Results 101 to 110 of about 709,713 (351)

Nucleic Acid Sequence Design via Efficient Ensemble Defect Optimization [PDF]

, 2011
We describe an algorithm for designing the sequence of one or more interacting nucleic acid strands intended to adopt a target secondary structure at equilibrium.
Pierce, Niles A., Wolfe, Brian R., Zadeh, Joseph N.   +2 more
core  

Predicting Transcription Factor Specificity with All-Atom Models [PDF]

, 2008
The binding of a transcription factor (TF) to a DNA operator site can initiate or repress the expression of a gene. Computational prediction of sites recognized by a TF has traditionally relied upon knowledge of several cognate sites, rather than an ab ...
Arvidson, Benos, Blattner, Djordjevic, Donald, Endres, Endres, Foat, Glasfeld, He, Humphrey, Ingraham, Kalodimos, Kazakov, Kinney, Kullback, Lafontaine, Leonid A. Mirny, Liu, Lu, MacKerell, Maerkl, Man, Mehran Kardar, Meng, Mironov, Morozov, Onufriev, Paillard, Paillard, Peter Virnau, Pérez, Sahand J. Rahi, Schumacher, von Hippel, Wang   +35 more
core   +3 more sources

An efficient strategy for producing RNA‐free Nucleocapsid protein of SARS‐CoV‐2 for biochemical and structural investigations

FEBS Open Bio, EarlyView.
Cleavable N‐terminal Thioredoxin fusion enabled soluble expression and purification of otherwise insoluble SARS‐CoV‐2 Nucleocapsid (N) protein. A four‐step purification strategy yielded highly homogeneous, RNA‐free N protein. Binding assays showed high RNA affinity (Kd ~ 28 nm). The study will facilitate high‐resolution structural studies of N protein,
Shweta Singh, Gagan D. Gupta
wiley   +1 more source

Isothermal Amplification Methods for the Detection of Nucleic Acids in Microfluidic Devices

Biosensors, 2012
Diagnostic tools for biomolecular detection need to fulfill specific requirements in terms of sensitivity, selectivity and high-throughput in order to widen their applicability and to minimize the cost of the assay.
Giuseppe Spoto, Laura Maria Zanoli
doaj   +1 more source

Microbial profile of the appendix niche in acute appendicitis: a novel sampling approach

FEBS Open Bio, EarlyView.
This study utilized a novel sampling method, ERAT (i.e. endoscopic retrograde appendicitis treatment)‐guided lumen aspiration, to obtain samples from the appendix, and shotgun metagenomic sequencing was performed for in situ characterization of the appendix microbiome in patients with acute appendicitis.
Huimin Ma, Mingfei Wang, Yanhu Feng, Wanqi Zhang, Wenbo Wang, Yanfeng Xie, Guixiang Kong, Jie Feng, Pengfei Wang, Qi Wang, Xiaojun Huang   +10 more
wiley   +1 more source

Transcriptional regulation of neuropeptide receptors underlies context‐dependent adaptation in Drosophila melanogaster

FEBS Open Bio, EarlyView.
Under environmental changes, the expression level of neuropeptide (NP) and neuropeptide receptor (NPR) genes changes to confer context‐dependent adaptation to the model organism Drosophila melanogaster. Through finding more regulatory elements in the NPR genes in comparison with their ligands (NPs), we found that NPR‐biased transcriptional regulation ...
SeungHeui Ryu, Yanan Wei, Zekun Wu, Tianmu Zhang, DoHoon Lee, Hadi Najafi, Woo Jae Kim   +6 more
wiley   +1 more source

FBPP: software to design PCR primers and probes for nucleic acid base detection of foodborne pathogens

Scientific Reports
Foodborne pathogens can be found in various foods, and it is important to detect foodborne pathogens to provide a safe food supply and to prevent foodborne diseases.
Mohamed A. Soliman, Mohamed S. Azab, Hala A. Hussein, Mohamed M. Roushdy, Mohamed N. Abu el-naga   +4 more
doaj   +1 more source

Crystal structure of the two-RRM domain of hnRNP A1 (UP1) complexed with single-stranded telomeric DNA [PDF]

, 1999
Human hnRNP A1 is a versatile single-stranded nucleic acid-binding protein that functions in various aspects of mRNA maturation and in telomere length regulation.
Ding, J. Z., Hayashi, M. K., Krainer, A. R., Manche, L., Xu, R. M., Zhang, Y.   +5 more
core   +2 more sources

Diffusion‐based size determination of solute particles: a method adapted for postsynaptic proteins

FEBS Open Bio, EarlyView.
We present a diffusion‐based approach for measuring the size of macromolecules and their complexes, and demonstrate its use on postsynaptic proteins. The method requires fluorescein‐labelled protein samples, a microfluidic device that maintains laminar flow for said samples, a microscope recording the emitted fluorescent signals, and an analytic ...
András László Szabó, Eszter Nagy‐Kanta, Soma Varga, Edit Andrea Jáger, Csaba István Pongor, Mária Laki, András József Laki, Zoltán Gáspári   +7 more
wiley   +1 more source

DNA nucleic acid sequence-based amplification-based genotyping for polymorphism analysis

BioTechniques, 2004
Nucleic acid sequence-based amplification (NASBA) is a sensitive isothermal transcription-based amplification method known to be a suitable tool for RNA research. We demonstrate that NASBA technology can be applied to single nucleotide polymorphism (SNP)
Cecile Berard, Marie-Angélique Cazalis, Philippe Leissner, Bruno Mougin   +3 more
doaj   +1 more source