Results 31 to 40 of about 34,814 (245)

Frustration in Biomolecules [PDF]

, 2013
Biomolecules are the prime information processing elements of living matter. Most of these inanimate systems are polymers that compute their structures and dynamics using as input seemingly random character strings of their sequence, following which they
Ferreiro, Diego U., Komives, Elizabeth A., Wolynes, Peter G.   +2 more
core   +2 more sources

Improving model predictions for RNA interference activities that use support vector machine regression by combining and filtering features

BMC Bioinformatics, 2007
Background RNA interference (RNAi) is a naturally occurring phenomenon that results in the suppression of a target RNA sequence utilizing a variety of possible methods and pathways.
Peek Andrew S
doaj   +1 more source

Preferential interaction coefficient for nucleic acids and other cylindrical poly-ions

, 2007
The thermodynamics of nucleic acid processes is heavily affected by the electric double-layer of micro-ions around the polyions. We focus here on the Coulombic contribution to the salt-polyelectrolyte preferential interaction (Donnan) coefficient and we ...
Tellez, G., Trizac, E.
core   +2 more sources

HiTRACE: High-throughput robust analysis for capillary electrophoresis [PDF]

, 2011
Motivation: Capillary electrophoresis (CE) of nucleic acids is a workhorse technology underlying high-throughput genome analysis and large-scale chemical mapping for nucleic acid structural inference. Despite the wide availability of CE-based instruments,
Bylund, Cormen, Cover, Das, Das, Deigan, Ewing, Ewing, Hanjoo Kim, Jinkyu Kim, Justine Hum, Kay, Kazmi, Kladwang, Kladwang, Laederach, Levenberg, Marquardt, Merino, Mitra, Nielsen, Oppenheim, Peattie, Pravdova, Rhiju Das, Robinson, Ruiz-Martinez, Seunghyun Park, Sungroh Yoon, Tijerina, Tomasi, Vasa, Walczak, Watts, Weeks, Wilkinson, Wipapat Kladwang, Wong, Woolley, Xi   +39 more
core   +1 more source

Modified RNA triplexes: Thermodynamics, structure and biological potential

Scientific Reports, 2018
The occurrence of triplexes in vivo has been well documented and is determined by the presence of long homopurine-homopyrimidine tracts. The formation of these structures is the result of conformational changes that occur in the duplex, which allow the ...
Marta Szabat, Elzbieta Kierzek, Ryszard Kierzek   +2 more
doaj   +1 more source

Changes in Thermodynamic Parameters Induced by Pyrimidine Nucleic Bases Forming Complexes with Amino Acids and Peptides in a Buffer Solution at pH = 7.4

Liquids
This article presents a mini-review of the available data on the thermodynamics of the complexation of amino acids and peptides with some nucleic bases in a buffer medium.
Elena Yu. Tyunina, Vladimir P. Barannikov, Igor N. Mezhevoi   +2 more
doaj   +1 more source

Length and sequence relaxation of copolymers under recombination reactions

, 2017
We describe the kinetics and thermodynamics of copolymers undergoing recombination reactions, which are important for prebiotic chemistry. We use two approaches: the first one, based on chemical rate equations and the mass-action law describes the ...
Blokhuis, Alex, Lacoste, David
core   +1 more source

DNA looping: the consequences and its control [PDF]

, 2006
The formation of DNA loops by proteins and protein complexes is ubiquitous to many fundamental cellular processes, including transcription, recombination, and replication.
Ackers, Adhya, Alberts, Becker, Bloomfield, Broach, Cloutier, de Lange, Dodd, Du, Dunn, Halford, Hanke, Hill, Irani, Jose MG Vilar, Knight, Leonor Saiz, Lewis, Li, Matthews, Moreau, Mossing, Muller, Müller-Hill, Oehler, Olson, Ptashne, Ptashne, Radman-Livaja, Revet, Richmond, Ringrose, Rippe, Saiz, Saiz, Schleif, Semsey, Stenger, Tolhuis, Vilar, Vilar, Villa, Yan, Yasmin, Zhang   +45 more
core   +1 more source

Ab initio RNA folding

, 2014
RNA molecules are essential cellular machines performing a wide variety of functions for which a specific three-dimensional structure is required. Over the last several years, experimental determination of RNA structures through X-ray crystallography and
Cragnolini, Tristan, Derreumaux, Philippe, Pasquali, Samuela   +2 more
core   +3 more sources

pH‐mediated activation of the lysosomal arginine sensor SLC38A9

FEBS Letters, EarlyView.
Cells monitor nutrient levels via the lysosomal transporter SLC38A9 to activate the mechanistic target of rapamycin complex 1 (mTORC1). This study reveals that SLC38A9 function is regulated by pH. We identified histidine 544 as a critical pH sensor that undergoes conformational changes to control amino acid efflux from lysosomes; therefore, it ...
Xuelang Mu, Ampon Sae Her, Tamir Gonen
wiley   +1 more source