Topic
Target analysis
About: Target analysis is a research topic. Over the lifetime, 14 publications have been published within this topic receiving 1463 citations.
Papers
TL;DR: The psRNATarget as mentioned in this paper target analysis server is designed for high-throughput analysis of next-generation data with an efficient distributed computing back-end pipeline that runs on a Linux cluster.
Abstract: Plant endogenous non-coding short small RNAs (20–24 nt), including microRNAs (miRNAs) and a subset of small interfering RNAs (ta-siRNAs), play important role in gene expression regulatory networks (GRNs). For example, many transcription factors and development-related genes have been reported as targets of these regulatory small RNAs. Although a number of miRNA target prediction algorithms and programs have been developed, most of them were designed for animal miRNAs which are significantly different from plant miRNAs in the target recognition process. These differences demand the development of separate plant miRNA (and ta-siRNA) target analysis tool(s). We present psRNATarget, a plant small RNA target analysis server, which features two important analysis functions: (i) reverse complementary matching between small RNA and target transcript using a proven scoring schema, and (ii) target-site accessibility evaluation by calculating unpaired energy (UPE) required to ‘open’ secondary structure around small RNA’s target site on mRNA. The psRNATarget incorporates recent discoveries in plant miRNA target recognition, e.g. it distinguishes translational and post-transcriptional inhibition, and it reports the number of small RNA/target site pairs that may affect small RNA binding activity to target transcript. The psRNATarget server is designed for high-throughput analysis of next-generation data with an efficient distributed computing back-end pipeline that runs on a Linux cluster. The server front-end integrates three simplified user-friendly interfaces to accept user-submitted or preloaded small RNAs and transcript sequences; and outputs a comprehensive list of small RNA/target pairs along with the online tools for batch downloading, key word searching and results sorting. The psRNATarget server is freely available at http://plantgrn.noble.org/psRNATarget/.
1,917 citations
TL;DR: Target inactivation analysis is one of the most powerful approaches to characterize protein–protein associations of membrane constituents and is directly applicable to the determination of molecular size in the native membrane.
Abstract: Publisher Summary Membranes are common to all cells and carry out diverse functions. The basic structural feature is the phospholipid bilayer into which different types of proteins are inserted. There is only limited information regarding the orientation and association of protein constituents in a membrane. In principle, protein components within a membrane can associate (1) with one another to form oligomers or complexes and/or (2) with compartmental components at either surface—that is, with membrane-associated proteins or the microskeletal system. Such associations may change during the exercise of function. Target inactivation analysis is one of the most powerful approaches to characterize protein–protein associations of membrane constituents. The method is directly applicable to the determination of molecular size in the native membrane and does not depend on the purification of the component to be studied; it requires only the measurement of a functional characteristic—such as binding of a ligand or an enzymatic activity—after the sample has been irradiated. The target size can then be obtained from the slope of a plot of a log activity as a function of radiation dose.
45 citations
Patent•
29 Dec 2016
TL;DR: In this paper, an electronic device determines target information about a target and recommends a target based on the target information, and the target is selected based on its target information and target information.
Abstract: An electronic device determines target information about a target and recommends a target based on the target information.
14 citations
Patent•
27 Jun 2014
TL;DR: In this article, the authors proposed a novel fluorescence sensor for target analysis, which includes a nucleic acid molecule that includes a G-quartet-forming nucleIC acid region (D) that forms a Gquartet and a binding nucleic acids region (A) that binds to a target.
Abstract: The present invention is intended to provide a novel fluorescence sensor for target analysis, a kit for target analysis, and a target analysis method using the same. The fluorescence sensor for target analysis according to the present invention includes a nucleic acid molecule that includes a G-quartet-forming nucleic acid region (D) that forms a G-quartet and a binding nucleic acid region (A) that binds to a target. In the absence of a target, formation of a G-quartet in the G-quartet-forming nucleic acid region (D) is inhibited. In the presence of a target, the target comes into contact with the binding nucleic acid region (A), the G-quartet is formed in the G-quartet-forming nucleic acid region (D) due to the contact, the G-quartet-forming region (D) and porphyrin forms a complex, and the complex generates fluorescence.
8 citations
TL;DR: This chapter discusses the radiation inactivation and target size analysis of interferons, which shows that a single irradiated sample can be monitored for as many independent biological functions as desired, and target sizes for each activity can be obtained simultaneously.
Abstract: Publisher Summary This chapter discusses the radiation inactivation and target size analysis of interferons. There has been a resurgence of interest in an alternative technique of molecular size determination––radiation inactivation. This is undoubtedly stimulated by the unique principles and properties of this approach; that the loss of biological activity resulting from molecular damage is related to the mass of the structure, and the fact that the results are independent of the presence of other molecules. The size measurement obtained from radiation inactivation must be interpreted as the mass of a biologically active unit. The fact that the target molecules are hit at random, depending only on their mass, and that the energy is confined to a single covalent structure leads to an important characteristic of the target analysis. The study of a particular activity is independent of the presence of other molecules in the preparation if they are not functional in the assay conditions. Thus, purification is not required. A sequela of this fact is that a single irradiated sample can be monitored for as many independent biological functions as desired, and target sizes for each activity can be obtained simultaneously. Enzymes of known size that are present in the preparation can be monitored as an internal control.
6 citations
Related Topics (5)
Performance Metrics
| Year | Papers |
|---|---|
| 2021 | 3 |
| 2019 | 1 |
| 2018 | 1 |
| 2016 | 1 |
| 2014 | 2 |
| 2012 | 1 |