Protein function annotation
An efficient method for protein function annotation based on multilayer protein networks
... multilayer protein network which integrates PPI network topology, domain information, and protein ...efficient protein function annotation method, named FP-MPN (function ...
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Protein function annotation by homology based inference
... a protein from its sequence would almost automatically provide infor- mation about its ...the protein space ...of protein parts to a more profound understanding of the molecular machinery of ...
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Protein structure prediction and structure-based protein function annotation
... of protein models, full-atomic models are constructed by REMO 33 from these cluster centroids, while optimizing the hydrogen- bonding network, where a H-bonding list is pre-constructed based on secondary structure ...
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Protein function annotation using protein domain family resources
... where function annotation transfer from close homologs is limited (see Figure 4b for Precision-Recall graph as in CAFA ...Automated Function Prediction Special Interest Group (AFP-SIG), which aims to ...
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Exploiting Complex Protein Domain Networks for Protein Function Annotation
... of protein sequences are now available in public ...for protein sequence and annotation ...functional annotation of protein ...the protein domains, families, and super-families ...
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A Combined Approach for Genome Wide Protein Function Annotation/Prediction
... In this section, we compare our method with other techniques that also integrate multiple sources of infor- mation for protein annotation. The first technique we compare with is presented by S. Jaeger ’s et ...
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A Combined Approach for Genome Wide Protein Function Annotation/Prediction
... In this section, we compare our method with other techniques that also integrate multiple sources of infor- mation for protein annotation. The first technique we compare with is presented by S. Jaeger ’s et ...
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A combined approach for genome wide protein function annotation/prediction
... In this section, we compare our method with other techniques that also integrate multiple sources of infor- mation for protein annotation. The first technique we compare with is presented by S. Jaeger ’ s ...
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The SeqFEATURE library of 3D functional site models: comparison to existing methods and applications to protein function annotation
... many function predic- tion methods, including SeqFEATURE, is to aid in annotation of solved structural genomics targets, we also compared SeqFEATURE to the sequence-based methods using low sequence identity ...
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Biases in the Experimental Annotations of Protein Function and Their Effect on Our Understanding of Protein Function Space
... functional annotation of proteins relies upon the work of curators to capture experimental findings from scientific literature and apply them to protein sequence and structure ...functional protein ...
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An annotation scheme for citation function
... Fig. 6 shows a confusion matrix between the two an- notators who agreed most with each other. This again points to the fact that a large proportion of the confu- sion involves an informative category and Neut. The issue ...
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New in protein structure and function annotation: Hotspots, single nucleotide polymorphisms and the 'Deep Web'
... of function for a similar fraction of the proteome. For most known protein sequences, however, there is detailed knowledge about neither their function nor their ...of protein function ...
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A protein structure based annotation of genomes
... Automated annotation systems have been developed previously by ...public annotation systems is to support genome sequencing projects, and to provide up-to-date annotations, whereas the 3D-GEN0M ICS ...
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Learning to extract relations for protein annotation
... The goal of the work reported in this article is to alleviate the burden of developing IE systems. To achieve this goal, we use only sentences. Our problem can be formally defined as follows: given relevant sentences ...
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Protein annotation from protein interaction networks and Gene Ontology
... method used global optimization that took into account the fol- lowing features of interaction networks: direct and indirect inter- actions, the underlying topology (cluster coefficients), and functional protein ...
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ProGMap: an integrated annotation resource for protein orthology
... or protein IDs/accessions are supported by several other web portals including IDConverter, MatchMiner, SOURCE, CARGO and HCOP, but in addition ProGMap allows full text queries to be combined using Boolean ...
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DisProt: intrinsic protein disorder annotation in 2020
... of Protein Disorder (DisProt, URL: ...of protein entries, a new disorder ontology, improvements of the annotation format and a completely new web- ...new annotation inter- face that integrates ...
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Protein Name Tagging for Biomedical Annotation in Text
... Introducing BaseNP recognition as a part of pre- processing is motivated by an intuition that most protein names reside in a noun phrase. Our chunking is based on morphemes. An indication of whether a morpheme ...
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Overview of the protein protein interaction annotation extraction task of BioCreative II
... The local association analysis or article-centric approach tries to extract binary interactions for proteins co-occurring in a predefined textual context, often corresponding to sentences or text passages. To determine ...
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Protein Structure and Function
... the protein performs its functions, ...a protein structure obtained in vitro provides valuable information, still more may be learned by examining a protein in its natural ...
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