Class: Bio::TRANSFAC::FACTOR

Inherits:
Bio::TRANSFAC show all
Defined in:
lib/bio/db/transfac.rb

Constant Summary

Constants inherited from Bio::TRANSFAC

DELIMITER, TAGSIZE

Instance Method Summary collapse

Methods inherited from Bio::TRANSFAC

#ac, #cc, #dt, #oc, #os, #ra, #rl, #rn, #rt

Methods inherited from DB

#entry_id, #exists?, #fetch, #get, open, #tags

Constructor Details

#initialize(entry) ⇒ FACTOR

Returns a new instance of FACTOR.



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# File 'lib/bio/db/transfac.rb', line 199

def initialize(entry)
  super(entry)
end

Instance Method Details

#bs ⇒ Object

BS Bound sites (site accession no.; site ID; quality: N; biological BS species)



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# File 'lib/bio/db/transfac.rb', line 284

def bs
  field_fetch('BS')
end

#cl ⇒ Object

CL Classification (class accession no.; class identifier; decimal CL classification number.)



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# File 'lib/bio/db/transfac.rb', line 225

def cl
  field_fetch('CL')
end

#cn ⇒ Object

CN Cell specificity (negative)



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# File 'lib/bio/db/transfac.rb', line 262

def cn
  field_fetch('CN')
end

#cp ⇒ Object

CP Cell specificity (positive)



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# File 'lib/bio/db/transfac.rb', line 257

def cp
  field_fetch('CP')
end

#dr ⇒ Object

DR Cross-references to other databases (>=0 per entry)



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# File 'lib/bio/db/transfac.rb', line 214

def dr
  field_fetch('DR')
end

#fa ⇒ Object

FA Factor name



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# File 'lib/bio/db/transfac.rb', line 204

def fa
  field_fetch('FA')
end

#ff ⇒ Object

FF Functional features



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# File 'lib/bio/db/transfac.rb', line 267

def ff
  field_fetch('FF')
end

#ft ⇒ Object

FT Feature table (1st position last position feature)



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# File 'lib/bio/db/transfac.rb', line 247

def ft
  field_fetch('FT')
end

#ho ⇒ Object

HO Homologs (suggested)



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# File 'lib/bio/db/transfac.rb', line 219

def ho
  field_fetch('HO')
end

#in ⇒ Object

IN Interacting factors (factor accession no.; factor name; IN biological species.)



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# File 'lib/bio/db/transfac.rb', line 273

def in
  field_fetch('IN')
end

#mx ⇒ Object

MX Matrix (matrix accession no.; matrix identifier)



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# File 'lib/bio/db/transfac.rb', line 278

def mx
  field_fetch('MX')
end

#sc ⇒ Object

SC Sequence comment, i. e. source of the protein sequence



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# File 'lib/bio/db/transfac.rb', line 242

def sc
  field_fetch('SC')
end

#sf ⇒ Object

SF Structural features



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# File 'lib/bio/db/transfac.rb', line 252

def sf
  field_fetch('SF')
end

#sq ⇒ Object

SQ Sequence



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# File 'lib/bio/db/transfac.rb', line 237

def sq
  field_fetch('SQ')
end

#sy ⇒ Object

SY Synonyms



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# File 'lib/bio/db/transfac.rb', line 209

def sy
  field_fetch('SY')
end

#sz ⇒ Object

SZ Size (length (number of amino acids); calculated molecular mass SZ in kDa; experimental molecular mass (or range) in kDa SZ (experimental method) [Ref]



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# File 'lib/bio/db/transfac.rb', line 232

def sz
  field_fetch('SZ')
end