Cardiac conduction: Difference between revisions

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* New GO term propagation of the action potential, or is this covered by [http://www.ebi.ac.uk/QuickGO/GTerm?id=GO:0051899#term=info membrane depolarization]  
* New GO term propagation of the action potential, or is this covered by [http://www.ebi.ac.uk/QuickGO/GTerm?id=GO:0051899#term=info membrane depolarization]  
* New GO term(s) to describe 'plateau phase of the cardiac action potential', 'persistent or late inward current (INaL)', 'duration of the cardiac action potential'.
* New GO term(s) to describe 'plateau phase of the cardiac action potential', 'persistent or late inward current (INaL)', 'duration of the cardiac action potential'.
* mutation in SCN5A leads to a prologation of Q-T interval, need some parent terms such as 'regulation of cardiomyocyte membrane depolarization', 'regulation of cardiomyocyte membrane repolarization' 'regulation of cardiomyocyte membrane potential' to capture information about changes in the ECG measurements.
* mutation in SCN5A leads to a prologation of Q-T interval, need some parent terms such as 'regulation of cardiomyocyte membrane depolarization', 'regulation of cardiomyocyte membrane repolarization' 'regulation of cardiomyocyte membrane  
potential' to capture information about changes in the ECG measurements.
* At present the annotations are all 'regulation' terms linked to 'blood circulation' should SNC5A be transitively associated with 'blood circulation', and if so how?


'''Other'''
'''Other'''
* what does 'density' in the phrase 'sodium channel current (INa) density' mean?
* what does 'density' in the phrase 'sodium channel current (INa) density' mean?

Revision as of 09:14, 16 September 2011

GOC meeting link 2011_UCL_Meeting_Logistics

Venue and date

  • South Wing Committee Room, University College London, Thursday 10th and Friday 11th (1/2 day) November 2011
  1. 2011 Cardiac conduction workshop Logistics


Draft Programme

Thursday 10th November 2011 (room booked 9am-6pm)

9:15am Coffee and breakfast pastries
9:30am Welcome and introduction Ruth
9:35am Introduction to GO David
9:55am Check terms are applicable across Bilateria Susan
10:00am Overview of current cardiac conduction description in GO, start to work on ontology David
11am Coffee break
11:30am
12:30pm Lunch at Ask on Grafton Way. Menu
2pm Continue with Ontology
2:45pm
3:45pm Coffee break
4pm
5pm Close


Friday 11th November 2011 (room booked 9am to 1pm)

9:15am Coffee and breakfast pastries
9:30am Welcome back and questions Ruth
9:35am Complete annotation documentation, decide how specific genes known to be involved in various cardiac conduction processes will be annotated using the new ontology
11am Coffee break
11:30am
1pm Close

Items to add to Programme

Please add any items to be added to the programme below

Working group

GO curators and editors: David, Ruth, Doug, Tanya, Becky, Paola, Stan, Susan

Expert scientists:

  • Agreed to attend:
    • Prof Peter Scambler p.scambler@ich.ucl.ac.uk (if needed)
    • Prof Shoumo Bhattacharya shoumo@me.com
    • Prof Paul Riley p.riley@ich.ucl.ac.uk
    • Dr Ross A Breckenridge r.breckenridge@ucl.ac.uk (available on Thursday, probably not able to attend on Friday)
    • Prof Andrew Tinker rmhaant@ucl.ac.uk
    • Dr Pier Lambiase pier.lambiase@uclh.nhs.uk Consultant Cardiologist
    • Bernard de Bono (virtual physiology)

Attendees

Name Organization Vegetarian (Y/N)
Ruth Lovering BHF-UCL N
Varsha Khodiyar BHF-UCL N
David Hill The Jackson Laboratory N
Susan Tweedie FlyBase, University of Cambridge N
Rebecca Foulger GO editorial office, EBI N
Paola Roncaglia GO editorial office, EBI N
Tanya Berardini TAIR, Carnegie Institute for Science N
Doug Howe Zfin Remote attendance
Stan Laulederkind RGD N

Minutes GOC Satellite meeting 5:30 - 6:30 Thursday 19th May 2011 LA

  • David, Ruth, Doug, Tanya, Becky, Paola, Stan
  • Currently only 2 GO terms in this ontology:
    • Cardiac conduction
    • Atrioventricular node impulse conduction delay
  • Missing links/terms
    • regulation of cardiac muscle contraction
    • regulation of heart rate
    • strength of heart contraction
    • blood pressure
    • sensing
    • systemic signaling
    • hormone signaling (note forth coming development of this domain)
    • action potential
    • long synaptic potential
    • synaptic plasticity
    • regulation of membrane potential
  • Ontology for development of the cardiac conduction system pretty much sorted, maybe a few additional cell types to add, but this shouldn't be the scope of this workshop.
  • Workshop for ontology for neurological terms on 7th September 2011 - NOTE This has been delayed and might happen the week after the London GOC meeting/cardiac conduction workshop, but it's not sure yet.
    • Ideally Paola to attend this meeting (note Paola has a neurobiology background)

Action items

  • All:
    • Work towards identifying scope of workshop, set by mid July
    • Set up table for annotation guide - what genes to annotate to these new GO terms, perhaps capture experimental information here. Eg how to interpret changes in P or QRS intervals associated with specific genes.
    • Add figures to wiki to illustrate cardiac conduction processes
    • Add useful reviews/papers to wiki
  • Ruth:
    • Contact experts above (max 5 experts)
    • Book rooms
    • Ask experts to review blood pressure ontology
    • Ask Varsha for her draft ontology
  • David and Tanya
    • Set up overview of ontology
  • Paola
    • Pacemaker
  • Susan
    • Look at differences and similarities between Drosophila and mammalian cardiac conduction processes
  • Becky
    • Look at key signaling pathways that regulate heart rate & cardiac conduction.

Useful papers

The emerging genetic landscape underlying cardiac conduction system function PMID: 21538814 [1]

Wnt11 patterns a myocardial electrical gradient through regulation of the L-type Ca(2+) channel (zebrafish) PMID: 20657579 [2]

The cardiac conduction system. PMID: 21357845 [3]

The Anatomy and Physiology of the Sinoatrial Node—A Contemporary Review PMID: 20946278 [4]

Genetic and physiologic dissection of the vertebrate cardiac conduction system. PLoS Biol. 2008 May 13;6(5):e109. PubMed PMID: 18479184; PubMed Central PMCID: PMC2430899. [5]

Induction and patterning of the cardiac conduction system. Int J Dev Biol. 2002 Sep;46(6):765-75. Review. PubMed PMID: 12382942. [6]

Development of the cardiac conduction system. Semin Cell Dev Biol. 2007 Feb;18(1):90-100. Epub 2007 Jan 4. Review. PubMed PMID: 17289407. [7]

Neuregulin-1 promotes formation of the murine cardiac conduction system. Proc Natl Acad Sci U S A. 2002 Aug 6;99(16):10464-9. Epub 2002 Jul 29. PubMed PMID: 12149465; PubMed Central PMCID: PMC124940. [8]

The heart and heart conducting system in the kingdom of animals: A comparative approach to its evolution. Exp Clin Cardiol. 2007 Fall;12(3):113-8. PubMed PMID: 18650991; PubMed Central PMCID: PMC2323757. [9] GREAT COVERAGE OF COMPARATIVE ANATOMY AND FUNCTION OF CARDIAC CONDUCTION SYSTEMS

Useful figures

PMID: 21538814


cardiac action potential cartoon

Relevant Source Forge Requests

Cardiac conduction [[10]]

Regulation of skeletal muscle contraction via regulation of the release of sequestered calcium ion [[11]]

Cardiac muscle contraction [[12]]

Regulation of ventricular cardiac muscle repolarization [[13]]

Relaxation of cardiac muscle [[14]]

Heart contraction terms [[15]]

Ontology discussion documents

Varsha's original ontology suggestions File:HeartConductionDraftOntology2009.pdf

Varsha's notes on discussion of ontology with Andy Tinker File:HeartConductionOntologyDiscussion.pdf

Ontology queries

SCN5A encodes for the major cardiac voltage-gated Na+ channel (PMID:14500339[1]) which is associated with human arrhythmic syndromes (PMID:21895525[2]). Which of the following process terms should it be annotated to

potential' to capture information about changes in the ECG measurements.

  • At present the annotations are all 'regulation' terms linked to 'blood circulation' should SNC5A be transitively associated with 'blood circulation', and if so how?

Other

  • what does 'density' in the phrase 'sodium channel current (INa) density' mean?
  1. PMID:14500339
  2. PMID:21895525