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Items: 1 to 50 of 71

1.

Combining temperature and force to study folding of an RNA hairpin.

Stephenson W, Keller S, Santiago R, Albrecht JE, Asare-Okai PN, Tenenbaum SA, Zuker M, Li PT.

Phys Chem Chem Phys. 2014 Jan 21;16(3):906-17. doi: 10.1039/c3cp52042k. Epub 2013 Nov 25.

PMID:
24276015
2.

Quantitative prediction of miRNA-mRNA interaction based on equilibrium concentrations.

Ragan C, Zuker M, Ragan MA.

PLoS Comput Biol. 2011 Feb;7(2):e1001090. doi: 10.1371/journal.pcbi.1001090. Epub 2011 Feb 24.

3.

Comparing RNA secondary structures using a relaxed base-pair score.

Agius P, Bennett KP, Zuker M.

RNA. 2010 May;16(5):865-78. doi: 10.1261/rna.903510. Epub 2010 Apr 1.

4.

Transcriptome-wide prediction of miRNA targets in human and mouse using FASTH.

Ragan C, Cloonan N, Grimmond SM, Zuker M, Ragan MA.

PLoS One. 2009 May 29;4(5):e5745. doi: 10.1371/journal.pone.0005745. Erratum in: PLoS One. 2009;4(7). doi: 10.1371/annotation/e0842765-3cae-4737-8b5b-96aeb12d7fb5.

5.

Morphological, molecular, and phylogenetic characterization of Nosema ceranae, a microsporidian parasite isolated from the European honey bee, Apis mellifera.

Chen YP, Evans JD, Murphy C, Gutell R, Zuker M, Gundensen-Rindal D, Pettis JS.

J Eukaryot Microbiol. 2009 Mar-Apr;56(2):142-7. doi: 10.1111/j.1550-7408.2008.00374.x.

6.

Development of lead hammerhead ribozyme candidates against human rod opsin mRNA for retinal degeneration therapy.

Abdelmaksoud HE, Yau EH, Zuker M, Sullivan JM.

Exp Eye Res. 2009 May;88(5):859-79. doi: 10.1016/j.exer.2008.11.018. Epub 2008 Dec 6.

7.

A double-blind, placebo-controlled, randomized trial of montelukast for acute bronchiolitis.

Amirav I, Luder AS, Kruger N, Borovitch Y, Babai I, Miron D, Zuker M, Tal G, Mandelberg A.

Pediatrics. 2008 Dec;122(6):e1249-55. doi: 10.1542/peds.2008-1744. Epub 2008 Nov 4.

PMID:
18984650
8.

UNAFold: software for nucleic acid folding and hybridization.

Markham NR, Zuker M.

Methods Mol Biol. 2008;453:3-31. doi: 10.1007/978-1-60327-429-6_1.

PMID:
18712296
9.

RNA secondary structure prediction.

Mathews DH, Turner DH, Zuker M.

Curr Protoc Nucleic Acid Chem. 2007 Mar;Chapter 11:Unit 11.2. doi: 10.1002/0471142700.nc1102s28.

10.
11.

DINAMelt web server for nucleic acid melting prediction.

Markham NR, Zuker M.

Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W577-81.

12.

MicroRNA-responsive 'sensor' transgenes uncover Hox-like and other developmentally regulated patterns of vertebrate microRNA expression.

Mansfield JH, Harfe BD, Nissen R, Obenauer J, Srineel J, Chaudhuri A, Farzan-Kashani R, Zuker M, Pasquinelli AE, Ruvkun G, Sharp PA, Tabin CJ, McManus MT.

Nat Genet. 2004 Oct;36(10):1079-83. Epub 2004 Sep 12. Erratum in: Nat Genet. 2004 Nov;36(11):1238.

PMID:
15361871
13.

Heterozygous mutation in 5'-untranslated region of sepiapterin reductase gene (SPR) in a patient with dopa-responsive dystonia.

Steinberger D, Blau N, Goriuonov D, Bitsch J, Zuker M, Hummel S, Müller U.

Neurogenetics. 2004 Sep;5(3):187-90. Epub 2004 Jul 6.

PMID:
15241655
14.
15.

Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure.

Mathews DH, Disney MD, Childs JL, Schroeder SJ, Zuker M, Turner DH.

Proc Natl Acad Sci U S A. 2004 May 11;101(19):7287-92. Epub 2004 May 3.

16.

Plasmodium and Borrelia co-infection.

Miron D, Olshinsky A, Assy N, Zuker M, Efrat M, Hussein O.

J Travel Med. 2004 Mar-Apr;11(2):115-6. No abstract available.

17.

Mfold web server for nucleic acid folding and hybridization prediction.

Zuker M.

Nucleic Acids Res. 2003 Jul 1;31(13):3406-15.

18.

OligoArray 2.0: design of oligonucleotide probes for DNA microarrays using a thermodynamic approach.

Rouillard JM, Zuker M, Gulari E.

Nucleic Acids Res. 2003 Jun 15;31(12):3057-62.

19.

Primary Streptococcus pneumoniae appendicitis in a child: case report and review.

Miron D, Dashkovsky I, Zuker M, Szvalb S, Cozacov C.

Pediatr Infect Dis J. 2003 Mar;22(3):282-4. Review. No abstract available.

PMID:
12664880
20.
21.

RNAML: a standard syntax for exchanging RNA information.

Waugh A, Gendron P, Altman R, Brown JW, Case D, Gautheret D, Harvey SC, Leontis N, Westbrook J, Westhof E, Zuker M, Major F.

RNA. 2002 Jun;8(6):707-17.

22.

OligoArray: genome-scale oligonucleotide design for microarrays.

Rouillard JM, Herbert CJ, Zuker M.

Bioinformatics. 2002 Mar;18(3):486-7.

PMID:
11934750
23.

The hepatitis B virus pregenome: prediction of RNA structure and implications for the emergence of deletions.

Kidd-Ljunggren K, Zuker M, Hofacker IL, Kidd AH.

Intervirology. 2000;43(3):154-64.

PMID:
11044809
24.

Metrics on RNA secondary structures.

Moulton V, Zuker M, Steel M, Pointon R, Penny D.

J Comput Biol. 2000 Feb-Apr;7(1-2):277-92.

PMID:
10890402
25.

Calculating nucleic acid secondary structure.

Zuker M.

Curr Opin Struct Biol. 2000 Jun;10(3):303-10.

PMID:
10851192
26.

Mycobacterium fortuitum osteomyelitis of the cuboid after nail puncture wound.

Miron D, El AL, Zuker M, Lumelsky D, Murph M, Floyd MM, Brown JM.

Pediatr Infect Dis J. 2000 May;19(5):483-5. No abstract available.

PMID:
10819354
27.

Fast evaluation of internal loops in RNA secondary structure prediction.

Lyngsø RB, Zuker M, Pedersen CN.

Bioinformatics. 1999 Jun;15(6):440-5.

PMID:
10383469
28.

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
29.
30.

Structural plasticity in RNA and its role in the regulation of protein translation in coliphage Q beta.

Jacobson AB, Arora R, Zuker M, Priano C, Lin CH, Mills DR.

J Mol Biol. 1998 Jan 30;275(4):589-600.

PMID:
9466933
31.

The Giardia lamblia actin gene and the phylogeny of eukaryotes.

Drouin G, Moniz de Sá M, Zuker M.

J Mol Evol. 1995 Dec;41(6):841-9.

PMID:
8587128
32.
33.

Coaxial stacking of helixes enhances binding of oligoribonucleotides and improves predictions of RNA folding.

Walter AE, Turner DH, Kim J, Lyttle MH, Müller P, Mathews DH, Zuker M.

Proc Natl Acad Sci U S A. 1994 Sep 27;91(20):9218-22.

34.
35.

Testing the exon theory of genes: the evidence from protein structure.

Stoltzfus A, Spencer DF, Zuker M, Logsdon JM Jr, Doolittle WF.

Science. 1994 Jul 8;265(5169):202-7.

PMID:
8023140
36.

Measuring residue associations in protein structures. Possible implications for protein folding.

Karlin S, Zuker M, Brocchieri L.

J Mol Biol. 1994 Jun 3;239(2):227-48.

PMID:
8196056
37.

Prediction of RNA secondary structure by energy minimization.

Zuker M.

Methods Mol Biol. 1994;25:267-94. No abstract available.

PMID:
7516239
38.

Structural analysis by energy dot plot of a large mRNA.

Jacobson AB, Zuker M.

J Mol Biol. 1993 Sep 20;233(2):261-9.

PMID:
8377202
39.
41.

Predicting common foldings of homologous RNAs.

Le SY, Zuker M.

J Biomol Struct Dyn. 1991 Apr;8(5):1027-44.

PMID:
1715169
42.
45.

Fluorescence decay kinetics of the tryptophyl residues of myoglobin: effect of heme ligation and evidence for discrete lifetime components.

Willis KJ, Szabo AG, Zuker M, Ridgeway JM, Alpert B.

Biochemistry. 1990 Jun 5;29(22):5270-5.

PMID:
2383545
46.
47.

Predicting optimal and suboptimal secondary structure for RNA.

Jaeger JA, Turner DH, Zuker M.

Methods Enzymol. 1990;183:281-306. No abstract available.

PMID:
1690335
48.

Improved predictions of secondary structures for RNA.

Jaeger JA, Turner DH, Zuker M.

Proc Natl Acad Sci U S A. 1989 Oct;86(20):7706-10.

49.

On finding all suboptimal foldings of an RNA molecule.

Zuker M.

Science. 1989 Apr 7;244(4900):48-52. Review.

PMID:
2468181
50.

The alignment of protein structures in three dimensions.

Zuker M, Somorjai RL.

Bull Math Biol. 1989;51(1):55-78.

PMID:
2706402

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