The thermodynamics of DNA structural motifs

J SantaLucia Jr, D Hicks - Annu. Rev. Biophys. Biomol. Struct., 2004 - annualreviews.org
▪ Abstract DNA secondary structure plays an important role in biology, genotyping
diagnostics, a variety of molecular biology techniques, in vitro–selected DNA catalysts …

Mass spectrometry of nucleic acid noncovalent complexes

E Largy, A Konig, A Ghosh, D Ghosh… - Chemical …, 2021 - ACS Publications
Nucleic acids have been among the first targets for antitumor drugs and antibiotics. With the
unveiling of new biological roles in regulation of gene expression, specific DNA and RNA …

Primer3—new capabilities and interfaces

A Untergasser, I Cutcutache, T Koressaar… - Nucleic acids …, 2012 - academic.oup.com
Polymerase chain reaction (PCR) is a basic molecular biology technique with a multiplicity
of uses, including deoxyribonucleic acid cloning and sequencing, functional analysis of …

Mfold web server for nucleic acid folding and hybridization prediction

M Zuker - Nucleic acids research, 2003 - academic.oup.com
The abbreviated name,'mfold web server', describes a number of closely related software
applications available on the World Wide Web (WWW) for the prediction of the secondary …

RNAstructure: software for RNA secondary structure prediction and analysis

JS Reuter, DH Mathews - BMC bioinformatics, 2010 - Springer
Background To understand an RNA sequence's mechanism of action, the structure must be
known. Furthermore, target RNA structure is an important consideration in the design of …

DNA mismatches reveal conformational penalties in protein–DNA recognition

A Afek, H Shi, A Rangadurai, H Sahay, A Senitzki… - Nature, 2020 - nature.com
Transcription factors recognize specific genomic sequences to regulate complex gene-
expression programs. Although it is well-established that transcription factors bind to specific …

DNA mismatch repair

TA Kunkel, DA Erie - Annu. Rev. Biochem., 2005 - annualreviews.org
▪ Abstract DNA mismatch repair (MMR) is an evolutionarily conserved process that corrects
mismatches generated during DNA replication and escape proofreading. MMR proteins also …

Sequence-based design of bioactive small molecules that target precursor microRNAs

SP Velagapudi, SM Gallo, MD Disney - Nature chemical biology, 2014 - nature.com
Oligonucleotides are designed to target RNA using base pairing rules, but they can be
hampered by poor cellular delivery and nonspecific stimulation of the immune system. Small …

Nucleic acid based molecular devices

Y Krishnan, FC Simmel - Angewandte Chemie International …, 2011 - Wiley Online Library
In biology, nucleic acids are carriers of molecular information: DNA's base sequence stores
and imparts genetic instructions, while RNA's sequence plays the role of a messenger and a …

What controls the melting properties of DNA-linked gold nanoparticle assemblies?

R Jin, G Wu, Z Li, CA Mirkin… - Spherical Nucleic …, 2020 - api.taylorfrancis.com
Spherical Nucleic Acids Page 1 We report a series of experiments and a theoretical model
designed to systematically define and evaluate contribut nanoparticle, e to the oligonucleotide …