Hong Kong and am recovering from the trip. Let's plan on having the next call on Aug. 2. This will give me some time to recuperate and catch up on things. Best, -Kei Jun Zhao wrote: Dear all, The

Re: BioRDF Telcon

n: we would be happy to receive feedback, suggestions for links. scott: one potential use-case would be EHRs, helping clinicians with certain tasks through integrated information. *Excerpts End*** Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (4

BioRDF Telcon

This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (4 pm CET) on Monday, June 14 (see details below). Jeff Grethe and Stephen Larson will join the call to talk to us ahout NIF SPARQL endpoints. Cheers, -Kei == Conference Details == * Date of Call: Monday, June 7

Re: BioRDF Telcon

Today's minutes are available at: http://esw.w3.org/HCLSIG_BioRDF_Subgroup/Meetings/2010/06-07_Conference_Call -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (4 pm CET) on Monday, June 7 (see details below). As part of the agenda,

Re: BioRDF Telcon

oRDF_-_W3C_-_HCLS_Lipid-Ontology_and_Reuse_Cases.pdf Cheers, -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (4 pm CET) on Monday, June 7 (see details below). As part of the agenda, Chris Baker will give a presentation on Lipid Ontology C

BioRDF Telcon

This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (4 pm CET) on Monday, June 7 (see details below). As part of the agenda, Chris Baker will give a presentation on Lipid Ontology Cheers, -Kei == Conference Details == * Date of Call: Monday, June 7, 2010 * Time of

Re: BioRDF Telcon

irector Strategic Medicine, Inc 231 Deepdale Drive Kennett Square, PA 19348 (814) 659 5450 mobile m.lieb...@strategicmedicine.com www.strategicmedicine.com -Original Message- From: public-semweb-lifesci-requ...@w3.org [mailto:public-semweb-lifesci-requ...@w3.org] On Behalf Of mdmil

Re: BioRDF Telcon

complexity involved. Cheers, -Kei cheers, michael - Original Message ----- From: "Kei Cheung" To: "mdmiller" Cc: "M. Scott Marshall" ; "HCLS" Sent: Tuesday, May 25, 2010 8:52 PM Subject: Re: BioRDF Telcon Hi Michael et al, What do we mea

Re: BioRDF Telcon

aspect of this work forward. i'm looking forward to seeing the end results. cheers, michael - Original Message - From: "M. Scott Marshall" To: "mdmiller" Cc: "Kei Cheung" ; "HCLS" Sent: Tuesday, May 25, 2010 10:21 AM Subject: Re:

Re: BioRDF Telcon

Today's minutes are available at: http://esw.w3.org/HCLSIG_BioRDF_Subgroup/Meetings/2010/05-24_Conference_Call Thanks to Matthias for scribing. Cheers, -Kei mdmiller wrote: hi kei, look forward to joining the call, michael - Original Message - From: "Kei Cheung"

Re: BioRDF Telcon

Hi Michael, Yes, May 24 was what I meant. It was a typo. Thanks, -Kei mdmiller wrote: hi kei, do you mean monday (may 24)? cheers, michael - Original Message - From: "Kei Cheung" To: "JunZhao" Cc: Sent: Friday, May 21, 2010 2:28 PM Subject: Re: BioRDF Telco

Re: BioRDF Telcon

Since there were only Jun and Scott who attended the last BioRDF call (I was not able to attend due to some emergency meetings), we decided to have the next BioRDF call on the coming Monday (May 21) at 11 am (EDT). The agenda will be the same (see below). Cheers, -Kei JunZhao wrote: This is

Re: BioRDF Telcon

Today's minutes are available at: http://esw.w3.org/HCLSIG_BioRDF_Subgroup/Meetings/2010/05-03_Conference_Call Cheers, -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (4 pm CET) on Monday, May 3 (see details below). Cheers,

BioRDF Telcon

3.org:6665&channel=%23hcls for IRC access. * Duration: ~1 hour * Frequency: bi-weekly * Convener: Kei Cheung * Scribe: to-be-determined ==Agenda== * Introduction: Kei * Gene list RDF representation (Jun, Satya, Lena, Scott, Jim) * iPhone demo (Don)

Re: Monday evening get-together at WWW2010

structions for calling in? Thanks, Amit On Thu, Apr 22, 2010 at 3:24 PM, Kei Cheung <mailto:kei.che...@yale.edu>> wrote: Thanks a lot for arranging this, John. -Kei John Madden wrote: Hi all, Just to update you all (even though I know Andrea's flig

Re: Monday evening get-together at WWW2010

Thanks a lot for arranging this, John. -Kei John Madden wrote: Hi all, Just to update you all (even though I know Andrea's flight was cancelled, but who knows)...we now have a venue for our get together on Monday evening in Raleigh. I've made patio reservations at 6:00 pm for 10 people --

Re: ontologies for BioRDF and LODD datasets

The first question: what is drug? Dailymed seems to deal with marketed drugs at the FDA level, while drugbank seems to deal with drugs at the chemical/pharmacological/pharmaceutical level. There seems to be overlapping as well as unique parts between the two. Is the wikipedia definition of drug

Re: BioRDF Telcon

Jim McCusker's presentation is available at: http://prezi.com/pr7qkiw_5yk2/ -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (4 pm CET) on Monday, April 19 (see details below). Jun Zhao will convene this telcon call. Cheers,

BioRDF Telcon

This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (4 pm CET) on Monday, April 19 (see details below). Jun Zhao will convene this telcon call. Cheers, -Kei == Conference Details == * Date of Call: Monday, April 19, 2010 * Time of Call: 11:00 am Eastern Time (4 pm CE

Re: BioRDF Telcon

Today's BioRDF telcon minutes are available at: http://esw.w3.org/HCLSIG_BioRDF_Subgroup/Meetings/2010/04-05_Conference_Call Thanks to Jun for scribing. Cheers, -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (4 pm CET) on Monday, Ap

BioRDF Telcon

irc.w3.org:6665&channel=%23hcls for IRC access. * Duration: ~1 hour * Frequency: bi-weekly * Convener: Kei Cheung * Scribe: to-be-determined ==Agenda== * Introduction: Kei * Microarray use case -- RDF structure of genelists + experiments + provenance (All) * Collaboration with Sci. Disc

Re: BioRDF Telcon

Today's BioRDF meeting minutes are available at: http://esw.w3.org/HCLSIG_BioRDF_Subgroup/Meetings/2010/03-22_Conference_Call Cheers, -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (4 pm CET) on Monday, March 22 (see details

Re: BioRDF Telcon

Don has created an initial wiki page for describing the iphone app (see the link below). http://esw.w3.org/HCLSIG_BioRDF_Subgroup_iPhone_App_Use_Case#iPhone_App_Use_Case Cheers, -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (4 pm CET

BioRDF Telcon

ver=irc.w3.org:6665&channel=%23hcls for IRC access. * Duration: ~1 hour * Frequency: bi-weekly * Convener: Kei Cheung * Scribe: to-be-determined ==Agenda== * Introduction: Kei * IPhone app (Don) * Microarray use case -- RDF structure of genelists + experiments + provenance (All) * Collabor

Re: BioRDF Telcon

Today's BioRDF minutes are available at: http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2010/03-03_Conference_Call Thanks to Matthias for scribing. Cheers, -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (5 pm CET) on M

BioRDF Telcon

3.org:6665&channel=%23hcls for IRC access. * Duration: ~1 hour * Frequency: bi-weekly * Convener: Kei Cheung * Scribe: to-be-determined ==Agenda== * Introduction: Kei * IPhone app demo (Don) * Microarray use case -- RDF structure of genelists + experiments + provenance (All) * Cross-task and c

Re: BioRDF Telcon

The minutes for today's BioRDF telcon are available at: http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2010/02-22_Conference_Call Thanks to Jun for scribing. Cheers, -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (5 pm CE

BioRDF Telcon

3.org:6665&channel=%23hcls for IRC access. * Duration: ~1 hour * Frequency: bi-weekly * Convener: Kei Cheung * Scribe: to-be-determined ==Agenda== * Introduction: Kei * Biohackathon update (Matthias) * Microarray use case -- RDF structure of genelists + experiments (Lena, Satya, Jun) * Qu

Re: URIs for UMLS

May be a related question, for gene information, should be use entrez gene id or umls id (cui)? Cheers, -Kei Matthias Samwald wrote: Sorry for asking such a seemingly simple question. Establishing URIs for UMLS entities has now been discussed for years. What is the current status of this de

Re: BioRDF Telcon

The minutes for today's BioRDF telcon call are available at: http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2010/02-08_Conference_Call Thanks to Don for scribing. Cheers, -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (5 p

BioRDF Telcon

3.org:6665&channel=%23hcls for IRC access. * Duration: ~1 hour * Frequency: bi-weekly * Convener: Kei Cheung * Scribe: to-be-determined ==Agenda== * Introduction: Kei * HCLS KB (Matthias, Adrian) * Microarray use case -- RDF structure of genelists + experiments (Lena, Satya, Jun) * Query fe

Re: BioRDF Telcon

The minutes for yesterday's BioRDF telcon are available at: http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2010/01-25_Conference_Call Thanks to Lena for scribing. Cheers, -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (5 p

BioRDF Telcon

3.org:6665&channel=%23hcls for IRC access. * Duration: ~1 hour * Frequency: bi-weekly * Convener: Kei Cheung * Scribe: to-be-determined ==Agenda== * Introduction: Kei * Microarray use case -- explore RDF structure based on some sample queries (All) * Applications/demos (All)

BioRDF Telcon Postponed

In observance of the Martin Luther King Day, the BioRDF call is postponed to the following Monday on January 25 at 11 am (EDT). Agenda will be announced later. Best, -Kei

Call for papers: Semantic Web for Chinese Medicine

[Apologies for cross-posting] Call for Papers (A Thematic Series in Chinese Medicine) Semantic Web for Chinese Medicine: Harmonizing Data and Information of Chinese Medicine and Western Medicine Submission deadline: 31 January, 2010 Guest editors: Kei-Hoi Cheung (1) and Huajun Chen (2) (1) C

Re: BioRDF Telcon

-- From: "Kei Cheung" Sent: Monday, January 04, 2010 9:42 PM To: "HCLS" Subject: Re: BioRDF Telcon Today's minutes are available at: http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2010/01-04_Conference_Call Cheers, -Kei Kei Cheung wrote: Happy

Re: BioRDF Telcon

't see the meeting announcement. An action item is waiting for me... Happy New Year! Don On Jan 4, 2010, at 3:42 PM, Kei Cheung wrote: Today's minutes are available at: http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2010/01-04_Conference_Call Cheers, -Kei Kei Cheung wrote: Ha

Re: BioRDF Telcon

Today's minutes are available at: http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2010/01-04_Conference_Call Cheers, -Kei Kei Cheung wrote: Happy 2010! This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (5 pm CET) on Monday, January 4 (see details

Re: magetab2magerdf

ontent/full/25/2/279 - Original Message ----- From: "Kei Cheung" To: "mdmiller" Cc: "Jim McCusker" ; "w3c semweb HCLS" Sent: Sunday, December 13, 2009 6:34 PM Subject: Re: magetab2magerdf Hi Jim, Michael, The following paper describes how to convert mage-tab

Re: BioRDF Telcon

n use case, just one quick comment is that in my experience entrez gene identifiers/accessions are the best to use. what i've seen is that they provide very good linkage to all the other sequence databases. cheers, michael - Original Message ----- From: "Kei Cheung" To:

Re: Microarray use case

Thanks! Neuroscientists do use iPhone :-) . Maryann Martone wrote: Yes that's correct. The vta is next to the sn Sent from my iPhone On Dec 23, 2009, at 8:56 AM, Kei Cheung wrote: Thanks for confirming. I also found in neurolex the following: "Ventral tegmental area dopam

Re: Microarray use case

nd in its subregion " pars compacta". -Kei Maryann Martone wrote: Yes On Dec 22, 2009, at 6:42 PM, Kei Cheung wrote: Thanks, Maryann. In other words, dopamine (or dopaminergic) neurons are found only in the pars cmpacta portion of the substantia nigra. -Kei Maryann Martone wro

Re: Microarray use case

Thanks, Maryann. In other words, dopamine (or dopaminergic) neurons are found only in the pars cmpacta portion of the substantia nigra. -Kei Maryann Martone wrote: Yes, they are same as the dopaminergic neurons are in the pars compacta. On Dec 22, 2009, at 6:36 PM, Kei Cheung wrote: I&#

Microarray use case

I'm posting the following question to the neurolex group in the hope of getting some neuroscience domain expert input to our microarray use case (http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/QueryFederation2 ). One of the microarray experiments mentions "substantia nigra dopamine neuron". I

Re: BioRDF Telcon

ample queries to move forward. Thanks to Scott for scribing. Wish you all Happy Holidays! Cheers, -Kei [1] http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/QueryFederation2 [2] http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/MicroarrayExperimentContext Kei Cheung wrote: This is a reminder tha

BioRDF Telcon

3.org:6665&channel=%23hcls for IRC access. * Duration: ~1 hour * Frequency: bi-weekly * Convener: Kei Cheung * Scribe: to-be-determined ==Agenda== * Introduction: Kei * HCLS KB update (Matthias, Adrian) * Microarray use case (All) * Possible application(s)/demo(s) (All)

Re: Health Care and Life Sciences SemanticWb on iPhone and iPod touch

Forgot to cc the list. -Kei Kei Cheung wrote: Hi Don, Donald Doherty wrote: Hi Kei, Great to hear from you and the podcast idea is excellent. I wonder, is there any effort to have semantics attached to the podcasts? That'd be cool to have triples indicating content. Check ou

Re: Health Care and Life Sciences SemanticWb on iPhone and iPod touch

M. Scott Marshall wrote: On Thu, Dec 17, 2009 at 9:26 PM, Kei Cheung <mailto:kei.che...@yale.edu>> wrote: It's one of many technologies I play around with to test the potential (and current limits) of the Semantic Web and Semantic Web technologies (for

Re: Microarray Experiment Context

n this. Cheers, -Kei [1] http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/QueryFederation2 Kei Cheung wrote: Hi Satya et al, Thanks for creating the wiki page. I think it's a good start. I hope our use case can help facilitate some of the ontology alignment effort. You already listed a fe

Re: Health Care and Life Sciences SemanticWb on iPhone and iPod touch

Hi Don, Donald Doherty wrote: Scott Marshall suggested that people on the HCLS list would have fun with my SemanticWb iPhone and iPod touch app (www.actionpotential.com). Mobile neuroscience sounds an interesting concept. You may also want to use it to play the neuroscience podcasts of intere

Re: magetab2magerdf

Hi Susanna, Thanks for the information. If I understand it correctly, ISA-TAB can be used for different types of experiments (e.g., microarray, deep sequencing, and mass spectrometry), while MAGE-TAB is designed for microarray experiments only. However, if people are doing micorarray experime

Re: Microarray Experiment Context

t, at http://groups.google.com/group/obi-users?hl=en . Regards, Melanie On 7-Dec-09, at 7:48 AM, Kei Cheung wrote: Hi Satya et al, Thanks for creating the wiki page. I think it's a good start. I hope our use case can help facilitate some of the ontology alignment effort. You alread

Re: magetab2magerdf

Hi Jim, Michael, The following paper describes how to convert mage-tab and isa-tab (how does this differ from mage-tab?) into DAG for visualization purposes. http://www.biomedcentral.com/1471-2105/10/133 Why not DAG for machine readability as well? Cheers, -Kei mdmiller wrote: hi jim, l

BioRDF: Microarray use case

I have updated the description of the microarray use case at: http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/QueryFederation2 As part of the update, new examples are provided. Also included are the main concepts/terms extracted from the examples (abstracts). Cheers, -Kei

Re: BioRDF Telcon

Molecular Signatures Database (MSigDB): [1]: http://www.broadinstitute.org/gsea/msigdb/ cheers, michael - Original Message - From: "mdmiller" To: "Kei Cheung" Cc: "Jim McCusker" ; "Helena Deus" ; "HCLS" Sent: Thursday, December 10,

Re: BioRDF Telcon

Today's BioRDF minutes are available at: http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2009/12-07_Conference_Call Thanks to Lena and Satya for scribing. The next BioRDF telcon will be held on Dec 21. Cheers, -Kei Kei Cheung wrote: This is a reminder that the next BioRDF t

Re: Microarray Experiment Context

Hi Satya et al, Thanks for creating the wiki page. I think it's a good start. I hope our use case can help facilitate some of the ontology alignment effort. You already listed a few to start. Other might include: NIFSTD, SenseLab, SWAN, TMO, etc. You can also add my name to the contact for the

Re: BioRDF Telcon

meanings. Cheers, -Kei cheers, michael Michael Miller mdmille...@comcast.net - Original Message - From: "Jim McCusker" To: "Helena Deus" Cc: "Kei Cheung" ; "mdmiller" ; "HCLS" Sent: Monday, November 30, 2009 8:19 AM Subject: Re: B

Re: BioRDF Telcon

, at http://www.ebi.ac.uk/microarray-as/ae/browse.html?keywords=E-GEOD-4757 I have a small RDF document of that IDF at http://magetab2rdf.googlecode.com/svn/trunk/E-GEOD-4757.idf.rdf Thanks Lena On Tue, Dec 1, 2009 at 9:20 PM, Kei Cheung <mailto:kei.che...@yale.edu>> wrote: Hi

BioRDF Telcon

3.org:6665&channel=%23hcls for IRC access. * Duration: ~1 hour * Frequency: bi-weekly * Convener: Kei Cheung * Scribe: to-be-determined ==Agenda== * Introduction: Kei * Mage-tab parsing: Lena, Jim, Michael, Helen * Provenance and workflow: Satya, Jun, Yolanda * Next steps: All

Re: BioRDF Telcon

, is how that gene list was obtained, what higher level > analysis was used, that is generally only in the paper unfortunately. > > cheers, > michael > . > > - Original Message - From: "Kei Cheung" > > > > mail

Re: BioRDF Telcon

URL that I can look at? Thanks Lena On Tue, Nov 24, 2009 at 2:19 PM, Kei Cheung <mailto:kei.che...@yale.edu>> wrote: Hi Lena et al, When you said data structure, did you mean the RDF structure. If so, is a pointer to the structure that we can look at? As discussed duri

Re: BioRDF Telcon

like to be involved in that effort, do you already have a URL that I can look at? ThanksLena On Tue, Nov 24, 2009 at 2:19 PM, Kei Cheung wrote: Hi Lena et al, When you said data structure, did you mean the RDF structure. If so, is a pointer to the structure that we can look at? As discussed dur

Re: BioRDF Telcon

:helenad...@gmail.com> *To:* mdmiller <mailto:mdmille...@comcast.net> *Cc:* Kei Cheung <mailto:kei.che...@yale.edu> ; HCLS <mailto:public-semweb-lifesci@w3.org> *Sent:* Tuesday, November 24, 2009 10:06 AM *Subject:* Re: BioRDF Telcon Hi all, I apologize for m

Re: BioRDF Telcon

er level analysis was used, that is generally only in the paper unfortunately. cheers, michael . - Original Message - From: "Kei Cheung" mailto:kei.che...@yale.edu>> To: "HCLS" mailto:public-semweb-lifesci@w3.org>> Sent: Monday, Nove

Re: Differentially Expressed Gene Lists

it somehow with our Atlas, as gene list/signature curation is something a lot of our users demand frequently. Cheers, Misha On Mon, Nov 23, 2009 at 9:08 PM, Kei Cheung wrote: Since there seems to be an interest in exploring how to represent differentially expressed gene list, I'm cc'

Re: BioRDF Telcon

rally only in the paper unfortunately. cheers, michael . - Original Message ----- From: "Kei Cheung" To: "HCLS" Sent: Monday, November 23, 2009 1:27 PM Subject: Re: BioRDF Telcon Today's BioRDF minutes are available at the following: http://esw.w3.org/topic/HCLS

Re: BioRDF Telcon

Today's BioRDF minutes are available at the following: http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2009/11-23_Conference_Call Thanks to Rob for scribing. Cheers, -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 am EDT (5 pm CE

Re: BioRDF Telcon

ts.com> Mobile: 410-624-9155 www.semanticbits.com <http://www.google.com/url?q=http%3A%2F%2Fwww.semanticbits.com&sa=D&sntz=1&usg=AFrqEzdmb7561yz98TLDYPttfVOSOp7R8g> On Sat, Nov 21, 2009 at 9:15 AM, Kei Cheung <mailto:kei.che...@yale.edu>> wrote: This

Re: Differentially Expressed Gene Lists

st.net - Original Message - From: "Helen Parkinson" To: "Kei Cheung" Cc: ; "mdmiller" ; "Misha Kapushesky" ; "Eric Prud'hommeaux" ; "Matthias Samwald" Sent: Monday, November 23, 2009 5:58 AM Subject: Re: Differentia

BioRDF Telcon

3.org:6665&channel=%23hcls for IRC access. * Duration: ~1 hour * Frequency: bi-weekly * Convener: Kei Cheung * Scribe: to-be-determined == Agenda == * Roll call & introduction (Kei) * RDF representation of microarray experiment and data (All) * Provenance and workflow (All)

Re: BioRDF Telcon

The minutes for today's BioRDF call are available at the following: http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2009/11-09_Conference_Call Thanks to Matthias and Eric for scribing. Cheers, -Kei Kei Cheung wrote: The BioRDF breakout update is available at the following:

Re: BioRDF Telcon

The BioRDF breakout update is available at the following: http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/QueryFederation2?action=AttachFile&do=get&target=BioRDF+Breakout+Update.pdf Cheers, -Kei Kei Cheung wrote: This is a reminder that the next BioRDF telcon call will be held at 11 a

BioRDF Telcon

3.org:6665&channel=%23hcls for IRC access. * Duration: ~1 hour * Frequency: bi-weekly * Convener: Kei Cheung == Agenda == * Roll call & introduction (Kei) * BioRDF breakout update (Kei) * Follow up (All)

BioRDF breakout at F2F

For those who join the BioRDF breakout remotely, please use the following information: Topic: BioRDF task break out Date: Tuesday, November 3, 2009 Time: 9:00 am, Pacific Standard Time (San Francisco, GMT-08:00) WebEx Meeting Number: 922 391 470 WebEx Meeting Password: ncbomeeting Dial-In #:

Re: Action Items from call today

looks like one could do this encoding on the fly, so that the data itself at the source could be in whatever format is natural. http://sw.joanneum.at/scovo/schema.html cheers, michael Michael Miller mdmille...@comcast.net - Original Message ----- From: "Kei Cheung" To: "He

Re: F2F Teleconference access code: 42571 (42572 for TMO call)

Thanks, Eric. Do we have a projector during the breakout on Tuesday? -Kei Eric Prud'hommeaux wrote: I've changed the teleconfrence bridge reservation access codes because long ones don't always work. The HCLS F2F meeting will have an access code of 42571 (HCLS1) both Monday and Tuesday, 08:00

Re: Action Items from call today

l Michael Miller mdmille...@comcast.net - Original Message ----- From: "Kei Cheung" To: "mdmiller" Cc: "Helen Parkinson" ; "HCLS" ; "Tony Burdett" Sent: Thursday, October 29, 2009 1:43 PM Subject: Re: Action Items from call today Hi Michael

Re: Action Items from call today

Hi Jim, Helen, et al, If Limpopo has been used by multiple microarray data providers, it should be more robust and useful to the microarray use case. -Kei Helen Parkinson wrote: Jim Stanford are now using the limpopo parser as well, the cannonical one has been replaced by this. Limpopo is

Re: Action Items from call today

heers, michael Michael Miller mdmille...@comcast.net - Original Message - From: "Kei Cheung" To: "Helen Parkinson" Cc: "HCLS" ; "Tony Burdett" Sent: Wednesday, October 14, 2009 7:03 PM Subject: Re: Action Items from call today Thanks, Helen.

BioRDF (no telcon call on Oct 26)

As many people will be attending ISWC 2009, there will be no BioRDF telcon call on the coming Monday. The next call will be on Nov 9. Cheers, -Kei

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