Integration and mining of malaria molecular, functional and pharmacological data: how far are we from a chemogenomic knowledge space?

Table 1 Comparison of Plasmodium falciparum, Saccharomyces cerevisiae, Arabidopsis thaliana and Homo sapiens genomic statistics

	*Plasmodium falciparum*	*Saccharomyces cerevisiae*	*Arabidopsis thaliana*	*Homo sapiens*
Genome general statistics
No of chromosomes	14	16	5	22 + X/Y
Size (bp)	22,853,764	12,495,682	115,409,949	3,272,187,692
average (A+T) %	80.6	61.7	65.1	59.0
Estimated number of genes	5,268	5,770	25,498	31,778
Average gene length	2,283	1,424	1,310	1,340
% of coding genome	53	66	29	9
*Initial annotation based on sequence similarity (BLAST or Smith-Waterman E-values** )
Proportion of predicted protein sequences:
- having a detectable similarity to sequences, in other organisms, of known function at the initial genome release date.	34 %	75 %	69 %	59 %*
- without any detectable similarity to sequences in other organisms at the initial genome release date, i.e. "no BLASTP match to known proteins" (estimates based on published data and local BLAST searches).	61 %	< 8 %	< 20 %	15 %*
- of totally unknown function (hypothetical proteins = with similarity to sequences of unknown function + without any detectable similarity to sequences in other organisms).	66 %	16 %	31 %	41 %*
Average characteristics of open reading frames
Exons:
No per gene	2.39	1.05	5.18	12.1
(A+T) %	76.3	60	55	52
average length	949	1356	253	111
Introns:
(A+T) %	86.5	64	66	60
Intergenic regions:
(A+T) %	86.4	64	66	60

Presented data compile information from [22] for Plasmodium falciparum, [190] for yeast (completed with statistics made available via the Comprehensive Yeast Genome Database website, [191]), the Arabidopsis genome initiative [192] for Arabidopsis, and the International Human Genome Sequencing Consortium [193] and [194] for Human (completed with statistics made available via Ensembl, [195]). These statistics at the complete genome release date have been continuously updated since then.

ISSN: 1475-2875