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Anni specifications


Unique identifier OMICS_07921
Name Anni
Interface Web user interface
Restrictions to use None
Programming languages Java
Computer skills Basic
Version 2.1
Stability No
Maintained No


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Publications for Anni

Anni citations


Internal driving factors leading to extrahepatic manifestation of the hepatitis C virus infection

PMCID: 5716440
PMID: 29039494
DOI: 10.3892/ijmm.2017.3175

[…] and cholinergic synapse. ten genes, sos1, raf1, ifna2, ifng, mthfr, igf1, calm3, ube2b, tp53 and bmp7 whose expression may be the key internal driving molecules, were selected using the online tool anni 2.1. furthermore, the present study demonstrated the internal linkages between systemic manifestations and hcv infection, and presented the potential molecules that are key to those linkages., […]


Building a glaucoma interaction network using a text mining approach

PMCID: 4857381
PMID: 27152122
DOI: 10.1186/s13040-016-0096-2

[…] next generation of text mining approaches have to deal with the construction of complete text mining systems to aid the inference of interactions or associations between bio entities. ontogene [], anni [], rlism [], and crab [] are examples of such next generation systems. in terms of usage, ontogene is considered the most integrative because it allows the detection of entities […]


Tissue Restricted Splice Junctions Originate Not Only from Tissue Specific Gene Loci, but Gene Loci with a Broad Pattern of Expression

PMCID: 4695084
PMID: 26713731
DOI: 10.1371/journal.pone.0144302

[…] using the specific tissue in the name field., to investigate whether tissue-specific splice junctions were from genes with known tissue associations, text mining was performed with the tool anni 2.1 []. anni can take two sets of concepts, such as a user supplied list of genes and either go biological processes or tissue (both supplied as predefined concept sets in anni), and can derive […]


Transcriptomic Characterization of C57BL/6 Mouse Embryonic Stem Cell Differentiation and Its Modulation by Developmental Toxicants

PMCID: 4172731
PMID: 25247782
DOI: 10.1371/journal.pone.0108510

[…] for kegg pathways. the statistically enriched go terms were grouped and counted after classification according to go slim using the freely available web tool categorizer . the text-mining tool anni was also used to explore matching concept profiles of gene clusters with concept profiles of biological processes in the go database. the program calculates the overall matching score, […]


Sub chronic toxicity study in rats orally exposed to nanostructured silica

PMCID: 3922429
PMID: 24507464
DOI: 10.1186/1743-8977-11-8

[…] performed to discover the differential expression of biologically relevant sets of genes []. for this, several genes sets related to common liver processes were composed using the text-mining tool anni 2.0 ( []. furthermore, several gene sets related to specific toxicological responses in the liver, composed from literature and/or in-house data were used, […]


Model Steatogenic Compounds (Amiodarone, Valproic Acid, and Tetracycline) Alter Lipid Metabolism by Different Mechanisms in Mouse Liver Slices

PMCID: 3906077
PMID: 24489787
DOI: 10.1371/journal.pone.0086795

[…] at the top or the bottom of the ranked list . gene sets with p<0.05, fdr<0.05 were considered as significant. gene sets used in this study were created in an open access bioinformatics tool anni . anni retrieves all the information available on known gene-gene associations present in medline and can be used, among others, to create […]

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Anni institution(s)
Department of Medical Informatics, Erasmus MC University Medical Center, Dr. Molewaterplein, Rotterdam, The Netherlands; Department of Pathology, Erasmus MC University Medical Center, Dr. Molewaterplein, Rotterdam, The Netherlands; Department of Urology, Erasmus MC University Medical Center, Dr. Molewaterplein, Rotterdam, The Netherlands
Anni funding source(s)
Supported by an ErasmusMC Breedtestrategie grant, INFOBIOMED, 6th R&D Framework, EC (IST 2002 507585), and by the Biorange project sp 4.1.1 of the Netherlands Bioinformatics Centre.

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