Search Results: logic

Loregic: A Method to Characterize the Cooperative Logic of Regulatory Factors

dx.plos.org/10.1371/journal.pcbi.1004132
The topology of the gene-regulatory network has been extensively analyzed. Now, given the large amount of available functional genomic data, it is possible to go beyond this and systematically study regulatory circuits in terms of logic elements. To this end, we present Loregic, a computational method integrating gene expression and regulatory network data, to characterize the cooperativity of regulatory factors. Loregic uses all 16 possible two-input-one-output logic gates (e.g. AND ...

Identification of Logic Relationships between Genes and Subtypes of Non-Small Cell Lung Cancer

dx.plos.org/10.1371/journal.pone.0094644
Non-small cell lung cancer (NSCLC) has two major subtypes: adenocarcinoma (AC) and squamous cell carcinoma (SCC). The diagnosis and treatment of NSCLC are hindered by the limited knowledge about the pathogenesis mechanisms of subtypes of NSCLC. It is necessary to research the molecular mechanisms related with AC and SCC. In this work, we improved the logic analysis algorithm to mine the sufficient and necessary conditions for the presence states (presence or absence) of phenotypes. We...

Developing and Optimising the Use of Logic Models in Systematic Reviews: Exploring Practice and Good Practice in the Use of Programme Theory in Reviews

dx.plos.org/10.1371/journal.pone.0142187
Background: Logic models are becoming an increasingly common feature of systematic reviews, as is the use of programme theory more generally in systematic reviewing. Logic models offer a framework to help reviewers to ‘think’ conceptually at various points during the review, and can be a useful tool in defining study inclusion and exclusion criteria, guiding the search strategy, identifying relevant outcomes, identifying mediating and moderating factors, and communicating review fi...

Noise-Aided Logic in an Electronic Analog of Synthetic Genetic Networks

dx.plos.org/10.1371/journal.pone.0076032
We report the experimental verification of noise-enhanced logic behaviour in an electronic analog of a synthetic genetic network, composed of two repressors and two constitutive promoters. We observe good agreement between circuit measurements and numerical prediction, with the circuit allowing for robust logic operations in an optimal window of noise. Namely, the input-output characteristics of a logic gate is reproduced faithfully under moderate noise, which is a manifestation of th...

Reconfigurable Boolean Logic Using Magnetic Single-Electron Transistors

dx.plos.org/10.1371/journal.pone.0125142
We propose a novel hybrid single-electron device for reprogrammable low-power logic operations, the magnetic single-electron transistor (MSET). The device consists of an aluminium single-electron transistor with a GaMnAs magnetic back-gate. Changing between different logic gate functions is realized by reorienting the magnetic moments of the magnetic layer, which induces a voltage shift on the Coulomb blockade oscillations of the MSET. We show that we can arbitrarily reprogram the fun...

Correction: Mathematical Logic in the Human Brain: Semantics

dx.plos.org/10.1371/annotation/c08ee740-5917-4096-97e9-378ae5be1208

Dual Logic and Cerebral Coordinates for Reciprocal Interaction in Eye Contact

dx.plos.org/10.1371/journal.pone.0121791
In order to scientifically study the human brain’s response to face-to-face social interaction, the scientific method itself needs to be reconsidered so that both quantitative observation and symbolic reasoning can be adapted to the situation where the observer is also observed. In light of the recent development of dyadic fMRI which can directly observe dyadic brain interacting in one MRI scanner, this paper aims to establish a new form of logic, dual logic, which provides a theore...

Correction: Dual Logic and Cerebral Coordinates for Reciprocal Interaction in Eye Contact

dx.plos.org/10.1371/journal.pone.0128480

People Like Logical Truth: Testing the Intuitive Detection of Logical Value in Basic Propositions

dx.plos.org/10.1371/journal.pone.0169166
Recent studies on logical reasoning have suggested that people are intuitively aware of the logical validity of syllogisms or that they intuitively detect conflict between heuristic responses and logical norms via slight changes in their feelings. According to logical intuition studies, logically valid or heuristic logic no-conflict reasoning is fluently processed and induces positive feelings without conscious awareness. One criticism states that such effects of logicality disappear ...

A Novel Bio-Sensor Based on DNA Strand Displacement

dx.plos.org/10.1371/journal.pone.0108856
DNA strand displacement technology performs well in sensing and programming DNA segments. In this work, we construct DNA molecular systems based on DNA strand displacement performing computation of logic gates. Specifically, a class of so-called “DNA neurons” are achieved, in which a “smart” way inspired by biological neurons encoding information is developed to encode and deliver information using DNA molecules. The “DNA neuron” is bistable, that is, it can sense DNA mole...

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