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 structure of single stranded nucleic acids. The objective of this web server is to provide easy access to RNA and DNA folding and hybridization software to the scientific community at large. By making use of universally available web GUIs (Graphical User Interfaces),the server circumvents the problem of portability of this software. Detailed output,in the form of structure plots with or without reliability information,single strand frequency plots and ‘energy dot plots’, are available for the folding of single sequences. A variety of ‘bulk’ servers give less information,but in a shorter time and for up to hundreds of sequences at once. The portal for the mfold web server is http://www.bioinfo.rpi.edu/applications/ mfold. This URL will be referred to as ‘MFOLDROOT’.

/pdf/mfold-web-server-for-nucleic-acid-folding-and-hybridization-3pzoe1h05m.pdf

Mfold web server for nucleic acid folding and hybridization prediction

A procedure for the isolation of deoxyribonucleic acid from micro-organisms

http://www.protocol-online.org/forums/index.php?app=core&module=attach&section=attach&attach_id=2894

Studies on transformation of Escherichia coli with plasmids

3.2.3. Hydroformylation 2467 3.2.4. Dimerization 2468 3.2.5. Oxidative Cleavage and Ozonolysis 2469 3.2.6. Metathesis 2470 4. Terpenes 2472 4.1. Pinene 2472 4.1.1. Isomerization: R-Pinene 2472 4.1.2. Epoxidation of R-Pinene 2475 4.1.3. Isomerization of R-Pinene Oxide 2477 4.1.4. Hydration of R-Pinene: R-Terpineol 2478 4.1.5. Dehydroisomerization 2479 4.2. Limonene 2480 4.2.1. Isomerization 2480 4.2.2. Epoxidation: Limonene Oxide 2480 4.2.3. Isomerization of Limonene Oxide 2481 4.2.4. Dehydroisomerization of Limonene and Terpenes To Produce Cymene 2481

Chemical Routes for the Transformation of Biomass into Chemicals

High-performance liquid chromatography is a promising alternative for determining the G+C content of bacterial deoxyribonucleic acid (DNA). The method which we evaluated involves enzymatic degradation of the DNA to nucleosides by P1 nuclease and bovine intestinal mucosa alkaline phosphatase, separation of the nucleosides by high-performance liquid chromatography, and calculation of the G+C content from the apparent ratios of deoxyguanosine and thymidine. Because the nucleosides are released from the DNA at different rates, incomplete degradation produces large errors in the apparent G+C content. For partially purified DNA, salts are a major source of interference in degradation. However, when the salts are carefully removed, the preparation and degradation of DNA contribute little error to the determination of G+C content. This method also requires careful selection of the chromatographic conditions to ensure separation of the major nucleosides from the nucleosides of modified bases and precise control of the flow rates. Both of these conditions are achievable with standard equipment and C18 reversed-phase columns. Then the method is precise, and the relative standard deviations of replicate measurements are close to 0.1%. It is also rapid, and a single measurement requires about 15 min. It requires small amounts of sample, and the G+C content can be determined from DNA isolated from a single bacterial colony. It is not affected by contamination with ribonucleic acid. Because this method yields a direct measurement, it may also be more accurate than indirect methods, such as the buoyant density and thermal denaturation methods. In addition, for highly purified DNA, the extent of modification can be determined.

Precise Measurement of the G+C Content of Deoxyribonucleic Acid by High-Performance Liquid Chromatography

The Temperature Dependence of the Osmotic Pressure of Polyvinyl Chloride Solutions1

Les chaines complementaires de la molecule d’ADN, qui sont liees l’une a l’autre par des liaisons hydrogene au niveau des paires de bases adenine-thymine et guanine-cytosine, peuvent etre separees par l’action de la chaleur, d’un acide, d’une base ou du formamide. Cette separation des deux chaines d’ADN et leur renaturation specifique par refroidissement consecutif a des temperatures inferieures a la temperature de « fusion », ont rendu possible la formation de molecules hybrides entre les ADN provenant de souches de microorganismes apparentes. On peut reconnaitre les molecules hybrides par centrifugation en gradiant de densite en CICs. La densite de l’hybride est intermediaire entre celle des deux constituants : le lourd (marque avec 15 N et le deuterium) et le leger, ADN normal. Pour que la formation d’un hybride puisse avoir lieu, la condition minimale est que l’ensemble des bases qui rentre dans la constitution des echantillons d’ADN soit semblable et que son heterogeneite de constitution soit relativement faible. Ainsi il a ete trouve que seuls les microorganismes genetiquement voisins possedent un ADN qui donne une molecule hybride in vitro par denaturation thermique et recombinaison ulterieure. On pense que la compatibilite genetique et la formation d’hybrides in vitro dependent d’une sequence homologue des bases et que la formation d’hybrides indique une telle sequence et devrait permettre de prevoir des relations genetiques et taxonomiques etroites.

The reversible denaturation of DNA and its use in studies of nucleic acid homologies and the biological relatedness of microorganisms

Construction and characterization of cDNA clones encoding the 5' end of the chicken pro α1(I) collagen mRNA

Some Effects on Noncomplementary Bases on the Stability of Helical Complexes of Polyribonucleotides

https://www.pnas.org/content/pnas/42/11/791.full.pdf

Paul Doty

Papers

The Temperature Dependence of the Osmotic Pressure of Polyvinyl Chloride Solutions1

The reversible denaturation of DNA and its use in studies of nucleic acid homologies and the biological relatedness of microorganisms

Construction and characterization of cDNA clones encoding the 5' end of the chicken pro α1(I) collagen mRNA

Some Effects on Noncomplementary Bases on the Stability of Helical Complexes of Polyribonucleotides

The properties of biological macromolecules in solution