Gene interactions and pathways from curated databases and text-mining

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CALM3 — CALM3

Protein-Protein interactions - manually collected from original source literature:

Studies that report less than 10 interactions are marked with *

  • IRef Bind_translation Interaction: CALM2, CALM3, CALM1 — CALM2, CALM3, CALM1 (x-ray crystallography)
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    <type 'exceptions.KeyError'>
    Python 2.7.5: /usr/bin/python2
    Thu Nov 26 17:35:03 2020

    A problem occurred in a Python script. Here is the sequence of function calls leading up to the error, in the order they occurred.

     /data/apache/cgi-bin/hgGeneGraph in ()
       2033     htmlMiddle()
       2034     jsInlineFinish()
       2035     htmlPageEnd()
       2036 
    => 2037 main()
    main = <function main>
     /data/apache/cgi-bin/hgGeneGraph in main()
       2031     htmlHeader()
       2032     printInlineAndStyles()
    => 2033     htmlMiddle()
       2034     jsInlineFinish()
       2035     htmlPageEnd()
    global htmlMiddle = <function htmlMiddle>
     /data/apache/cgi-bin/hgGeneGraph in htmlMiddle()
       2000     link = getCgiVar("link")
       2001     if link!=None:
    => 2002         showLink(link)
       2003         exit(0)
       2004 
    global showLink = <function showLink>, link = 'CALM3:CALM3'
     /data/apache/cgi-bin/hgGeneGraph in showLink(link='CALM3:CALM3')
       1737     #print ('%s<p>' % flagLink)
       1738 
    => 1739     showPwyPpiInfo(conn, gene1, gene2)
       1740 
       1741     showSnipsLink(conn, gene1, gene2)
    global showPwyPpiInfo = <function showPwyPpiInfo>, conn = <_mysql.connection open to 'localhost' at ee4cf0>, gene1 = 'CALM3', gene2 = 'CALM3'
     /data/apache/cgi-bin/hgGeneGraph in showPwyPpiInfo(conn=<_mysql.connection open to 'localhost' at ee4cf0>, gene1='CALM3', gene2='CALM3')
       1551         print "<h3>Protein-Protein interactions - manually collected from original source literature:</h3>"
       1552         print '<p>Studies that report less than %d interactions are marked with *</p>' % LTCUTOFF
    => 1553         printDbRows(conn, ppiRows)
       1554 
       1555 def markupSentence(row):
    global printDbRows = <function printDbRows>, conn = <_mysql.connection open to 'localhost' at ee4cf0>, ppiRows = [MysqlRow(eventId='ppi_iref1245792_1', causeType=...'1245792', sourceDesc='', docIds='', evidence=''), MysqlRow(eventId='ppi_negatome1106', causeType='...', sourceDesc='', docIds='18255255', evidence='')]
     /data/apache/cgi-bin/hgGeneGraph in printDbRows(conn=<_mysql.connection open to 'localhost' at ee4cf0>, rows=[MysqlRow(eventId='ppi_iref1245792_1', causeType=...'1245792', sourceDesc='', docIds='', evidence=''), MysqlRow(eventId='ppi_negatome1106', causeType='...', sourceDesc='', docIds='18255255', evidence='')], onlyDoc=None)
       1482             dbName = "IRef %s" % sourceDb.capitalize()
       1483         else:
    => 1484             dbName, dbUrlPat = dbData[sourceDb]
       1485 
       1486 
    dbName = 'IRef Bind_translation', dbUrlPat = 'http://wodaklab.org/iRefWeb/interaction/show/%s', global dbData = {'argdb': ('ARGDB', 'http://argdb.fudan.edu.cn/geneshow_id.php?gene_id=%s'), 'belLarge': ('OpenBEL', 'http://www.ndexbio.org/#/newNetwork/%s'), 'biocarta': ('BioCarta', 'https://cgap.nci.nih.gov/Pathways/BioCarta/%s'), 'corum': ('MIPS CORUM', 'http://mips.helmholtz-muenchen.de/genre/proj/corum/complexdetails.html?id=%s'), 'fastforward': ('FastForward', 'http://fastforward.sys-bio.net/popup.php?name_target=%s'), 'go': ('Gene Ontology Complexes', 'http://www.ebi.ac.uk/QuickGO/GTerm?id=%s#info=2'), 'iref': ('Iref', 'http://wodaklab.org/iRefWeb/interaction/show/%s'), 'kegg': ('KEGG', 'http://www.kegg.jp/kegg-bin/show_pathway?%s'), 'pid': ('NCI Pathway Database', 'http://www.ndexbio.org/#/search?searchType=All&searchString=labels%%253A%s'), 'reactome': ('Reactome', 'http://www.reactome.org/content/detail/%s'), ...}, sourceDb = 'negatome'

    <type 'exceptions.KeyError'>: 'negatome'
          args = ('negatome',)
          message = 'negatome'