function annotation
Systematic target function annotation of human transcription factors
... TF function annotation is to minimize the impacts from false bindings and to re- liably extract gene function ...TF-target function associations were ...TF-target function associations ...
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A combined approach for genome wide protein function annotation/prediction
... appropriate function taxonomies to properly iden- tify the set of activities a protein ...direct annotation transfers, as shown in [15], [16], [17], [18], and ...
12
An efficient method for protein function annotation based on multilayer protein networks
... In conclusion, many computational methods that inte- grate heterogeneous data for predicting protein (or gene) functions have been suggested. Most of these techniques follow the same basic paradigm: firstly, they ...
15
Cis-Natural Antisense Transcripts Are Mainly Co-expressed with Their Sense Transcripts and Primarily Related to Energy Metabolic Pathways during Muscle Development
... development. Function annotation showed that the cis-NATs participated in muscle development mainly by co-expressing with genes involved in energy metabolic pathways, including citrate cycle (TCA cycle), ...
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Annotation inconsistencies beyond sequence similarity-based function prediction – phylogeny and genome structure
... and function annotation to a whole new level, with the publication of shotgun assemblies of genomic sequences which are rarely completed to finished chro- ...Thus, annotation ef- forts of NGS ...
5
Applying the Semantic Web to Manage Knowledge on the Grid
... which function annotation and reuse services are ...for function configuration and ...semantic annotation and retrieval of the configured ...
8
WebAnno: A Flexible, Web based and Visually Supported System for Distributed Annotations
... rapid annotation tool (Stenetorp et ...source annotation tool was introduced, which sup- ports collaborative annotation for multiple anno- tation layers simultaneously on a single copy of the ...
6
How can semantic annotation help us to analyse the discourse of climate change in online user comments?
... semantic annotation function of Wmatrix against the largest dataset the articles were sorted according to the greatest number of comments elicited and articles making only a passing reference to, for ...
29
Quantitative and evolutionary global analysis of enzyme reaction mechanisms
... Overall, the idea of such studies is to understand how well an enzyme adapts its function. Indeed, evolutionary relationships exist between pro- teins that show diverse folds or topologies, but share similar ...
182
A Semantic Annotation Scheme for Quantification
... Davidson (1967) proposed to treat events as individual objects, facilitating the semantic interpretation of adverbs, like “quickly”, “passionately”, and adverbial quantifying expressions such as “everywhere”, “never” and ...
12
Quantitative succinylome analysis in the liver of non-alcoholic fatty liver disease rat model
... The score of interaction clusters metabolism of xeno- biotics by cytochrome P450, oxidative phosphotylation and ribosome were very high, signifying alteration of succinylation level on these proteins may contribute to ...
11
Integrated genomics and proteomics of the Torpedo californica electric organ: concordance with the mammalian neuromuscular junction
... Several studies support the ‘signaling endosome hypothesis’ in which neurotrophic factors initiate ligand- mediated endocytosis of receptor tyrosine kinases into clathrin-coated vesicles that contain activators such as G ...
17
Which annotation scheme is more expedient to measure syntactic difficulty and cognitive demand?
... To measure the effectiveness of MDDs as a metric of syntactic difficulty and cognitive demand in a broad sense, the testing sets of 20 languages with two versions of annotations were drawn from the UD 2.2 and SUD 2.2 to ...
9
A Novel Image Annotation Method based on Kernel Methods for Structured Prediction
... and annotation of huge volumes of digital images have been attracted much ...image annotation model based on structured machine learning, by introducing a learned kernel function in the sample space, ...
7
Comparative Analysis of Gene Prediction Tools: RAST, Genmark hmm and AMIgene
... High throughput genome sequencing made large amount of genome data available to research community. Accurate gene structure prediction and annotation is the fundamental step towards the understanding of genome ...
5
The environmental-data automated track annotation (Env-DATA) system: linking animal tracks with environmental data
... wind was an important factor in determining migration and short-term flight patterns of pelagic birds [4,24,36,48]. Here, we show how Env-DATA annotation can assist an investigation of wind dependencies and flow ...
14
Abstraction and Generalisation in Semantic Role Labels: PropBank, VerbNet or both?
... An observation that holds for all semantic role la- belling schemes is that certain labels seem to be more similar than others, based on their ability to occur in the same syntactic environment and to be expressed by the ...
9
Sequencing and characterization of leaf transcriptomes of six diploid Nicotiana species
... The initial set of annotation contained a high level of redundancy as more than half of the annotated tran- scripts were alternative splicing isoforms [62]. To avoid this redundancy in subsequent analyses, ORFs ...
12
Chat, Chunk and Topic in Casual Conversation
... 2013; Bonin et al., 2012). This is consistent with observations on chat and chunk phases – laughter is more common in chat phases which often provide a ‘buffer’ between single speaker chunks. The structure of chat ...
8
YEDDA: A Lightweight Collaborative Text Span Annotation Tool
... span annotation, rang- ing from collaborative user annotation to administrator evaluation and ...text annotation tools by annotating entities through both command line and shortcut keys, which are ...
6