Description
ONCO.IO is an integrated knowledge database and network analysis tool devoted to miRNAs and lncRNAs involved in oncologic disorders. It is based on the manually curated annotation of experimentally verified miRNA-target interactions described in the literature. The main advantage is that binary miRNA-target interaction is supplemented with information about miRNA expression level and influence on certain carcinogenic processes described in research articles. ONCO.IO provides network analysis tools allowing a users to upload their own lists of genes and build networks using several types of algorithms.
Similar/Related tools
-
TFmiR TFmiR
Construct and analyze disease-specific TF and mirna co-regulatory...
Construct and analyze disease-specific TF and mirna co-regulatory networks
-
Cancer Regulome Cancer Regulome
Cancer Regulome provides resources for understanding TCGA data
Cancer Regulome provides resources for understanding TCGA data
-
Crosshub Crosshub
Multi-way analysis of RNA-Seq, miRNA-Seq and methylome data provi...
Multi-way analysis of RNA-Seq, miRNA-Seq and methylome data provided in TCGA
-
CHASM CHASM
Cancer-specific High-throughput Annotation of Somatic Mutations
Cancer-specific High-throughput Annotation of Somatic Mutations
Roy Granit
Co-founder at LabWormONCO.IO Curation process
Great resource. I'm intrigued to hear more about the curation process - how is it done? is it a community effort?
Sasha Fokin
Hello, Roy. Thanks! We are a small team of biologists, physicians and bioinformaticians.
ONCO.IO is database and molecular network analysis toolkit - an extension of our previous project - miROB (http://mirob.interactome.ru/). Presently ONCO.IO is a nonprofit project.
All our molecular interaction annotations are created manually and are based on the analysis of full-text articles. We are not using automated text mining, or information from external databases. Quality of annotations is based on our expertise and peer checking.
We also developed self-designed ontology of cancer pathogenic processes (PPs) based on the R.A. Weinberg’s hallmarks of cancer.
We describe in our context Pathogenic process (PP) as molecular, cellular or tissue malfunction determining initiation, development and outcome of disease. javascript:;
Each edge in interactions contains associations with diseases, pathogenic processes and prognostic features.
In the future, we plan to add tools that allow any scientist to add and discuss their interactions.
Roy Granit
Co-founder at LabWorm@Sasha:u thanks for elaborating, I like your solid curation approach ( especially with microRNA's..)! keep it up. Is there a publication describing this tool?
Sasha Fokin
@rgranit:u currently we are preparing paper for submission.