eFIP protocols

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eFIP specifications

Information


Unique identifier OMICS_05275
Name eFIP
Alternative names extracting Functional Impact of Phosphorylation, eFIP online
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Cecilia Arighi <>

Publications for extracting Functional Impact of Phosphorylation

eFIP in pipeline

2015
PMCID: 4674139
PMID: 26650466
DOI: 10.1371/journal.pcbi.1004630

[…] abstracts, which are relevant to tumor-related chemicals posing risk to human health []. pie utilizes word and syntactic features to effectively capture ppi patterns from biomedical literature [, ]. efip mines information on phosphorylation and related interactions of a given protein using rule-based nlp []. ppinterfinder extracts medline abstracts on human proteins using co-occurrences […]


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eFIP in publications

 (3)
PMCID: 4624812
PMID: 26509276
DOI: 10.1371/journal.pone.0141773

[…] information. going forward, usage of text-mining tools will be valuable for retrieving in depth information about proteoform-specific molecular relations. for example, we have developed the extracting functional impact of phosphorylation (efip) text-mining tool to detect effects of phosphorylation on ppi; extension to other impacts, such as changes in enzymatic activity are planned []., […]

PMCID: 4381107
PMID: 25833953
DOI: 10.1093/database/bav020

[…] of functional outcomes of protein phosphorylation. increasingly, ppi databases are interested in capturing the phosphorylation state of interacting partners. we have previously developed the efip (extracting functional impact of phosphorylation) text mining system, which identifies phosphorylated proteins and phosphorylation-dependent ppis. in this work, we present several enhancements […]

PMCID: 3660268
PMID: 23517090
DOI: 10.1186/1471-2105-14-104

[…] first tool for protein phosphorylation information extraction [,]. this tool processes documents with a shallow parser and then extracts information by matching text with manually designed patterns. efip is a system produced by the developers of rlims-p which combines various tools to identify abstracts which provide information on the functional context of protein phosphorylation, […]


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eFIP institution(s)
Department of Computer and Information Sciences, University of Delaware, Newark, DE, USA

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