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Items: 1 to 20 of 26

1.

Searching for RNA genes using base-composition statistics.

Schattner P.

Nucleic Acids Res. 2002 May 1;30(9):2076-82.

2.

Noncoding RNA gene detection using comparative sequence analysis.

Rivas E, Eddy SR.

BMC Bioinformatics. 2001;2:8. Epub 2001 Oct 10.

3.

Non-coding RNA genes and the modern RNA world.

Eddy SR.

Nat Rev Genet. 2001 Dec;2(12):919-29. Review.

PMID:
11733745
4.

A computational approach to identify genes for functional RNAs in genomic sequences.

Carter RJ, Dubchak I, Holbrook SR.

Nucleic Acids Res. 2001 Oct 1;29(19):3928-38.

5.

Computational identification of noncoding RNAs in E. coli by comparative genomics.

Rivas E, Klein RJ, Jones TA, Eddy SR.

Curr Biol. 2001 Sep 4;11(17):1369-73.

6.

Novel small RNA-encoding genes in the intergenic regions of Escherichia coli.

Argaman L, Hershberg R, Vogel J, Bejerano G, Wagner EG, Margalit H, Altuvia S.

Curr Biol. 2001 Jun 26;11(12):941-50.

7.

Identification of novel small RNAs using comparative genomics and microarrays.

Wassarman KM, Repoila F, Rosenow C, Storz G, Gottesman S.

Genes Dev. 2001 Jul 1;15(13):1637-51.

8.

New insight into RNase P RNA structure from comparative analysis of the archaeal RNA.

Harris JK, Haas ES, Williams D, Frank DN, Brown JW.

RNA. 2001 Feb;7(2):220-32.

9.

Key role for sulfur in peptide metabolism and in regulation of three hydrogenases in the hyperthermophilic archaeon Pyrococcus furiosus.

Adams MW, Holden JF, Menon AL, Schut GJ, Grunden AM, Hou C, Hutchins AM, Jenney FE Jr, Kim C, Ma K, Pan G, Roy R, Sapra R, Story SV, Verhagen MF.

J Bacteriol. 2001 Jan;183(2):716-24.

10.

Homologs of small nucleolar RNAs in Archaea.

Omer AD, Lowe TM, Russell AG, Ebhardt H, Eddy SR, Dennis PP.

Science. 2000 Apr 21;288(5465):517-22.

11.

Biomolecular stability and life at high temperatures.

Daniel RM, Cowan DA.

Cell Mol Life Sci. 2000 Feb;57(2):250-64. Review.

PMID:
10766021
12.

Archaeal homologs of eukaryotic methylation guide small nucleolar RNAs: lessons from the Pyrococcus genomes.

Gaspin C, Cavaillé J, Erauso G, Bachellerie JP.

J Mol Biol. 2000 Apr 7;297(4):895-906. Erratum in: J Mol Biol 2000 Jul 21;300(4):1017-8.

PMID:
10736225
13.

The Pfam protein families database.

Bateman A, Birney E, Durbin R, Eddy SR, Howe KL, Sonnhammer EL.

Nucleic Acids Res. 2000 Jan 1;28(1):263-6.

14.

Gene transfer systems for the Archaea.

Sowers KR, Schreier HJ.

Trends Microbiol. 1999 May;7(5):212-9.

PMID:
10354597
15.

Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure.

Mathews DH, Sabina J, Zuker M, Turner DH.

J Mol Biol. 1999 May 21;288(5):911-40.

PMID:
10329189
16.

Hyperthermophiles and the problem of DNA instability.

Grogan DW.

Mol Microbiol. 1998 Jun;28(6):1043-9. Review.

17.

Complete sequence and gene organization of the genome of a hyper-thermophilic archaebacterium, Pyrococcus horikoshii OT3.

Kawarabayasi Y, Sawada M, Horikawa H, Haikawa Y, Hino Y, Yamamoto S, Sekine M, Baba S, Kosugi H, Hosoyama A, Nagai Y, Sakai M, Ogura K, Otsuka R, Nakazawa H, Takamiya M, Ohfuku Y, Funahashi T, Tanaka T, Kudoh Y, Yamazaki J, Kushida N, Oguchi A, Aoki K, Kikuchi H.

DNA Res. 1998 Apr 30;5(2):55-76.

PMID:
9679194
18.

Microbial gene identification using interpolated Markov models.

Salzberg SL, Delcher AL, Kasif S, White O.

Nucleic Acids Res. 1998 Jan 15;26(2):544-8.

19.

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.

Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ.

Nucleic Acids Res. 1997 Sep 1;25(17):3389-402. Review.

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