BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

213 related articles for article (PubMed ID: 23449094)

  • 1. Using tertiary structure for the computation of highly accurate multiple RNA alignments with the SARA-Coffee package.
    Kemena C; Bussotti G; Capriotti E; Marti-Renom MA; Notredame C
    Bioinformatics; 2013 May; 29(9):1112-9. PubMed ID: 23449094
    [TBL] [Abstract][Full Text] [Related]  

  • 2. SARA-Coffee web server, a tool for the computation of RNA sequence and structure multiple alignments.
    Di Tommaso P; Bussotti G; Kemena C; Capriotti E; Chatzou M; Prieto P; Notredame C
    Nucleic Acids Res; 2014 Jul; 42(Web Server issue):W356-60. PubMed ID: 24972831
    [TBL] [Abstract][Full Text] [Related]  

  • 3. R-Coffee: a method for multiple alignment of non-coding RNA.
    Wilm A; Higgins DG; Notredame C
    Nucleic Acids Res; 2008 May; 36(9):e52. PubMed ID: 18420654
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Using the T-Coffee package to build multiple sequence alignments of protein, RNA, DNA sequences and 3D structures.
    Taly JF; Magis C; Bussotti G; Chang JM; Di Tommaso P; Erb I; Espinosa-Carrasco J; Kemena C; Notredame C
    Nat Protoc; 2011 Nov; 6(11):1669-82. PubMed ID: 21979275
    [TBL] [Abstract][Full Text] [Related]  

  • 5. RNA structure alignment by a unit-vector approach.
    Capriotti E; Marti-Renom MA
    Bioinformatics; 2008 Aug; 24(16):i112-8. PubMed ID: 18689811
    [TBL] [Abstract][Full Text] [Related]  

  • 6. T-Coffee: a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology extension.
    Di Tommaso P; Moretti S; Xenarios I; Orobitg M; Montanyola A; Chang JM; Taly JF; Notredame C
    Nucleic Acids Res; 2011 Jul; 39(Web Server issue):W13-7. PubMed ID: 21558174
    [TBL] [Abstract][Full Text] [Related]  

  • 7. R-Coffee: a web server for accurately aligning noncoding RNA sequences.
    Moretti S; Wilm A; Higgins DG; Xenarios I; Notredame C
    Nucleic Acids Res; 2008 Jul; 36(Web Server issue):W10-3. PubMed ID: 18483080
    [TBL] [Abstract][Full Text] [Related]  

  • 8. MARNA: multiple alignment and consensus structure prediction of RNAs based on sequence structure comparisons.
    Siebert S; Backofen R
    Bioinformatics; 2005 Aug; 21(16):3352-9. PubMed ID: 15972285
    [TBL] [Abstract][Full Text] [Related]  

  • 9. A local multiple alignment method for detection of non-coding RNA sequences.
    Tabei Y; Asai K
    Bioinformatics; 2009 Jun; 25(12):1498-505. PubMed ID: 19376823
    [TBL] [Abstract][Full Text] [Related]  

  • 10. CentroidAlign: fast and accurate aligner for structured RNAs by maximizing expected sum-of-pairs score.
    Hamada M; Sato K; Kiryu H; Mituyama T; Asai K
    Bioinformatics; 2009 Dec; 25(24):3236-43. PubMed ID: 19808876
    [TBL] [Abstract][Full Text] [Related]  

  • 11. DAFS: simultaneous aligning and folding of RNA sequences via dual decomposition.
    Sato K; Kato Y; Akutsu T; Asai K; Sakakibara Y
    Bioinformatics; 2012 Dec; 28(24):3218-24. PubMed ID: 23060618
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Energy-based RNA consensus secondary structure prediction in multiple sequence alignments.
    Washietl S; Bernhart SH; Kellis M
    Methods Mol Biol; 2014; 1097():125-41. PubMed ID: 24639158
    [TBL] [Abstract][Full Text] [Related]  

  • 13. SCARNA: fast and accurate structural alignment of RNA sequences by matching fixed-length stem fragments.
    Tabei Y; Tsuda K; Kin T; Asai K
    Bioinformatics; 2006 Jul; 22(14):1723-9. PubMed ID: 16690634
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Evaluation of sequence alignments and oligonucleotide probes with respect to three-dimensional structure of ribosomal RNA using ARB software package.
    Kumar Y; Westram R; Kipfer P; Meier H; Ludwig W
    BMC Bioinformatics; 2006 May; 7():240. PubMed ID: 16672074
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Tcoffee@igs: A web server for computing, evaluating and combining multiple sequence alignments.
    Poirot O; O'Toole E; Notredame C
    Nucleic Acids Res; 2003 Jul; 31(13):3503-6. PubMed ID: 12824354
    [TBL] [Abstract][Full Text] [Related]  

  • 16. SupeRNAlign: a new tool for flexible superposition of homologous RNA structures and inference of accurate structure-based sequence alignments.
    Piatkowski P; Jablonska J; Zyla A; Niedzialek D; Matelska D; Jankowska E; Walen T; Dawson WK; Bujnicki JM
    Nucleic Acids Res; 2017 Sep; 45(16):e150. PubMed ID: 28934487
    [TBL] [Abstract][Full Text] [Related]  

  • 17. StructMiner: a tool for alignment and detection of conserved secondary structure.
    Yang Q; Blanchette M
    Genome Inform; 2004; 15(2):102-11. PubMed ID: 15706496
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Efficient RNA pairwise structure comparison by SETTER method.
    Hoksza D; Svozil D
    Bioinformatics; 2012 Jul; 28(14):1858-64. PubMed ID: 22611129
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Murlet: a practical multiple alignment tool for structural RNA sequences.
    Kiryu H; Tabei Y; Kin T; Asai K
    Bioinformatics; 2007 Jul; 23(13):1588-98. PubMed ID: 17459961
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Sequence to Structure (S2S): display, manipulate and interconnect RNA data from sequence to structure.
    Jossinet F; Westhof E
    Bioinformatics; 2005 Aug; 21(15):3320-1. PubMed ID: 15905274
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 11.