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  • Chris, Melanie, Heiko, Paul T, David OS ...hed to next week. Instead we discussed possiblities for implementing Paul Thomas's draft molecular function overhaul. ...
    2 KB (378 words) - 17:59, 18 June 2015
  • * Panther tree inference and curation tool, developed by Paul Thomas' group at SRI. ...
    634 bytes (96 words) - 10:52, 29 April 2014
  • |PAINT (Ed, Suzi, Paul) |Panther protein families (Paul) ...
    1,007 bytes (130 words) - 10:48, 10 February 2023
  • *Paul Thomas ...
    856 bytes (126 words) - 12:59, 24 August 2018
  • *Paul Thomas * Paul Thomas presented a preliminary proposal of representing regulatory events in GO be ...
    2 KB (387 words) - 14:21, 1 July 2014
  • # Paul Thomas to give an overview of his proposal for representing regulatory 'roles' in ...
    661 bytes (89 words) - 14:28, 1 July 2014
  • Could everyone please let Paul T know which of the two sets of dates works for them. 1. Everyone please let Paul Thomas know which of the following dates work best for the next GOC meeting: ...
    1 KB (233 words) - 14:31, 18 May 2016
  • ...ntaining at least MAPKKK, MAPKK and MAPK based on PMID 20811974 (from Paul Thomas's regulation proposal: ...
    3 KB (364 words) - 17:54, 22 April 2014
  • *Paul Thomas has started the Panther analysis on the ref genome gene product sets ...
    1,005 bytes (143 words) - 10:51, 16 January 2018
  • * GO Objectives (Chris, Paul) *Paul Thomas ...
    2 KB (230 words) - 17:26, 24 August 2018
  • *Paul Thomas Chris went through his proposal, which is designed to be read alongside Paul's White paper. ...
    2 KB (410 words) - 17:36, 9 April 2014
  • | Paul Thomas ...
    2 KB (362 words) - 18:42, 21 February 2017
  • PAINT is implemented in Java, as a joint project between Paul Thomas's group (USC) and Suzanna Lewis's group (LBL). Development of PAINT has be ...
    3 KB (421 words) - 15:10, 17 October 2023
  • - Ben Temperton, Paul Carini (Giovannoni Lab regarding their annotation pipeline of the SAR11 gen *Pascale- Annotation propagation - [Pascale:] (1) sent email to Paul Thomas and Alan Bridge; we still need to establish who else will be part of the gr ...
    2 KB (308 words) - 16:11, 9 April 2014
  • ...e describing what we need to generate a proper gp2protein file) Chris/Stan/Paul to provide numerical profiles. * Working on methods to establish curation sets (PANTHER, PPOD, Paul Thomas, Kara Dolinski). ...
    4 KB (598 words) - 08:53, 12 April 2019
  • |Paul Thomas (3) Panther (Paul Thomas's group, SRI) is developing a tool to allow visualization of protein famili ...
    5 KB (670 words) - 11:28, 14 July 2014
  • * Managers: David, Huaiyu, Kimberly, Pascale, Seth, Suzi, Paul, Chris Thomas Depuydt and Klaas Vandepoele contacted TAIR and Paul to ask how to annotate a study where they predicted the function of plant g ...
    5 KB (734 words) - 06:04, 18 June 2021
  • ...a Casals, Marc Feuermann, Pascale Gaudet, David Hill, Patrick Masson, Paul Thomas, Kimberly Van Auken ...
    2 KB (254 words) - 08:54, 23 March 2023
  • ...a Casals, Marc Feuermann, Pascale Gaudet, David Hill, Patrick Masson, Paul Thomas, Kimberly Van Auken ...
    2 KB (274 words) - 08:53, 23 March 2023
  • * Chair: Alan Bridge and Paul Thomas | Paul Thomas ...
    5 KB (774 words) - 08:17, 22 February 2023
  • * '''GO-CAM paper''': Thomas PD, Hill DP, Mi H, Osumi-Sutherland D, Van Auken K, Carbon S, Balhoff JP, A ...Judith A Blake, J. Michael Cherry, Christopher J. Mungall, Paul Thomas and Paul Sternberg. ...
    3 KB (519 words) - 12:55, 19 November 2019
  • * Paul Thomas Paul Thomas: ...
    4 KB (574 words) - 10:00, 12 April 2019
  • | Paul Thomas * Paul Sternberg ...
    2 KB (345 words) - 11:54, 12 April 2019
  • #Paul Thomas ...
    2 KB (282 words) - 10:54, 29 April 2014
  • ...l, Jane, David Hill, Rama, Chris, Mike C, Judy, Suzi, Paul Sternberg, Paul Thomas ...
    3 KB (411 words) - 15:21, 27 June 2014
  • # Annotation Propagation: Alan Bridge and Paul Thomas (Wiki Page: [[2010_GO_camp_Annotation_propagation_rules]]) ...
    2 KB (289 words) - 11:20, 16 January 2018
  • ===Talk by Paul Pavlidis, UBC (11:30 - 12:15)=== * [http://pavlab.chibi.ubc.ca Paul Pavlidis's lab website] ...
    3 KB (476 words) - 15:28, 15 April 2015
  • ...a Casals, Marc Feuermann, Pascale Gaudet, David Hill, Patrick Masson, Paul Thomas, Kimberly Van Auken ...
    3 KB (356 words) - 10:26, 16 March 2023
  • * Paul Thomas, University of Southern California * Paul Sternberg, CalTech ...
    3 KB (370 words) - 19:38, 28 February 2019
  • Participants: Paul Thomas, Pascale Gaudet, Huaiyu Mi. ...
    2 KB (244 words) - 09:34, 9 April 2019
  • |Paul Thomas ...
    3 KB (418 words) - 10:40, 12 April 2019
  • |Paul Thomas ...
    2 KB (325 words) - 04:24, 1 September 2016
  • # Annotation Propagation: Alan Bridge and Paul Thomas (Wiki Page: [[2010_GO_camp_Annotation_propagation_rules]]) ...
    2 KB (353 words) - 11:19, 16 January 2018
  • ...a Casals, Marc Feuermann, Pascale Gaudet, David Hill, Patrick Masson, Paul Thomas, Kimberly Van Auken ...
    3 KB (363 words) - 10:23, 16 March 2023
  • Pascale, Mike, Paul, David, Kimberly, Brenley, Li, Val, Mary, Brenley * authors: Pascale Gaudet, Michael Livstone, Paul Thomas, The Reference Genome Project ...
    4 KB (599 words) - 11:15, 16 January 2018
  • ...a Casals, Marc Feuermann, Pascale Gaudet, David Hill, Patrick Masson, Paul Thomas, Kimberly Van Auken ...
    3 KB (439 words) - 10:27, 16 March 2023
  • ...a Casals, Marc Feuermann, Pascale Gaudet, David Hill, Patrick Masson, Paul Thomas, Kimberly Van Auken ...
    3 KB (417 words) - 10:23, 16 March 2023
  • ...Feuermann, Pascale Gaudet, David Hill, Patrick Masson, Chris Mungall, Paul Thomas, Kimberly Van Auken ...
    3 KB (455 words) - 10:25, 16 March 2023
  • ...ith Kara Dolinski, Mike Livestone, Mary Dolan, Li Ni, Pascale Gaudet, Paul Thomas, Ed Lee, as well as Suzi Lewis and Judy Blake (both attending remotely). A ...b a cup of coffee when waiting for PAINT to propagate annotations -- sorry Paul =P ). ...
    4 KB (752 words) - 10:42, 16 January 2018
  • Chris Mungall, Paul Thomas ...
    3 KB (412 words) - 09:59, 8 January 2024
  • | Paul Thomas | Paul Sternberg ...
    4 KB (650 words) - 16:49, 14 October 2019
  • ...Feuermann, Pascale Gaudet, David Hill, Patrick Masson, Sylvain Poux, Paul Thomas, Kimberly Van Auken ...
    3 KB (467 words) - 13:25, 16 March 2023
  • *10:10am - 10:40 am -- Phylogenetic annotations and PAINT (Paul Thomas) ...
    3 KB (403 words) - 11:55, 20 October 2016
  • (Hinxton, UK, July 3-5). Pascale, Paul, Suzi, Mike, Judy attended. Included people form all the major orthology re ...released new PPOD families based on the new protein sets assembled by Paul Thomas' group. Note that we also have run InParanoid/MultiParanoid this time arou ...
    4 KB (549 words) - 10:46, 16 January 2018
  • ...Feuermann, Pascale Gaudet, David Hill, Patrick Masson, Sylvain Poux, Paul Thomas, Kimberly Van Auken ...
    3 KB (482 words) - 13:25, 16 March 2023
  • | Paul Thomas ...
    3 KB (442 words) - 10:02, 9 April 2019
  • ...ave continued to work closely with Pascale Gaudet, Suzanna Lewis, and Paul Thomas in testing and determining specifications for the PANTHER annotation tool, ...
    3 KB (451 words) - 17:00, 10 July 2014
  • AI: Ask Paul Thomas to provide the full example file??</font color> ...
    3 KB (528 words) - 15:52, 1 July 2014
  • | Paul Thomas, Huaiyu Mi ...
    3 KB (416 words) - 01:31, 1 February 2017
  • USC: Paul Thomas<br> * Paul asked the InterPro and Ensembl group to talk about what their concerns: ...
    5 KB (841 words) - 16:37, 9 April 2014
  • ...d, Melanie Courtot, Paola Roncaglia, Harold Drabkin, Tanya Berardini, Paul Thomas, Moni Munoz-Torres heteroreceptor complex assembly/disassembly (requested by Paul Denny, UCL) ...
    7 KB (1,191 words) - 03:53, 14 October 2016
  • ...e then one group (ie YEAST|SGD:S000006392|UniProtKB:Q06580). Informed Paul Thomas. ...me in file provided by Pascale Gaudet are not in group list. Informed Paul Thomas. ...
    7 KB (1,099 words) - 18:33, 5 January 2011
  • ...released new PPOD families based on the new protein sets assembled by Paul Thomas' group. Note that we also have run InParanoid/MultiParanoid this time arou ...
    4 KB (573 words) - 10:46, 16 January 2018
  • ...n the project has been published in 2011: Gaudet P, Livstone MS, Lewis SE, Thomas PD (2011) Phylogenetic-based propagation of functional annotations within t ...
    7 KB (950 words) - 17:27, 31 January 2012
  • * Paul Thomas USC ...
    3 KB (483 words) - 09:54, 10 December 2018
  • * Mi H, Dong Q, Muruganujan A, Gaudet P, Lewis S, Thomas PD. 2010. PANTHER version 7: improved phylogenetic trees, orthologs and col * Gaudet P, Lee E, Livstone, M, Dolinski K, Lewis SE, Thomas P. Functional Gene Ontology Annotation across Species using PAINT. Poster p ...
    10 KB (1,317 words) - 10:39, 16 January 2018
  • Paul Thomas (USC) Paul T./Pascale: GOC's task is to represent biology and not experimental artefac ...
    6 KB (980 words) - 16:37, 9 April 2014
  • |Paul Llyod |Paul Thomas ...
    7 KB (1,257 words) - 11:53, 12 April 2019
  • * 9:00 - 9:30 '''Welcoming remarks''' & overview of today's agenda. (Paul Thomas, Monica Munoz-Torres) Room 309 ...
    4 KB (554 words) - 11:56, 20 October 2016
  • AI: Ask Paul Thomas to provide the full example file??</font color> ...
    4 KB (703 words) - 15:54, 1 July 2014
  • *Paul Thomas ...
    4 KB (681 words) - 14:30, 1 July 2014
  • * Attending: Pascale Gaudet, Paul Thomas, Kara Dolinski, Mike Livstone, Rose Oughtred, Suzanna Lewis (via phone). Quality Control note: It was a useful exercise to have Mike Livstone and Paul do the MSH family; early on, we all did the same thing with topoisomerases. ...
    6 KB (964 words) - 10:45, 16 January 2018
  • Paul Sternberg (pws@caltech.edu) Paul Thomas ...
    6 KB (892 words) - 11:52, 12 April 2019
  • Paul Thomas *On a previous call, Paul T. floated the idea of a documentation jamboree ...
    6 KB (971 words) - 16:15, 18 January 2017
  • Paul Sternberg, PI, WormBase, GO [8%; 0% funded by GOC] ...Hayman, Susan Tweedie, Cecilia N. Arighi, James Done, Hans-Michael Müller, Paul W. Sternberg, Yuqing Mao, Chih-Hsuan Wei, Zhiyong Lu. Submitted to Database ...
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  • Paul Thomas (USC) |Paul Thomas ...
    10 KB (1,385 words) - 08:29, 22 February 2023
  • Paul Sternberg, PI, WormBase, GO [8%; 0% funded by GOC] ...Hayman, Susan Tweedie, Cecilia N. Arighi, James Done, Hans-Michael Müller, Paul W. Sternberg, Yuqing Mao, Chih-Hsuan Wei, Zhiyong Lu. Submitted to Database ...
    9 KB (1,000 words) - 13:30, 13 March 2014
  • |Paul Sternberg |Paul Thomas ...
    7 KB (1,010 words) - 11:53, 12 April 2019
  • Paul Sternberg, PI, WormBase, GO [8%; 0% funded by GOC] ...Hayman, Susan Tweedie, Cecilia N. Arighi, James Done, Hans-Michael Müller, Paul W. Sternberg, Yuqing Mao, Chih-Hsuan Wei, Zhiyong Lu. Submitted to Database ...
    9 KB (1,037 words) - 17:24, 3 December 2014
  • * Paul Thomas SRI ...zed at some point. My question to the group is when we want to do that. Paul said that they are considering this a beta version and after getting feedb ...
    9 KB (1,368 words) - 11:27, 16 January 2018
  • ...rs that have experimental data, promote annotation of these families. Paul Thomas is working on this but Sven would be happy to help out. Software people sho ...
    4 KB (769 words) - 15:37, 27 June 2014
  • * Paul Thomas |pdthomas@med.usc.edu *10am Seminar: Using LEGO to Represent Biological Knowledge - Paul T. and Chris ...
    6 KB (894 words) - 11:53, 12 April 2019
  • The names under consideration are Paul Thomas, Richard Durbin, and Eric Sonnhammer, ...
    5 KB (763 words) - 12:55, 30 June 2014
  • *Paul Sternberg, PI ...ungall, and Heiko Dietze (LBL), Tony Sawford (EBI), Paul Thomas (USC), and Paul Sternberg, Hans Michael Mueller, Kimberly Van Auken, and Juancarlos Chan (C ...
    7 KB (907 words) - 19:14, 6 March 2020
  • * Orthology, paralogy, and GO annotation (Paul Thomas) ...
    5 KB (710 words) - 10:06, 15 April 2019
  • ...ence Genome Project, Pascale works with Suzi Lewis, Kara Dolinski and Paul Thomas (Panther) to develop a tree-based orthology inference system for the Refere ...
    5 KB (740 words) - 12:53, 3 November 2011
  • Huaiyu Mi and Paul Thomas ...
    9 KB (1,360 words) - 12:46, 31 August 2015
  • | Paul Thomas | Paul Sternberg ...
    7 KB (1,136 words) - 11:51, 12 April 2019
  • Suzi: has looked at treefam code, combine w software from Paul Thomas ...
    4 KB (716 words) - 12:48, 30 June 2014
  • ...working closely with the software developers led by Suzanna Lewis and Paul Thomas. 2) GO utilities: Sven Heinicke has contributed several utility scripts to ...
    15 KB (1,858 words) - 17:00, 10 July 2014
  • ...vilege to moderate PAINT-users mailing list. Chris should send an email to Paul about this. ...
    10 KB (2,007 words) - 15:09, 27 June 2014
  • | Paul Thomas | Paul Sternberg ...
    7 KB (1,069 words) - 18:14, 6 November 2016
  • | Paul Thomas | paul.thomas@sri.com* ...
    12 KB (1,878 words) - 11:51, 12 April 2019
  • |Paul Sternberg |Ovo-lacto veg (Paul can have my lobster) ...
    10 KB (1,551 words) - 11:53, 12 April 2019
  • | Paul Thomas ...
    6 KB (973 words) - 08:49, 12 April 2019
  • * Paul Sternberg California Institute of Technology * Paul Thomas University of Southern California ...
    6 KB (799 words) - 09:11, 13 October 2014
  • |Paul Thomas ...
    6 KB (837 words) - 11:55, 12 April 2019
  • ...e your comments/evidence for the annotations. This is the feature Pascale, Paul and I discussed. It is nothing more than a simple text box, but cutting and ...PPOD families in July 2009 based on the new protein sets assembled by Paul Thomas' group. Note that we also have run InParanoid/MultiParanoid this time arou ...
    8 KB (1,290 words) - 08:43, 9 April 2019
  • * Reviewed February 25, 2022 by Paul Thomas, Pascale Gaudet, Patrick Masson ...
    9 KB (1,248 words) - 06:46, 22 February 2023
  • |Paul Thomas | Paul Sternberg ...
    8 KB (1,148 words) - 11:52, 12 April 2019
  • *tool for ref genome annotation using TreeFam (joint proposal with Paul Thomas goes to council this month; fingers crossed!) ...
    6 KB (996 words) - 12:52, 30 June 2014
  • AI: Ticket for Paul Thomas to start writing some guidance. Done. [https://github.com/geneontology/go-o ...
    9 KB (1,384 words) - 16:44, 29 January 2016
  • ...Richard Durbin (pfam, treefam), Erik Sonnhammer (pfam, in paranoid), Paul Thomas (Panther) ...
    7 KB (1,140 words) - 11:32, 16 January 2018
  • * '''Chairs: Alan Bridge and Paul Thomas''' #* Phylogenic tree-based homology annotation- Paul ~ 20 min ...
    10 KB (1,342 words) - 08:16, 22 February 2023
  • ===MF refactoring (Paul, DavidOS 30 mins) (Goal 1.a.i)=== | Paul Thomas ...
    11 KB (1,653 words) - 08:51, 13 July 2017
  • ...laying the term enrichment tools run on the Gold standard datasets.. Judy, Paul T. and Chris to head, Others: Mary, Paola, Ruth, Objective: They will b ...processes that should be excluded from enrichment analyses/slims. Person: Paul T. ...
    18 KB (2,847 words) - 12:41, 8 April 2014
  • ...e activity in many of these clades, though it is not shown in all of them. Paul urged strongly to go ahead and propagate the "GTPase activity" MF term to t *: '''ACTION ITEM''' (Suzi/Paul) - Update/modify the upcoming Jenkins report so that it will include previo ...
    13 KB (2,084 words) - 11:55, 12 April 2019
  • | Paul Thomas ...
    9 KB (1,355 words) - 16:56, 7 May 2020
  • | Paul Thomas ...
    9 KB (1,291 words) - 10:06, 15 April 2019
  • Paul Sternberg Paul Denny ...
    14 KB (2,196 words) - 11:53, 12 April 2019
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