Stephen R Holbrook
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Explore the profile of Stephen R Holbrook including associated specialties, affiliations and a list of published articles.
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Articles
29
Citations
751
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Recent Articles
1.
Zeng E, Ding C, Narasimhan G, Holbrook S
Comput Syst Bioinformatics Conf
. 2009 Aug;
7:73-84.
PMID: 19642270
Almost every cellular process requires the interactions of pairs or larger complexes of proteins. High throughput protein-protein interaction (PPI) data have been generated using techniques such as the yeast two-hybrid...
2.
Holbrook S
Annu Rev Biophys
. 2008 Jun;
37:445-64.
PMID: 18573090
Since the year 2000 a number of large RNA three-dimensional structures have been determined by X-ray crystallography. Structures composed of more than 100 nucleotide residues include the signal recognition particle...
3.
Ding C, He X, Xiong H, Peng H, Holbrook S
Int J Data Min Bioinform
. 2008 Apr;
1(2):162-77.
PMID: 18399069
We study transitivity properties of edge weights in complex networks. We show that enforcing transitivity leads to a transitivity inequality which is equivalent to ultra-metric inequality. This can be used...
4.
Wang C, Ding C, Yang Q, Holbrook S
Genome Biol
. 2007 Dec;
8(12):R271.
PMID: 18154653
We propose a new network decomposition method to systematically identify protein interaction modules in the protein interaction network. Our method incorporates both a global metric and a local metric for...
5.
Wang C, Ding C, Meraz R, Holbrook S
Bioinformatics
. 2006 Sep;
22(21):2590-6.
PMID: 16945945
Motivation: Small non-coding RNA (ncRNA) genes play important regulatory roles in a variety of cellular processes. However, detection of ncRNA genes is a great challenge to both experimental and computational...
6.
Hendrix D, Brenner S, Holbrook S
Q Rev Biophys
. 2006 Jul;
38(3):221-43.
PMID: 16817983
RNAs are modular biomolecules, composed largely of conserved structural subunits, or motifs. These structural motifs comprise the secondary structure of RNA and are knit together via tertiary interactions into a...
7.
Jang S, Jeong M, Carter R, Holbrook E, Comolli L, Holbrook S
Acta Crystallogr D Biol Crystallogr
. 2006 May;
62(Pt 6):619-27.
PMID: 16699189
The RNA I modulator protein (Rom) acts as a co-regulator of ColE1 plasmid copy number by binding to RNA kissing hairpins and stabilizing their interaction. The structure of Rom has...
8.
Jang S, Hung L, Jeong M, Holbrook E, Chen X, Turner D, et al.
Biophys J
. 2006 Apr;
90(12):4530-7.
PMID: 16581850
The crystal structure of the RNA octamer, 5'-GGCGUGCC-3' has been determined from x-ray diffraction data to 1.5 angstroms resolution. In the crystal, this oligonucleotide forms five self-complementary double-helices in the...
9.
Leontis N, Altman R, Berman H, Brenner S, Brown J, Engelke D, et al.
RNA
. 2006 Feb;
12(4):533-41.
PMID: 16484377
The aim of the RNA Ontology Consortium (ROC) is to create an integrated conceptual framework-an RNA Ontology (RO)-with a common, dynamic, controlled, and structured vocabulary to describe and characterize RNA...
10.
Stefan L, Zhang R, Levitan A, Hendrix D, Brenner S, Holbrook S
Nucleic Acids Res
. 2005 Dec;
34(Database issue):D131-4.
PMID: 16381830
Metal ions are essential for the folding of RNA into stable tertiary structures and for the catalytic activity of some RNA enzymes. To aid in the study of the roles...