CiliaCarta: a validated compendium of ciliary genes
About the CiliaCarta
Welcome to the CiliaCarta. This webpage was created to provide easy access and search capabilities to researchers interesting in using our predictions. For detailed information please contact John van Dam.
The CiliaCarta is based on a naive Bayesian integration of a diverse set of data sets to predict novel ciliary genes. Each data set has been evaluated for its propensity to retrieve known ciliary genes and than integrated using Bayes' theorem. The CiliaCarta Score is a log transformed odds which means that a positive score indicates that a gene is more likely to be ciliary than not ciliary.
On this webpage we provide two tables:
- The CiliaCarta as the compendium of ciliary genes, comprising our previous SYSCILIA Gold Standard resource, Gene Ontology annotated genes and our top predictions which have been validated experimentally.
- The naive Bayesian integration, including all datasets used in the analysis. A proteome wide list providing probabilities for each individual gene.
The selected data can directly be downloaded as a plain text *.csv file or as an excel *.xlsx file.
Citation
We are in the process of peer review of our manuscript. We hope to update this section soon. Our current title for the manuscript is:
Van Dam TJP et al. CiliaCarta: an integrated and validated compendium of ciliary genes.
In the meantime, if you are using the CiliaCarta in your research please visit this page again at a later time for updated citation information, or contact either John or Martijn. It would be much appreciated!
Contact
Dr. TJP (John) van Dam
Email: teunis.j.p.vandam@gmail.com
Theoretical Biology and Bioinformatics
Utrecht University
Padualaan 8
3584 CH, Utrecht
The Netherlands
Prof. Dr. Martijn A Huynen
Email: Martijn.Huijnen@radboudumc.nl
CMBI, RIMLS, Radboud university medical centre
Geert Grooteplein 26-28, route 260
PO Box 9101
6500 HB Nijmegen
The Netherlands
| CiliaCarta Rank | CiliaCarta Score | Ensembl Gene ID | Associated Gene Name | Description | Inclusion criterion |
|---|---|---|---|---|---|
| CiliaCarta Rank | CiliaCarta Score | Ensembl Gene ID | Associated Gene Name | Description | Inclusion criterion |
| CiliaCarta Rank | Group | CiliaCarta Score | Ensembl Gene ID | Associated Gene Name | Description | cFDR | Mass-Spec based PPI | RFX/FOXJ1 TFBS | Y2H PPI | Cilia co-occurrence | Expression screen | Liu_2007 (CilDB) | Ross_2007 (CilDB) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| CiliaCarta Rank | Group | CiliaCarta Score | Ensembl Gene ID | Associated Gene Name | Description | cFDR | Mass-Spec based PPI | RFX/FOXJ1 TFBS | Y2H PPI | Cilia co-occurrence | Expression screen | Liu_2007 (CilDB) | Ross_2007 (CilDB) |
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Funding
The European Community's Seventh Framework Programme FP7/2009, grant agreement number 241955, SYSCILIA
The Virgo consortium, funded by the Dutch government (FES0908), and by the Netherlands Genomics Initiative (050-060-452).
The Utrecht Bioinformatics Center, funded by ...