PaxTools release
	*It used to be "released" regularly and quietly before, over last couple of years.., but worth now (and in the future) mentioning here in this group.* * * *PaxTools library 2.0.110316 has been released!* Details: - [link] (to download one of two *"fat" jars*, the ones with built-in dependencies)... more » By IgorRodchenkov  - Mar 17 2011 - 9 new of 9 messages

	BioPAX Level 3 Support?
	Hello, All, Which tools or data providers are currently supporting Level 3, or are planning to do so in the near future? Thanks! Take care Oliver` By Oliver Ruebenacker  - Mar 30 2011 - 10 new of 10 messages

	HARMONY 2012: BioPAX Validation
	Hi Everyone, * * *Feel free to post to this topic, especially during the HARMONY meeting, if you are interested in BioPAX validation rules and pathway data quality in general, or have questions, suggestions, and ideas!* * * *BioPAX validation related links*: - [link] - [link]... more » By IgorRodchenkov  - May 17 - 1 new of 1 message

	Encoding a phosphorylation residue in biopax
	Dear BioPAXers, As far as I understood, post-translational modifications in biopax are encoded using a ModificationFeature object, itself having a SequenceModificationVocabulary term attached (plus a FeatureLocation object eventually). Now if I want to specify that a phosphorylation is taking place on the... more » By Eric  - May 29 - 2 new of 2 messages

	Modelling of unspecified regulation
	Hi, I have some problems with modelling unspecific activations and inhibitions of different physical entities using BioPAX L3, like Protein A activates Protein B. I saw that some are using BiochemicalReactions for these regulations, but I think, this is not correct by definition. Another possibility is to have... more » By Andreas Gerasch  - May 24 - 1 new of 1 message

	HARMONY 2012 communication
	Dear COMBINE community, HARMONY 2012 starts in a few days. The main point of information is the webpage: [link] A Google+ page is also available. [link] The official twitter hashtag is #harmony2012 [link]... more » By lenov@ebi.ac.uk  - May 18 - 1 new of 1 message

	Fwd: BiNoM Plugin v2.0 released. Supports BioPAX Level 3
	Hi all, For those of you who missed the news on the latest BiNoM Plugin release, here is some interesting news: [link] [image: Inline image 1] By B. Arman Aksoy  - Apr 26 - 7 new of 7 messages

	2nd Call for Posters and Demos -- DILS 2012
	This message is posted to several lists. Apologies for cross-posting. Please forward it to everyone who might be interested. ______________________________ ______________________________ ___________ Call for Posters and Demos... more » By Olivier  - Apr 20 - 1 new of 1 message

	Please register for HARMONY 2012
	Hello! For all who are planning on attending HARMONY 2012, please register soon. Please don't wait until the last minute! The organizers need to make plans for the number of people who will be attending. Here is a direct link to the registration page: [link] Here is the event home page:... more » By Gary Bader  - Apr 18 - 1 new of 1 message

	Human IgM molecule (BioPAX3 PhysicalEntity - Complex)
	Hi, Any idea of human IgM (Monomer or Pentamer) in BioPAX3 PhysicalEntity (Complex) in any database? Thanks, Ashok By D Ashok Reddy  - Apr 12 - 1 new of 1 message

	entity ID
	Hi guys I use paxtools to convert .owl file to .sif format. Here is a sample line from the .sif file. [link] STATE_CHANGE [link] What are the protein IDs or entrez gene IDs of these entities? Is there an annotation file that I can use to understand the .sif file?... more » By Lin  - Apr 9 - 1 new of 1 message

Call for Abstracts: NetBio SIG at ISMB 2012: DUE APRIL 16TH

Network Biology SIG at ISMB 2012 in Long Beach, CA, July 13th The Network Biology SIG will focus on two major areas: (1) the development of network-related tools and resources, and (2) the application of network analysis and visualization in the study of biology, synthetic biology and medicine. The meeting will provide a unique interface between tool... more » By Alexander Pico  - Apr 1 - 1 new of 1 message

	***Extended deadline: March 26*** COMETS 2012 - 3rd International Track on Collaborative Modeling and Simulation - Call for Papers
	************* Deadline Extended to March 26, 2012 *************** (Please accept our apologies if you receive multiple copies of this message) ... IEEE WETICE 2012 3rd IEEE Track on Collaborative Modeling and Simulation (Comets 2012) in cooperation with... more » By daniele  - Mar 15 - 1 new of 1 message