Results 131 to 140 of about 106,052 (303)

The ubiquitin‐proteasome system and autophagy as guardians of the cellular proteome

FEBS Letters, EarlyView.
This Perspective covers the three principles governing the crosstalk between the ubiquitin‐proteasome system and autophagy in cellular proteostasis: (1) a shared ubiquitin code routing substrates via shuttle factors or autophagy receptors; (2) spatial compartmentalization into phase‐separated degradation hubs and organelle‐specific modules (exemplified
Ivan Dikic
wiley   +1 more source

A Portfolio Solver for Answer Set Programming: Preliminary Report

, 2011
We propose a portfolio-based solving approach to Answer Set Programming (ASP). Our approach is homogeneous in considering several configurations of the ASP solver clasp. The selection among the configurations is realized via Support Vector Regression.
Stefan Ziller, Martin Gebser, Roland Kaminski, Torsten Schaub, Kaufmann, Benjamin, Schaub, Torsten, Schneider, Marius Thomas, Benjamin Kaufmann, Kaminski, Roland, Ziller, Stefan, Gebser, Martin, Marius Thomas Schneider   +11 more
core   +1 more source

Cell geometry and membrane protein crowding constrain Escherichia coli growth rate, overflow metabolism, respiration, and maintenance energy

FEBS Letters, EarlyView.
The physical dimensions and shape of bacterial cells define the surface area available to acquire nutrients and the volume available for synthesizing proteins and DNA. Here, we use computational systems biology to decode the importance of cell geometry as a major determinant of prokaryotic phenotype, including growth rate and metabolic efficiency. This
Ross P. Carlson, Tomáš Gedeon, Mauricio Garcia Benitez, Campbell Putnam, William R. Harcombe, Radhakrishnan Mahadevan, Ashley E. Beck   +6 more
wiley   +1 more source

Answer Set Programming with Constraints using Lazy Grounding

, 2009
The paper describes a novel methodology to compute stable models in Answer Set Programming. The proposed approach relies on a bottom-up computation that does not require a preliminary grounding phase. The implementation of the framework can be completely
ROSSI, Gianfranco, Agostino Dovier, Alessandro Dal Palù, PONTELLI E, PONTELLI Enrico, DOVIER, Agostino, ROSSI Gianfranco, DAL PALU' Alessandro, Enrico Pontelli, DAL PALU', Alessandro, DOVIER A, Gianfranco Rossi   +11 more
core   +1 more source

Salmonella lipopolysaccharide‐containing supported lipid bilayers as platforms to study bacteriophage interactions

FEBS Letters, EarlyView.
We present robust protocols for the preparation of supported lipid bilayers (SLBs) incorporating either Salmonella smooth LPS or outer membrane vesicles (OMVs). We use a combination of quartz crystal microbalance with dissipation (QCM‐D) and fluorescence microscopy to both characterize the SLBs of various compositions and to probe their interactions ...
Hudson P. Pace, Alyssa Borges, Charles Arnaud, Tove Karlsson, Nina K. Bröker, Stefanie Barbirz, Marta Bally   +6 more
wiley   +1 more source

Extending disjunctive logic programming with functions: Theoretical and algorithmic issues

, 2007
Estensione dell'Answer Set programming con simboli di funzione, identificando frammenti decidibili e ...
BONATTI, PIERO ANDREA
core  

From mice to humans—divergent strategies for intestinal homeostasis and regeneration

FEBS Letters, EarlyView.
Recent advances such as organoid genome editing, xenotransplantation, imaging, and whole‐genome sequencing have enabled direct studies of human intestinal stem cells (ISCs). These studies reveal species‐specific features, including slower ISC proliferation, distinct injury responses, slower somatic mutation accumulation in humans, and an inverse ...
Keiko Ishikawa, Shinya Sugimoto, Toshiro Sato   +2 more
wiley   +1 more source

Model-Based Knowledge Representation and Reasoning Via Answer Set Programming

, 2008
The field of knowledge representation and reasoning has been going through a methodological shift during recent years. While the past was dominated by query-oriented reasoning, model-based techniques become more and more popular nowadays.
Schaub, Torsten
core   +1 more source

Structural insights and therapeutic targets in Acinetobacter baumannii capsule biosynthesis

FEBS Letters, EarlyView.
Hypervirulent KL49 A. baumannii's capsular polysaccharide contains the nonulosonic acid 8‐epi‐Leg5,7Ac2, synthesized by epimerization via ElaA, ElaB, and ElaC. Crystal structures of ElaA, ElaB, and ElaC reveal their role in CMP‐Leg5,7Ac2 synthesis and regioselective C8 epimerization.
Woo Cheol Lee, Junho Jeong, Chae Yeong Lee, Hyunjoon Cho, Man Hwan Oh, Je Chul Lee, Jee‐Young Lee, Yangmee Kim   +7 more
wiley   +1 more source

α‐Synuclein aggregation landscape from phase separation to neurotoxic intermediates

FEBS Letters, EarlyView.
Alpha‐synuclein aggregation in Parkinson's disease involves a complex landscape of transient intermediates, including oligomers, fibrils and liquid–liquid phase separation (LLPS). A view is emerging in which LLPS maturation into solid‐like condensates may contribute to the formation of neurotoxic species.
Silvia Arino, Giuliana Fusco, Alfonso De Simone   +2 more
wiley   +1 more source