Please contact Cildb's developers if you have questions or to report a bug.

The Cilia Interest Email list maintained by Greg Pazour is used to disseminate information about cilia-related meetings and other news of broad interest to the cilia community.
You can subscribe at http://eepurl.com/Tw5Sb .

Please send news and meeting announcements to Gregory DOT Pazour AT umassmed DOT edu for distribution to the list.

The genome version page of Cildb provide links to the genome databases from which the data have been retrieved and links to species descriptions in the taxonomy browser of NCBI.

OMIM is a comprehensive, authoritative, and timely compendium of human genes and genetic phenotypes. The full-text, referenced overviews in OMIM contain information on all known Mendelian disorders and over 12,000 genes. OMIM focuses on the relationship between phenotype and genotype. It is updated daily, and the entries contain copious links to other genetics resources. This database was initiated in the early 1960s by Dr. Victor A. McKusick as a catalog of Mendelian traits and disorders, entitled Mendelian Inheritance in Man (MIM). Twelve book editions of MIM were published between 1966 and 1998. The online version, OMIM, was created in 1985 by a collaboration between the National Library of Medicine and the William H. Welch Medical Library at Johns Hopkins. It was made generally available on the internet starting in 1987. In 1995, OMIM was developed for the World Wide Web by NCBI, the National Center for Biotechnology Information.

BioMart is a query-oriented data management system developed jointly by the Ontario Institute for Cancer Research (OICR) and the European Bioinformatics Institute (EBI). The system can be used with any type of data and is particularly suited for providing 'data mining' like searches of complex descriptive data. BioMart is completely Open Source, licensed under the LGPL, and freely available to anyone without restrictions.

The Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches. BLAST can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families.

The Generic Genome Browser (GBrowse) is a combination of database and interactive Web page for manipulating and displaying annotations on genomes.

InParanoid is a program for automatic identification of orthologs while differentiating between inparalogs and outparalogs. An InParanoid cluster is seeded by a reciprocally bestmatching ortholog pair, around which inparalogs are gathered independently, while outparalogs are excluded.

The objective of the Ciliary proteome database is to assemble all existing ciliary and basal body proteomics data into an open resource for the scientific community with the ultimate aim of exploring further the role of the cilium in disease and the mechanisms underlying ciliary biology. The Ciliary proteome database integrated the recent results of several unique, yet overlapping proteomics investigations involving mass spectroscopy, comparative genomics, transcriptional profiling and promoter analyses to decipher the repertoire of proteins required for ciliary biogenesis and function in eukaryotes. (Gherman et al. 2006. The ciliary proteome database: an integrated community resource for the genetic and functional dissection of cilia. Nat Genet. 38:961-962. PMID: 16940995).

The Cil.i.o.mics database is intended to serve as a resource for researchers interested in cilia, the evolutionarily ancient eukaryotic organelles found on the surfaces of most unicellular organisms and a large proportion of cells and tissues in animals. The two classes of cilia, motile and non-motile, collectively perform a wide variety of functions broadly encompassing cell/fluid movement and sensory perception. Despite the numerous research papers and review articles available on cilia, there is still much to be learned about the physiological functions and inner workings of both types of cilia in health and disease. (Inglis et al. 2006. Piecing together a ciliome. Trends Genet. 22:491-500 PMID: 16860433).

Centrosome:db contains a set of human genes encoding proteins that are localized in the centrosome, either as centrosome constituents or as centrosome visitors. Genes have been considered as centrosomal on the basis of different kinds of evidences including high-throughput proteomics assays, annotations in public databases and orthology relationships to centrosomal genes in closely related species (e.g. mouse). For each of these human genes, information has been compiled from various sources such as Ensembl, OMIM, HPRD, SNPs, GeneOntology or Compara, among others. (Nogales-Cadenas et al. 2009. CentrosomeDB: a human centrosomal proteins database. Nucleic Acids Res. 37:D175-80 PMID: 18971254).

This database compiles the results described by Pazour et al., 2005 (PMID: 15998802).

This database primarily devoted to the genome of Paramecium tetraurelia includes both high throughput studies performed on Paramecium cilia, with detailed raw data from the experiments: proteomics of purified cilia ( Arnaiz et al., 2009; PMID: 20428338) and expression data during ciliary biogenesis (Arnaiz et al., 2010 PMID: 20932287).

The primary cilia database compiles the cell types harboring primary cilia as well as the relevant bibliography.

The Negative Proteome Database (NPD) is a searchable database that allows biologists to identify proteins unique to a given proteome. The database is populated with pair-wise protein sequence comparisons between each of the following proteomes: Homo sapiens, Mus musculus, Drosophila melanogaster, Caenorhabditis elegans, Saccharomyces cerevisiae, Dictyostelium discoideum, Chlamydomonus reinhardti, Escherichia coli K12, Arabidopsis thaliana and Methanoscarcina acetivorans .
Subtractive genomics analogous to the comparative genomics performed by Li et al., 2004 (PMID:15137946), have been performed using the Negative Proteome Database, see Reiter et al. Accentuate the negative: proteome comparisons using the negative proteome database. Fly (Austin). 1:164-71. (2007) (PMID:18820470).