Chilibot protocols

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Chilibot specifications

Information


Unique identifier OMICS_01176
Name Chilibot
Interface Web user interface
Restrictions to use Academic or non-commercial use
License MIT License
Computer skills Basic
Stability Stable
Maintained No

Documentation


Publication for Chilibot

Chilibot in pipeline

2010
PMCID: 2854679
PMID: 20418942
DOI: 10.1371/journal.pone.0009619

[…] for information extraction (text mining), as seen in the biocreative competition , . the results of text extraction can then be exposed in search interfaces, as done in systems like ihop and chilibot (although both of these search only over abstracts)., another question is how to adjust search ranking algorithms when using full text journal articles. for example, there is evidence […]


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Chilibot in publications

 (34)
PMCID: 5648141
PMID: 29049295
DOI: 10.1371/journal.pone.0186004

[…] expert knowledge of the data being examined. this can be accomplished by curating publications and experiment data. additionally, the use of natural language processing like that integrated into chilibot [] can be a potential solution to generating knowledge of the data. instead, in order to remove the need for expert curators and natural language processing, we expand the number […]

PMCID: 5581332
PMID: 28894735
DOI: 10.3389/fbioe.2017.00048

[…] scientific community (swanson, ; blagosklonny and pardee, ; soldatova and rzhetsky, ). several co-occurrence based-lbd approaches, such as copub mapper (alako et al., ), pubgene (jenssen et al., ), chilibot (chen and sharp, ), and geneways (rzhetsky et al., ), have been developed. other approaches have focused on capturing higher order implicit associations, i.e., associations between any pair […]

PMCID: 5035084
PMID: 27662471
DOI: 10.1371/journal.pone.0163362

[…] mutation taster, mutation assessor, fathmm, lrt, siphy, and phylop., a disease interaction network was generated by manual curation using the cider database []. text-mining tools such as ihop, chilibot, and evidencefinder were used for literature mining of pubmed abstracts and pmc full text articles [–]. proteins with rcm variants were analysed for their physical and regulatory […]

PMCID: 4859473
PMID: 27152866
DOI: 10.1371/journal.pone.0154010

[…] bio-pathways analysis, and the molecular functions of methylated and unmethylated regions. literature data mining for co-occurrence of gene names and keywords of interest was performed using chilibot. only genes for which entrez identifiers were available were further analyzed. pathway analysis was carried out using ingenuity pathway analysis (ingenuity systems). over-represented […]

PMCID: 4734686
PMID: 26829228
DOI: 10.1371/journal.pone.0148230

[…] on genenetwork and were originally computed using the semantic gene organizer (sgo) software to automatically extract gene-gene relations from titles and abstracts in medline citations []. the chilibot system (http://chilibot.net), alzheimer disease & frontotemporal dementia mutation database (http://www.molgen.ua.ac.be/admutations/), and the alzgene database (www.alzgene.org) […]


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Chilibot institution(s)
Department of Pharmacology, University of Tennessee Health Science Center, Memphis, TN, USA
Chilibot funding source(s)
Supported by PHS DA-03977 (BMS) and by the University of Tennessee Center for the Neurobiology of Brain Disease.

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