Instrument

Branch Leader

• Daniel Schober

Branch Editors

• Ryan, Frank, Melanie, Daniel Schober, former editors were Allyson, Trish and Liju.

Instrument Conference Calls and Notes

Conference call schedule, agenda and minutes for the calls can be found under: https://wiki.cbil.upenn.edu/obiwiki/index.php/InstrumentTermCalls

Latest Branch report

The latest branch report can be found here: http://docs.google.com/Doc?docid=dg9kgrmp_2f447dkgf&hl=en

The one from before can be found here: http://www.ebi.ac.uk/~malone/OBI/instrument_branch/Instrument_Branch_Report_070606.doc

To upload files (.doc files don't work), look at https://wiki.cbil.upenn.edu/obiwiki/index.php/Special:Upload

Upcoming issues

Issues to be tackled by the instruments branch in the near future can be found here: Upcoming issues

Community Submitted Term Lists

• BIRN
• Flow Cytometry:
  • Upload:Instrumentation-FlowCytometry-2007-04-03.txt
  • Upload:Instrumentation-FlowCytometry-2007-04-03.xls
• MSI-NMR available in owl, will be integrated into instrument.owl file when ready.
• sepCV - will be integrated into instrument.owl file when ready.
• MSI-Chromatography CV - will be integrated into instrument.owl file when ready.
• PSI-MS (Mass spec) - initial list at Upload:PSIMS-InstrumentTermsForOBI29Mar2007.xls
• Transcriptomics - *DONE* Upload:InstrumentTerms-MO-29Mar2007_updated.xls
• MIACA - [[|http://www.smp-cell.org/Files/terms.doc an Excel list of terms||http://www.smp-cell.org/Files/MIACA_Ontologies032007.xls]], and a Word list of terms
  • physical arrays are utilized by most communities in some way. It might make sense to separate the features of such arrays into terms, in order to have just a few descriptors that would cover any (?) kind of arrays e.g. from Petri dish to oligo or protein chip. [List of possible terms]

Master Term Lists

• The latest set of terms can be found in the InstrumentAndPart.owl file under the OBI SVN repository.
• The initial mster term list can be found here:

http://spreadsheets.google.com/feeds/list/o09625430083521070159.5666294627741813298/od6/public/basic

• A Google spreadsheet with the submitted terms for the instrument branch can be found here:

http://spreadsheets.google.com/pub?key=pT8ShyqlllIUySkFP8biiTg

• Combination of terms submitted by April, 2007 Term Submission Milestone
  • Combined terms, second review for terms relevant to this branch Upload:combinedinstrumentationterms_01May07.xls
  • Combined terms, first review for terms relevant to this branch Upload:combinedinstrumentationterms_17Apr07.xls
  • Combined terms (collated but not reviewed) Upload:combinedinstrumentationterms.xls

Master Property Lists

• Here is an initial InstrumentRelations list.
• Please add on here.

Issues to Discuss

• To start some discussion, here are some InstrumentIssues to think about, e.g. what are synonyms to important instrument branch classes

• Here is a survey of what instrument terms can be found in other large ontology efforts (i.e. in UMLS and NCIT).