# This .bib file was distilled from a master bibliography
# by bibdistill.pl. DO NOT EDIT.
#
@string{ARB    = "Annu. Rev. Biochem."}
@string{ARBBC  = "Annu. Rev. Biophys. Biophys. Chem."}
@string{ARCB   = "Annu. Rev. Cell Biol."}
@string{ARG    = "Annu. Rev. Genet."}
@string{ARGHG  = "Annu. Rev. Genomics Hum. Genet."}
@string{ARI    = "Annu. Rev. Immunol."}
@string{ARN    = "Annu. Rev. Neurosci."}
@string{ARP    = "Annu. Rev. Physiol."}
@string{BBA    = "Biochem. Biophys. Acta"}
@string{BBRC   = "Biochem. Biophys. Res. Commun."}
@string{CABIOS = "Comput. Applic. Biosci."}
@string{CACM   = "Communications of the ACM"}
@string{COCB   = "Curr. Opin. Cell Biol."}
@string{COGD   = "Curr. Opin. Genet. Dev."}
@string{COM    = "Curr. Opin. Microbiol."}
@string{COSB   = "Curr. Opin. Struct. Biol."}
@string{CSHSQB = "Cold Spring Harbor Symp. Quant. Biol."}
@string{CURRB  = "Curr. Biol."}
@string{DEV    = "Development"}
@string{DEVB   = "Devel. Biol."}
@string{EMBO   = "EMBO J."}
@string{FEBS   = "FEBS J."}
@string{FOCS   = "Found. Comp. Sci."}
@string{GDEV   = "Genes Dev."}
@string{GR     = "Genome Res."}
@string{IRC    = "Int. Rev. Cytol."}
@string{ISMB   = "Proc. Int. Conf. Intell. Syst. Mol. Biol."}
@string{JBACT  = "J. Bacteriol."}
@string{JBC    = "J. Biol. Chem."}
@string{JBSD   = "J. Biomol. Struct. Dyn."}
@string{JCB    = "J. Cell. Biol."}
@string{JCompB = "J. Comput. Biol."}
@string{JMB    = "J. Mol. Biol."}
@string{JME    = "J. Mol. Evol."}
@string{JNEUR  = "J. Neurosci."}
@string{JTB    = "J. Theor. Biol."}
@string{MBE    = "Mol. Bio. Evol."}
@string{MCB    = "Mol. Cell. Biol."}
@string{METH   = "Meth. Enzymol."}
@string{MGG    = "Mol. Gen. Genet."}
@string{NAR    = "Nucl. Acids Res."}
@string{NBT    = "Nat. Biotechnol."}
@string{NRG    = "Nat. Rev. Genet."}
@string{PNARMB = "Prog. Nucl. Acids Res. Mol. Biol."}
@string{PNAS   = "Proc. Natl. Acad. Sci. USA"}
@string{PROTS  = "Protein Sci."}
@string{PSB    = "Pac. Symp. Biocomput."}
@string{SIAMJC = "SIAM Journal of Computing"}
@string{TIBTECH= "Trends Biotech."}
@string{TIBS   = "Trends Biochem. Sci."}
@string{TICB   = "Trends Cell Biol."}
@string{TIGS   = "Trends Genet."}
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  title =        {{RNAalifold:} Improved Consensus Structure
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@Article{Brown00,
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  filed =	 {Haussler},
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@Article{Brown99,
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@Article{Cole09,
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@Article{Eddy02b,
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@Article{Eddy06b,
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@Article{Eddy08,
  author =       {S. R. Eddy},
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@Article{Eddy96,
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@Article{Eddy98,
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@Article{Gardner11,
  author =       {P. P. Gardner and J. Daub and J. Tate and
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  title =        {Rfam: Wikipedia, Clans and the "Decimal" Release},
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@Article{Gerstein94,
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@InProceedings{Giegerich00,
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@Article{Henikoff94b,
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@Article{Hofacker02,
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@PhdThesis{Holmes98,
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@Article{Karplus98,
  author =       {K. Karplus and C. Barrett and R. Hughey},
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@PhdThesis{Klein03,
  author = 	 {Robert J. Klein},
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@Article{KleinEddy03,
  author =       {R. J. Klein and S. R. Eddy},
  title =        {{RSEARCH:} Finding Homologs of Single Structured {RNA} Sequences},
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  year =         2003,
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@PhdThesis{Kolbe10,
  author = 	 {D. L. Kolbe},
  title = 	 {Novel Algorithms for Structural Alignment of Non-Coding RNAs},
  school = 	 {Washington University School of Medicine},
  year = 	 2010,
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@Article{KolbeEddy09,
  author = 	 {D. L. Kolbe and S. R. Eddy},
  title = 	 {Local {RNA} Structure Alignment With Incomplete Sequence},
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  pmid = 	 19304875,
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@Article{KolbeEddy11,
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@Article{Krogh94,
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@Article{Lari90,
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@Article{Nawrocki09,
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@PhdThesis{Nawrocki09b,
  author = 	 {E. P. Nawrocki},
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@Article{Randau05,
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@misc{hmmer3guide,
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@Article{Will12,
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